Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 24 of 33
Found at i:3390592 original size:10 final size:10
Alignment explanation
Indices: 3390523--3390609 Score: 60
Period size: 10 Copynumber: 9.1 Consensus size: 10
3390513 ATATGACATA
3390523 AAAATA-ATT
1 AAAATATATT
*
3390532 AAAATATAAT
1 AAAATATATT
*
3390542 ATAATATA--
1 AAAATATATT
* *
3390550 AAAATAAAAT
1 AAAATATATT
*
3390560 AAAA-ATGTT
1 AAAATATATT
3390569 AGAAATAT-TT
1 A-AAATATATT
3390579 -AAATATATT
1 AAAATATATT
3390588 AAAATATATAT
1 AAAATATAT-T
*
3390599 AAAATAAATT
1 AAAATATATT
3390609 A
1 A
3390610 TTAGTAGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
8 12 0.19
9 11 0.18
10 28 0.45
11 11 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATATATT
Found at i:3390669 original size:17 final size:17
Alignment explanation
Indices: 3390620--3390661 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
3390610 TTAGTAGGTA
*
3390620 AAATTTTATATAA-ATAT
1 AAATTTTATA-AATTTAT
3390637 AAATTTTATAAATTTAT
1 AAATTTTATAAATTTAT
3390654 AATATTTT
1 AA-ATTTT
3390662 TAACTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 15 0.68
18 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTATAAATTTAT
Found at i:3390872 original size:23 final size:25
Alignment explanation
Indices: 3390832--3390887 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
3390822 ATCTATATAA
3390832 AATATAAAAAGAAGTAATAATAAAT-T
1 AATAT-AAAAGAAGTAATAA-AAATAT
*
3390858 AATATAAAA-AA-TAATTAAAATAT
1 AATATAAAAGAAGTAATAAAAATAT
3390881 AATATAA
1 AATATAA
3390888 CATAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.14
23 13 0.46
24 2 0.07
25 4 0.14
26 5 0.18
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
AATATAAAAGAAGTAATAAAAATAT
Found at i:3390892 original size:28 final size:28
Alignment explanation
Indices: 3390826--3390896 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
3390816 ATGATAATCT
3390826 ATATAAAATATAAAAAGAAGTAATAATAA
1 ATATAAAATA-AAAAAGAAGTAATAATAA
* * *
3390855 AT-TAATATAAAAAATAATTAA-AATATA
1 ATATAAAATAAAAAAGAAGTAATAATA-A
*
3390882 ATATAACATAAAAAA
1 ATATAAAATAAAAAA
3390897 ACACACTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 13 0.36
28 17 0.47
29 2 0.06
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (28 bp):
ATATAAAATAAAAAAGAAGTAATAATAA
Found at i:3390965 original size:30 final size:31
Alignment explanation
Indices: 3390923--3390981 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
3390913 CAAACGTGTT
3390923 AAAATATATAAAATA-AAATATTAATAAATAA
1 AAAATATATAAAATATAAAT-TTAATAAATAA
*
3390954 AAAAT-TATAAAATATAAATTTATTAAAT
1 AAAATATATAAAATATAAATTTAATAAAT
3390982 TTTGAATATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATATAAAATATAAATTTAATAAATAA
Found at i:3390966 original size:15 final size:15
Alignment explanation
Indices: 3390923--3390981 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
3390913 CAAACGTGTT
3390923 AAAATATATAAAATAA
1 AAAAT-TATAAAATAA
*
3390939 AATATTA-ATAAATAA
1 AAAATTATA-AAATAA
*
3390954 AAAATTATAAAATAT
1 AAAATTATAAAATAA
* *
3390969 AAATTTATTAAAT
1 AAAATTATAAAAT
3390982 TTTGAATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 30 0.83
16 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAATTATAAAATAA
Found at i:3391274 original size:15 final size:15
Alignment explanation
Indices: 3391254--3391287 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3391244 AATATATATA
3391254 AAATAAAATATTA-AT
1 AAATAAAA-ATTACAT
3391269 AAATAAAAATTACAT
1 AAATAAAAATTACAT
3391284 AAAT
1 AAAT
3391288 TTATAATCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAAAATTACAT
Found at i:3391828 original size:19 final size:19
Alignment explanation
Indices: 3391806--3391849 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
3391796 AAACCTATAG
3391806 TAATTTAAATATATAA-AAA
1 TAATTTAAATAT-TAATAAA
* *
3391825 TAATATAAATATTAATATA
1 TAATTTAAATATTAATAAA
3391844 TAATTT
1 TAATTT
3391850 CTTTAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATTTAAATATTAATAAA
Found at i:3392442 original size:3 final size:3
Alignment explanation
Indices: 3392436--3392470 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3392426 GTTGATTTAT
3392436 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3392471 TGTGTGTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:3392638 original size:2 final size:2
Alignment explanation
Indices: 3392631--3392655 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3392621 AACATTTTAA
3392631 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
3392656 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3392660 original size:2 final size:2
Alignment explanation
Indices: 3392655--3392691 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3392645 ACACACACAC
3392655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3392692 AGAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3393469 original size:31 final size:29
Alignment explanation
Indices: 3393419--3393476 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 29
3393409 TCTTAAAAAT
3393419 TTAATAATATAAATATAATTTTTATATTA
1 TTAATAATATAAATATAATTTTTATATTA
*
3393448 TTAATAATATCTATATATAATTTTTATAT
1 TTAATAATA--TAAATATAATTTTTATAT
3393477 ATTCTTGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.35
31 17 0.65
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAATAATATAAATATAATTTTTATATTA
Found at i:3396867 original size:77 final size:78
Alignment explanation
Indices: 3396704--3396847 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 78
3396694 AGTATGTTAG
* * ** *
3396704 GTTTAGTTTCATATCTTCCATTGAAACCAAGTCCATTAGGTTTATTTTTGTACCTTCTATCGAGG
1 GTTTAGTTTCATATCTTCCATTAAAACCAAGTCCATTAGGTTCAGCTTTGTACCTTCTATCGAGA
3396769 CTAAACATATTAA
66 CTAAACATATTAA
* ** *
3396782 GTTTAGTTTCATA-CTTTCATTAAAACTGAGTCCATTAGG-TCAGCTTTGTACTTTCTATCGAGA
1 GTTTAGTTTCATATCTTCCATTAAAACCAAGTCCATTAGGTTCAGCTTTGTACCTTCTATCGAGA
3396845 CTA
66 CTA
3396848 GGCTTTTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
76 22 0.39
77 22 0.39
78 13 0.23
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (78 bp):
GTTTAGTTTCATATCTTCCATTAAAACCAAGTCCATTAGGTTCAGCTTTGTACCTTCTATCGAGA
CTAAACATATTAA
Found at i:3405421 original size:13 final size:13
Alignment explanation
Indices: 3405403--3405427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3405393 AAACACAAGA
3405403 AAAGAAAAAAATG
1 AAAGAAAAAAATG
3405416 AAAGAAAAAAAT
1 AAAGAAAAAAAT
3405428 AGAATGAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAGAAAAAAATG
Found at i:3406849 original size:62 final size:62
Alignment explanation
Indices: 3406697--3407797 Score: 1157
Period size: 62 Copynumber: 17.8 Consensus size: 62
3406687 CTCTCTTGTT
* * * * * **
3406697 AAAGCCTACACAAGTTGGTGGCAACTTTTAGTCTTCAAAGAGCAGGATGCC-TTTCCCTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
** * * *
3406758 AAAGCCCACA-GAGTTGGTGGCACTTTTTAGTCCTCAAAAAGCAAGATGCCTTTTCTTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
* * *
3406819 AAAGCCCACACGAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTT-TCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCT-TTTTC
* * * * *
3406881 AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
* *
3406943 AAAG-CCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAGAGCAAGATGACTTTT-TCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTC-AAAGAGCAGGATGCCTTTTCT-TTTTC
* * * ** * * *
3407005 GAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCATTTCCTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
* * *
3407067 AAAGTCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAGAGGAGGACGCCTTTT-TCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTC-AAAGAGCAGGATGCCTTTTCT-TTTTC
** ** * * *
3407130 AAAGCCCATGCGAGTTGGTGGCACCCTTTAGTCCTCAAAGAATAGGACGCCTTTTCCTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
* * * **
3407192 AAAGTCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGACACCTTTT-TGTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCT-TTTTC
* * * * * * *
3407254 AAAGCCCACATGAGTTGGTGGCATCCTTTTGTCCTCAAAGAGGAGGATGGCTTTTTCCTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGAT-GCCTTTTCTTTTTC
* * *
3407317 AAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTT-TCTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCT-TTTTC
* * * * * *
3407379 AAAGCCCACATGAGTTGGTGGCATCTTTTAATCCTTAAAGAGTAGGATGCCTTTT-TCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCT-TTTTC
* * * * **
3407441 AAAGCCTATATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGAAGGACACCTTTTTCTTTTT-
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC-TTTTCTTTTTC
* * * **
3407503 AAAGCCCACATGAGTTGGTGGCATCCTTTTGTCCTTC-AAGAGCAGGACACCTTTT-TCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCC-TCAAAGAGCAGGATGCCTTTTCT-TTTTC
* * * * * ** * *
3407565 AAAGCCTACACGAGTTGGTGACACCTTTTAGTCCTTAAAGAGTAGGACACCTTTTCCTTTTG
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
* * * * *
3407627 AAAGCTCACACTAGTTGGTGGCACCTTTTAGTTCTTAAAGAGCAGGATGCCTTTT-TCTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCT-TTTTC
* * * * *
3407689 AAAGCCCAGACGAGTTGGTGGCATCCTTTTGTTCTCAAAGAGCAGGATGCCTTTTTTTTTTC
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
* *
3407751 AAAGGCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGA
3407798 CACCTTCTCA
Statistics
Matches: 884, Mismatches: 132, Indels: 47
0.83 0.12 0.04
Matches are distributed among these distances:
60 35 0.04
61 65 0.07
62 635 0.72
63 148 0.17
64 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (62 bp):
AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTC
Found at i:3406946 original size:124 final size:124
Alignment explanation
Indices: 3406697--3407797 Score: 1319
Period size: 124 Copynumber: 8.9 Consensus size: 124
3406687 CTCTCTTGTT
* * * * * * * *
3406697 AAAGCCTACACAAGTTGGTGGCAACTTTTAGTCTTCAAAGAGCAGGATGCC-TTTCCCTTTCAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
** * * * *
3406761 GCCCACA-GAGTTGGTGGCACTTTTTAGTCCTCAAAAAGCAAGATGCCTTTTCTTTTTG
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
* *
3406819 AAAGCCCACACGAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
* * *
3406884 GCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTG
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
* * * *
3406943 AAAG-CCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAGAGCAAGATGACTTTTTCTTTTCGA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTC-AAAGAGCAGGACGCCTTTTTCTTTTCAA
* ** *
3407007 AGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCATTTCCTTTTG
65 AGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
* *
3407067 AAAGTCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAGAGGAGGACGCCTTTTTCTTTTCAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTC-AAAGAGCAGGACGCCTTTTTCTTTTCAA
** * *
3407132 AGCCCATGCGAGTTGGTGGCACCCTTTAGTCCTCAAAGAATAGGACGCCTTTTCCTTTTG
65 AGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
* * * * *
3407192 AAAGTCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGACACCTTTTTGTTTTCAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
* * * * *
3407257 GCCCACATGAGTTGGTGGCATCCTTTTGTCCTCAAAGAGGAGGATGGCTTTTTCCTTTTG
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGAT-GCCTTTTCCTTTTG
* * * *
3407317 AAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTGAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
* * * * * * *
3407382 GCCCACATGAGTTGGTGGCATCTTTTAATCCTTAAAGAGTAGGATGCCTTTTTCTTTTC
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
* * * * * *
3407441 AAAGCCTATATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGAAGGACACCTTTTTCTTTTTAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
* * * * ** * *
3407506 GCCCACATGAGTTGGTGGCATCCTTTTGTCCTTC-AAGAGCAGGACACCTTTTTCTTTTC
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCC-TCAAAGAGTAGGATGCCTTTTCCTTTTG
* * * * * * * *
3407565 AAAGCCTACACGAGTTGGTGACACCTTTTAGTCCTTAAAGAGTAGGACACCTTTTCCTTTTGAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
* * * * * * * *
3407630 GCTCACACTAGTTGGTGGCACCTTTTAGTTCTTAAAGAGCAGGATGCCTTTTTCTTTTC
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
* * * * * *
3407689 AAAGCCCAGACGAGTTGGTGGCATCCTTTTGTTCTCAAAGAGCAGGATGCCTTTTTTTTTTCAAA
1 AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
*
3407754 GGCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGA
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGA
3407798 CACCTTCTCA
Statistics
Matches: 852, Mismatches: 120, Indels: 12
0.87 0.12 0.01
Matches are distributed among these distances:
122 45 0.05
123 47 0.06
124 504 0.59
125 256 0.30
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (124 bp):
AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAA
GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTG
Found at i:3407044 original size:186 final size:187
Alignment explanation
Indices: 3406697--3407803 Score: 1349
Period size: 186 Copynumber: 6.0 Consensus size: 187
3406687 CTCTCTTGTT
* * * * *
3406697 AAAGCCTACACAAGTTGGTGGCAACTTTTAGT-CTTCAAAGAGCAGGATGCC-TTTCCCTTTCAA
1 AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTT-AAAGAGGAGGATGCCTTTTCCTTTTCAA
** * * *
3406760 AGCCCACA-GAGTTGGTGGCACTTTTTAGTCCTCAAAAAGCAAGATGCC-TTTTCTTTTTGAAAG
65 AGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCGAAAG
* * * *
3406823 CCCACACGAGTTGATGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTC
130 CCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTC
*
3406881 AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTGAAA
1 AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTCAAA
* *
3406946 G-CCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAGAGCAAGATGACTTTTTCTTTTCG-AAG
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTC-AAAGAGCAGGATGCCTTTTTCTTTTCGAAAG
* * * *
3407009 CCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCATTTCCTTTTG
130 CCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTC
* * *
3407067 AAAGTCC-ACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAGAGGAGGACGCCTTTTTCTTTTCA
1 AAAG-CCTACACGAGTTGGTGGCACCCTTTAGTCCT-TAAAGAGGAGGATGCCTTTTCCTTTTCA
** ** * *
3407131 AAGCCCATGCGAGTTGGTGGCACCCTTTAGTCCTCAAAGAATAGGACGCCTTTTCCTTTT-GAAA
64 AAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCGAAA
* * *
3407195 GTCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGACACCTTTTTGTTTTC
129 GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTC
* * * * * * *
3407254 AAAGCCCACATGAGTTGGTGGCATCCTTTTGTCCTCAAAGAGGAGGATGGCTTTTTCCTTTTGAA
1 AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGAT-GCCTTTTCCTTTTCAA
* *
3407319 AGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTT-GAAAG
65 AGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCGAAAG
* * * * * **
3407383 CCCACATGAGTTGGTGGCATCTTTTAATCCTTAAAGAGTAGGATGCCTTTTTCTTTTC
130 CCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTC
* * * * ** * *
3407441 AAAGCCTATATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGAAGGACACCTTTTTCTTTTTAAA
1 AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTCAAA
* * * **
3407506 GCCCACATGAGTTGGTGGCATCCTTTTGTCCTTC-AAGAGCAGGACACCTTTTTCTTTTC-AAAG
66 GCCCACACGAGTTGGTGGCACCCTTTAGTCC-TCAAAGAGCAGGATGCCTTTTTCTTTTCGAAAG
* * * * * *
3407569 CCTACACGAGTTGGTGACACCTTTTAGTCCTTAAAGAGTAGGACACCTTTTCCTTTTG
130 CCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTC
* * * * *
3407627 AAAG-CTCACACTAGTTGGTGGCACCTTTTAGTTCTTAAAGAGCAGGATGCCTTTTTCTTTTCAA
1 AAAGCCT-ACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTCAA
* * * * *
3407691 AGCCCAGACGAGTTGGTGGCATCCTTTTGTTCTCAAAGAGCAGGATGCCTTTTTTTTTTC-AAAG
65 AGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCGAAAG
*
3407755 GCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTT
130 CCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTT
3407804 CTCATTTTTT
Statistics
Matches: 803, Mismatches: 105, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
184 48 0.06
185 42 0.05
186 378 0.47
187 306 0.38
188 29 0.04
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (187 bp):
AAAGCCTACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGATGCCTTTTCCTTTTCAAA
GCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCGAAAGC
CCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACACCTTTTTCTTTTC
Found at i:3407891 original size:31 final size:32
Alignment explanation
Indices: 3407833--3407895 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
3407823 TCGAAGAGTA
*
3407833 GGATGCATTTTATTTCCTTTTTTTTCCTTTGT
1 GGATGCATTTTATTTCCTTATTTTTCCTTTGT
3407865 GGATGCATTTTATTTCC-TATTTTTCCTTTGT
1 GGATGCATTTTATTTCCTTATTTTTCCTTTGT
3407896 CCTCAAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.11, C:0.16, G:0.13, T:0.60
Consensus pattern (32 bp):
GGATGCATTTTATTTCCTTATTTTTCCTTTGT
Found at i:3407934 original size:42 final size:40
Alignment explanation
Indices: 3407884--3408161 Score: 183
