Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold138
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: 1735418
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 2489 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:572270 original size:33 final size:33
Alignment explanation
Indices: 572228--572292 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
572218 CCAAGGAAAT
***
572228 GTATCGATACATTTTTCTGTGTATCGATACATG
1 GTATCGATACATGGATCTGTGTATCGATACATG
*
572261 GTATCGATACATGGATCTTTGTATCGATACAT
1 GTATCGATACATGGATCTGTGTATCGATACAT
572293 TTGGAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (33 bp):
GTATCGATACATGGATCTGTGTATCGATACATG
Found at i:574694 original size:51 final size:53
Alignment explanation
Indices: 574630--574971 Score: 201
Period size: 52 Copynumber: 6.5 Consensus size: 53
574620 AGTTTATCAA
* * * *
574630 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
574681 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * * * * * *
574735 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGAGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** ** * * * *
574788 CCCGTT-A-TTTCCGAGGGAATACTCTAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 TTC-TTCACAAT-CG-GGG-ATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
574842 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* * *
574895 TTCCTT--TAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
574947 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
574972 CTCGTTATTT
Statistics
Matches: 220, Mismatches: 45, Indels: 51
0.70 0.14 0.16
Matches are distributed among these distances:
50 4 0.02
51 36 0.16
52 77 0.35
53 41 0.19
54 41 0.19
55 18 0.08
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:575044 original size:107 final size:106
Alignment explanation
Indices: 574693--575087 Score: 324
Period size: 107 Copynumber: 3.7 Consensus size: 106
574683 TTCTATAATC
* *
574693 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGATTTTA-TTCCCAAAAACACCAATTT-TTCACAATCGGGGATACTCC
* * *
574758 AACCCCGTTA-ATCATCGGAGATACTCCAACCCCGTTATTTCCGA
64 AACCCCGTTATTTCATCGG-GAAACTCCAACCCCTTTA-TTCCGA
* * * * * *
574802 GGGAATACTCTAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGATTTTATTCCCAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * * ** *
574866 ATCCTGGTTTTATTT--TC--AAAACGCCAATTTTCCTTTAAT-CGA
65 A-CCCCG--TTATTTCATCGGGAAACTCCAA--CCCCTTTATTCCGA
* * *
574908 --GGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTCCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
574971 CCTCGTTATTTCATCGGGACACTCCAACCCCTTTACTTCCGA
66 CCCCGTTATTTCATCGGGAAACTCCAACCCCTTTA-TTCCGA
* ** * *** * * *
575013 GGGGATACTCCAACCCCGGCTTTATTCCC-AAAATATTGATTTCTCATAATGGGGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTCCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
575077 CCCCGTTATTT
66 CCCCGTTATTT
575088 TCGAAGGGAT
Statistics
Matches: 226, Mismatches: 44, Indels: 35
0.74 0.14 0.11
Matches are distributed among these distances:
101 6 0.03
103 12 0.05
104 39 0.17
105 25 0.11
106 50 0.22
107 58 0.26
108 8 0.04
109 24 0.11
110 3 0.01
111 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACTCCGATTTTATTCCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
CCCCGTTATTTCATCGGGAAACTCCAACCCCTTTATTCCGA
Found at i:577092 original size:28 final size:27
Alignment explanation
Indices: 577061--577290 Score: 140
Period size: 28 Copynumber: 8.1 Consensus size: 27
577051 CATTCTAGTT
* *
577061 AAAGTCCATATTAGTTGGCATCTAAGTC
1 AAAG-CCACATTAGTTGGCACCTAAGTC
* * *
577089 AAAGCCCCCACATTTA-CTGGCACTTAAGTT