Period size: 42 Copynumber: 6.7 Consensus size: 40
3407874 TTATTTCCTA
3407884 TTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTCT
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTCT
* * *
3407924 TAGTTTTCCTTTATCCTCAAAAAGCAGGACACATTTCATTTCTT
1 T--TTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCA-TTC-T
* *
3407968 TCTTTTCCCTTTGTCTTCAAAGAGCAAGACGCACTTT-ATTTCCT
1 T-TTTT-CCTTTGTCCTCAAAGAGCAAGACACA-TTTCA-TT-CT
* * * * *
3408012 TTTCTCTTTTGTCCTCAAAGAGC-AG-GAC-GTAC-TT-T
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTCT
* * * *
3408047 TTTTCCCTTTGTCCTCAAGGAGCAGGACAC-TTTCTTTTTTCTTT
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTC---ATTC--T
* * * *
3408091 TTTTTCCTTTGTCCTCAAGGAGCATGACCCATTTCGTTCT
1 TTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTCT
* *
3408131 CCTTTTTCCTTTGTCCTCGAAGAGCAGGACA
1 --TTTTTCCTTTGTCCTCAAAGAGCAAGACA
3408162 TACTCCTTTT
Statistics
Matches: 186, Mismatches: 32, Indels: 38
0.73 0.12 0.15
Matches are distributed among these distances:
35 20 0.11
36 1 0.01
37 6 0.03
38 1 0.01
40 3 0.02
41 4 0.02
42 76 0.41
43 10 0.05
44 57 0.31
45 8 0.04
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (40 bp):
TTTTTCCTTTGTCCTCAAAGAGCAAGACACATTTCATTCT
Found at i:3408073 original size:121 final size:119
Alignment explanation
Indices: 3407927--3408184 Score: 306
Period size: 121 Copynumber: 2.1 Consensus size: 119
3407917 TCATTCTTAG
*
3407927 TTTTCCTTTATCCTCAAAAAGCAGGACACATTTC-ATTTCTTTCTTTTCCCTTTGTCTTCAAAGA
1 TTTTCCTTTATCCTCAAAAAGCAGGACAC-TTTCTATTTCTTT-TTTTCCCTTTGTCCTCAAAGA
* * * **
3407991 GCAAGACGCACTTT-ATT-TCCTTTTCTCTTTTGTCCTCAAAGAGCAGGACGTACTTT
64 GCAAGACCCA-TTTCATTCTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACATACTCC
* ** * * *
3408047 TTTTCCCTTTGTCCTCAAGGAGCAGGACACTTTCTTTTTTCTTTTTTTTCCTTTGTCCTCAAGGA
1 TTTT-CCTTTATCCTCAAAAAGCAGGACACTTTC-TATTTCTTTTTTTCCCTTTGTCCTCAAAGA
* * *
3408112 GCATGACCCATTTCGTTCTCCTTTTTCCTTTGTCCTCGAAGAGCAGGACATACTCC
64 GCAAGACCCATTTCATTCTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACATACTCC
3408168 TTTTCCTTTATCCTCAA
1 TTTTCCTTTATCCTCAA
3408185 TTAGTAGGAC
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
120 23 0.20
121 80 0.68
122 14 0.12
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (119 bp):
TTTTCCTTTATCCTCAAAAAGCAGGACACTTTCTATTTCTTTTTTTCCCTTTGTCCTCAAAGAGC
AAGACCCATTTCATTCTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACATACTCC
Found at i:3408085 original size:35 final size:34
Alignment explanation
Indices: 3408019--3408084 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
3408009 CCTTTTCTCT
3408019 TTTGTCCTCAAAGAGCAGGACGTACTTTTTTTCCC
1 TTTGTCCTCAAAGAGCAGGACG-ACTTTTTTTCCC
*
3408054 TTTGTCCTCAAGGAGCAGGAC-ACTTTCTTTT
1 TTTGTCCTCAAAGAGCAGGACGACTTT-TTTT
3408085 TTCTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 4 0.14
35 20 0.69
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTGTCCTCAAAGAGCAGGACGACTTTTTTTCCC
Found at i:3411480 original size:79 final size:78
Alignment explanation
Indices: 3411217--3411582 Score: 405
Period size: 81 Copynumber: 4.6 Consensus size: 78
3411207 AAAATACCGA
* * * * * *
3411217 TTTTCTACCATCGGGAATTCTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTGGTTTTTA
1 TTTTC-ACAATCGGGGATACTCCAA-CCCGTTATTTTTGAGGGGATACTCCAA-CCTCGATTTTA
3411282 TTTCCAAAACACTGAT
63 TTTCCAAAACACTGAT
* * * * * *
3411298 TTTTCAAAATTGGAGATACTCCAACCCTATTATTTTTGAGGGGGATACTCCAACCTCGGTTTTTT
1 TTTTCACAATCGGGGATACTCCAACCC-GTTATTTTTGA-GGGGATACTCCAACCTC-GATTTTA
*
3411363 TTTCTAAAACACTGAT
63 TTTCCAAAACACTGAT
* * *
3411379 TTTCCTCAATCGGGGATACTCCAACTCCGTTATTTCTGAGGGGATACTCCAACCTCGATTTTATT
1 TTTTCACAATCGGGGATACTCCAAC-CCGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATT
*
3411444 TTCAAAACAGC-GAT
65 TCCAAAACA-CTGAT
* * *
3411458 TTTTCACAATCGAGGATACTCCAACCCTGTTATTTTTGAGGGG--ACTCTAACCCCGATTTTATT
1 TTTTCACAATCGGGGATACTCCAACCC-GTTATTTTTGAGGGGATACTCCAACCTCGATTTTATT
3411521 TCCAAAACACTGAT
65 TCCAAAACACTGAT
* * * *
3411535 TTTTCACAATTGGGGTTACTCTAATCCCGTTATTTTTGAGAGGATACT
1 TTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTTGAGGGGATACT
3411583 TCATGTCGCC
Statistics
Matches: 241, Mismatches: 34, Indels: 22
0.81 0.11 0.07
Matches are distributed among these distances:
76 1 0.00
77 63 0.26
78 5 0.02
79 59 0.24
80 43 0.18
81 68 0.28
82 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (78 bp):
TTTTCACAATCGGGGATACTCCAACCCGTTATTTTTGAGGGGATACTCCAACCTCGATTTTATTT
CCAAAACACTGAT
Found at i:3416952 original size:12 final size:11
Alignment explanation
Indices: 3416935--3416975 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
3416925 GCAAGTGAGG
3416935 AAAAAAGAGAGA
1 AAAAAAGA-AGA
3416947 AAAAAAGAAGA
1 AAAAAAGAAGA
*
3416958 AAGAAAAAAAGA
1 AA-AAAAGAAGA
3416970 AAAAAA
1 AAAAAA
3416976 AGAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAGA
Found at i:3416962 original size:15 final size:15
Alignment explanation
Indices: 3416935--3416970 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
3416925 GCAAGTGAGG
*
3416935 AAAA-AAGAGAGAAA
1 AAAAGAAGAAAGAAA
3416949 AAAAGAAGAAAGAAA
1 AAAAGAAGAAAGAAA
3416964 AAAAGAA
1 AAAAGAA
3416971 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAAGAAA
Found at i:3416968 original size:8 final size:8
Alignment explanation
Indices: 3416944--3416982 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
3416934 GAAAAAAGAG
3416944 AGAAAAAA
1 AGAAAAAA
*
3416952 AG-AAGAA
1 AGAAAAAA
3416959 AGAAAAAA
1 AGAAAAAA
3416967 AGAAAAAAA
1 AG-AAAAAA
3416976 AGAAAAA
1 AGAAAAA
3416983 TTAAGCTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.22
8 13 0.48
9 8 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:3419786 original size:156 final size:152
Alignment explanation
Indices: 3419306--3419957 Score: 504
Period size: 156 Copynumber: 4.2 Consensus size: 152
3419296 TAGGGGATGA
* * * * * *
3419306 CTTCGATGTAAAAATACTCGATACCCATAAAGGACTTAAAAAGGATTATAAATGAGATGAACCTA
1 CTTCGATGTAGAAGTACCCGATACCCCTAAAGGACTTAAAAAGAATTATAAATGGGATGAACCTA
* * * * * *
3419371 TCCTAAATATCTACCTTCG-ATATAGAAGCGTACCCGGTGATAACCTAAGACTCGATTCTATAAA
66 TCCTAAATACCCACCTTCGCATA-A-AAGCGGACCCGGTGATGACCTAAGATTTGATTCTA-AAA
* * * *
3419435 ATTACTAAAATGCCCTTAAGGGATAT
128 ATTACAAAAATACCCCT-AGGGAAAT
** * * * * * * *
3419461 CTTCGATGTAGAAGTGTCTGATATCCCTAAAGGATTTAAAAAGGATTACAAACTGGGGTAAACCT
1 CTTCGATGTAGAAGTACCCGATACCCCTAAAGGACTTAAAAAGAATTATAAA-TGGGATGAACCT
** * * * *
3419526 ATCCTAAATACCCACCTTCGATCATAAAAGTAGACTCGGTGACGACCTAAGAGTTGATTTTGAAA
65 ATCCTAAATACCCACCTTCG--CATAAAAGCGGACCCGGTGATGACCTAAGATTTGATTCT-AAA
* * *
3419591 AATTACAAAAATGCCCCTAGGGGATT
127 AATTACAAAAATACCCCTAGGGAAAT
* * *
3419617 CTTTCGATGTGGAAGTACCCGATACCCCTAAAAGACTTAAAAAGAATTATAGATGGGATGAACCT
1 C-TTCGATGTAGAAGTACCCGATACCCCTAAAGGACTTAAAAAGAATTATAAATGGGATGAACCT
* * * * *
3419682 ATCTTAAATACCCACATTCAGCACAAAAGTGGACCCGGTGATGACCTAGGAATTTG-TTCTAAGA
65 ATCCTAAATACCCACCTTC-GCATAAAAGCGGACCCGGTGATGACCTAAG-ATTTGATTCTAA-A
*
3419746 AATTACCAAAATACCCCTATGGGTAAAT
127 AATTACAAAAATACCCCTA-GGG-AAAT
* ** * * *
3419774 CTTCGATGTGGAAG-ATCTTGGTATCCCTAAAGGACTTAAAAA-ATATTATAGAA-AGGATGAAC
1 CTTCGATGTAGAAGTA-CCCGATACCCCTAAAGGACTTAAAAAGA-ATTATA-AATGGGATGAAC
* *** * * * *
3419836 CTATCCTAAATATCCACCTTCGACATAAAAGCGGACCCGACAATGACGTAGGAGTTGGTTCTAAA
63 CTATCCTAAATACCCACCTTCG-CATAAAAGCGGACCCGGTGATGACCTAAGATTTGATTCT-AA
* * * * *
3419901 AAATTACGAAAACACCCTTAGGGGATAC
126 AAATTACAAAAATACCCCTA-GGGAAAT
* * *
3419929 CTTCGACGTAAAAGTACCCGATGCCCCTA
1 CTTCGATGTAGAAGTACCCGATACCCCTA
3419958 GTGGACACTA
Statistics
Matches: 394, Mismatches: 85, Indels: 36
0.77 0.17 0.07
Matches are distributed among these distances:
154 2 0.01
155 115 0.29
156 181 0.46
157 91 0.23
158 2 0.01
159 3 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (152 bp):
CTTCGATGTAGAAGTACCCGATACCCCTAAAGGACTTAAAAAGAATTATAAATGGGATGAACCTA
TCCTAAATACCCACCTTCGCATAAAAGCGGACCCGGTGATGACCTAAGATTTGATTCTAAAAATT
ACAAAAATACCCCTAGGGAAAT
Found at i:3419855 original size:312 final size:310
Alignment explanation
Indices: 3419286--3419866 Score: 681
Period size: 312 Copynumber: 1.9 Consensus size: 310
3419276 AAAATTTATG
* * * *
3419286 AAAATGCCCTTAGGGGATGACTTCGATGTAAAAATACTCGATACCCATAAAGGACTTAAAAAGGA
1 AAAATGCCCCTAGGGGATGACTTCGATGTAAAAATACCCGATACCCATAAAAGACTTAAAAAGAA
* * * * *
3419351 TTATAAATGAGATGAACCTATCCTAAATATCTACCTTCGATATAGAAGCGTACCCGGTGATAACC
66 TTATAAATGAGATGAACCTATCCTAAATACCCACATTCGACATAGAAGCGGACCCGGTGATAACC
* * * * *
3419416 TAAGACTCGATTCTATAAAATTACTAAAATGCCCTTAAGGGATATCTTCGATGTAGAAGTGTCTG
131 TAAGACTCGATTCTATAAAATTACCAAAATACCCCTAAGGGAAATCTTCGATGTAGAAGTCTCTG
* * * *
3419481 ATATCCCTAAAGGATTTAAAAAGGATTACAAACTGGGGTAAACCTATCCTAAATACCCACCTTCG
196 ATATCCCTAAAGGACTTAAAAAAGATTACAAAC-AGGATAAACCTATCCTAAATACCCACCTTCG
3419546 ATCATAAAAGTAGACTCGGTGACGACCTAAGAGTTGATTTTGAAAAATTACA
260 A-CATAAAAGTAGACTCGGTGACGACCTAAGAGTTGATTTTGAAAAATTACA
* ** * *
3419598 AAAATGCCCCTAGGGGAT-TCTTTCGATGTGGAAGTACCCGATACCCCTAAAAGACTTAAAAAGA
1 AAAATGCCCCTAGGGGATGAC-TTCGATGTAAAAATACCCGATACCCATAAAAGACTTAAAAAGA
* * * * *
3419662 ATTATAGATGGGATGAACCTATCTTAAATACCCACATTCAGCACA-A-AAGTGGACCCGGTGATG
65 ATTATAAATGAGATGAACCTATCCTAAATACCCACATTC-G-ACATAGAAGCGGACCCGGTGATA
* * * * *
3419725 ACCTAGGAATTTG-TTCTA-AGAAATTACCAAAATACCCCTATGGGTAAATCTTCGATGTGGAAG
128 ACCTAAG-ACTCGATTCTATA-AAATTACCAAAATACCCCTAAGGG-AAATCTTCGATGTAGAAG
* * * * *
3419788 ATCT-TGGTATCCCTAAAGGACTTAAAAAATATTATAGAA-AGGATGAACCTATCCTAAATATCC
190 -TCTCTGATATCCCTAAAGGACTTAAAAAAGATTACA-AACAGGATAAACCTATCCTAAATACCC
3419851 ACCTTCGACATAAAAG
253 ACCTTCGACATAAAAG
3419867 CGGACCCGAC
Statistics
Matches: 223, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
311 10 0.04
312 159 0.71
313 48 0.22
314 6 0.03
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (310 bp):
AAAATGCCCCTAGGGGATGACTTCGATGTAAAAATACCCGATACCCATAAAAGACTTAAAAAGAA
TTATAAATGAGATGAACCTATCCTAAATACCCACATTCGACATAGAAGCGGACCCGGTGATAACC
TAAGACTCGATTCTATAAAATTACCAAAATACCCCTAAGGGAAATCTTCGATGTAGAAGTCTCTG
ATATCCCTAAAGGACTTAAAAAAGATTACAAACAGGATAAACCTATCCTAAATACCCACCTTCGA
CATAAAAGTAGACTCGGTGACGACCTAAGAGTTGATTTTGAAAAATTACA
Found at i:3420381 original size:168 final size:169
Alignment explanation
Indices: 3420070--3420491 Score: 654
Period size: 168 Copynumber: 2.5 Consensus size: 169
3420060 TTTGAAATTG
3420070 CATTTCGTACCCGACGAAAAA-CTAGGGGATACGAAAAGTTTTAAAAATTTCCATACCCTTACA-
1 CATTTCGTACCCGACGAAAAATC-AGGGGATACGAAAAGTTTTAAAAATTTCCATACCC-TA-AG
3420133 GAAAACCATAGGAATATTAGAAATCTTGAAAAAAATGATTAACTTTATTTTAAAAAGGTTGAAAT
63 GAAAACCATAGGAATATTAGAAATCTTGAAAAAAATGATTAACTTTATTTTAAAAAGGTTGAAAT
*
3420198 GATTTCATTTCAATTATTATTTATTTAATTCT-TAAAAAAAT
128 GATTTCATTTCAATTATTATTTATTTAATTCTAAAAAAAAAT
** * * * *
3420239 CATTTCGTACCCGATTAAAAATCAAGGG-TACTAAAAGTTTTGAAAATTTCCATATCACTAAGGA
1 CATTTCGTACCCGACGAAAAATCAGGGGATACGAAAAGTTTTAAAAATTTCCATA-CCCTAAGGA
*
3420303 AAACCATAGGAATATTAGAAATCTTGAAAAAAATGATTAACTTTATTTTAAAATGGTTGAAATGA
65 AAACCATAGGAATATTAGAAATCTTGAAAAAAATGATTAACTTTATTTTAAAAAGGTTGAAATGA
3420368 TTTCATTTCAATTATTATTTATTTAATTCTAAAAAAAAAT
130 TTTCATTTCAATTATTATTTATTTAATTCTAAAAAAAAAT
* * * *
3420408 CATTTCGTACCTGACGAAAAATCAGGGGATACGAAAAGTTTTAAAAATTTCTATACCCCTACGAA
1 CATTTCGTACCCGACGAAAAATCAGGGGATACGAAAAGTTTTAAAAATTTCCATA-CCCTAAGGA
*
3420473 AAACGATAGGAATATTAGA
65 AAACCATAGGAATATTAGA
3420492 CACCTTAAAA
Statistics
Matches: 228, Mismatches: 20, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
167 1 0.00
168 122 0.54
169 57 0.25
170 48 0.21
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (169 bp):
CATTTCGTACCCGACGAAAAATCAGGGGATACGAAAAGTTTTAAAAATTTCCATACCCTAAGGAA
AACCATAGGAATATTAGAAATCTTGAAAAAAATGATTAACTTTATTTTAAAAAGGTTGAAATGAT
TTCATTTCAATTATTATTTATTTAATTCTAAAAAAAAAT
Found at i:3420773 original size:144 final size:142
Alignment explanation
Indices: 3420435--3420776 Score: 447
Period size: 143 Copynumber: 2.4 Consensus size: 142
3420425 AAAATCAGGG
* * *
3420435 GATACGAAAAGTTTTAAAAAT-TTCTATACCCCTACGAAAAACGATAGGAATATTAGACACCTTA
1 GATACGAAAAGTTTTGAAAATCTTTTATACCCCTACGAAAAAC-ATAGGAATATTAGAAACCTTA
*
3420499 AAAAATTAAGATACTAATTTTTATTTTGATTTTTTAATTTTTAAAAATTCATTTCGTATCTTAAA
65 AAAAATTAAGATACTAATTTTTATTTTGATTTTTTAATTTTTAAAAATTCATTTCGTACCTTAAA
**
3420564 GGGGAACCAAAAA
130 GGAAAACCAAAAA
* ** * * *
3420577 GATACGAAAAGTTTTGAAAATC-TTTATTGCTTCTACGAAAAACCGTAAGAATATTAGAAATCTT
1 GATACGAAAAGTTTTGAAAATCTTTTA-TACCCCTACGAAAAA-CATAGGAATATTAGAAACCTT
* *
3420641 AAAAAATTAAGATAGTAATTTTTATTTTGATTTTTTTATTTTTGAAAAATTCATTTCGTACCTTA
64 AAAAAATTAAGATACTAATTTTTATTTTGATTTTTTAATTTTT-AAAAATTCATTTCGTACCTTA
* *
3420706 ATGGAAAACTGAAAAA
128 AAGGAAAAC-CAAAAA
* *
3420722 -ATACGAAAAGTTTTGAAAATCTTTTATACCCCTACGGACACACATAGGAATATTA
1 GATACGAAAAGTTTTGAAAATCTTTTATACCCCTAC-GAAAAACATAGGAATATTA
3420777 AAGATTAAAA
Statistics
Matches: 170, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
142 23 0.14
143 69 0.41
144 65 0.38
145 13 0.08
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (142 bp):
GATACGAAAAGTTTTGAAAATCTTTTATACCCCTACGAAAAACATAGGAATATTAGAAACCTTAA
AAAATTAAGATACTAATTTTTATTTTGATTTTTTAATTTTTAAAAATTCATTTCGTACCTTAAAG
GAAAACCAAAAA
Found at i:3421948 original size:10 final size:10
Alignment explanation
Indices: 3421929--3421974 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
3421919 GCTAGCTTTG
3421929 TTTTTT-CTA
1 TTTTTTCCTA
3421938 TTTTTTCCTA
1 TTTTTTCCTA
3421948 TTTTTTCCTA
1 TTTTTTCCTA
3421958 TTTTCTT-CTA
1 TTTT-TTCCTA
3421968 TTTTTTC
1 TTTTTTC
3421975 TCTTGCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.24
10 24 0.71
11 2 0.06
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTCCTA
Found at i:3422013 original size:24 final size:26
Alignment explanation
Indices: 3421958--3422013 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
3421948 TTTTTTCCTA
*
3421958 TTTTCTTCTATTTTTTCTCTTGCTTT
1 TTTTCTTCTATTTTCTCTCTTGCTTT
*
3421984 TCTTTC-TCTCTTTTCTCTCTT-CTTT
1 T-TTTCTTCTATTTTCTCTCTTGCTTT
3422009 TTTTC
1 TTTTC
3422014 CAGCTGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 5 0.19
26 14 0.52
27 4 0.15
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTCTTCTATTTTCTCTCTTGCTTT
Found at i:3423728 original size:52 final size:52
Alignment explanation
Indices: 3423650--3423757 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
3423640 ACCCTAAGTG
* * * *
3423650 AATTGTATCGATATATGGTAAATTGTATCGATACATT-ATGCCCAACGGCTAT
1 AATTGTATCGATACATGATAAATTGTATCGATACATTGA-GACCAACGGCTAA
* *
3423702 AATTGTATCGATACATTATGAATTGTATCGATACATTGAGACCAACGGCTAA
1 AATTGTATCGATACATGATAAATTGTATCGATACATTGAGACCAACGGCTAA
3423754 AATT
1 AATT
3423758 TCAAATGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (52 bp):
AATTGTATCGATACATGATAAATTGTATCGATACATTGAGACCAACGGCTAA
Found at i:3427350 original size:52 final size:52
Alignment explanation
Indices: 3427270--3427421 Score: 236
Period size: 52 Copynumber: 2.9 Consensus size: 52
3427260 CTCGAAATAT
3427270 GAAAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
* * *
3427322 GCAAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
*
3427374 GAAAATTTGCCTGCATGTATCGATACA--AAGATCAGTGTATCGATACAT
1 GAAAATTTGCCTGCATGTATCGATACATTTA-AT-AGTGTATCGATACAT
3427422 TTGAGTAATG
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
Found at i:3427488 original size:20 final size:19
Alignment explanation
Indices: 3427459--3427496 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
3427449 GCAGTAGCTT
3427459 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
3427478 AAATATGTATCGATACAAA
1 AAAT-TGTATCGATACAAA
3427497 TCGTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:3428709 original size:43 final size:44
Alignment explanation
Indices: 3428649--3428972 Score: 393
Period size: 43 Copynumber: 7.1 Consensus size: 44
3428639 AAAGGTGGAA
3428649 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* *
3428692 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AG
*
3428741 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* *
3428784 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AG
* *
3428833 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* *
3428876 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----AG
* *
3428925 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
3428969 AAGG
1 AAGG
3428973 GTTGCCACCG
Statistics
Matches: 243, Mismatches: 20, Indels: 35
0.82 0.07 0.12
Matches are distributed among these distances:
43 117 0.48
44 8 0.03
48 3 0.01
49 115 0.47
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (44 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
Found at i:3428781 original size:92 final size:92
Alignment explanation
Indices: 3428596--3428972 Score: 648
Period size: 92 Copynumber: 4.1 Consensus size: 92
3428586 TAAAGATGGA
* * *
3428596 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTAAAAGGTGGAA-AAGGTGCCAAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA----GAAGAAGGTGCCAAT
*
3428660 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
3428691 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
3428756 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
3428783 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
3428848 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
3428875 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
3428940 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGATATTGGACTT
3428967 AGAAGG
1 A-AAGG
3428973 GTTGCCACCG
Statistics
Matches: 275, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
91 3 0.01
92 225 0.82
93 4 0.01
95 43 0.16
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:3428994 original size:30 final size:30
Alignment explanation
Indices: 3428960--3429052 Score: 116
Period size: 33 Copynumber: 3.0 Consensus size: 30
3428950 CCAGCGATAT
3428960 TGGGC-TTAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAA-GGTTGCCACCGACTTGTG
*
3428990 TGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTT--AGAA-GGTTGCCACCGACTTGTG
* *
3429023 TGGGCTTTAGAAGGTTGCTACTGACTTGTG
1 TGGGCTTTAGAAGGTTGCCACCGACTTGTG
3429053 GGCTTTTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 20 0.36
31 6 0.11
33 29 0.53
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.31
Consensus pattern (30 bp):
TGGGCTTTAGAAGGTTGCCACCGACTTGTG
Found at i:3429088 original size:36 final size:35
Alignment explanation
Indices: 3429048--3429129 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
3429038 TGCTACTGAC
* * *
3429048 TTGTGGGCTTTTAAAAGGAAAAAGAGTGCTATAGAG
1 TTGTGGGCTTTCAAAA-GAAAAAGAGTGCCACAGAG
* * *
3429084 TTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAG
1 TTGTGGGCTTTCAAAAGAAAAAGAGTGCCACAGAG
*
3429119 TTGTGGACTTT
1 TTGTGGGCTTT
3429130 GGAAAAGATG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (35 bp):
TTGTGGGCTTTCAAAAGAAAAAGAGTGCCACAGAG
Found at i:3429151 original size:29 final size:29
Alignment explanation
Indices: 3429102--3429305 Score: 196
Period size: 29 Copynumber: 6.9 Consensus size: 29
3429092 TTACAAAAGA
* * *
3429102 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
3429132 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
3429161 AAAAGGGTGCCACTGATTTGTGAGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * *
3429190 -AAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
3429218 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAAA-GATGCCACTGACTTGTGGGC-TTTG-G
* * *
3429250 AAAAAATGCCACTAACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
3429279 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
3429306 TGAAGGGTGA
Statistics
Matches: 146, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
27 20 0.14
28 3 0.02
29 52 0.36
30 46 0.32
31 21 0.14
32 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:3429221 original size:57 final size:58
Alignment explanation
Indices: 3429102--3429311 Score: 208
Period size: 57 Copynumber: 3.6 Consensus size: 58
3429092 TTACAAAAGA
* * * * * * * **
3429102 AAAAGAGTGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGATGCCACTGACTTGTGGGCTTTTG
* * *
3429161 AAAAGGGTGCCACTGATTTGTGAGC-TTTGAAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGGCTTTTG
* ** *
3429218 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAAAATGCCACTAACTTGTGGGC-TTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTG---AAGGATGCCACTGACTTGTGGGCTTTTG
* *
3429278 AAAAAGATGCCACTGACTTGTGGGCTTTTGAAGG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGG
3429312 GTGAGGAATG
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
57 47 0.38
58 7 0.06
59 20 0.16
60 31 0.25
61 19 0.15
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (58 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGATGCCACTGACTTGTGGGCTTTTG
Found at i:3429231 original size:30 final size:30
Alignment explanation
Indices: 3429100--3429309 Score: 205
Period size: 30 Copynumber: 7.1 Consensus size: 30
3429090 GCTTACAAAA
* * * * *
3429100 GAAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 GAAAAGGA-TGCCACTGACTTGTGGGCTTTT
* **
3429131 GAAAA-GATGCCACCGACTTGTGGGCTTCG
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
* * *
3429160 GAAAAGGGTGCCACTGATTTGTGAGC-TTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
*
3429189 G--AAGGTTGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
* *
3429217 GAAAAGGGTGCCACTAACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
** *
3429247 GAAAAAAAATGCCACTAACTTGTGGGC-TTT
1 G-AAAAGGATGCCACTGACTTGTGGGCTTTT
*
3429277 GAAAAAGATGCCACTGACTTGTGGGCTTTT
1 GAAAAGGATGCCACTGACTTGTGGGCTTTT
3429307 GAA
1 GAA
3429310 GGGTGAGGAA
Statistics
Matches: 153, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.13
28 4 0.03
29 48 0.31
30 54 0.35
31 27 0.18
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (30 bp):
GAAAAGGATGCCACTGACTTGTGGGCTTTT
Found at i:3429724 original size:17 final size:18
Alignment explanation
Indices: 3429692--3429725 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3429682 ATGCAAAATG
3429692 AAATGCTATGAATGTGGT
1 AAATGCTATGAATGTGGT
*
3429710 AAATGC-ATGATTGTGG
1 AAATGCTATGAATGTGG
3429726 CATGAAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (18 bp):
AAATGCTATGAATGTGGT
Found at i:3430769 original size:20 final size:18
Alignment explanation
Indices: 3430741--3430825 Score: 98
Period size: 20 Copynumber: 4.4 Consensus size: 18
3430731 ATCCGGACCC
3430741 TTTTTTTTGTTGTTTTGTT
1 TTTTTTTTGTT-TTTTGTT
3430760 TTTTTGTTTGTTTTTTGTGGT
1 TTTTT-TTTGTTTTTTGT--T
* *
3430781 TTTTTTGTGTTTTTTTTAAT
1 TTTTTTTTGTTTTTTGT--T
3430801 TTTTTTTTGTTTTTTGTT
1 TTTTTTTTGTTTTTTGTT
3430819 TTTTTTT
1 TTTTTTT
3430826 GCGGAGGACG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 8 0.14
19 11 0.19
20 32 0.56
21 6 0.11
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (18 bp):
TTTTTTTTGTTTTTTGTT
Found at i:3430773 original size:11 final size:11
Alignment explanation
Indices: 3430754--3430826 Score: 66
Period size: 10 Copynumber: 7.0 Consensus size: 11
3430744 TTTTTGTTGT
3430754 TTTGTTTTTTTG
1 TTTG-TTTTTTG
3430766 TTTGTTTTTTG
1 TTTGTTTTTTG
*
3430777 -TGGTTTTTT-
1 TTTGTTTTTTG
*
3430786 TGTGTTTTTT-
1 TTTGTTTTTTG
**
3430796 TTAATTTTTT-
1 TTTGTTTTTTG
3430806 TTTGTTTTTTG
1 TTTGTTTTTTG
3430817 TTT-TTTTTTG
1 TTTGTTTTTTG
3430827 CGGAGGACGC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
10 37 0.73
11 10 0.20
12 4 0.08
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (11 bp):
TTTGTTTTTTG
Found at i:3443385 original size:13 final size:13
Alignment explanation
Indices: 3443367--3443391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3443357 CAAAGATCAG
3443367 TGTATCGATACAA
1 TGTATCGATACAA
3443380 TGTATCGATACA
1 TGTATCGATACA
3443392 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3443472 original size:13 final size:13
Alignment explanation
Indices: 3443454--3443478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3443444 CAAAAAAATA
3443454 TGTATCGATACAT
1 TGTATCGATACAT
3443467 TGTATCGATACA
1 TGTATCGATACA
3443479 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3445384 original size:19 final size:20
Alignment explanation
Indices: 3445331--3445384 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
3445321 TAGAGAATGA
*
3445331 TGAACTTAAAAAGAAAATAAT
1 TGAA-TTAACAAGAAAATAAT
3445352 TGAATTAGACAAGAAAATAGA-
1 TGAATTA-ACAAGAAAATA-AT
3445373 TGAATT-ACAAGA
1 TGAATTAACAAGA
3445385 TGTTAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.20
20 3 0.10
21 20 0.67
22 1 0.03
ACGTcount: A:0.57, C:0.06, G:0.15, T:0.22
Consensus pattern (20 bp):
TGAATTAACAAGAAAATAAT
Found at i:3452285 original size:20 final size:20
Alignment explanation
Indices: 3452260--3452336 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
3452250 CACTGCCAGT
3452260 TTCATGTATCGATACAATTC
1 TTCATGTATCGATACAATTC
* *
3452280 TTCATGTATCGATATAA-TG
1 TTCATGTATCGATACAATTC
** *
3452299 AACATGTATCGATACAATTT
1 TTCATGTATCGATACAATTC
3452319 TTCATGTATCGATACAAT
1 TTCATGTATCGATACAAT
3452337 GAATCGATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.31
20 33 0.69
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
TTCATGTATCGATACAATTC
Found at i:3452315 original size:39 final size:39
Alignment explanation
Indices: 3452262--3452339 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
3452252 CTGCCAGTTT
*
3452262 CATGTATCGATACAATTCTTCATGTATCGATATAATGAA
1 CATGTATCGATACAATTCTTCATGTATCGATACAATGAA
*
3452301 CATGTATCGATACAATTTTTCATGTATCGATACAATGAA
1 CATGTATCGATACAATTCTTCATGTATCGATACAATGAA
3452340 TCGATACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (39 bp):
CATGTATCGATACAATTCTTCATGTATCGATACAATGAA
Found at i:3458370 original size:52 final size:52
Alignment explanation
Indices: 3458291--3458399 Score: 148
Period size: 52 Copynumber: 2.1 Consensus size: 52
3458281 TACCCTAAGT
* * *
3458291 GAATTGTATCGATACATGGTAAATTGTATTGATACATT-ATGCCCAATAGCTA
1 GAATTGTATCGATACATGATAAATTGTATCGATACATTGA-GACCAATAGCTA
* * *
3458343 TAATTGTATCGATACATTATGAATTGTATCGATACATTGAGACCAATAGCTA
1 GAATTGTATCGATACATGATAAATTGTATCGATACATTGAGACCAATAGCTA
3458395 GAATT
1 GAATT
3458400 TCAAATGCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (52 bp):
GAATTGTATCGATACATGATAAATTGTATCGATACATTGAGACCAATAGCTA
Found at i:3459414 original size:155 final size:152
Alignment explanation
Indices: 3459254--3459590 Score: 349
Period size: 155 Copynumber: 2.2 Consensus size: 152
3459244 GAAGGTTGCT
* * *
3459254 AATGTGCTAATTCAAGGCCAGCGACATTAGAATTAAAGATGACAAAGGTGCCAA-TGTACTGATT
1 AATGTGCTGATTCAAGGCCAACGACATTAGAATTAAAGATGACAAAGGTG-CAATTGTACTGAGT
* * * * * *
3459318 CTATGCCAACA-ACATTGGACTTAAAGATGATGAGAGTGCCAATGTGCTGATTTAAAGCCAACAA
65 CAAAGCCAA-AGACATTAGACTTAAAGATGA--AAAGTGCCAATGTGCTGATTCAAAACCAACAA
3459382 CATTAGACTTAAAGATGGTAGGGGTGCC
127 CATTAGACTTAAAGATGG-AGGGG-GCC
* * * * * * * * * * *
3459410 -ATGTGGTGATTCAAGGCCAATGATATTGGACTTTATGATGATAAGGGTGTAATTGTGCTGAGTC
1 AATGTGCTGATTCAAGGCCAACGACATTAGAATTAAAGATGACAAAGGTGCAATTGTACTGAGTC
* * *
3459474 AAAGCCAAAGACATTAGACTTAAAGATGAAAAGTGCCAATGTGTTGATTCAAAACCAGCGACATT
66 AAAGCCAAAGACATTAGACTTAAAGATGAAAAGTGCCAATGTGCTGATTCAAAACCAACAACATT
* * *
3459539 GGACTTAGAGATGGAGGTGGCC
131 AGACTTAAAGATGGAGGGGGCC
3459561 AATGTGCTGATTC-AGGACCAACGACATTAG
1 AATGTGCTGATTCAAGG-CCAACGACATTAG
3459591 GCTTAGAAGG
Statistics
Matches: 147, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
151 6 0.04
152 25 0.17
153 42 0.29
154 3 0.02
155 71 0.48
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (152 bp):
AATGTGCTGATTCAAGGCCAACGACATTAGAATTAAAGATGACAAAGGTGCAATTGTACTGAGTC
AAAGCCAAAGACATTAGACTTAAAGATGAAAAGTGCCAATGTGCTGATTCAAAACCAACAACATT
AGACTTAAAGATGGAGGGGGCC
Found at i:3459537 original size:50 final size:51
Alignment explanation
Indices: 3459129--3459595 Score: 261
Period size: 52 Copynumber: 9.1 Consensus size: 51
3459119 ATGACATCGA
* ** * * *
3459129 ACTTAATGATGATAAAGGTGCCAATGTGCAAATTC-AAGACTAACAACATTGG
1 ACTTAAAGATGATAAA-GTGCCAATGTGCTGATTCAAAG-CCAACGACATTAG
* * * * * * *
3459181 ACTAAAAGATGATAAAGGTGCTAGTATGCT-ACTTCAAGGCCAACGATATTTGG
1 ACTTAAAGATGATAAA-GTGCCAATGTGCTGA-TTCAAAGCCAACGACA-TTAG
* ** * * * * *
3459234 ATTTAATTATG--AAGGTTGCTAATGTGCTAATTCAAGGCCAGCGACATTAG
1 ACTTAAAGATGATAAAG-TGCCAATGTGCTGATTCAAAGCCAACGACATTAG
* * * * * * *
3459284 AATTAAAGATGACAAAGGTGCCAATGTACTGATTCTATGCCAACAACATTGG
1 ACTTAAAGATGATAAA-GTGCCAATGTGCTGATTCAAAGCCAACGACATTAG
* * *
3459336 ACTTAAAGATGATGAGAGTGCCAATGTGCTGATTTAAAGCCAACAACATTAG
1 ACTTAAAGATGAT-AAAGTGCCAATGTGCTGATTCAAAGCCAACGACATTAG
* ** * * * * *
3459388 ACTTAAAGATGGTAGGGGTGCC-ATGTGGTGATTCAAGGCCAATGATATTGG
1 ACTTAAAGATGATA-AAGTGCCAATGTGCTGATTCAAAGCCAACGACATTAG
* * * * * *
3459439 ACTTTATGATGATAAGGGTG-TAATTGTGCTGAGTCAAAGCCAAAGACATTAG
1 ACTTAAAGATGATAA-AGTGCCAA-TGTGCTGATTCAAAGCCAACGACATTAG
* * * *
3459491 ACTTAAAGATGA-AAAGTGCCAATGTGTTGATTCAAAACCAGCGACATTGG
1 ACTTAAAGATGATAAAGTGCCAATGTGCTGATTCAAAGCCAACGACATTAG
* * * *
3459541 ACTTAGAGATG--GAGGTGGCCAATGTGCTGATTC-AGGACCAACGACATTAG
1 ACTTAAAGATGATAAAGT-GCCAATGTGCTGATTCAAAG-CCAACGACATTAG
*
3459591 GCTTA
1 ACTTA
3459596 GAAGGAGATG
Statistics
Matches: 320, Mismatches: 79, Indels: 34
0.74 0.18 0.08
Matches are distributed among these distances:
49 4 0.01
50 77 0.24
51 70 0.22
52 153 0.48
53 16 0.05
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (51 bp):
ACTTAAAGATGATAAAGTGCCAATGTGCTGATTCAAAGCCAACGACATTAG
Found at i:3459731 original size:31 final size:31
Alignment explanation
Indices: 3459672--3459797 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 31
3459662 ATGCCATAAT
* * *
3459672 TTGTGTGGGCTTTTGAGAGGGTTACCACCAAC
1 TTGTGTGGGC-TTTGAAAGGGATGCCACCAAC
* *
3459704 TTGTGTAGGCTTTGAAAGGGATGCCACCGAC
1 TTGTGTGGGCTTTGAAAGGGATGCCACCAAC
* * *
3459735 TTGTGTGGGCTTTGGAAA-TGTTGCCACCGAC
1 TTGTGTGGGCTTT-GAAAGGGATGCCACCAAC
* * *
3459766 TTATATGGGCTTTGAAAAGGATGCCACCAAC
1 TTGTGTGGGCTTTGAAAGGGATGCCACCAAC
3459797 T
1 T
3459798 AGTATGGGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
30 4 0.05
31 62 0.78
32 13 0.16
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (31 bp):
TTGTGTGGGCTTTGAAAGGGATGCCACCAAC
Found at i:3459762 original size:62 final size:63
Alignment explanation
Indices: 3459672--3459793 Score: 156
Period size: 62 Copynumber: 2.0 Consensus size: 63
3459662 ATGCCATAAT
* * * * *
3459672 TTGTGTGGGCTTTTGAGAGGGTTACCACCAACTTGTGTAGGCTTTGAAAGGGATGCCACCGAC
1 TTGTGTGGGCTTTGGAGAAGGTTACCACCAACTTATATAGGCTTTGAAAAGGATGCCACCGAC
* * * *
3459735 TTGTGTGGGCTTTGGA-AATGTTGCCACCGACTTATATGGGCTTTGAAAAGGATGCCACC
1 TTGTGTGGGCTTTGGAGAAGGTTACCACCAACTTATATAGGCTTTGAAAAGGATGCCACC
3459794 AACTAGTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
62 35 0.70
63 15 0.30
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (63 bp):
TTGTGTGGGCTTTGGAGAAGGTTACCACCAACTTATATAGGCTTTGAAAAGGATGCCACCGAC
Found at i:3460535 original size:13 final size:13
Alignment explanation
Indices: 3460519--3460552 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
3460509 TGGGATGGTA
3460519 ATGTGAATGCATG
1 ATGTGAATGCATG
3460532 ATGTGGAATGCATG
1 ATGT-GAATGCATG
*
3460546 TTGTGAA
1 ATGTGAA
3460553 GTCTAATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (13 bp):
ATGTGAATGCATG
Found at i:3461962 original size:28 final size:28
Alignment explanation
Indices: 3461901--3461996 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 28
3461891 TCATTTCTTT
*
3461901 TTTTTTTGTTTTTTACTTTTTTA-TTCAC-C
1 TTTTTTTG-TTTTT--TTTTTTACTTTACTC
3461930 TTTTTTTTGTTTTTTTTTTTACTTTACTC
1 -TTTTTTTGTTTTTTTTTTTACTTTACTC
**
3461959 TTTTTTAATTTTTTTTTTTACTTTTTACTAC
1 TTTTTTTGTTTTTTTTTTTAC--TTTACT-C
3461990 TTTTTTT
1 TTTTTTT
3461997 TGACATGGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
27 7 0.12
28 23 0.40
29 6 0.11
30 14 0.25
31 7 0.12
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.77
Consensus pattern (28 bp):
TTTTTTTGTTTTTTTTTTTACTTTACTC
Found at i:3470516 original size:21 final size:20
Alignment explanation
Indices: 3470492--3470543 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
3470482 TTCTGCAATT
3470492 TGTATTGATACAAACAATAAA
1 TGTATTGATACAAA-AATAAA
* * * *
3470513 TGTATCGATACATAAGTGAA
1 TGTATTGATACAAAAATAAA
3470533 TGTATTGATAC
1 TGTATTGATAC
3470544 TTGCCTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATTGATACAAAAATAAA
Found at i:3470638 original size:22 final size:20
Alignment explanation
Indices: 3470591--3470668 Score: 88
Period size: 20 Copynumber: 3.8 Consensus size: 20
3470581 CTTTCAAAGA
3470591 AATGTATCGATACATTTACT
1 AATGTATCGATACATTTACT
3470611 AATGTATCGATACATGCTTAC-
1 AATGTATCGATACAT--TTACT
3470632 AATTGTATCGATACATTT-CT
1 AA-TGTATCGATACATTTACT
* *
3470652 CATTATATCGATACATT
1 -AATGTATCGATACATT
3470669 CTGGGTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.02
20 30 0.59
21 3 0.06
22 17 0.33
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTACT
Found at i:3472708 original size:21 final size:21
Alignment explanation
Indices: 3472682--3472728 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
3472672 CGACTTTGAA
3472682 AATTTATTCCTCTTGGAAAAT
1 AATTTATTCCTCTTGGAAAAT
3472703 AATTTATTCCTCTTGGAAAAT
1 AATTTATTCCTCTTGGAAAAT
*
3472724 GATTT
1 AATTT
3472729 TCCAAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (21 bp):
AATTTATTCCTCTTGGAAAAT
Found at i:3480140 original size:31 final size:31
Alignment explanation
Indices: 3480102--3480178 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
3480092 ATACATTGAA
* *
3480102 GAATGTATTGATACGTTTAGGTCAAAACCTC
1 GAATGTATCGATACATTTAGGTCAAAACCTC
3480133 GAATGTATCGATACATTTAGGTCAAAACC-C
1 GAATGTATCGATACATTTAGGTCAAAACCTC
*
3480163 AGAATATATCGATACA
1 -GAATGTATCGATACA
3480179 ATGAAGAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (31 bp):
GAATGTATCGATACATTTAGGTCAAAACCTC
Found at i:3480188 original size:51 final size:51
Alignment explanation