1 AAAG---CCACA-TTAGTTGGCACCTAAGTC
* *
577119 AAAGCCCACATTAGTTGGCACCCAAGTT
1 AAAG-CCACATTAGTTGGCACCTAAGTC
* **
577147 AAAGCCTACATTAGCTAACACCTAAGTC
1 AAAGCC-ACATTAGTTGGCACCTAAGTC
* ** * *
577175 AAAGCCTATATTAG-TGTAATCTGAGTC
1 AAAGCC-ACATTAGTTGGCACCTAAGTC
* *
577202 AAAGCCCACATTAGCTGGCACTTAAGTC
1 AAAG-CCACATTAGTTGGCACCTAAGTC
** *
577230 AAAGCCTACATTAGTTGGCATTTGAGTC
1 AAAGCC-ACATTAGTTGGCACCTAAGTC
* *
577258 AAAGCTCATATTAGTTGGCACCCAAAGTC
1 AAAGC-CACATTAGTTGGCA-CCTAAGTC
577287 AAAG
1 AAAG
577291 TCTACTCTAG
Statistics
Matches: 158, Mismatches: 34, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
27 25 0.16
28 103 0.65
29 9 0.06
30 18 0.11
31 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (27 bp):
AAAGCCACATTAGTTGGCACCTAAGTC
Found at i:577258 original size:83 final size:83
Alignment explanation
Indices: 577119--577272 Score: 202
Period size: 83 Copynumber: 1.9 Consensus size: 83
577109 CACTTAAGTT
* *
577119 AAAGCCCACATTAGTTGGCACCCAAGTTAAAGCCTACATTAGCTAACACCTAAGTCAAAGC-CTA
1 AAAGCCCACATTAGCTGGCACCCAAGTCAAAGCCTACATTAGCTAACACCTAAGTCAAAGCTC-A
577183 TATTAGTGTAATCTGAGTC
65 TATTAGTGTAATCTGAGTC
** * ** ** *
577202 AAAGCCCACATTAGCTGGCACTTAAGTCAAAGCCTACATTAGTTGGCATTTGAGTCAAAGCTCAT
1 AAAGCCCACATTAGCTGGCACCCAAGTCAAAGCCTACATTAGCTAACACCTAAGTCAAAGCTCAT
577267 ATTAGT
66 ATTAGT
577273 TGGCACCCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 59 0.98
84 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (83 bp):
AAAGCCCACATTAGCTGGCACCCAAGTCAAAGCCTACATTAGCTAACACCTAAGTCAAAGCTCAT
ATTAGTGTAATCTGAGTC
Found at i:577310 original size:57 final size:56
Alignment explanation
Indices: 577070--577314 Score: 199
Period size: 56 Copynumber: 4.3 Consensus size: 56
577060 TAAAGTCCAT
* * ** * *
577070 ATTAGTTGGCATCTAAGTCAAAGCCCCCACATTTA-CTGGCACTTAAGTTAAAGCCCAC
1 ATTAGTTGGCATTTGAGTCAAAG--CCCACA-TTAGCTGGCACCAAAGTCAAAGCCTAC
**** * * ** * *
577128 ATTAGTTGGCACCCAAGTTAAAGCCTACATTAGCTAACACCTAAGTCAAAGCCTAT
1 ATTAGTTGGCATTTGAGTCAAAGCCCACATTAGCTGGCACCAAAGTCAAAGCCTAC
** * **
577184 ATTAG-TGTAATCTGAGTCAAAGCCCACATTAGCTGGCACTTAAGTCAAAGCCTAC
1 ATTAGTTGGCATTTGAGTCAAAGCCCACATTAGCTGGCACCAAAGTCAAAGCCTAC
* * * *
577239 ATTAGTTGGCATTTGAGTCAAAGCTCATATTAGTTGGCACCCAAAGTCAAAGTCTAC
1 ATTAGTTGGCATTTGAGTCAAAGCCCACATTAGCTGGCA-CCAAAGTCAAAGCCTAC
577296 -TCTAGTTGGCATTTGAGTC
1 AT-TAGTTGGCATTTGAGTC
577315 CTAGGCCCGA
Statistics
Matches: 153, Mismatches: 30, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
55 47 0.31
56 55 0.36
57 31 0.20
58 20 0.13
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (56 bp):
ATTAGTTGGCATTTGAGTCAAAGCCCACATTAGCTGGCACCAAAGTCAAAGCCTAC
Found at i:578714 original size:13 final size:13
Alignment explanation
Indices: 578696--578720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
578686 CATAAAGTGT
578696 TGTATCGATACAA
1 TGTATCGATACAA
578709 TGTATCGATACA
1 TGTATCGATACA
578721 TATTTTTTTG
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:578720 original size:33 final size:33
Alignment explanation
Indices: 578676--578742 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
578666 TTCAACGATT
*
578676 TGTATCTATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
578709 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
578742 T
1 T
578743 TCAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:578801 original size:13 final size:13
Alignment explanation
Indices: 578783--578807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
578773 ATCACTTAAA
578783 TGTATCGATACAT
1 TGTATCGATACAT
578796 TGTATCGATACA
1 TGTATCGATACA
578808 CTGATCTTTG
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:578872 original size:52 final size:52
Alignment explanation
Indices: 578816--578944 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
578806 CACTGATCTT
*
578816 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
578868 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
578920 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
578945 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:582436 original size:2 final size:2
Alignment explanation
Indices: 582416--582469 Score: 65
Period size: 2 Copynumber: 27.0 Consensus size: 2
582406 ATATTTTAGG
* *
582416 TA TA TA TT TA AA TA T- TA TA TA TA TA TA TA TA TA TA TA TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
582458 TA TG TA TA TA TA
1 TA TA TA TA TA TA
582470 AGTAGCTAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
1 1 0.02
2 41 0.93
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:582442 original size:23 final size:23
Alignment explanation
Indices: 582416--582469 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
582406 ATATTTTAGG
* *
582416 TATATATTTAAATATTATATATA
1 TATATATATAAATATCATATATA
* *
582439 TATATATATATATATCATATATG
1 TATATATATAAATATCATATATA
582462 TATATATA
1 TATATATA
582470 AGTAGCTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATATATAAATATCATATATA
Found at i:584626 original size:25 final size:23
Alignment explanation
Indices: 584590--584639 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
584580 CCTTTAAATC
584590 AAATACTAAAATAATCATTATATTA
1 AAATACTAAAATAA-CATTA-ATTA
584615 AAATA-TATAAATAACATTAATTA
1 AAATACTA-AAATAACATTAATTA
584638 AA
1 AA
584640 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 7 0.29
25 11 0.46
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATACTAAAATAACATTAATTA
Found at i:584656 original size:22 final size:22
Alignment explanation
Indices: 584631--584673 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
584621 ATAAATAACA
* *
584631 TTAATTAAATAAAAATTTATAT
1 TTAATGAAATAAAAATGTATAT
*
584653 TTAATGAATTAAAAATGTATA
1 TTAATGAAATAAAAATGTATA
584674 AATTTATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TTAATGAAATAAAAATGTATAT
Found at i:584763 original size:21 final size:20
Alignment explanation
Indices: 584737--584792 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
584727 TTTAAATAAA
584737 AATAATATTATTTAAATATCT
1 AATAATA-TATTTAAATATCT
*
584758 AATAATATATTTATATAT-T
1 AATAATATATTTAAATATCT
* *
584777 ATTATTATA-TTAAATA
1 AATAATATATTTAAATA
584793 AATTTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 6 0.19
19 8 0.26
20 10 0.32
21 7 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AATAATATATTTAAATATCT
Found at i:587413 original size:6 final size:6
Alignment explanation
Indices: 587404--587488 Score: 55
Period size: 6 Copynumber: 13.0 Consensus size: 6
587394 ATAATGACGG
* *
587404 ATATAA ATATAA ATAAAA ATTATAA ATTTATATA ATATAA ATTATAA ATAT-T
1 ATATAA ATATAA ATATAA A-TATAA A--TATA-A ATATAA A-TATAA ATATAA
* *
587456 ATATAA ATAAATAA TATTTAA ATATAA TTATAA
1 ATATAA AT--ATAA -ATATAA ATATAA ATATAA
587489 TATTATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 4 0.06
6 29 0.45
7 18 0.28
8 9 0.14
9 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (6 bp):
ATATAA
Found at i:587440 original size:22 final size:24
Alignment explanation
Indices: 587410--587480 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 24
587400 ACGGATATAA
587410 ATATAAATAAAAATTATAAAT-TT
1 ATATAAATAAAAATTATAAATATT
*
587433 ATAT-AATATAAATTATAAATATT
1 ATATAAATAAAAATTATAAATATT
*