Indices: 3480133--3480252 Score: 195
Period size: 51 Copynumber: 2.4 Consensus size: 51
3480123 TCAAAACCTC
*
3480133 GAATGTATCGATACATTTAGGTCAAAACCCAGAATATATCGATACAATGAA
1 GAATGTATCGATACATTTAGGTCAAAACCCAAAATATATCGATACAATGAA
* *
3480184 GAATGTATCGATACATTTAGGTTAAAACCCAAAATGTATCGATACAATGAA
1 GAATGTATCGATACATTTAGGTCAAAACCCAAAATATATCGATACAATGAA
* *
3480235 AAATGTATCAATACATTT
1 GAATGTATCGATACATTT
3480253 TCATTCTAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (51 bp):
GAATGTATCGATACATTTAGGTCAAAACCCAAAATATATCGATACAATGAA
Found at i:3480983 original size:53 final size:52
Alignment explanation
Indices: 3480915--3481014 Score: 146
Period size: 53 Copynumber: 1.9 Consensus size: 52
3480905 CAATATGCAG
* * * * *
3480915 ATTCATGGCCTACGACATTGGACTTAATGATGATAAAAGGTGCCAATATACTA
1 ATTCAAGGCCAACGACATTGGACATAAAGATAAT-AAAGGTGCCAATATACTA
3480968 ATTCAAGGCCAACGACATTGGACATAAAGATAATAAAGGTGCCAATA
1 ATTCAAGGCCAACGACATTGGACATAAAGATAATAAAGGTGCCAATA
3481015 GGCTGCTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 13 0.31
53 29 0.69
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (52 bp):
ATTCAAGGCCAACGACATTGGACATAAAGATAATAAAGGTGCCAATATACTA
Found at i:3481204 original size:104 final size:102
Alignment explanation
Indices: 3481096--3481354 Score: 254
Period size: 104 Copynumber: 2.5 Consensus size: 102
3481086 CATTGGGCAC
* * *
3481096 AAAGATGACAAAGGTGCCAATGTGTTGATTCTAGGCCAAT-AGCATTGGACTTAAAGATGATGAG
1 AAAGATGA-AGAGGTGCCAATGTGTTGATTCAAGGCCAATGA-CATTGGACTTAAA-ATGATAAG
* * *
3481160 AGT-TCTAATGTGCTGATTCAAGGCCAGCAACATTAGACTT
63 AGTGCCT-ATGTGCTGAGTCAAAGCCAGCAACATTAGACTT
* * * * ** * ** *
3481200 AAAGATGGTAGGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTACACTTTAAAATGATAAGG
1 AAAGAT-GAAGAGGTGCCAATGTGTTGATTCAAGGCCAATGACATTGGAC-TTAAAATGATAAGA
*
3481265 GTGCCTATGTGCTGAGTCAAAGCCAGCGACATTAGACTT
64 GTGCCTATGTGCTGAGTCAAAGCCAGCAACATTAGACTT
** * *
3481304 AAAGATGAAGA-GTGCCAATGCATTGATTCCAGGCCAGTGACATTGGACTTA
1 AAAGATGAAGAGGTGCCAATGTGTTGATTCAAGGCCAATGACATTGGACTTA
3481355 GTGATGGAGG
Statistics
Matches: 123, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
101 3 0.02
102 28 0.23
103 3 0.02
104 80 0.65
105 9 0.07
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (102 bp):
AAAGATGAAGAGGTGCCAATGTGTTGATTCAAGGCCAATGACATTGGACTTAAAATGATAAGAGT
GCCTATGTGCTGAGTCAAAGCCAGCAACATTAGACTT
Found at i:3481236 original size:52 final size:52
Alignment explanation
Indices: 3480903--3481389 Score: 220
Period size: 52 Copynumber: 9.4 Consensus size: 52
3480893 CGCATAATAG
* * * * * * **
3480903 GCCAATATGCAGATTCATGGCCTA-CGACATTGGACTTAATGATGATAAAAGGT
1 GCCAATGTGCTGATTCAAGGCC-AGCAACATTAGACTTAAAGATGAT-AGGGGT
* * * * * * * * **
3480956 GCCAATATACTAATTCAAGGCCAACGACATTGGACATAAAGATAATAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAGGGGT
* * ** * * * *
3481008 GCCAATAG-GCTGCTTCAAGGCTAGTGATATTTGGATTTAAAGATGA-A-GGTT
1 GCCAAT-GTGCTGATTCAAGGCCAGCAACA-TTAGACTTAAAGATGATAGGGGT
* * ** * * ** * **
3481059 GCCAATGTGCTGATTCAGGGCTAGTGACATTGGGCACAAAGATGACAAAGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAGGGGT
* * ** * * *
3481111 GCCAATGTGTTGATTCTAGGCCAATAGCATTGGACTTAAAGATGAT-GAGAGT
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAG-GGGT
* * *
3481163 TCTAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGGTAGGGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAGGGGT
* * * * *
3481215 GCCAATATGCTGATTCAAGGCCAGCGATATTACACTTTAAA-ATGATAAGGGT
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGAC-TTAAAGATGATAGGGGT
* * * * *
3481267 GCCTATGTGCTGAGTCAAAGCCAGCGACATTAGACTTAAAGATGA-A-GAGT
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAGGGGT
*** * ** * ** * *
3481317 GCCAATGCATTGATTCCAGGCCAGTGACATTGGACTTAGTGATG-GAGGCG-
1 GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAGGGGT
* *
3481367 GCCAATGTGCCGATTCAGGGCCA
1 GCCAATGTGCTGATTCAAGGCCA
3481390 ATGACATTGG
Statistics
Matches: 336, Mismatches: 86, Indels: 27
0.75 0.19 0.06
Matches are distributed among these distances:
50 67 0.20
51 35 0.10
52 178 0.53
53 56 0.17
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (52 bp):
GCCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGATAGGGGT
Found at i:3483336 original size:25 final size:28
Alignment explanation
Indices: 3483284--3483348 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 28
3483274 TTTTTTCACC
*
3483284 TTTTTTTTTACTTTACTCTTTTTCTTGAT
1 TTTTTTTTTACTTTA-TCTTATTCTTGAT
3483313 TTTTTTTTTACTTT-T-TTATT-TTGAT
1 TTTTTTTTTACTTTATCTTATTCTTGAT
3483338 TTTTTTTTTAC
1 TTTTTTTTTAC
3483349 ATGAGATGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
25 16 0.46
26 4 0.11
27 1 0.03
29 14 0.40
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTACTTTATCTTATTCTTGAT
Found at i:3498132 original size:79 final size:79
Alignment explanation
Indices: 3497968--3498354 Score: 376
Period size: 79 Copynumber: 5.0 Consensus size: 79
3497958 CCCGATTGTG
* * * ** *
3497968 AAAAATAATGGGGTTGGAGTATCCTTGATTG-TGAAAAATCGATGTTTTAGAAATAAAA-CCGAG
1 AAAAATAACGGGATTAGAGTATCCCCGA-TGATGAAAAATCGATGTTTTAGAAATAAAATCAG-G
* **
3498031 GTTAGAGTATCCTTTC
64 GTTGGAGTATCCCCTC
* * * * *
3498047 AAAAATAACGAGATTGGACTATCCCCGATGATGAAAAATCGATGCTTTAGAAATAAAATCGGGGT
1 AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAATCAGGGT
* *
3498112 TGGAGTCTCTCCTC
66 TGGAGTATCCCCTC
* * * * * *
3498126 AGAAATAATGGGATTAAAGTAT-CCCAATAATGGAAAATCGATGTTTTAGAAATAAAATCAGGGT
1 AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAATCAGGGT
*
3498190 TGGAGTCTCCCCTC
66 TGGAGTATCCCCTC
* * * * * * * *
3498204 GAAAATAACGGGGTTGGAGTATCCTCGATGGTG----ATTGGTGTTTTACAAAT-AAATCAGGGT
1 AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAATCAGGGT
3498264 TGGAGTATCCCCTC
66 TGGAGTATCCCCTC
* * * * *
3498278 AAAAATAACGGGGTTAGAGTATTCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAATTAGGGT
1 AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAATCAGGGT
3498343 TGGAGTATCCCC
66 TGGAGTATCCCC
3498355 GATGGTTGAA
Statistics
Matches: 253, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
74 52 0.21
75 14 0.06
78 82 0.32
79 103 0.41
80 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
AAAAATAACGGGATTAGAGTATCCCCGATGATGAAAAATCGATGTTTTAGAAATAAAATCAGGGT
TGGAGTATCCCCTC
Found at i:3498180 original size:157 final size:153
Alignment explanation
Indices: 3498002--3498354 Score: 386
Period size: 157 Copynumber: 2.3 Consensus size: 153
3497992 TTGATTGTGA
**
3498002 AAAATCGATGTTTTAGAAATAAAACC-GAGGTTAGAGTATCCTTTCAAAAATAACGAGATTGGAC
1 AAAATCGATGTTTTAGAAATAAAACCAG-GGTTAGAGTATCCCCTCAAAAATAACGAGATTGGAC
* * * * *
3498066 TATCCCCGATGATGAAAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTCTCTCCTCAGAAA
65 TATCCCCGATGATG----ATCGATGCTTTACAAAT-AAATCAGGGTTGGAGTATCCCCTCAAAAA
*
3498131 TAATGGGATTAAAGTA-TCCCAATAATGG
125 TAACGGGATTAAAGTATTCCCAATAATGG
* * * * * * *
3498159 AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTCTCCCCTCGAAAATAACGGGGTTGGAGT
1 AAAATCGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGACT
* * * * *
3498224 ATCCTCGATGGTGATTGGTGTTTTACAAATAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGG
66 ATCCCCGATGATGATCGATGCTTTACAAATAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGG
* * * **
3498289 GGTTAGAGTATTCCCGATGGTGG
131 GATTAAAGTATTCCCAATAATGG
** *
3498312 AAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCCCC
1 AAAATCGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCCCC
3498355 GATGGTTGAA
Statistics
Matches: 167, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
152 38 0.23
153 63 0.38
157 65 0.39
158 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (153 bp):
AAAATCGATGTTTTAGAAATAAAACCAGGGTTAGAGTATCCCCTCAAAAATAACGAGATTGGACT
ATCCCCGATGATGATCGATGCTTTACAAATAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGG
GATTAAAGTATTCCCAATAATGG
Found at i:3498183 original size:78 final size:78
Alignment explanation
Indices: 3498002--3498354 Score: 376
Period size: 78 Copynumber: 4.6 Consensus size: 78
3497992 TTGATTGTGA
* * ** * * *
3498002 AAAATCGATGTTTTAGAAATAAAA-CCGAGGTTAGAGTATCCTTTCAAAAATAACGAGATTGGAC
1 AAAATCGATGTTTTAGAAATAAAATCAG-GGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAG
*
3498066 TATCCCCGATGATGA
65 TAT-CCCGATGATGG
* * * * * * *
3498081 AAAATCGATGCTTTAGAAATAAAATCGGGGTTGGAGTCTCTCCTCAGAAATAATGGGATTAAAGT
1 AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGT
* *
3498146 ATCCCAATAATGG
66 ATCCCGATGATGG
* * * *
3498159 AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTCTCCCCTCGAAAATAACGGGGTTGGAGT
1 AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGT
*
3498224 ATCCTCGATGGT-G
66 ATCC-CGATGATGG
* * * *
3498237 ---ATTGGTGTTTTACAAAT-AAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTAGAGT
1 AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGT
*
3498298 ATTCCCGATGGTGG
66 A-TCCCGATGATGG
*
3498312 AAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCCCC
1 AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
3498355 GATGGTTGAA
Statistics
Matches: 228, Mismatches: 38, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
74 49 0.21
75 18 0.08
78 83 0.36
79 76 0.33
80 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (78 bp):
AAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAACGGGATTAGAGT
ATCCCGATGATGG
Found at i:3498356 original size:51 final size:51
Alignment explanation
Indices: 3498288--3498404 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
3498278 AAAAATAACG
* * *
3498288 GGGTTAGAGTATTCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAATTA
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAACTA
* *
3498339 GGGTTGGAGTATCCCCGATGGTTGAAAATCGGTGTTTTAGAAATAAAACTA
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAACTA
3498390 -GGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
3498405 TCAGAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
50 15 0.25
51 46 0.75
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAACTA
Found at i:3498432 original size:78 final size:78
Alignment explanation
Indices: 3498339--3498544 Score: 254
Period size: 80 Copynumber: 2.6 Consensus size: 78
3498329 AATAAAATTA
*
3498339 GGGTTGGAGTATCCCCGATGGTTGAAAATCGGTGTTTTAGAAATAAAA-CTAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATGGTTGAAAATCGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
*
3498403 CCTCAGAAATAAT
66 CCTCAGAAATAAC
* * * *
3498416 GAGGTTCGAGTATCCCCGATGGCAT-AAAATCAGTGTTTTATAAAATAAAACCGAGGTTGGAGTA
1 G-GGTTGGAGTATCCCCGATGG-TTGAAAATCGGTGTTTTA-GAAATAAAACCGAGGTTGGAGTA
* **
3498480 TCCCTTTGGAAATAAC
63 TCCCCTCAGAAATAAC
* * *
3498496 GGGATTGGAGTATCCCCAATGGTGGGAAATCGGTGTTTTAGAAATAAAA
1 GGG-TTGGAGTATCCCCGATGGTTGAAAATCGGTGTTTTAGAAATAAAA
3498545 ACATTAATGA
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 33 0.31
79 19 0.18
80 54 0.50
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCGATGGTTGAAAATCGGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
CCTCAGAAATAAC
Found at i:3498445 original size:129 final size:125
Alignment explanation
Indices: 3498214--3498483 Score: 312
Period size: 129 Copynumber: 2.1 Consensus size: 125
3498204 GAAAATAACG
* * *
3498214 GGGTTGGAGTATCCTCGATGGTGATTGGTGTTTTACAAATAAATCAGGGTTGGAGTATCCCCTCA
1 GGGTTGGAGTATCCCCGATGGTGATCGGTGTTTTACAAATAAAACAGGGTTGGAGTATCCCCTCA
* * ** * *
3498279 AAAATAACGGGGTTAGAGTATTCCCGATGGTGGAAAATC-GATGTTTTA-GAAATAAAATTA
66 AAAATAACGAGGTTAGAGTATCCCCGATGGCAGAAAATCAG-TGTTTTATAAAATAAAA-CA
*
3498339 GGGTTGGAGTATCCCCGATGGTTGAAAATCGGTGTTTTAGAAATAAAACTA-GGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATGG-TG---ATCGGTGTTTTACAAATAAAAC-AGGGTTGGAGTATCC
* * * * *
3498403 CCTCAGAAATAATGAGGTTCGAGTATCCCCGATGGCATAAAATCAGTGTTTTATAAAATAAAACC
61 CCTCAAAAATAACGAGGTTAGAGTATCCCCGATGGCAGAAAATCAGTGTTTTATAAAATAAAACA
3498468 GAGGTTGGAGTATCCC
1 G-GGTTGGAGTATCCC
3498484 TTTGGAAATA
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
125 20 0.16
126 2 0.02
129 76 0.62
130 24 0.20
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (125 bp):
GGGTTGGAGTATCCCCGATGGTGATCGGTGTTTTACAAATAAAACAGGGTTGGAGTATCCCCTCA
AAAATAACGAGGTTAGAGTATCCCCGATGGCAGAAAATCAGTGTTTTATAAAATAAAACA
Found at i:3498535 original size:209 final size:204
Alignment explanation
Indices: 3498158--3498544 Score: 483
Period size: 209 Copynumber: 1.9 Consensus size: 204
3498148 CCCAATAATG
* * *
3498158 GAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTCTCCCCTCGAAAATAACGGGGTTGGAG
1 GAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTCGAG
* * ** * *
3498223 TATCCTCGATGGTGATTGGTGTTTTACAAATAAATCAGGGTTGGAGTATCCCCTCAAAAATAACG
66 TATCCCCGATGGTAATCAGTGTTTTAAAAATAAAACAGGGTTGGAGTATCCCCTCAAAAATAACG
* * *
3498288 GGGTTAGAGTATTCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCC
131 GGATTAGAGTATCCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCC
3498353 CCGATGGTT
196 CCGATGGTT
* *
3498362 GAAAATCGGTGTTTTAGAAATAAAA-CTA-GGTTGGAGTATCCCCTC-AGAAATAATGAGGTTCG
1 GAAAATCGATGTTTTAGAAATAAAATC-AGGGTTGGAGTATCCCCTCGA-AAATAACGAGGTTCG
* * ***
3498424 AGTATCCCCGATGGCATAAAATCAGTGTTTTATAAAATAAAACCGAGGTTGGAGTATCCCTTTGG
64 AGTATCCCCGATGG--T--AATCAGTGTTTTA-AAAATAAAACAG-GGTTGGAGTATCCCCTCAA
* * *
3498489 AAATAACGGGATTGGAGTATCCCCAATGGTGGGAAATCGGTGTTTTAGAAATAAAA
123 AAATAACGGGATTAGAGTATCCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAA
3498545 ACATTAATGA
Statistics
Matches: 153, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
202 1 0.01
203 42 0.27
204 25 0.16
205 1 0.01
207 10 0.07
208 9 0.06
209 65 0.42
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (204 bp):
GAAAATCGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTCGAG
TATCCCCGATGGTAATCAGTGTTTTAAAAATAAAACAGGGTTGGAGTATCCCCTCAAAAATAACG
GGATTAGAGTATCCCCAATGGTGGAAAATCGATGTTTTAGAAATAAAATTAGGGTTGGAGTATCC
CCGATGGTT
Found at i:3501582 original size:58 final size:61
Alignment explanation
Indices: 3501493--3501638 Score: 181
Period size: 58 Copynumber: 2.4 Consensus size: 61
3501483 AGAGAAAGCG
* * ** * * *
3501493 TCTTGCTCTTTGAGTACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GGAAAG-CG
1 TCTTACTCTTTGAGGACTAAAAGGTGTCACCAACATGTGTGGGCTTTAAAAGGGAAAGACA
* *
3501552 TC-TACTTTTTTAGGACTAAAAGGTGTCACCAACATGTGTGGGCTTTAAAAGGGAAAGACA
1 TCTTACTCTTTGAGGACTAAAAGGTGTCACCAACATGTGTGGGCTTTAAAAGGGAAAGACA
*
3501612 TCTTGCTCTTTGAGGACTAAAAGGTGT
1 TCTTACTCTTTGAGGACTAAAAGGTGT
3501639 AGACACCTAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
58 40 0.56
59 8 0.11
60 3 0.04
61 21 0.29
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (61 bp):
TCTTACTCTTTGAGGACTAAAAGGTGTCACCAACATGTGTGGGCTTTAAAAGGGAAAGACA
Found at i:3502800 original size:169 final size:167
Alignment explanation
Indices: 3502445--3502923 Score: 511
Period size: 169 Copynumber: 2.9 Consensus size: 167
3502435 ATTATGGGAT
* * ** * * *
3502445 TTTTCTACTCCATAAATTTTTTTCG-GAGGACTTTTCTTAATTTTTAATTTTTATAATTTATAAA
1 TTTTCTACTCCGTAAA-TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATAAA
* * * * * * * *
3502509 ATATTATTATTTATTTCATATTAACTCAGTTTTCAAAAATTTATTCATTTTAATTCA-TTTTTTA
65 AAATCATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCA-TAAGTTTTTGA
** *
3502573 TTTTTTCCTTGAAACTTCCCTTTTTTTCGAAATATAGTG
129 TTTTTTCCTTGAAACTTCCCTTTTTCCCGAAATACAGTG
* *
3502612 TTTTCTACTCCGTAAATTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATTAAA
1 TTTTCTACTCCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATAAAA
* * * * * *
3502677 CATCATTAATTATTTCTTATTAATTTAGTTTTTAAAAATTCATAT-ATTTTCATGAGTTTTTGAT
66 AATCATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCAT-TCATTTTCATAAGTTTTTGAT
* * *
3502741 CTTTCTTCCTTGAAACTTCTCTTTTTCCCTAAATACGGTG
130 -TTT-TTCCTTGAAACTTCCCTTTTTCCCGAAATACAGTG
* * * * *
3502781 TTTTTTAC-CTCGTAAATTTTTTTGAAAGGATTTTTCTTGGTTTTC-AGTTTTAAGAATTCATCA
1 TTTTCTACTC-CGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAA-AATTCATAA
*
3502844 AAAATCATCATTTGATTT-ATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATAAGTTTTTG
64 AAAATCATTATTT-ATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATAAGTTTTTG
*
3502908 AATTTTTTCTTTGAAA
128 -ATTTTTTCCTTGAAA
3502924 TCCCTATTTT
Statistics
Matches: 262, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
166 10 0.04
167 95 0.36
168 22 0.08
169 129 0.49
170 6 0.02
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (167 bp):
TTTTCTACTCCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATAAAA
AATCATTATTTATTTCATATTAAATTAGTTTTCAAAAATTCATTCATTTTCATAAGTTTTTGATT
TTTTCCTTGAAACTTCCCTTTTTCCCGAAATACAGTG
Found at i:3504271 original size:19 final size:20
Alignment explanation
Indices: 3504227--3504277 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
3504217 CTGCCAGTTT
**
3504227 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
3504247 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
3504266 CATGTATCGATA
1 CATGTATCGATA
3504278 TAATATATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:3506748 original size:13 final size:13