587456 ATATAAATAAATAATATTTAAATAT
1 ATATAAATAAA-AAT-TATAAATAT
587481 AATTATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 15 0.37
23 10 0.24
24 5 0.12
25 3 0.07
26 8 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATAAATAAAAATTATAAATATT
Found at i:587444 original size:15 final size:13
Alignment explanation
Indices: 587405--587488 Score: 61
Period size: 13 Copynumber: 6.4 Consensus size: 13
587395 TAATGACGGA
587405 TATAAATATAAA-
1 TATAAATATAAAT
*
587417 TAAAAATTATAAATT
1 TATAAA-TATAAA-T
587432 TATATAATATAAAT
1 TATA-AATATAAAT
*
587446 TATAAATAT-TA-
1 TATAAATATAAAT
587457 TATAAATAAATAATAT
1 TATAAAT--ATAA-AT
587473 T-TAAATAT-AAT
1 TATAAATATAAAT
587484 TATAA
1 TATAA
587489 TATTATAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
11 10 0.17
12 10 0.17
13 15 0.26
14 5 0.09
15 15 0.26
16 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAAATATAAAT
Found at i:587482 original size:21 final size:22
Alignment explanation
Indices: 587405--587508 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 22
587395 TAATGACGGA
587405 TATAAATATAAAT-AA-AA-AT
1 TATAAATATAAATAAATAATAT
* *
587424 TATAAATTTATATAATATAA-AT
1 TATAAATATAAATAA-ATAATAT
587446 TATAAATATTATATAAATAAATAATAT
1 TAT--A-A--ATATAAATAAATAATAT
*
587473 T-TAAATAT-AAT-TATAATAT
1 TATAAATATAAATAAATAATAT
*
587492 TATAAA-ATACATAAATA
1 TATAAATATAAATAAATA
587509 TTACACTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 22
0.69 0.07 0.23
Matches are distributed among these distances:
19 21 0.32
20 10 0.15
21 8 0.12
22 7 0.11
23 1 0.02
24 2 0.03
25 1 0.02
26 5 0.08
27 11 0.17
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (22 bp):
TATAAATATAAATAAATAATAT
Found at i:587488 original size:19 final size:20
Alignment explanation
Indices: 587411--587497 Score: 76
Period size: 22 Copynumber: 4.3 Consensus size: 20
587401 CGGATATAAA
*
587411 TATAAATAAAAATTATAA-ATT
1 TATAAAT-ATAATTATAATA-T
587432 TATATAATATAAATTATAAATAT
1 TATA-AATAT-AATTAT-AATAT
587455 TATATAA-ATAA--ATAATAT
1 TATA-AATATAATTATAATAT
587473 T-TAAATATAATTATAATAT
1 TATAAATATAATTATAATAT
587492 TATAAA
1 TATAAA
587498 ATACATAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 17
0.76 0.01 0.23
Matches are distributed among these distances:
16 2 0.04
17 6 0.11
18 6 0.11
19 10 0.18
20 4 0.07
21 7 0.12
22 11 0.19
23 10 0.18
24 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATAAATATAATTATAATAT
Found at i:587491 original size:37 final size:39
Alignment explanation
Indices: 587437--587510 Score: 109
Period size: 37 Copynumber: 1.9 Consensus size: 39
587427 AAATTTATAT
587437 AATATAAATTATAAATATTATATAAATAAAT-AATATTTA
1 AATATAAATTATAAATATTATA-AAATAAATAAATATTTA
*
587476 AATAT-AATTAT-AATATTATAAAATACATAAATATT
1 AATATAAATTATAAATATTATAAAATAAATAAATATT
587511 ACACTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 7 0.21
37 15 0.45
38 6 0.18
39 5 0.15
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (39 bp):
AATATAAATTATAAATATTATAAAATAAATAAATATTTA
Found at i:587497 original size:31 final size:30
Alignment explanation
Indices: 587409--587497 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 30
587399 GACGGATATA
* * *
587409 AATATAAATAAAAATTATAA-ATT-TATAT
1 AATATAAATTATAATTATAATATTATAAAT
* * *
587437 AATATAAATTATAAATATTATATAAATAAAT
1 AATATAAATTATAATTATAATAT-TATAAAT
587468 AATATTTAAA-TATAATTATAATATTATAAA
1 AATA--TAAATTATAATTATAATATTATAAA
587498 ATACATAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
28 16 0.34
29 2 0.04
31 13 0.28
32 12 0.26
33 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AATATAAATTATAATTATAATATTATAAAT