Alignment explanation
Indices: 3506729--3506768 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
3506719 ATAGTAACCT
3506729 ATGTATCGATACA
1 ATGTATCGATACA
*
3506742 TTGTATCGATACA
1 ATGTATCGATACA
3506755 ATGTATCGATACA
1 ATGTATCGATACA
3506768 A
1 A
3506769 CAAACATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3511318 original size:3 final size:3
Alignment explanation
Indices: 3511310--3511350 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
3511300 CAAGTCAACT
* *
3511310 TCA TCA TCA TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
3511351 TTTGATGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:3512998 original size:33 final size:32
Alignment explanation
Indices: 3512939--3513008 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 32
3512929 GCTGATTGGG
* *
3512939 ACAATGTATCGATACAATTCTTCATGTATTGAT
1 ACAATGCATCGATACAATTC-TCATGTATCGAT
3512972 ACAATGCATCGATACAATGTGC-CATGTATCGAT
1 ACAATGCATCGATACAAT-T-CTCATGTATCGAT
3513005 ACAA
1 ACAA
3513009 ACAATGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (32 bp):
ACAATGCATCGATACAATTCTCATGTATCGAT
Found at i:3514303 original size:33 final size:33
Alignment explanation
Indices: 3514266--3514331 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
3514256 CATTGGGCAT
* *
3514266 AATGTATTAATACAATTCT-TCATTTATCGATAC
1 AATGTATCAATAC-ATTCTCCCATTTATCGATAC
* *
3514299 AATGTATCGATACATTGTCCCATTTATCGATAC
1 AATGTATCAATACATTCTCCCATTTATCGATAC
3514332 GTTTCACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (33 bp):
AATGTATCAATACATTCTCCCATTTATCGATAC
Found at i:3514387 original size:20 final size:20
Alignment explanation
Indices: 3514361--3514416 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
3514351 CTCTCACTTT
*
3514361 CATGTATCAATACAATGGAG
1 CATGTATCAATACAATGGAA
* *
3514381 TATGTATCGATACAAT-GAA
1 CATGTATCAATACAATGGAA
3514400 CATGTATCAATACAATG
1 CATGTATCAATACAATG
3514417 TATCGATACA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
CATGTATCAATACAATGGAA
Found at i:3523128 original size:13 final size:13
Alignment explanation
Indices: 3523110--3523136 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3523100 ATTCTTCATG
3523110 TATCGATACATTA
1 TATCGATACATTA
3523123 TATCGATACATTA
1 TATCGATACATTA
3523136 T
1 T
3523137 CCCATGTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:3523212 original size:20 final size:20
Alignment explanation
Indices: 3523187--3523274 Score: 117
Period size: 19 Copynumber: 4.5 Consensus size: 20
3523177 CTTTAATGTG
**
3523187 TCGATACAATTGAGTTTGTA
1 TCGATACAATTGAACTTGTA
*
3523207 TCGATACAA-TGAACATGTA
1 TCGATACAATTGAACTTGTA
**
3523226 TCGATACAATTGAGTTTGTA
1 TCGATACAATTGAACTTGTA
3523246 TCGATACAA-TGAACTTGTA
1 TCGATACAATTGAACTTGTA
3523265 TCGATACAAT
1 TCGATACAAT
3523275 GTATCGATAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
19 33 0.57
20 25 0.43
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (20 bp):
TCGATACAATTGAACTTGTA
Found at i:3523233 original size:39 final size:39
Alignment explanation
Indices: 3523182--3523274 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
3523172 TGCCACTTTA
*
3523182 ATGTGTCGATACAATTGAGTTTGTATCGATACAATGAAC
1 ATGTATCGATACAATTGAGTTTGTATCGATACAATGAAC
3523221 ATGTATCGATACAATTGAGTTTGTATCGATACAATGAAC
1 ATGTATCGATACAATTGAGTTTGTATCGATACAATGAAC
*
3523260 TTGTATCGATACAAT
1 ATGTATCGATACAAT
3523275 GTATCGATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (39 bp):
ATGTATCGATACAATTGAGTTTGTATCGATACAATGAAC
Found at i:3523611 original size:13 final size:12
Alignment explanation
Indices: 3523593--3523639 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
3523583 AGATCCTAAC
3523593 AAAGAAGAAAAAA
1 AAAG-AGAAAAAA
*
3523606 AAAGA-AAGAAA
1 AAAGAGAAAAAA
3523617 AAAGAGAAAAAA
1 AAAGAGAAAAAA
3523629 AACA-AGAAAAA
1 AA-AGAGAAAAA
3523640 TAGTAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 15 0.50
13 5 0.17
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAAAA
Found at i:3523647 original size:21 final size:22
Alignment explanation
Indices: 3523597--3523639 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
3523587 CCTAACAAAG
3523597 AAGA-AAAAAAAAGAAAGAAAA
1 AAGAGAAAAAAAAGAAAGAAAA
*
3523618 AAGAGAAAAAAAA-CAAGAAAA
1 AAGAGAAAAAAAAGAAAGAAAA
3523639 A
1 A
3523640 TAGTAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (22 bp):
AAGAGAAAAAAAAGAAAGAAAA
Found at i:3525269 original size:154 final size:153
Alignment explanation
Indices: 3524927--3526136 Score: 1175
Period size: 154 Copynumber: 7.8 Consensus size: 153
3524917 TTCTAGAACC
* * *
3524927 CCGCTTTTATGCCAAAGGTGGGCATTTAGGATATGTTCAT-CCATTTTCTAGTCTTTTTAGGTCC
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCA-TTTCTAGTCTTTTTAAGTCC
* * * ** *
3524991 TTTAGGG-ATGCCGGGGTACTTTTACGTCGAAAGTATAGCC-ATGGGAGCATTTTAATAATTTCT
65 TTTAGGGTAT---GAGGTACTTTTACATCGAAGGTATCCCCTA-GGG-GCATTTTAGTAATTT-T
* * *
3525054 T-AAAATCGAGTCCTAGGTTGTCACCGGGT
124 TCAAAACCAACTCCTAGGTTGTCACCGGGT
* * * *
3525083 TCGCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTCTAGTCTTTTGAAGTCCT
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCT
* * * * *
3525148 TTAGGGTACTGAGATA-TTTCACGTCGAAGGTATCCCCTAAGGGCATTTTAGTAATTTTTCAAGG
66 TTAGGGTA-TGAGGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTAGTAATTTTTCAA-A
3525212 ACCAACTCCTAGGTTGTCACCGGGT
129 ACCAACTCCTAGGTTGTCACCGGGT
* * * *
3525237 CCGTTTTTATGCTGGAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTTTTTTTAAGTCC
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATTTCTAGTCTTTTTAAGTCC
* *
3525302 TTTAGGAGTATCG-GGTACTTTTACATCGAAGGTAT-CCCTTGGGAGCATTTTCGTAA-TTTTCT
65 TTTAGG-GTAT-GAGGTACTTTTACATCGAAGGTATCCCCTAGGG-GCATTTTAGTAATTTTTC-
* **
3525364 AGAACCAA-TCCTAGGTTGTCACTAGGT
126 AAAACCAACTCCTAGGTTGTCACCGGGT
* * *
3525391 CCGCTTTTATGCCGAAGGTGGTCATTTAGGATAGGTTCATACCATTTCTA-TCCTTTTTACGTCC
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT-CTTTTTAAGTCC
* * *
3525455 TTTAGGGGTATTAGGTACTTTTACGTCGAAGGTATCCCCTAGGGGCATTTTTGTAATTTCTT-AA
65 TTTA-GGGTATGAGGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTAGTAATTT-TTCAA
**
3525519 AACCAACTCCTAGGTCATCACCGGGT
128 AACCAACTCCTAGGTTGTCACCGGGT
* * ** * * ** *
3525545 CCGCTTTTAAGCCAAAGGTGCACATTTAGGGTAGGTTCAACCTTTTTCTTGTCTTTTTAAGTCCT
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCT
* * * * * *
3525610 TTAGGGTACTAAGATACTTTCACATCGAAGGTATACCCT-GAGGGTATTTTCGTAATTTTTCTAG
66 TTAGGGTA-TGAGGTACTTTTACATCGAAGGTATCCCCTAG-GGGCATTTTAGTAATTTTTC-A-
* * * *
3525674 ATA-CAACTCTTAGGTAGACACCGGGT
127 AAACCAACTCCTAGGTTGTCACCGGGT
* * * * * * *
3525700 TCGCTTTTATGCCGAAGGTGGGAATTTAGGATAGGTTCATCCCTTTTTTAGTCTTTATAGGTCTT
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCT
* * *
3525765 TTAAGGTTGT-TG-GGATACTTTTACATTGAAGGTTTACCCATAGGGGCATTTTTA-TAATTTCT
66 TT-AGG--GTATGAGG-TACTTTTACATCGAAGGTAT-CCCCTAGGGGCA-TTTTAGTAATTT-T
* * * *
3525827 T-AGAACCGAGTCCTAGGTTGTCATCGGGT
124 TCAAAACCAACTCCTAGGTTGTCACCGGGT
* *
3525856 CTGCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCC
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATC-CCATTTCTAGTCTTTTTAAGTCC
* *
3525921 TTTAGGGCTATCGA-GTACTTTTACATCGAAGGTATCTCCTAGGGGCATTTTCGTAA-TTTTCTA
65 TTTAGGG-TAT-GAGGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTAGTAATTTTTC-A
* *
3525984 AAACCAACTCTTAGGTTGTCACCAGGT
127 AAACCAACTCCTAGGTTGTCACCGGGT
* * * * *
3526011 CTGATTTTATGCCGAAGGTGGGCATTTAGGATAAGTTCATCCCATTTCTA-TCCTTTTTAGGTCT
1 CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGT-CTTTTTAAGTCC
* * * * *
3526075 TTTAGGGGTATCG-GGTACTTTTACGTCAAAGGTATCCTCTAGAGGCATTTTTGTAATTTTTC
65 TTTA-GGGTAT-GAGGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTAGTAATTTTTC
3526137 TTGAACTTAG
Statistics
Matches: 870, Mismatches: 138, Indels: 93
0.79 0.13 0.08
Matches are distributed among these distances:
152 3 0.00
153 93 0.11
154 322 0.37
155 211 0.24
156 192 0.22
157 39 0.04
158 10 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (153 bp):
CCGCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCT
TTAGGGTATGAGGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTAGTAATTTTTCAAAAC
CAACTCCTAGGTTGTCACCGGGT
Found at i:3529208 original size:17 final size:17
Alignment explanation
Indices: 3529186--3529234 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
3529176 AATAAAAACC
3529186 AAAAAAA-AAAGAAACA-
1 AAAAAAAGAAAGAAA-AG
*
3529202 AAAAAAAGAATGAAAAG
1 AAAAAAAGAAAGAAAAG
3529219 AAAAAAAGAAAGAAAA
1 AAAAAAAGAAAGAAAA
3529235 TTCAGATGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAAAGAAAAG
Found at i:3529586 original size:15 final size:15
Alignment explanation
Indices: 3529568--3529609 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
3529558 TAAAAAACCC
*
3529568 AAAAA-AAAAACAAG
1 AAAAAGAAAAAAAAG
*
3529582 AAAAAGAAGAAAAAG
1 AAAAAGAAAAAAAAG
3529597 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
3529610 TCAAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:3531500 original size:90 final size:89
Alignment explanation
Indices: 3531299--3531524 Score: 251
Period size: 90 Copynumber: 2.5 Consensus size: 89
3531289 TCTTAACTCT
* * *
3531299 TAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGGCAAGGTGCAGCCCACACACTCCCA
1 TAGATGGTATTGATGCATCACAAAGCCTGA-TTCCTTGGGGCAAGGTGCAGCCCACACACTCCCA
* *
3531364 ATCGTATCCCCTCTTTCTCAACCAC
65 ATCATATCCCCTCTATCTCAACCAC
* ** ** *
3531389 TTGACAGTATCAATGCATCACAAAGCCTGACTTCCTTTGGGGCAAGGTGCAGCCCACATA-TACC
1 TAGATGGTATTGATGCATCACAAAGCCTGA-TTCC-TTGGGGCAAGGTGCAGCCCACACACT-CC
* *
3531453 TAATCATATCCCCT-TCATC-CGACCAC
63 CAATCATATCCCCTCT-ATCTCAACCAC
*
3531479 TAGATGGTATTGATGCATCACAAAGCCTGATATCCTTAGGGCAAGG
1 TAGATGGTATTGATGCATCACAAAGCCTGAT-TCCTTGGGGCAAGG
3531525 ATATCTCGGC
Statistics
Matches: 112, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
89 11 0.10
90 63 0.56
91 38 0.34
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (89 bp):
TAGATGGTATTGATGCATCACAAAGCCTGATTCCTTGGGGCAAGGTGCAGCCCACACACTCCCAA
TCATATCCCCTCTATCTCAACCAC
Found at i:3531870 original size:48 final size:48
Alignment explanation
Indices: 3531783--3531935 Score: 148
Period size: 48 Copynumber: 3.2 Consensus size: 48
3531773 ATTGTATCTG
* * * *
3531783 GTCAAACTCAAATCTTGCCTCGTTTGGCTGTATTGGTGTTAGGGCCTA
1 GTCAAACTCAAATCTTCCCTCGTTTGACTATATTAGTGTTAGGGCCTA
*
3531831 GTCAAACTCAAATCTTCCCTTC-TTTGACTATATTAGTGTTAGGGCCTG
1 GTCAAACTCAAATCTTCCC-TCGTTTGACTATATTAGTGTTAGGGCCTA
* ** * * * * * *
3531879 GTTAAACT-ATTTTCATCCCTCGTTTGATTGTATTGGTGTTAGGGTCTG
1 GTCAAACTCA-AATCTTCCCTCGTTTGACTATATTAGTGTTAGGGCCTA
3531927 GTCAAACTC
1 GTCAAACTC
3531936 TTTTCATCCC
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
47 3 0.03
48 82 0.94
49 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (48 bp):
GTCAAACTCAAATCTTCCCTCGTTTGACTATATTAGTGTTAGGGCCTA
Found at i:3531940 original size:48 final size:48
Alignment explanation
Indices: 3531800--3531960 Score: 182
Period size: 48 Copynumber: 3.4 Consensus size: 48
3531790 TCAAATCTTG
* * *** *
3531800 CCTCGTTTGGCTGTATTGGTGTTAGGGCCTAGTCAAACTCAAATCTTC
1 CCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATC
* * * *
3531848 CCTTC-TTTGACTATATTAGTGTTAGGGCCTGGTTAAACTATTTTCATC
1 CC-TCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATC
* *
3531896 CCTCGTTTGATTGTATTGGTGTTAGGGTCTGGTCAAACTCTTTTCATC
1 CCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATC
3531944 CC-CTGTTTGACTGTATT
1 CCTC-GTTTGACTGTATT
3531961 AGCATTAAGA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
47 3 0.03
48 88 0.95
49 2 0.02
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (48 bp):
CCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATC
Found at i:3531982 original size:96 final size:96
Alignment explanation
Indices: 3531800--3531982 Score: 213
Period size: 96 Copynumber: 1.9 Consensus size: 96
3531790 TCAAATCTTG
* * *
3531800 CCTCGTTTGGCTGTATTGGTGTTAGGGCCTAGTCAAACTCAAATCTTCCCTTCTTTGACTATATT
1 CCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCAAATCATCCCCTCTTTGACTATATT
** * * * *
3531865 AGTGTTAGGGCCTGGTTAAACTATTTTCATC
66 AGCATTAAGACCTAGTCAAACTATTTTCATC
* * * *** * *
3531896 CCTCGTTTGATTGTATTGGTGTTAGGGTCTGGTCAAACTCTTTTCATCCCCTGTTTGACTGTATT
1 CCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCAAATCATCCCCTCTTTGACTATATT
3531961 AGCATTAAGACCTAGTCAAACT
66 AGCATTAAGACCTAGTCAAACT
3531983 TTACTCACCC
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (96 bp):
CCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCAAATCATCCCCTCTTTGACTATATT
AGCATTAAGACCTAGTCAAACTATTTTCATC
Found at i:3532131 original size:42 final size:42
Alignment explanation
Indices: 3531996--3534214 Score: 1287
Period size: 42 Copynumber: 52.5 Consensus size: 42
3531986 CTCACCCTCA
*** * *
3531996 GTCTGCCTGTCGGCTTAGACTTAGGAGACTTCCTTT-GTCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
** * * * *
3532039 GTCTGCCCATCGACTTAGACCTGAGAGAC-TTTTCATTAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
**
3532080 GTCTGCCTGTCGGCTTAGACCCAAGAGACTTTTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * *
3532122 GTCTACCTGTTGGCTTAGACCCGGGAGACTTTTCCATCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* ** * *
3532164 GTCTACCCATCGGCTTAGACCCGGGAAACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * * *
3532206 ATCTACCCGTCGGCTTAGACCCAGGAGACTTTTCCATCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * *
3532248 ATCTGCCTGTCGACTTAGACCCGAGAGACGTCCTTT-ATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGAC-T-TTTTCATCAATC
* * * * * * * *
3532291 ATTTTCCTATCGACTTAGACTCTGGAGACTTCCTTT-GTCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* ** * * *
3532334 ATCTGCCCATCGACTTAGACCCAGGAGACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * * *
3532376 GTTTGCCCGTTGGCTTAGACCCGAGAAACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** * *
3532418 ATCTACCCATTGGCTTAGACCCGAGAGACTTTTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
*
3532460 GTCTGCCTGTCGGCTTAGACCCAGGG-GACTTCCTTT-ATCAATT
1 GTCTGCCTGTCGGCTTAGACCC-GGGAGACTT--TTTCATCAATC
* * ** * * * * *
3532503 GTTTGACTGTCGGCTTAGACCCAAGAGACTTCTCCATTATTT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* *
3532545 GTCTGCCTGTCGGCTTAGACCCGAGAGACTTTTTCATTAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * *
3532587 ATCTGCC-GTTGGCTTAGACTCGAGAGACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * **
3532628 GTCTACCCGTCGGCTTAGACCTGGGAGA-TTTTTCCATCCTTC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTT-CATCAATC
* * * * * * * * *
3532670 ATTTGCCTATCGGCTTAGACTCAGGAGACTTCCTAT-GTTAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* ** * * *
3532713 GTCTGCCCGTCAACTTAAACCTGAGAGACTTTTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * *
3532755 GTCTG-CTCGTCAGCTTAGGCCC-GGTGACTTTTCCATCAATT
1 GTCTGCCT-GTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** ** * *
3532796 GTCTACCCGTTAGCTTAGACCTAGGAGACTTTTCCAGCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* ** * * *
3532838 ATCTGCCTGTCGGCTTAGACCTAGAAGACTACCTTT-ATCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACT--TTTTCATCAATC
* * *
3532881 G-CTTGCCCGTCGGCTTAGACCTGAGAGACTTCCTTT-ATCAATC
1 GTC-TGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* * * * * *
3532924 GTCTGCTCAGT-AGCTTAGACTCGAGAGA-TTTCCTTTATCAATT
1 GTCTGC-CTGTCGGCTTAGACCCGGGAGACTTT--TTCATCAATC
* * * * *
3532967 GTCTGCCCGTCAGCTTAAACCTGGGAGACTTCCTTT-GTCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
** * * * * *
3533010 GTCTGCCCATCAGTTTAG-GCTGAAGAGACTTTTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCG-GGAGACTTTTTCATCAATC
* ** * *
3533052 ATCTG-CTCGTCGGCTTAGACCCGATAAACTTCCTTT-GTCAATC
1 GTCTGCCT-GTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* * * *
3533095 ATCTGCAC-GTCGGCTTAGACCCGGAAGACTTTTCCATTAATC
1 GTCTGC-CTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * *
3533137 GTCTACCTGTCGGCTTAGACCCGAGAGACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** * *
3533179 ATCTGCCTATCGGCTTAGACCTAGGAGACTTTTCCATCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * *
3533221 GTCTGCCTGTCGACATAGACTCGGGAAACTTCTTTTATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT-TTTCATCAATC
* ** * * *
3533264 ATCTGCCCATCGACTTAGACTCGGGAGACTTCCTTT-GTCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* * * * * *
3533307 GTCTTTCC-ATCGACCTAGACTCGAGAGACTTTTTCATCAATC
1 GTC-TGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * * *
3533349 ATCTACCCGTCGGCTTAGACCTGGGAGACTTTTCCATCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** * * * * * * *
3533391 TTTTGCCCATAGGCTTAAACCCGAGAAACTTTTCCATTAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * ** * *
3533433 GTCTGCCCGTTGGCTTAAACCCAAGAAACTTCTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * **
3533475 GTCTACCTATCGGCTTAGACCCAAGAGACTTCCTTT-ATCAA-C
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* * * * * * * * *