Found at i:587853 original size:24 final size:21
Alignment explanation
Indices: 587825--587867 Score: 59
Period size: 24 Copynumber: 1.9 Consensus size: 21
587815 CAAATATTTT
587825 AAATATTATATATTTTATAATTAA
1 AAATATT-TA-ATTTTA-AATTAA
587849 AAATATTTAATTTTAAATT
1 AAATATTTAATTTTAAATT
587868 TATTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 2 0.11
24 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATTTAATTTTAAATTAA
Found at i:587882 original size:16 final size:16
Alignment explanation
Indices: 587852--587883 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
587842 TAATTAAAAA
587852 TATTTAATTTTAAATT
1 TATTTAATTTTAAATT
*
587868 TATTTTATTTTAAATT
1 TATTTAATTTTAAATT
587884 AAATTGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTAATTTTAAATT
Found at i:588607 original size:20 final size:19
Alignment explanation
Indices: 588582--588622 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
588572 TATTCAACCA
588582 TTTTTTAAACACAAATA-ATT
1 TTTTTTAAA-A-AAATATATT
588602 TTTTTTAAAAAAATATATT
1 TTTTTTAAAAAAATATATT
588621 TT
1 TT
588623 CACCTCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 9 0.45
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTTTAAAAAAATATATT
Found at i:590249 original size:64 final size:64
Alignment explanation
Indices: 590147--590282 Score: 254
Period size: 64 Copynumber: 2.1 Consensus size: 64
590137 AAAGAAAATT
590147 ATTCTATATAAAAGTAAAATAATAAACACAAAAAATTAAATTTTAATTCTTACATATTCAAAAAA
1 ATTCTA-ATAAAAGTAAAATAATAAACACAAAAAATTAAATTTTAATTCTTACATATTCAAAAAA
*
590212 ATTCTAATAAAAGTAAAATAATAAACACAAAAAATTAAATTTTAATTCTTACCTATTCAAAAAA
1 ATTCTAATAAAAGTAAAATAATAAACACAAAAAATTAAATTTTAATTCTTACATATTCAAAAAA
590276 ATTCTAA
1 ATTCTAA
590283 AAATATATTT
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
64 64 0.91
65 6 0.09
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.32
Consensus pattern (64 bp):
ATTCTAATAAAAGTAAAATAATAAACACAAAAAATTAAATTTTAATTCTTACATATTCAAAAAA
Found at i:590518 original size:3 final size:3
Alignment explanation
Indices: 590510--590554 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
590500 AATTGATGCT
590510 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
590555 AATTCCGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:591054 original size:27 final size:27
Alignment explanation
Indices: 591024--591077 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
591014 TTCTTAAGCT
*
591024 TTTATATTTAATAAAT-TATTAATTATA
1 TTTATATTTAA-AAATATATTAAATATA
591051 TTTATATTTAAAAATATATTAAATATA
1 TTTATATTTAAAAATATATTAAATATA
591078 AATATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTATATTTAAAAATATATTAAATATA
Found at i:591082 original size:25 final size:26
Alignment explanation
Indices: 591027--591088 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
591017 TTAAGCTTTT
**
591027 ATATTTAATAAATTATTAATTATATTT
1 ATATTTAATAAATTATTAA-TATATAA
591054 ATATTTAA-AAATATATTAA-ATATAA
1 ATATTTAATAAAT-TATTAATATATAA
*
591079 ATATTAAATA
1 ATATTTAATA
591089 TAAATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 11 0.37
26 5 0.17
27 14 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTAATAAATTATTAATATATAA
Found at i:591084 original size:13 final size:13
Alignment explanation
Indices: 591066--591096 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
591056 ATTTAAAAAT
591066 ATATTAAATATAA
1 ATATTAAATATAA
591079 ATATTAAATATAA
1 ATATTAAATATAA
591092 ATATT
1 ATATT
591097 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATTAAATATAA
Found at i:591379 original size:2 final size:2
Alignment explanation