3533517 TATTTACCCGTTGGTTTAGACCCGGGAGACTTCTCCATCATTC
1 -GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * *
3533560 GTCTGCCTGTTGGCTTAGACTCGGGAGACTTTTTCATTAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** ** *
3533602 ATCTACCCATCGGCTTAGACTTGGGAGACTTTTTCATCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * *
3533644 ATCTGCCTGTCGGCTTAGACCCGGGAGATTTTTTCATCATTC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** *
3533686 GTCTGCCTATTGGCTTAGACCCGGGAGACTTCTTTTGTCAATT
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT-TTTCATCAATC
* * * *
3533729 GTCTGCCTATCGACTTAAACCCGAGAGACTTTTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * *
3533771 ATCTGCCCGTCGGCTTAGACCTGGGAGACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** *** * *
3533813 GTTTACCCATCGGCTTAGACCTAAGAGACTTTTCCAGCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * ** * *
3533855 GTCTGCCTATCGACTTAGACCTAGGAGACTACCTTT-ATTAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACT--TTTTCATCAATC
* * *
3533898 GTTTGCCTGTCGGCTTAGACTCGAGAGACTTCCTTT-ATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* * *
3533941 GTCTGCCCGTTGGCTTAGACCCAGGAGACTTCCTTT-ATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTT--TTTCATCAATC
* *
3533984 GTCTGTCC-GTCGGCTTAGA-CCTGGAGACTTCTTTCGTCAATC
1 GTCTG-CCTGTCGGCTTAGACCCGGGAGACTT-TTTCATCAATC
* ** * **
3534026 GTCTGCCTATAAGCTTAGACTCGACAGACTTTTTCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * * * * * * *
3534068 ATCTACATGTCAGCTTAGGCCCGGGAAACTTTTCCATTAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* * **
3534110 GTTTGCCTGTCGGCTTA-AGCCCGAGAGACTTTCTTTGTCAATC
1 GTCTGCCTGTCGGCTTAGA-CCCGGGAGACTTT-TTCATCAATC
* * *
3534153 GTCTGCCCGTCGGCTTAGACCCAGGAGACTTTTCCATCAATC
1 GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
* **
3534195 GTCTACCCATCGGCTTAGAC
1 GTCTGCCTGTCGGCTTAGAC
3534215 ACAGAAGACT
Statistics
Matches: 1703, Mismatches: 406, Indels: 135
0.76 0.18 0.06
Matches are distributed among these distances:
40 4 0.00
41 123 0.07
42 1001 0.59
43 539 0.32
44 32 0.02
45 3 0.00
46 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (42 bp):
GTCTGCCTGTCGGCTTAGACCCGGGAGACTTTTTCATCAATC
Found at i:3532562 original size:169 final size:167
Alignment explanation
Indices: 3531997--3534226 Score: 1418
Period size: 169 Copynumber: 13.2 Consensus size: 167
3531987 TCACCCTCAG
* ** *** ** * *
3531997 TCTGCCTGTCGGCTTAGACTTAGGAGACTTCCTTTGTCAATTGTCTGCCCATCGACTTAGACCTG
1 TCTGCCTATCGGCTTAGACCCAGGAGACTT-CTCCATCAATTGTCTGCCTGTCGGCTTAGACCCG
* * * *
3532062 AGAGAC-TTTTCATTAATCGTCTGCCTGTCGGCTTAGACCCAAGAGACTTTTTCATCAATCGTCT
65 AGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCT
* * * **
3532126 ACCTGTTGGCTTAGACCCGGGAGACTTTTCCATCAATTG
130 ACCTGTCGGCTTAGACCCAGGAGACTTTT-TATCAATCA
* * * * * ** * *
3532165 TCTACCCATCGGCTTAGACCCGGGAAACTTTTCCATCAATCATCTACCCGTCGGCTTAGACCC-A
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCGA
* * * * * *
3532229 GGAGACTTTTCCATCAATTATCTGCCTGTCGACTTAGACCCGAGAGACGTCCTTT-ATCAATCAT
66 -GAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGAC-T-TTTTCATCAATCGT
* * * * * * *
3532293 TTTCCTATCGACTTAGACTCTGGAGACTTCCTTTGTCAATCA
128 CTACCTGTCGGCTTAGACCCAGGAGACTT--TTTATCAATCA
* * * * * * *
3532335 TCTGCCCATCGACTTAGACCCAGGAGACTTTTCCATCAATCGTTTGCCCGTTGGCTTAGACCCGA
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCGA
* * * * * *
3532400 GAAACTTTTCCATCAATCATCTACCCATTGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCTG
66 GAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCTA
* **
3532465 CCTGTCGGCTTAGACCCAGGGGACTTCCTTTATCAATTG
131 CCTGTCGGCTTAGACCCAGGAGACTT--TTTATCAATCA
* * * * * *
3532504 TTTGACTGTCGGCTTAGACCCAAGAGACTTCTCCATTATTTGTCTGCCTGTCGGCTTAGACCCGA
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCGA
* * * *
3532569 GAGACTTTTTCATTAATCATCTG-CCGTTGGCTTAGACTCGAGAGACTTTTCCATCAATCGTCTA
66 GAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCTA
* ** **
3532633 CCCGTCGGCTTAGACCTGGGAGA-TTTTTCCATCCTTCA
131 CCTGTCGGCTTAGACCCAGGAGACTTTTT--ATCAATCA
* * * * * ** * *
3532671 TTTGCCTATCGGCTTAGACTCAGGAGACTTC-CTATGTTAATTGTCTGCCCGTCAACTTAAACCT
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCA--TCAATTGTCTGCCTGTCGGCTTAGACCC
* * * * * * *
3532735 GAGAGACTTTTTCATCAATCGTCTGCTCGTCAGCTTAGGCCCG-GTGACTTTTCCATCAATTGTC
64 GAGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTC
* ** * * *
3532799 TACCCGTTAGCTTAGACCTAGGAGACTTTTCCAGCAATCA
129 TACCTGTCGGCTTAGACCCAGGAGACTTTT-TATCAATCA
* * * * ** * *
3532839 TCTGCCTGTCGGCTTAGACCTAGAAGACTACCTTTATCAATTG-CTTGCCCGTCGGCTTAGACCT
1 TCTGCCTATCGGCTTAGACCCAGGAGACT-TCTCCATCAATTGTC-TGCCTGTCGGCTTAGACCC
* * * * *
3532903 GAGAGACTTCCTTT-ATCAATCGTCTGCTCAGT-AGCTTAGACTCGAGAGA-TTTCCTTTATCAA
64 GAGAGACTT--TTTCATCAATCATCTGC-CCGTCGGCTTAGACCCGAGAGACTTT--TTCATCAA
* * * * * ** * *
3532965 TTGTCTGCCCGTCAGCTTAAACCTGGGAGACTTCCTTTGTCAATCG
124 TCGTCTACCTGTCGGCTTAGACCCAGGAGACTT--TTTATCAATCA
* * * * ** * * * **
3533011 TCTGCCCATCAGTTTAGGCTGAAGAGACTTTTTCATCAATCATCTG-CTCGTCGGCTTAGACCCG
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCT-GTCGGCTTAGACCCG
* * * * * *
3533075 ATAAACTTCCTTT-GTCAATCATCTGCACGTCGGCTTAGACCCG-GAAGACTTTTCCATTAATCG
65 AGAGACTT--TTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAG-AGACTTTTTCATCAATCG
*
3533138 TCTACCTGTCGGCTTAGACCC-GAGAGACTTTTCCATCAATCA
127 TCTACCTGTCGGCTTAGACCCAG-GAGACTTTT-TATCAATCA
* * * * * *
3533180 TCTGCCTATCGGCTTAGACCTAGGAGACTTTTCCATCAATTGTCTGCCTGTCGACATAGACTCGG
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCGA
* * * * * * *
3533245 GAAACTTCTTTTATCAATCATCTGCCCATCGACTTAGACTCGGGAGACTTCCTTT-GTCAATCGT
66 GAGACTT-TTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTT--TTTCATCAATCGT
* * * * *
3533309 CTTTCC-ATCGACCTAGACTC-GAGAGACTTTTTCATCAATCA
128 C-TACCTGTCGGCTTAGACCCAG-GAGACTTTTT-ATCAATCA
* ** ** * * * ** * *
3533350 TCTACCCGTCGGCTTAGACCTGGGAGACTTTTCCATCAATTTTTTGCCCATAGGCTTAAACCCGA
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCGA
* * * ** * * * * *
3533415 GAAACTTTTCCATTAATTGTCTGCCCGTTGGCTTAAACCCAAGAAACTTCTTCATCAATCGTCTA
66 GAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCTA
* *
3533480 CCTATCGGCTTAGACCCAAGAGACTTCCTTTATCAA-CTA
131 CCTGTCGGCTTAGACCCAGGAGACTT--TTTATCAATC-A
* * ** * * * * *
3533519 TTTACCCGTTGGTTTAGACCCGGGAGACTTCTCCATC-ATTCGTCTGCCTGTTGGCTTAGACTCG
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATT-GTCTGCCTGTCGGCTTAGACCCG
* * * * ** * **
3533583 GGAGACTTTTTCATTAATCATCTACCCATCGGCTTAGACTTGGGAGACTTTTTCATCAATTATCT
65 AGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCT
* * * * *
3533648 GCCTGTCGGCTTAGACCCGGGAGATTTTTTCATCATTCG
130 ACCTGTCGGCTTAGACCCAGGAGACTTTTT-ATCAATCA
* * *** * * *
3533687 TCTGCCTATTGGCTTAGACCCGGGAGACTTCTTTTGTCAATTGTCTGCCTATCGACTTAAACCCG
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTC-TCCATCAATTGTCTGCCTGTCGGCTTAGACCCG
* * * *
3533752 AGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCTGGGAGACTTTTCCATCAATCGTTT
65 AGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCT
** * * * * *
3533817 ACCCATCGGCTTAGACCTAAGAGACTTTTCCAGCAATCG
130 ACCTGTCGGCTTAGACCCAGGAGACTTTT-TATCAATCA
* * * ** * * * *
3533856 TCTGCCTATCGACTTAGACCTAGGAGACTACCTTTATTAATCGTTTGCCTGTCGGCTTAGACTCG
1 TCTGCCTATCGGCTTAGACCCAGGAGACT-TCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCG
* *
3533921 AGAGACTTCCTTT-ATCAATCGTCTGCCCGTTGGCTTAGACCC-AGGAGACTTCCTTT-ATCAAT
65 AGAGACTT--TTTCATCAATCATCTGCCCGTCGGCTTAGACCCGA-GAGACTT--TTTCATCAAT
* * * *
3533983 CGTCTGTCC-GTCGGCTTAGA-CCTGGAGACTTCTTTCGTCAATCG
125 CGTCT-ACCTGTCGGCTTAGACCCAGGAGACTT-TTT-ATCAATCA
** * * * * ** * * * *
3534027 TCTGCCTATAAGCTTAGACTC-GACAGACTTTTTCATCAATCATCTACATGTCAGCTTAGGCCCG
1 TCTGCCTATCGGCTTAGACCCAG-GAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCG
* * * * * * * **
3534091 GGAAACTTTTCCATTAATCGTTTGCCTGTCGGCTTA-AGCCCGAGAGACTTTCTTTGTCAATCGT
65 AGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGA-CCCGAGAGACTTT-TTCATCAATCGT
* * * *
3534155 CTGCCCGTCGGCTTAGACCCAGGAGACTTTTCCATCAATCG
128 CTACCTGTCGGCTTAGACCCAGGAGACTTTT-TATCAATCA
* * * *
3534196 TCTACCCATCGGCTTAGACACAGAAGACTTC
1 TCTGCCTATCGGCTTAGACCCAGGAGACTTC
3534227 CTTTGTCAAC
Statistics
Matches: 1616, Mismatches: 375, Indels: 141
0.76 0.18 0.07
Matches are distributed among these distances:
165 3 0.00
166 3 0.00
167 71 0.04
168 337 0.21
169 677 0.42
170 336 0.21
171 154 0.10
172 33 0.02
173 2 0.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (167 bp):
TCTGCCTATCGGCTTAGACCCAGGAGACTTCTCCATCAATTGTCTGCCTGTCGGCTTAGACCCGA
GAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCCGAGAGACTTTTTCATCAATCGTCTA
CCTGTCGGCTTAGACCCAGGAGACTTTTTATCAATCA
Found at i:3533588 original size:211 final size:210
Alignment explanation
Indices: 3531996--3534214 Score: 1103
Period size: 212 Copynumber: 10.5 Consensus size: 210
3531986 CTCACCCTCA
* ** * *
3531996 GTCTGCCTGTCGGCTTAGA-CTTAGGAGACTTCCTTTGTCAATTGTCTGCCCATCGACTTAGACC
1 GTCTGCCTATCGGCTTAGACCCGA-GAGACTTCCTTTATCAACTGTCTGCCCATCGACTTAGACC
* * * * ** * *
3532060 TGAGAGAC-TTTTCATTAATCGTCTGCCTGTCGGCTTAGACCCAAGAGACTTTTTCATCAATCGT
65 CGGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGA-CCGGGAGACTTTTCCATCAATCAT
** * * * ** * *
3532124 CTACCTGTTGGCTTAGACCCGGGAGACTTTTCCATCAATTGTCTACCCATCGGCTTAGACCCGGG
129 CTACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACCCAGG
3532189 AAACTT-TTCCATCAATC
194 AAACTTCTT-CATCAATC
* * ** * * * **
3532206 ATCTACCCGTCGGCTTAGACCC-AGGAGACTT--TTCCATCAATTATCTGCCTGTCGACTTAGAC
1 GTCTGCCTATCGGCTTAGACCCGA-GAGACTTCCTT-TATCAACTGTCTGCCCATCGACTTAGAC
* * * * * ** * * **
3532268 CCGAGAGACGTCCTTT-ATCAATCATTTTCCTATCGACTTAGACTCTGGAGACTTCCTT-TGTCA
64 CCGGGAGAC-T-TTTTCATCAATCGTCTGCCCGTCGGCTTAGAC-CGGGAGACTT--TTCCATCA
* * * * * * *
3532331 ATCATCTGCCCATCGACTTAGACCC-AGGAGACTTTTCCATCAATCGTTTGCCCGTTGGCTTAGA
124 ATCATCTACCCATCGGCTTAGACCCGA-GAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGA
3532395 CCC-GAGAAACTT-TTCCATCAATC
188 CCCAG-GAAACTTCTT-CATCAATC
* * * * ** *
3532418 ATCTACCCATTGGCTTAGACCCGAGAGACTT--TTTCATCAA-TCGTCTGCCTGTCGGCTTAGAC
1 GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTT-ATCAACT-GTCTGCCCATCGACTTAGAC
* * * * ** * * *
3532480 CCAGGG-GACTTCCTTT-ATCAATTGTTTGACTGTCGGCTTAGACCCAAGAGACTTCTCCATTAT
64 CC-GGGAGACTT--TTTCATCAATCGTCTGCCCGTCGGCTTAGA-CCGGGAGACTTTTCCATCAA
** * ** * * ** * * *
3532543 TTGTCTGCCTGTCGGCTTAGACCCGAGAGACTTTTTCATTAATCATCTGCC-GTTGGCTTAGACT
125 TCATCTACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACC
*
3532607 C-GAGAGACTT-TTCCATCAATC
190 CAG-GAAACTTCTT-CATCAATC
* ** * * * *
3532628 GTCTACCCGTCGGCTTAGACCTGGGAGA-TT--TTTCCATC--CT-TCATTTGCCTATCGGCTTA
1 GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTT--ATCAACTGTC---TGCCCATCGACTTA
* * * * * * ** * * *
3532687 GACTCAGGAGACTTCCTAT-GTTAATTGTCTGCCCGTCAACTTAAACCTGAGAGACTTTTTCATC
61 GACCCGGGAGACTT--TTTCATCAATCGTCTGCCCGTCGGCTTAGACC-GGGAGACTTTTCCATC
* * * * * * * * * *
3532751 AATCGTCTGCTCGTCAGCTTAGGCCCG-GTGACTTTTCCATCAATTGTCTACCCGT-TAGCTTAG
123 AATCATCTACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGA-CTTAG
* * *
3532814 ACCTAGGAGACTT-TTCCAGCAATC
187 ACCCAGGAAACTTCTT-CATCAATC
* * * * * * *
3532838 ATCTGCCTGTCGGCTTAGA-CCTAGAAGACTACCTTTATCAATTG-CTTGCCCGTCGGCTTAGAC
1 GTCTGCCTATCGGCTTAGACCCGAG-AGACTTCCTTTATCAACTGTC-TGCCCATCGACTTAGAC
* * * * *
3532901 CTGAGAGACTTCCTTT-ATCAATCGTCTGCTCAGT-AGCTTAGACTCGAGAGA--TTTCCTTTAT
64 CCGGGAGACTT--TTTCATCAATCGTCTGC-CCGTCGGCTTAGAC-CGGGAGACTTTTCC---AT
** * * * * * * ** * ** *
3532962 CAATTGTCTGCCCGTCAGCTTAAACCTGGGAGACTTCCTT-TGTCAATCGTCTGCCCATC-AGTT
122 CAATCATCTACCCATCGGCTTAGACCCGAGAGACTT--TTCCATCAATTGTCTGCCTGTCGA-CT
* ** * * *
3533025 TAGGCTGAAGAGACTTTTTCATCAATC
184 TAGACCCAGGAAACTTCTTCATCAATC
* * * * * * * * *
3533052 ATCTG-CTCGTCGGCTTAGACCCGATAAACTTCCTTTGTCAA-TCATCTGCACGTCGGCTTAGAC
1 GTCTGCCT-ATCGGCTTAGACCCGAGAGACTTCCTTTATCAACT-GTCTGCCCATCGACTTAGAC
* * * * * *
3533115 CCGGAAGACTTTTCCATTAATCGTCTACCTGTCGGCTTAGACCCGAGAGACTTTTCCATCAATCA
64 CCGGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGA-CCGGGAGACTTTTCCATCAATCA
* * * * * *
3533180 TCTGCCTATCGGCTTAGA-CCTAGGAGACTTTTCCATCAATTGTCTGCCTGTCGACATAGACTCG
128 TCTACCCATCGGCTTAGACCCGA-GAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACCCA
*
3533244 GGAAACTTCTTTTATCAATC
192 GGAAACTTC-TTCATCAATC
* * * * * * ** * *
3533264 ATCTGCCCATCGACTTAGACTCGGGAGACTTCCTTTGTCAA-TCGTCTTTCCATCGACCTAGACT
1 GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTTATCAACT-GTCTGCCCATCGACTTAGACC
* * * **
3533328 CGAGAGACTTTTTCATCAATCATCTACCCGTCGGCTTAGACCTGGGAGACTTTTCCATCAATTTT
65 CGGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGACC-GGGAGACTTTTCCATCAATCAT
* * * * * * * * * * *
3533393 TTGCCCATAGGCTTAAACCCGAGAAACTTTTCCATTAATTGTCTGCCCGTTGGCTTAAACCCAAG
129 CTACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACCCAGG
3533458 AAACTTCTTCATCAATC
194 AAACTTCTTCATCAATC
* * * * * * * **
3533475 GTCTACCTATCGGCTTAGACCCAAGAGACTTCCTTTATCAACTATTTACCCGTTGGTTTAGACCC
1 GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTTATCAACTGTCTGCCCATCGACTTAGACCC
* * * * * * *
3533540 GGGAGACTTCTCCATCATTCGTCTGCCTGTTGGCTTAGACTCGGGAGACTTTTTCATTAATCATC
66 GGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGAC-CGGGAGACTTTTCCATCAATCATC
** * * * * *
3533605 TACCCATCGGCTTAGACTTGGGAGACTTTTTCATCAATTATCTGCCTGTCGGCTTAGACCCGGGA
130 TACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACCCAGGA
* * * *
3533670 GATTTTTTCATCATTC
195 AACTTCTTCATCAATC
* * * * * * *
3533686 GTCTGCCTATTGGCTTAGACCCGGGAGACTTCTTTTGTCAATTGTCTGCCTATCGACTTAAACCC
1 GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTTATCAACTGTCTGCCCATCGACTTAGACCC
* * * *
3533751 GAGAGACTTTTTCATCAATCATCTGCCCGTCGGCTTAGACCTGGGAGACTTTTCCATCAATCGTT
66 GGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGACC-GGGAGACTTTTCCATCAATCATC
** * * * *
3533816 TACCCATCGGCTTAGACCTAAGAGACTTTTCCAGCAATCGTCTGCCTATCGACTTAGACCTAGGA
130 TACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACCCAGGA
* * * *
3533881 GACTACCTTTATTAATC
195 AACT-TCTTCATCAATC
* * * * * *
3533898 GTTTGCCTGTCGGCTTAGACTCGAGAGACTTCCTTTATCAA-TCGTCTGCCCGTTGGCTTAGACC
1 GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTTATCAACT-GTCTGCCCATCGACTTAGACC
* * * * *
3533962 CAGGAGACTTCCTTT-ATCAATCGTCTGTCCGTCGGCTTAGACCTGGAGACTTCTTTCGTCAATC
65 CGGGAGACTT--TTTCATCAATCGTCTGCCCGTCGGCTTAGACCGGGAGACTT-TTCCATCAATC
* * * ** * * * ** * * *
3534026 GTCTGCCTATAAGCTTAGACTCGACAGACTTTTTCATCAATCATCTACATGTC-AGCTTAGGCCC
127 ATCTACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGA-CTTAGACCC
* *
3534090 GGGAAACTT-TTCCATTAATC
191 AGGAAACTTCTT-CATCAATC
* * * * * *
3534110 GTTTGCCTGTCGGCTTA-AGCCCGAGAGACTTTCTTTGTCAA-TCGTCTGCCCGTCGGCTTAGAC
1 GTCTGCCTATCGGCTTAGA-CCCGAGAGACTTCCTTTATCAACT-GTCTGCCCATCGACTTAGAC
* * * *
3534173 CCAGGAGACTTTTCCATCAATCGTCTACCCATCGGCTTAGAC
64 CCGGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGAC
3534215 ACAGAAGACT
Statistics
Matches: 1574, Mismatches: 361, Indels: 147
0.76 0.17 0.07
Matches are distributed among these distances:
207 2 0.00
208 2 0.00
209 66 0.04
210 213 0.14
211 509 0.32
212 542 0.34
213 135 0.09
214 92 0.06
215 13 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (210 bp):
GTCTGCCTATCGGCTTAGACCCGAGAGACTTCCTTTATCAACTGTCTGCCCATCGACTTAGACCC
GGGAGACTTTTTCATCAATCGTCTGCCCGTCGGCTTAGACCGGGAGACTTTTCCATCAATCATCT
ACCCATCGGCTTAGACCCGAGAGACTTTTCCATCAATTGTCTGCCTGTCGACTTAGACCCAGGAA
ACTTCTTCATCAATC
Found at i:3534224 original size:85 final size:83
Alignment explanation
Indices: 3532005--3534225 Score: 967
Period size: 85 Copynumber: 26.3 Consensus size: 83
3531995 AGTCTGCCTG
* * * ** * * * *
3532005 TCGGCTTAGACTTAGGAGACTTCCTTTGTCAATTGTCTGCCCATCGACTTAGACCTGAGAGACTT
1 TCGGCTTAGAC-CAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACTT
* * **
3532070 TT-CATTAATCGTCTGCCTG
64 TTCCATCAATCATCTGCCCA
* * *
3532089 TCGGCTTAGACCCA-AGAGACTTT-TTCATCAATCGTCTACCTGTTGGCTTAGACCCGGGAGACT
1 TCGGCTTAGA-CCAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACT
** *
3532152 TTTCCATCAATTGTCTACCCA
63 TTTCCATCAATCATCTGCCCA
* * * *
3532173 TCGGCTTAGACCCGGGAA-ACTTT-TCCATCAATCATCTACCCGTCGGCTTAGACCCAGGAGACT
1 TCGGCTTAGA-CC-AGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACT
* **
3532236 TTTCCATCAATTATCTGCCTG
63 TTTCCATCAATCATCTGCCCA
* * * * * * * * ** * *
3532257 TCGACTTAGACCCGAGAGACGTCCTTTATCAATCATTTTCCTATCGACTTAGACTCTGGAGACTT
1 TCGGCTTAGACCAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGAC-CCGGAGACTT
**
3532322 CCTT-TGTCAATCATCTGCCCA
64 --TTCCATCAATCATCTGCCCA
* * * * * *
3532343 TCGACTTAGACCCAGGAGACTTT-TCCATCAATCGTTTGCCCGTTGGCTTAGACCCGAGAAACTT
1 TCGGCTTAGA-CCAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACTT
*
3532407 TTCCATCAATCATCTACCCA
64 TTCCATCAATCATCTGCCCA
* * * *
3532427 TTGGCTTAGACCCGAGAGACTTT-TTCATCAATCGTCTGCCTGTCGGCTTAGACCCAGGGGACTT
1 TCGGCTTAGACCAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACTT
* ** * * **
3532491 CCTT-TATCAATTGTTTGACTG
64 --TTCCATCAATCATCTGCCCA
* * * * *
3532512 TCGGCTTAGACCCA-AGAGAC-TTCTCCATTATTTGTCTGCCTGTCGGCTTAGACCCGAGAGACT
1 TCGGCTTAGA-CCAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACT
* * *
3532575 TTTTCATTAATCATCTG-CCG
63 TTTCCATCAATCATCTGCCCA
* * * * *
3532595 TTGGCTTAGACTC-GAGAGACTTT-TCCATCAATCGTCTACCCGTCGGCTTAGACCTGGGAGATT
1 TCGGCTTAGAC-CAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACC-CGGAGACT
** * *
3532658 TTTCCATCCTTCATTTGCCTA
63 TTTCCATCAATCATCTGCCCA
* * * * * ** * *
3532679 TCGGCTTAGACTCAGGAGACTTCCTAT-GTTAATTGTCTGCCCGTCAACTTAAACCTGAGAGACT
1 TCGGCTTAGAC-CAGAAGACTTTCT-TCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACT
* * * *
3532743 TTTTCATCAATCGTCTGCTCG
63 TTTCCATCAATCATCTGCCCA
* * * ** * * * ** *
3532764 TCAGCTTAGGCCCGGTGACTTT-TCCATCAATTGTCTACCCGTTAGCTTAGACCTAGGAGACTTT
1 TCGGCTTAGACCAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACC-CGGAGACTTT
* **
3532828 TCCAGCAATCATCTGCCTG
65 TCCATCAATCATCTGCCCA
** * * *
3532847 TCGGCTTAGACCTAGAAGACTACCTTTATCAATTG-CTTGCCCGTCGGCTTAGACCTGAGAGACT
1 TCGGCTTAGACC-AGAAGACTTTCTTCATCAATCGTC-TGCCCGTCGGCTTAGACCCG-GAGACT
* * *
3532911 TCCTT-TATCAATCGTCTGCTCA
63 T--TTCCATCAATCATCTGCCCA
* * * * * *
3532933 GT-AGCTTAGACTC-GAGAGA-TTTCCTTTATCAATTGTCTGCCCGTCAGCTTAAACCTGGGAGA
1 -TCGGCTTAGAC-CAGA-AGACTTT-CTTCATCAATCGTCTGCCCGTCGGCTTAGACC-CGGAGA
** *
3532995 CTTCCTT-TGTCAATCGTCTGCCCA
61 CTT--TTCCATCAATCATCTGCCCA
* * * * * * * *
3533019 TCAGTTTAG-GCTGAAGAGACTTT-TTCATCAATCATCTGCTCGTCGGCTTAGACCCGATAAACT
1 TCGGCTTAGACCAG-A-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACT
** * *
3533082 TCCTT-TGTCAATCATCTGCACG
63 T--TTCCATCAATCATCTGCCCA
* * * * *
3533104 TCGGCTTAGACCCGGAAGACTTT-TCCATTAATCGTCTACCTGTCGGCTTAGACCCGAGAGACTT
1 TCGGCTTAGA-CCAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACTT
*
3533168 TTCCATCAATCATCTGCCTA
64 TTCCATCAATCATCTGCCCA
* * * * * * * *
3533188 TCGGCTTAGACCTAGGAGACTTT-TCCATCAATTGTCTGCCTGTCGACATAGACTCGGGAAACTT
1 TCGGCTTAGACC-AGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGAC-CCGGAGACTT
**
3533252 CTTTTATCAATCATCTGCCCA
64 -TTCCATCAATCATCTGCCCA
* * * * ** ** * * * *
3533273 TCGACTTAGACTCGGGAGACTTCCTTTGTCAATCGTCTTTCCATCGACCTAGACTCGAGAGACTT
1 TCGGCTTAGAC-CAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACTT
* * *
3533338 TTTCATCAATCATCTACCCG
64 TTCCATCAATCATCTGCCCA
* * * ** * * * * *
3533358 TCGGCTTAGACCTGGGAGACTTT-TCCATCAATTTTTTGCCCATAGGCTTAAACCCGAGAAACTT
1 TCGGCTTAGACC-AGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACTT
* ** *
3533422 TTCCATTAATTGTCTGCCCG
64 TTCCATCAATCATCTGCCCA
* * * ** *
3533442 TTGGCTTAAACCCAAGAA-AC-TTCTTCATCAATCGTCTACCTATCGGCTTAGACCCAAGAGACT
1 TCGGCTTAGA-CC-AGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACT
* * * *
3533505 TCCTT-TATCAA-CTATTTACCCG
63 T--TTCCATCAATC-ATCTGCCCA
* * * * * * * * *
3533527 TTGGTTTAGACCCGGGAGAC-TTCTCCATCATTCGTCTGCCTGTTGGCTTAGACTCGGGAGACTT
1 TCGGCTTAGA-CCAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGAC-CCGGAGACTT
* * *
3533591 TTTCATTAATCATCTACCCA
64 TTCCATCAATCATCTGCCCA
** * ** * *
3533611 TCGGCTTAGACTTGGGAGACTTT-TTCATCAATTATCTGCCTGTCGGCTTAGACCCGGGAGATTT
1 TCGGCTTAGAC-CAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACTT
* * * *
3533675 TTTCATCATTCGTCTGCCTA
64 TTCCATCAATCATCTGCCCA
* * * ** * ** * *
3533695 TTGGCTTAGACCCGGGAGAC-TTCTTTTGTCAATTGTCTGCCTATCGACTTAAACCCGAGAGACT
1 TCGGCTTAGA-CCAGAAGACTTTC-TTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACT
* *
3533759 TTTTCATCAATCATCTGCCCG
63 TTTCCATCAATCATCTGCCCA
* * * * * * **
3533780 TCGGCTTAGACCTGGGAGACTTT-TCCATCAATCGTTTACCCATCGGCTTAGACCTAAGAGACTT
1 TCGGCTTAGACC-AGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACC-CGGAGACTT
* * *
3533844 TTCCAGCAATCGTCTGCCTA
64 TTCCATCAATCATCTGCCCA
* * ** * * * * *
3533864 TCGACTTAGACCTAGGAGACTACCTTTATTAATCGTTTGCCTGTCGGCTTAGACTCGAGAGACTT
1 TCGGCTTAGACC-AGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCG-GAGACTT
* * *
3533929 CCTT-TATCAATCGTCTGCCCG
64 --TTCCATCAATCATCTGCCCA
* * * * * *
3533950 TTGGCTTAGACCCAGGAGACTTCCTTTATCAATCGTCTGTCCGTCGGCTTAGACCTGGAGACTTC
1 TCGGCTTAGA-CCAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCGGAGACTT-
* * * *
3534015 TTTCGTCAATCGTCTGCCTA
64 TTCCATCAATCATCTGCCCA
** * * ** * * *
3534035 TAAGCTTAGACTC-GACAGACTTT-TTCATCAATCATCTACATGTCAGCTTAGGCCCGGGAAACT
1 TCGGCTTAGAC-CAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACT
* * * **
3534098 TTTCCATTAATCGTTTGCCTG
63 TTTCCATCAATCATCTGCCCA
* **
3534119 TCGGCTTA-AGCCCGAGAGACTTTCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCAGGAGACT
1 TCGGCTTAGA-CCAGA-AGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCC-GGAGACT
* *
3534183 TTTCCATCAATCGTCTACCCA
63 TTTCCATCAATCATCTGCCCA
3534204 TCGGCTTAGACACAGAAGACTT
1 TCGGCTTAGAC-CAGAAGACTT
3534226 CCTTTGTCAA
Statistics
Matches: 1638, Mismatches: 404, Indels: 189
0.73 0.18 0.08
Matches are distributed among these distances:
82 3 0.00
83 172 0.11
84 588 0.36
85 639 0.39
86 216 0.13
87 20 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (83 bp):
TCGGCTTAGACCAGAAGACTTTCTTCATCAATCGTCTGCCCGTCGGCTTAGACCCGGAGACTTTT
CCATCAATCATCTGCCCA
Found at i:3534278 original size:297 final size:296
Alignment explanation
Indices: 3532044--3534255 Score: 676
Period size: 297 Copynumber: 7.5 Consensus size: 296
3532034 CAATTGTCTG
* ** ** ** * *
3532044 CCCATCGACTTAGACCTGAGAGACTTTT-CATTAATCGTCTGCCTGTCGGCTTAGACCCAAGAGA
1 CCCATCGGCTTAGACCCAAGAGACTTTTCCAGCAATCGTCTGCCCATCGACTTAGACCCAGGAGA
* ** * * * * *
3532108 CTTTTTCATCAATCGTCTACCTGTTGGCTTAGACCCGGGAGACTT--TTCCATCAATTGTCTACC
66 CTCTTT-ATCAATCGTCTACCCATCGGCTTAGACACGAGAGACTTCCTT-TATCAATCGTCTACC
* * * * * * * ** *
3532171 CATCGGCTTAGACCCGGGAAACTT--TTCCATCAATCATCTACCCGTCGGCTTAGACCCAGGAGA
129 CGTTGGCTCAGACCCAGGAGACTTCCTT-TATCAATCGTCTGTCCGTCGGCTTAGACCCGGGAGA
* * ** * * * * * * *
3532234 CTT-TTCCATCAATTATCTGCCTGTCGACTTAGACCCGAGAGACGTCCTTT-ATCAATCATTTTC
193 CTTCTTTCGTCAATCGTCTGCCTATAGACTTAAACCCGACAGAC-T-TTTTCATCAATCATCTAC
* * * * ** * * *
3532297 -CTATC-GACTTAGACTCTGGAGACTTCCTT-TGTCAATCATCTG
256 AC-GTCAG-CTTAGACCCGGGAAACTT--TTCCATCAATCGTTTA
* * * * * * * *
3532339 CCCATCGACTTAGACCCAGGAGACTTTTCCATCAATCGTTTGCCCGTTGGCTTAGACCC-GAGAA
1 CCCATCGGCTTAGACCCAAGAGACTTTTCCAGCAATCGTCTGCCCATCGACTTAGACCCAG-GAG
* * * *
3532403 ACT-TTTCCATCAATCATCTACCCATTGGCTTAGACCCGAGAGACTT--TTTCATCAATCGTCTG
65 ACTCTTT--ATCAATCGTCTACCCATCGGCTTAGACACGAGAGACTTCCTTT-ATCAATCGTCTA
* * * * * * * * **
3532465 CCTGTCGGCTTAGACCCAGGGGACTTCCTTTATCAATTGTTTGACTGTCGGCTTAGACCCAAGAG
127 CCCGTTGGCTCAGACCCAGGAGACTTCCTTTATCAATCGTCTGTCCGTCGGCTTAGACCCGGGAG
* * * * * * * * * * * *
3532530 ACTTC-TCCATTATTTGTCTGCCTGTCGGCTTAGACCCGAGAGACTTTTTCATTAATCATCTGC-
192 ACTTCTTTCGTCAATCGTCTGCCTATAGACTTAAACCCGACAGACTTTTTCATCAATCATCTACA
** * * * *
3532593 CGTTGGCTTAGACTCGAGAGACTTTTCCATCAATCGTCTA
257 CGTCAGCTTAGACCCGGGAAACTTTTCCATCAATCGTTTA
* *** * * ** * * * * *
3532633 CCCGTCGGCTTAGACCTGGGAGATTTTTCCATCCTTCATTTGCCTATCGGCTTAGACTCAGGAGA
1 CCCATCGGCTTAGACCCAAGAGACTTTTCCAGCAATCGTCTGCCCATCGACTTAGACCCAGGAGA
* * * * * * ** * *
3532698 CTTCCTATGTTAATTGTCTGCCCGTCAACTTAAAC-CTGAGAGACTT--TTTCATCAATCGTCTG
66 C-T-CTTTATCAATCGTCTACCCATCGGCTTAGACAC-GAGAGACTTCCTTT-ATCAATCGTCTA
* ** * * * * * ** ** **
3532760 CTCGTCAGCTTAGGCCC-GGTGACTT--TTCCATCAATTGTCTACCCGTTAGCTTAGACCTAGGA
127 CCCGTTGGCTCAGACCCAGGAGACTTCCTT-TATCAATCGTCTGTCCGTCGGCTTAGACCCGGGA
* * * * * * * *
3532822 GACTT-TTCCAG-CAATCATCTGCCTGTCGGCTTAGACCTAGA-AGACTACCTTT-ATCAAT--T
191 GACTTCTTTC-GTCAATCGTCTGCCTATAGACTTAAACC-CGACAGACT--TTTTCATCAATCAT
* * * * * * * * *
3532881 GCTTGCCCGTCGGCTTAGACCTGAGAGACTTCCTT-TATCAATCGTCTG
252 -C-TACACGTCAGCTTAGACCCGGGAAACTT--TTCCATCAATCGTTTA
* * * * * * * * **
3532929 CTCAGT-AGCTTAGACTCGAGAGA--TTTCCTTTATCAATTGTCTGCCCGTC-AGCTTAAACCTG
1 CCCA-TCGGCTTAGACCCAAGAGACTTTTCC---AGCAATCGTCTGCCCATCGA-CTTAGACCCA
* * * * * *
3532990 GGAGACTTCCTTTGTCAATCGTCTGCCCATCAGTTTAGGC-TGAAGAGACTT--TTTCATCAATC
61 GGAGAC-T-CTTTATCAATCGTCTACCCATCGGCTTAGACACG-AGAGACTTCCTTT-ATCAATC
* * * * * * * * *
3533052 ATCTGCTCGTCGGCTTAGACCC-GATAAACTTCCTTTGTCAATCATCTG-CACGTCGGCTTAGAC
122 GTCTACCCGTTGGCTCAGACCCAG-GAGACTTCCTTTATCAATCGTCTGTC-CGTCGGCTTAGAC
* * * * * * * * * * *
3533115 CCGGAAGACTT-TTCCATTAATCGTCTACCTGTCGGCTTAGACCCGAGAGACTTTTCCATCAATC
185 CCGGGAGACTTCTTTCGTCAATCGTCTGCCTATAGACTTAAACCCGACAGACTTTTTCATCAATC
* * * ** * * * *
3533179 ATCTGC-CTATCGGCTTAGACCTAGGAGACTTTTCCATCAATTGTCTG
250 ATCTACAC-GTCAGCTTAGACCCGGGAAACTTTTCCATCAATCGTTTA
** * * * ** * ** * * * *
3533226 CCTGTCGACATAGACTCGGGAAACTTCTTTTATCAATCATCTGCCCATCGACTTAGACTCGGGAG
1 CCCATCGGCTTAGACCCAAGAGACTT-TTCCAGCAATCGTCTGCCCATCGACTTAGACCCAGGAG
* ** * * * *
3533291 ACTTCCTTTGTCAATCGTCTTTCCATCGACCTAGACTCGAGAGACTT--TTTCATCAATCATCTA
65 AC-T-CTTTATCAATCGTCTACCCATCGGCTTAGACACGAGAGACTTCCTTT-ATCAATCGTCTA
* * ** * ** * * * * * *
3533354 CCCGTCGGCTTAGACCTGGGAGACTT--TTCCATCAATTTTTTGCCCATAGGCTTAAACCCGAGA
127 CCCGTTGGCTCAGACCCAGGAGACTTCCTT-TATCAATCGTCTGTCCGTCGGCTTAGACCCGGGA
* * * * * ** * * * * * * *
3533417 AACTT-TTCCATTAATTGTCTGCCCGTTGGCTTAAACCCAAGAAACTTCTTCATCAATCGTCTAC
191 GACTTCTTTCGTCAATCGTCTGCCTATAGACTTAAACCCGACAGACTTTTTCATCAATCATCTAC
* * ** * * *
3533481 -CTATCGGCTTAGACCCAAGAGACTTCCTT-TATCAA-CTATTTA
256 AC-GTCAGCTTAGACCCGGGAAACTT--TTCCATCAATC-GTTTA
* * * ** * * * ** * * * *
3533523 CCCGTTGGTTTAGACCCGGGAGACTTCTCCATCATTCGTCTGCCTGTTGGCTTAGACTCGGGAGA
1 CCCATCGGCTTAGACCCAAGAGACTTTTCCAGCAATCGTCTGCCCATCGACTTAGACCCAGGAGA
* * * ** * ** *
3533588 CTTTTTCATTAATCATCTACCCATCGGCTTAGACTTGGGAGACTT--TTTCATCAATTATCTGCC
66 CTCTTT-ATCAATCGTCTACCCATCGGCTTAGACACGAGAGACTTCCTTT-ATCAATCGTCTACC
* * * * * * * *
3533651 TGTCGGCTTAGACCCGGGAGA-TT-TTTTCATCATTCGTCTG-CCTATTGGCTTAGACCCGGGAG
129 CGTTGGCTCAGACCCAGGAGACTTCCTTT-ATCAATCGTCTGTCC-GTCGGCTTAGACCCGGGAG
* * * * * *
3533713 ACTTCTTTTGTCAATTGTCTGCCTATCGACTTAAACCCGAGAGACTTTTTCATCAATCATCTGCC
192 ACTTCTTTCGTCAATCGTCTGCCTATAGACTTAAACCCGACAGACTTTTTCATCAATCATCTACA
* * *
3533778 CGTCGGCTTAGACCTGGGAGACTTTTCCATCAATCGTTTA
257 CGTCAGCTTAGACCCGGGAAACTTTTCCATCAATCGTTTA
* * *
3533818 CCCATCGGCTTAGACCTAAGAGACTTTTCCAGCAATCGTCTGCCTATCGACTTAGACCTAGGAGA
1 CCCATCGGCTTAGACCCAAGAGACTTTTCCAGCAATCGTCTGCCCATCGACTTAGACCCAGGAGA
* * * ** * *
3533883 CTACCTTTATTAATCGTTTGCCTGTCGGCTTAGACTCGAGAGACTTCCTTTATCAATCGTCTGCC
66 CT--CTTTATCAATCGTCTACCCATCGGCTTAGACACGAGAGACTTCCTTTATCAATCGTCTACC
* *
3533948 CGTTGGCTTAGACCCAGGAGACTTCCTTTATCAATCGTCTGTCCGTCGGCTTAGA-CCTGGAGAC
129 CGTTGGCTCAGACCCAGGAGACTTCCTTTATCAATCGTCTGTCCGTCGGCTTAGACCCGGGAGAC
* * *
3534012 TTCTTTCGTCAATCGTCTGCCTATA-AGCTTAGACTCGACAGACTTTTTCATCAATCATCTACAT
194 TTCTTTCGTCAATCGTCTGCCTATAGA-CTTAAACCCGACAGACTTTTTCATCAATCATCTACAC
* * *
3534076 GTCAGCTTAGGCCCGGGAAACTTTTCCATTAATCGTTTG
258 GTCAGCTTAGACCCGGGAAACTTTTCCATCAATCGTTTA
** * ** * *
3534115 CCTGTCGGCTTA-AGCCCGAGAGAC-TTTCTTTGTCAATCGTCTGCCCGTCGGCTTAGACCCAGG
1 CCCATCGGCTTAGA-CCCAAGAGACTTTTC-CAG-CAATCGTCTGCCCATCGACTTAGACCCAGG
*
3534178 AGACT-TTTCCATCAATCGTCTACCCATCGGCTTAGACAC-AGAAGACTTCCTTTGTCAA-CTGT
63 AGACTCTTT--ATCAATCGTCTACCCATCGGCTTAGACACGAG-AGACTTCCTTTATCAATC-GT
3534240 CTACCC-TTCGGCTCAG
124 CTACCCGTT-GGCTCAG
3534256 CCTCGGGGGA
Statistics
Matches: 1504, Mismatches: 334, Indels: 156
0.75 0.17 0.08
Matches are distributed among these distances:
292 3 0.00
293 63 0.04
294 92 0.06
295 289 0.19
296 378 0.25
297 509 0.34
298 99 0.07
299 66 0.04
300 5 0.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (296 bp):
CCCATCGGCTTAGACCCAAGAGACTTTTCCAGCAATCGTCTGCCCATCGACTTAGACCCAGGAGA
CTCTTTATCAATCGTCTACCCATCGGCTTAGACACGAGAGACTTCCTTTATCAATCGTCTACCCG
TTGGCTCAGACCCAGGAGACTTCCTTTATCAATCGTCTGTCCGTCGGCTTAGACCCGGGAGACTT
CTTTCGTCAATCGTCTGCCTATAGACTTAAACCCGACAGACTTTTTCATCAATCATCTACACGTC
AGCTTAGACCCGGGAAACTTTTCCATCAATCGTTTA
Found at i:3534587 original size:43 final size:43
Alignment explanation
Indices: 3534483--3534587 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
3534473 CGGGAGACTT
* * **
3534483 CTTCATCTCTTTATCTACCCATCGACTCAAACGCAGGAGATTT
1 CTTCATCTCTTTATTTACCCATCGACTCAAACGCAGGAAATAC
* * *
3534526 CTTCATCTCTTTAATTACCCATCGACTCAATCTCAGGAAATAAC
1 CTTCATCTCTTTATTTACCCATCGACTCAAACGCAGGAAAT-AC
*
3534570 CTTCATC-CATTATTTACC
1 CTTCATCTCTTTATTTACC
3534588 TGTCAGCTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 45 0.87
44 7 0.13
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (43 bp):
CTTCATCTCTTTATTTACCCATCGACTCAAACGCAGGAAATAC
Found at i:3534838 original size:84 final size:85
Alignment explanation
Indices: 3534567--3534925 Score: 351
Period size: 84 Copynumber: 4.3 Consensus size: 85
3534557 CTCAGGAAAT
* * *
3534567 AACCTTCATCCATTATTTACCTGTCAGCTCAGTCCCCGGTAAACCCCATCTCTCCTTAAT-G-G-
1 AACCTTCATCCATTATTTACTTGTCAGCTCAGTCCCCGGTAAACCCCAT-T-ACCTTTATGGTGA
* * *
3534629 CCTGTTAGCTCAGTCTTCGGTC
64 CCTGTTAGCTTAGTCTCCGATC
* * ** *
3534651 AACCTTCATCCATTATTTACCTATTGGCTTAGTCCCCGGTAAACCCCA-T-CGC-TTATGGTGAC
1 AACCTTCATCCATTATTTACTTGTCAGCTCAGTCCCCGGTAAACCCCATTAC-CTTTATGGTGAC
*
3534713 CTGTTAGCTTAGTCTCCGGTC
65 CTGTTAGCTTAGTCTCCGATC
* * * * * *
3534734 AACCTTCATCCATTGTTTACTTGTCAACTTAGTCCCCAGTAGA-CCCATTACCTTTATGGTGACT
1 AACCTTCATCCATTATTTACTTGTCAGCTCAGTCCCCGGTAAACCCCATTACCTTTATGGTGACC
*
3534798 TGTTAGCTTAGTCTCCAATC
66 TGTTAGCTTAGTCTCCGATC
* ** * *
3534818 AACCTTCATCCATTATTTACTTATTGGCTCAGTCCTCGGT-AAGCCCATTACCTTTATGGTGACC
1 AACCTTCATCCATTATTTACTTGTCAGCTCAGTCCCCGGTAAACCCCATTACCTTTATGGTGACC
*
3534882 TGTCAG-TTCAGTCT-CGATC
66 TGTTAGCTT-AGTCTCCGATC
** * *
3534901 AACCTTTGTCCTTTATTCACTTGTC
1 AACCTTCATCCATTATTTACTTGTC
3534926 GGCTTGGTCC
Statistics
Matches: 230, Mismatches: 36, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
80 4 0.02
81 2 0.01
82 6 0.03
83 83 0.36
84 135 0.59
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (85 bp):
AACCTTCATCCATTATTTACTTGTCAGCTCAGTCCCCGGTAAACCCCATTACCTTTATGGTGACC
TGTTAGCTTAGTCTCCGATC
Found at i:3536426 original size:45 final size:45
Alignment explanation
Indices: 3536371--3536475 Score: 165
Period size: 45 Copynumber: 2.3 Consensus size: 45
3536361 AATTTTTAAT
* *
3536371 TTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAA
1 TTTTAAAATTCATCAAACATAATTATTTATTTCATATTAATTCAA
*
3536416 TTTTAAAATTCATCAAACATAATTATTTATTTCATATTAATTCAG
1 TTTTAAAATTCATCAAACATAATTATTTATTTCATATTAATTCAA
3536461 TTTTCAAAAATTCAT
1 TTTT--AAAATTCAT
3536476 TCATTTTTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 46 0.84
47 9 0.16
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (45 bp):
TTTTAAAATTCATCAAACATAATTATTTATTTCATATTAATTCAA
Found at i:3537534 original size:20 final size:20
Alignment explanation
Indices: 3537490--3537559 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
3537480 CGACACATTG
* * *
3537490 TATCGAAACATGTTC-ATTG
1 TATCGATACATGATCAATTA
3537509 TATCGATACATGCA-CAATTA
1 TATCGATACATG-ATCAATTA
* *
3537529 TATCGATACATGATGAATTG
1 TATCGATACATGATCAATTA
3537549 TATCGATACAT
1 TATCGATACAT
3537560 TGCTTCAAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 13 0.30
20 30 0.70
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
TATCGATACATGATCAATTA
Found at i:3538450 original size:13 final size:13
Alignment explanation
Indices: 3538434--3538486 Score: 65
Period size: 12 Copynumber: 4.1 Consensus size: 13
3538424 AGAAAAACTC
3538434 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
*
3538447 AG-AAGAAAAAGA
1 AGAAAAAAAAAGA
3538459 GAGAAAGAAAAAAG-
1 -AGAAA-AAAAAAGA
3538473 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
3538486 A
1 A
3538487 AAATAGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
12 16 0.47
13 10 0.29
14 2 0.06
15 6 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAGA
Found at i:3538483 original size:27 final size:26
Alignment explanation
Indices: 3538434--3538489 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
3538424 AGAAAAACTC
*
3538434 AGAAAAAAAAAGAAGAAGAAAAAGAG
1 AGAAAAAAAAAGAAGAAAAAAAAGAG
3538460 AGAAAGAAAAAAG-AGAAAAAAAA-AG
1 AGAAA-AAAAAAGAAGAAAAAAAAGAG
3538485 A-AAAA
1 AGAAAA
3538490 TAGTAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 3 0.11
25 3 0.11
26 14 0.50
27 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (26 bp):
AGAAAAAAAAAGAAGAAAAAAAAGAG
Found at i:3538497 original size:18 final size:19
Alignment explanation
Indices: 3538434--3538489 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
3538424 AGAAAAACTC
*
3538434 AGAAAAAAAAAG-AAGAAG
1 AGAAAAAAAAAGAAAAAAG
3538452 A-AAAAGAGAGAAAGAAAAAAG
1 AGAAAA-A-A-AAAGAAAAAAG
3538473 AGAAAAAAAAAGAAAAA
1 AGAAAAAAAAAGAAAAA
3538490 TAGTAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 10 0.31
20 5 0.16
21 7 0.22
22 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAGAAAAAAG
Found at i:3539370 original size:13 final size:13
Alignment explanation
Indices: 3539344--3539377 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
3539334 AAAATTTTCA
3539344 AAAATAATAATAAT
1 AAAATAA-AATAAT
3539358 AAAATAAAATAAT
1 AAAATAAAATAAT
3539371 -AAATAAA
1 AAAATAAA
3539378 TTCTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.35
13 6 0.30
14 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:3540171 original size:154 final size:154
Alignment explanation
Indices: 3539858--3541062 Score: 1124
Period size: 154 Copynumber: 7.8 Consensus size: 154
3539848 CACCGGGTCT
* * * *
3539858 GCTTTTATGTCAAAGGTGGGCATTTAGGATAGGTTCATGCCTTTTCTAGTCTTTTTAGGTCCTTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATACCTTTTCTAGTCTTTTTAAGTCCTTT
* * * *
3539923 AGGGT-TGCCGAGGTACTTTTACGTCGAAGGTAT-ACTTATAGGGGCATTTTCATAATTTCTTAG
66 AGGGTAT--CGAGATACTTTTACGTCGAAGGTATCCCTTA-A-GGGCATTTTCGTAATTTTTTAG
* * * *
3539986 AA-TCGAGTCCTAGGTTGTCACCAGGTCC
127 AACT-AACTCCTAGGTTGTCACTAGATCC
*
3540014 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCAT-CCTTTTCTAGTCTTTTTAAGTCTTTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATACCTTTTCTAGTCTTTTTAAGTCCTTT
* * * *
3540078 AGGGTAACGAGATACTTTAACGTCGAAAGTATCCCTTAAGGGCATTTTCGTTATTTTTCTAGAAC
66 AGGGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTAATTTTT-TAGAAC
*
3540143 TAACTCCTAGGTTGTCACTAGATTC
130 TAACTCCTAGGTTGTCACTAGATCC
* * *
3540168 GCTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTCATCACCATTTCTAGTCTTTTTAAGTCTTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCAT-ACCTTTTCTAGTCTTTTTAAGTCCTT
* * * *
3540233 TAGGGGTATC--GATACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTCATAATTTTTTAGAA
65 TA-GGGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTAATTTTTTAGAA
* * *
3540296 CCAACT-CTAAGGTTGTCA-TCGAGTCT
129 CTAACTCCT-AGGTTGTCACTAGA-TCC
* * * *
3540322 GCTTTTATGCCGAACGTGGGCA-TTAGGGATAGGTTCATACCATTTCTA-TCTTTTTTAGGTCTT
1 GCTTTTATGCCGAAGGTGGGCATTTA-GGATAGGTTCATACCTTTTCTAGTC-TTTTTAAGTCCT
* * * * *
3540385 TTAGAGGTATC-AGGTACTTTTAGGTCAAAGGTATCCC-T-AGAGGCGTTTTCGTAATTTTTTAA
64 TTAG-GGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAG-GGCATTTTCGTAATTTTTTAG
* * * * *
3540447 AACTAACTACTAGGTCGTCA-TCGGGTAC
127 AACTAACTCCTAGGTTGTCACT-AGATCC
* * * *
3540475 GCTTTTAAGCTGAAGGTGGGCATTTAGGATAGGTTCATCCCTTTTTTAGTCTTTTTAAGTCCTTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATACCTTTTCTAGTCTTTTTAAGTCCTTT
* * * * * * *
3540540 AAGGTACCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGCATTTTTGAAATTCTTTTAGAA-
66 AGGGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTAATT-TTTTAGAAC
* **
3540604 TCAACTCTTAGGTCATCACCTAG-TCC
130 T-AACTCCTAGGTTGTCA-CTAGATCC
* * * *
3540630 GCTTTTATGTCGAAGGTGGGCATTTAGGATTGGTTCAT-CCATTTTTTAGTCTTTTTAGGTCCTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATACC-TTTTCTAGTCTTTTTAAGTCCTT
* * * * * * * **
3540694 TAAGGT-TGCTAGGGTACTTTTACGTCGAAGGTATTCTCATAGGGGCATTTTCATAATTTCCTAG
65 TAGGGTAT-CGA-GATACTTTTACGTCGAAGGTA-TCCCTTAAGGGCATTTTCGTAATTTTTTAG
* * ** *
3540758 AACCAA-TCCTAGGTTATCACCGGGTCC
127 AACTAACTCCTAGGTTGTCACTAGATCC
* * * * *
3540785 GCTTTTATGTCGAAGATTGGCATTTAGGATAGGTTCATCACCATGTCTAGTCTTTTTAAGTCCTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCAT-ACCTTTTCTAGTCTTTTTAAGTCCTT
* * ** * * *
3540850 TAGGGGTATTG-GGTACTTTTACGTCGAAGGTATGACTTAGGGGTATTTTCGTAATTTTTTAAAA
65 TA-GGGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTAATTTTTTAGAA
* * *
3540914 CCAACTCTTCGGTTGTCACT-GAGTCC
129 CTAACTCCTAGGTTGTCACTAGA-TCC
* * * ** * *
3540940 GCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCAT-CTTATTTTTACCCCTTTTAGGTCCTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATACCT-TTTCTAGTCTTTTTAAGTCCTT
* *
3541004 TAGGGGTAT-TAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTTATTTTT
65 TA-GGGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTAATTTTT
3541063 CTTAAACTTA
Statistics
Matches: 876, Mismatches: 134, Indels: 80
0.80 0.12 0.07
Matches are distributed among these distances:
152 10 0.01
153 163 0.19
154 281 0.32
155 281 0.32
156 110 0.13
157 30 0.03
158 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (154 bp):
GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATACCTTTTCTAGTCTTTTTAAGTCCTTT
AGGGTATCGAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCGTAATTTTTTAGAACT
AACTCCTAGGTTGTCACTAGATCC
Found at i:3540655 original size:155 final size:155
Alignment explanation
Indices: 3539757--3541054 Score: 1145
Period size: 155 Copynumber: 8.4 Consensus size: 155
3539747 TCTTTTGTCA
* * * * * * *
3539757 TTTTAAGTCCTTTAGGGGTACCGGGATACTTTCACATCGAAAGTATCCTCT-A-GGTATTTTCGT
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGA
* ** * * * ** * * *
3539820 ACTTCCTTAGAATCGAGTCTTAGGTCATCACCGGGTCTGCTTTTATGTCAAAGGTGGGCATTTAG
66 AATTTTTTAGAACCAACTCTTAGGTTGTCACCGAGTCCGCTTTTATGTCGAAGGTGGGCATTTAG
*
3539885 GATAGGTTCATGCCTTTTCTAGTCT
131 GATAGGTTCATCCCTTTTCTAGTCT
* * * * * *
3539910 TTTTAGGTCCTTTAGGGTTGCCGAGGTACTTTTACGTCGAAGGTAT-ACTTATAGGGGCATTTTC
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTA-A-GGGCATTTTC
* * * * * *
3539974 -ATAATTTCTTAGAATCGAGTCCTAGGTTGTCACC-AGGTCCGCTTTTATGCCGAAGGTGGGCAT
64 GA-AATTTTTTAGAACCAACTCTTAGGTTGTCACCGA-GTCCGCTTTTATGTCGAAGGTGGGCAT
3540037 TTAGGATAGGTTCAT-CCTTTTCTAGTCT
127 TTAGGATAGGTTCATCCCTTTTCTAGTCT
* * * * * *
3540065 TTTTAAGTCTTTTA-GGGTAACGAGATACTTTAACGTCGAAAGTATCCCTTAAGGGCATTTTCGT
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGA
* * * * *
3540129 TATTTTTCTAGAACTAACTCCTAGGTTGTCA-CTAGATTCGCTTTTATGTCGAAGGTGGGCATTT
66 AATTTTT-TAGAACCAACTCTTAGGTTGTCACCGAG-TCCGCTTTTATGTCGAAGGTGGGCATTT
*
3540193 AGGATAGGTTCATCACCATTTCTAGTCT
129 AGGATAGGTTCATC-CCTTTTCTAGTCT
* * * *
3540221 TTTTAAGTCTTTTAGGGGTATC--GATACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTC-A
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGA
* * * * *
3540283 TAATTTTTTAGAACCAACTCTAAGGTTGTCATCGAGTCTGCTTTTATGCCGAACGTGGGCA-TTA
66 -AATTTTTTAGAACCAACTCTTAGGTTGTCACCGAGTCCGCTTTTATGTCGAAGGTGGGCATTTA
* *
3540347 GGGATAGGTTCATACCATTTCTA-TCTT
130 -GGATAGGTTCATCCCTTTTCTAGTC-T
* * * * * * * *
3540374 TTTTAGGTCTTTTAGAGGTATC-AGGTACTTTTAGGTCAAAGGTAT-CCCT-AGAGGCGTTTTCG
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAG-GGCATTTTCG
* * * * * * * *
3540436 TAATTTTTTAAAACTAACTAC-TAGGTCGTCATCGGGTACGCTTTTAAG-CTGAAGGTGGGCATT
65 AAATTTTTTAGAACCAACT-CTTAGGTTGTCACCGAGTCCGCTTTTATGTC-GAAGGTGGGCATT
*
3540499 TAGGATAGGTTCATCCCTTTTTTAGTCT
128 TAGGATAGGTTCATCCCTTTTCTAGTCT
* * * *
3540527 TTTTAAGTCCTTTA-AGGTACCGAGATACTTTCACATCGAAGGTATCCCCTAAGGGCATTTTTGA
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGA
* ** *
3540591 AATTCTTTTAGAATCAACTCTTAGGTCATCACCTAGTCCGCTTTTATGTCGAAGGTGGGCATTTA
66 AATT-TTTTAGAACCAACTCTTAGGTTGTCACCGAGTCCGCTTTTATGTCGAAGGTGGGCATTTA
* * *
3540656 GGATTGGTTCATCCATTTTTTAGTCT
130 GGATAGGTTCATCCCTTTTCTAGTCT
* * ** * * * * *
3540682 TTTTAGGTCCTTTA-AGGTTGCTAGGGTACTTTTACGTCGAAGGTATTCTCATAGGGGCATTTTC
1 TTTTAAGTCCTTTAGGGGTACCGA-GATACTTTTACGTCGAAGGTA-TCCCCTAAGGGCATTTTC
** * * * * *
3540746 -ATAATTTCCTAGAACCAA-TCCTAGGTTATCACCGGGTCCGCTTTTATGTCGAAGATTGGCATT
64 GA-AATTTTTTAGAACCAACTCTTAGGTTGTCACCGAGTCCGCTTTTATGTCGAAGGTGGGCATT
* *
3540809 TAGGATAGGTTCATCACCATGTCTAGTCT
128 TAGGATAGGTTCATC-CCTTTTCTAGTCT
** * ** * * * *
3540838 TTTTAAGTCCTTTAGGGGTATTG-GGTACTTTTACGTCGAAGGTATGACTTAGGGGTATTTTCGT
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGA
* * *
3540902 AATTTTTTAAAACCAACTCTTCGGTTGTCACTGAGTCCGCTTTTATG-CTGAAGGTGGGCATTTA
66 AATTTTTTAGAACCAACTCTTAGGTTGTCACCGAGTCCGCTTTTATGTC-GAAGGTGGGCATTTA
* * ** *
3540966 GGATAGGTTCAT-CTTATTTTTACCCC
130 GGATAGGTTCATCCCT-TTTCTAGTCT
* ** *
3540992 TTTTAGGTCCTTTAGGGGTA-TTAGATACTTTTACGTCGAAGGTATCCCTTAAGGGCATTTTCG
1 TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCG
3541055 TTATTTTTCT
Statistics
Matches: 946, Mismatches: 158, Indels: 81
0.80 0.13 0.07
Matches are distributed among these distances:
152 12 0.01
153 199 0.21
154 269 0.28
155 288 0.30
156 151 0.16
157 27 0.03
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (155 bp):
TTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTCGAAGGTATCCCCTAAGGGCATTTTCGA
AATTTTTTAGAACCAACTCTTAGGTTGTCACCGAGTCCGCTTTTATGTCGAAGGTGGGCATTTAG
GATAGGTTCATCCCTTTTCTAGTCT
Found at i:3542309 original size:61 final size:61
Alignment explanation
Indices: 3542235--3542479 Score: 327
Period size: 61 Copynumber: 4.0 Consensus size: 61
3542225 CGTTGCGATA
**
3542235 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATGTCCTGCTCTTTGTGGACTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTG
* * * * * * * *
3542296 GAAGGTGCCACCAACTTGTGTGGGCTTGAAAAGGGAAAGACGTCCTACTCTTTAAGGATTA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTG
*
3542357 AAAGGTGCCACCAACTTGTGTGGGCTAT-AAAAGAAAAG-TGTCCTGCTCTTTAAGGACTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTG
* *
3542416 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-A-GCATCCTGCTCTTTGAGGACTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATG--TCCTGCTCTTTAAGGACTG
3542477 AAA
1 AAA
3542480 AGATTAAAGG
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
59 45 0.28
60 16 0.10
61 97 0.61
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (61 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTG
Found at i:3542467 original size:120 final size:122
Alignment explanation
Indices: 3542233--3542473 Score: 371
Period size: 120 Copynumber: 2.0 Consensus size: 122
3542223 CACGTTGCGA
* ** *
3542233 TAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGATGTCCTGCTCTTTGTGGACTGGA
1 TAAAAGGTGCCACCAACTTGTGTGGGCTATAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTGAA
* *
3542298 AGGTGCCACCAACTTGTGTGGGCTTGAAAAGGGAAAGACGTCCTACTCTTTAAGGAT
66 AGGTGCCACCAACTTGTGTGGGCTTGAAAAGGAAAAGACATCCTACTCTTTAAGGAT
3542355 TAAAAGGTGCCACCAACTTGTGTGGGCTAT-AAAAGAAAAG-TGTCCTGCTCTTTAAGGACTGAA
1 TAAAAGGTGCCACCAACTTGTGTGGGCTATAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTGAA
* * *
3542418 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-AGCATCCTGCTCTTTGAGGA
66 AGGTGCCACCAACTTGTGTGGGCTTGAAAAGGAAAAGA-CATCCTACTCTTTAAGGA
3542474 CTGAAAAGAT
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
119 1 0.01
120 69 0.63
121 10 0.09
122 29 0.27
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (122 bp):
TAAAAGGTGCCACCAACTTGTGTGGGCTATAAAAAGAAAAGATGTCCTGCTCTTTAAGGACTGAA
AGGTGCCACCAACTTGTGTGGGCTTGAAAAGGAAAAGACATCCTACTCTTTAAGGAT
Found at i:3548544 original size:8 final size:8
Alignment explanation
Indices: 3548531--3548555 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3548521 GTATTGATAC
3548531 AAATTTTG
1 AAATTTTG
3548539 AAATTTTG
1 AAATTTTG
3548547 AAATTTTG
1 AAATTTTG
3548555 A
1 A
3548556 TTGTTGGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (8 bp):
AAATTTTG
Found at i:3552319 original size:36 final size:36
Alignment explanation
Indices: 3552272--3552340 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
3552262 GAAACAAAAG
3552272 CCCCTTGTCTCTTTTATTGTAGTTCCCAATTTTAAA
1 CCCCTTGTCTCTTTTATTGTAGTTCCCAATTTTAAA
*
3552308 CCCCTTGTCTCTTTTATTTTAGTTCCCAATTTT
1 CCCCTTGTCTCTTTTATTGTAGTTCCCAATTTT
3552341 TAAGGAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.16, C:0.26, G:0.07, T:0.51
Consensus pattern (36 bp):
CCCCTTGTCTCTTTTATTGTAGTTCCCAATTTTAAA
Found at i:3554285 original size:2 final size:2
Alignment explanation
Indices: 3554278--3554302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3554268 ACGAAAACTT
3554278 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
3554303 TAGATTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3554613 original size:13 final size:13
Alignment explanation
Indices: 3554595--3554619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3554585 GCATACAGTA
3554595 AAAAGCAAAAGTT
1 AAAAGCAAAAGTT
3554608 AAAAGCAAAAGT
1 AAAAGCAAAAGT
3554620 GCAATTGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAAGCAAAAGTT
Found at i:3555400 original size:28 final size:28
Alignment explanation
Indices: 3555366--3555431 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
3555356 AATCCCAAAT
3555366 ATGGGCACTTAGGGTAGGCTATCAAAAG
1 ATGGGCACTTAGGGTAGGCTATCAAAAG
3555394 ATGGGCACTTAGGGTAGGCTATCAAAAG
1 ATGGGCACTTAGGGTAGGCTATCAAAAG
*
3555422 ATGGACACTT
1 ATGGGCACTT
3555432 GGATAAGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (28 bp):
ATGGGCACTTAGGGTAGGCTATCAAAAG
Found at i:3555490 original size:42 final size:41
Alignment explanation
Indices: 3555443--3555594 Score: 140
Period size: 44 Copynumber: 3.8 Consensus size: 41
3555433 GATAAGTTAT
3555443 TAATTATTTAAATGTCAAAGATGAGCACTTAGGGTAGGCTAC
1 TAATTATTTAAATGTCAAAGATGAGCACTT-GGGTAGGCTAC
3555485 TAATTATTTAAATGTC--A-A--AG-A--TGGGTAGGCTAC
1 TAATTATTTAAATGTCAAAGATGAGCACTTGGGTAGGCTAC
* ** * *
3555518 TAATTATTTAAATGTCAAAGATGGGCACTTGAACACTTGGTTAC
1 TAATTATTTAAATGTCAAAGATGAGCACTTG---GGTAGGCTAC
* * *
3555562 TAATTATTTAAATATCAAATATGGGCACTTGGG
1 TAATTATTTAAATGTCAAAGATGAGCACTTGGG
3555595 ACACTTGGGC
Statistics
Matches: 90, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
33 27 0.30
34 1 0.01
35 1 0.01
36 2 0.02
37 2 0.02
38 1 0.01
39 2 0.02
40 1 0.01
41 2 0.02
42 16 0.18
44 35 0.39
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (41 bp):
TAATTATTTAAATGTCAAAGATGAGCACTTGGGTAGGCTAC
Found at i:3555516 original size:33 final size:33
Alignment explanation
Indices: 3555474--3555542 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
3555464 TGAGCACTTA
3555474 GGGTAGGCTACTAATTATTTAAATGTCAAAGAT
1 GGGTAGGCTACTAATTATTTAAATGTCAAAGAT
3555507 GGGTAGGCTACTAATTATTTAAATGTCAAAGAT
1 GGGTAGGCTACTAATTATTTAAATGTCAAAGAT
3555540 GGG
1 GGG
3555543 CACTTGAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.32
Consensus pattern (33 bp):
GGGTAGGCTACTAATTATTTAAATGTCAAAGAT
Found at i:3555580 original size:44 final size:45
Alignment explanation
Indices: 3555515--3555602 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
3555505 ATGGGTAGGC
*
3555515 TACTAATTATTTAAATGTCAAAGATGGGCACTT-GAACACTTGGT
1 TACTAATTATTTAAATATCAAAGATGGGCACTTGGAACACTTGGT
* *
3555559 TACTAATTATTTAAATATCAAATATGGGCACTTGGGACACTTGG
1 TACTAATTATTTAAATATCAAAGATGGGCACTTGGAACACTTGG
3555603 GCTTAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 31 0.77
45 9 0.22
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (45 bp):
TACTAATTATTTAAATATCAAAGATGGGCACTTGGAACACTTGGT
Found at i:3555642 original size:17 final size:18
Alignment explanation
Indices: 3555620--3555675 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
3555610 TTAAAGATGC
3555620 AATTATATT-TTTATTTT
1 AATTATATTATTTATTTT
3555637 AATTATATTATTTA-TTT
1 AATTATATTATTTATTTT
* *
3555654 ATTTAT-TTATTAATATTT
1 AATTATATTATTTAT-TTT
3555672 AATT
1 AATT
3555676 CGAAATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 6 0.18
17 17 0.52
18 10 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
AATTATATTATTTATTTT
Found at i:3555955 original size:28 final size:31
Alignment explanation
Indices: 3555903--3555959 Score: 84
Period size: 28 Copynumber: 1.9 Consensus size: 31
3555893 GCATCAAAAA
3555903 GTTATGTTGAAAGAATACAACATTTAAATTT
1 GTTATGTTGAAAGAATACAACATTTAAATTT
*
3555934 GTTATG-T-AAAG-ATATAACATTTAAAT
1 GTTATGTTGAAAGAATACAACATTTAAAT
3555960 AAAGACATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 14 0.56
29 4 0.16
30 1 0.04
31 6 0.24
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (31 bp):
GTTATGTTGAAAGAATACAACATTTAAATTT
Found at i:3555974 original size:189 final size:189
Alignment explanation
Indices: 3555652--3556030 Score: 686
Period size: 189 Copynumber: 2.0 Consensus size: 189
3555642 TATTATTTAT
*
3555652 TTATTTATTTATTAATATTTAATTCGAAATATTATATATATATTTTTTTATTGCATCAAAAAGTT
1 TTATTTATTTATTAATATTTAATTCGAAATATTATATATATATATTTTTATTGCATCAAAAAGTT
* *
3555717 GTGTTGAAAGAATACAATATTTAAACTTGTTATGTAAAGATATAACATTTAAATAAAGACAGGTG
66 ATGTTGAAAGAATACAACATTTAAACTTGTTATGTAAAGATATAACATTTAAATAAAGACAGGTG
*
3555782 TAAAAACACAACTATTGCCCTATAGACAAGTCACTTGAAAGGTGACTTTACATTGCCTA
131 TAAAAACACAACTATTACCCTATAGACAAGTCACTTGAAAGGTGACTTTACATTGCCTA
*
3555841 TTATTTATTTATTAATATTTAATTCGAAATATTTTATATATATATTTTTATTGCATCAAAAAGTT
1 TTATTTATTTATTAATATTTAATTCGAAATATTATATATATATATTTTTATTGCATCAAAAAGTT
* *
3555906 ATGTTGAAAGAATACAACATTTAAATTTGTTATGTAAAGATATAACATTTAAATAAAGACATGTG
66 ATGTTGAAAGAATACAACATTTAAACTTGTTATGTAAAGATATAACATTTAAATAAAGACAGGTG
*
3555971 TAAAAACACAACTATTACCTTATAGACAAGTCACTTGAAAGGTGACTTTACATTGCCTA
131 TAAAAACACAACTATTACCCTATAGACAAGTCACTTGAAAGGTGACTTTACATTGCCTA
3556030 T
1 T
3556031 AAAAGAGATA
Statistics
Matches: 182, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
189 182 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (189 bp):
TTATTTATTTATTAATATTTAATTCGAAATATTATATATATATATTTTTATTGCATCAAAAAGTT
ATGTTGAAAGAATACAACATTTAAACTTGTTATGTAAAGATATAACATTTAAATAAAGACAGGTG
TAAAAACACAACTATTACCCTATAGACAAGTCACTTGAAAGGTGACTTTACATTGCCTA
Done.