Indices: 591372--591403 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
591362 AGAATACTGC
*
591372 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
591404 CCAATGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:600300 original size:13 final size:13
Alignment explanation
Indices: 600282--600307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
600272 GATAAAGTGT
600282 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
600295 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
600308 AAAAAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:600346 original size:21 final size:21
Alignment explanation
Indices: 600322--600378 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
600312 AATTTATCCA
600322 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
600343 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
600364 AATGTATCGATACAT
1 AATGTATCGATACAT
600379 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:600458 original size:19 final size:19
Alignment explanation
Indices: 600434--600501 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
600424 AATTCAACAA
600434 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
600453 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
600468 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
600485 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
600502 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:600473 original size:13 final size:13
Alignment explanation
Indices: 600455--600479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
600445 ACATAAGTTT
600455 TGTATCGATACAA
1 TGTATCGATACAA
600468 TGTATCGATACA
1 TGTATCGATACA
600480 TAAGTATTGT
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:600477 original size:32 final size:32
Alignment explanation
Indices: 600436--600498 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
600426 TTCAACAATT
*
600436 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
600468 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
600499 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:600559 original size:13 final size:13
Alignment explanation
Indices: 600541--600566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
600531 CATTTTTCTG
600541 TGTATCGATACAT
1 TGTATCGATACAT
600554 TGTATCGATACAT
1 TGTATCGATACAT
600567 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:600563 original size:33 final size:33
Alignment explanation
Indices: 600521--600587 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
600511 GCCAAGGAAA
***
600521 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
600554 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
600587 T
1 T
600588 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:603112 original size:28 final size:27
Alignment explanation
Indices: 603045--603114 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
603035 CTTCACAATC
* *
603045 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
* *
603072 GGGGATACTCCAACCCCGTTATTTATGA
1 GGGGATACTCCAACCCCGTTAATCAT-A
603100 GGGGATACTCCAACC
1 GGGGATACTCCAACC
603115 TCAACTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:603159 original size:51 final size:51
Alignment explanation
Indices: 603100--603272 Score: 172
Period size: 52 Copynumber: 3.4 Consensus size: 51
603090 TTATTTATGA
* * **
603100 GGGGATACTCCAACCTCAACTTTATTTCTAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAATATCAATTTTTCATAATC
* * * * *
603151 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACA-CCATTTTTCCTTTAATC
1 GGGGATACTCCAACCTCGATTTTATTTCT-AAAATATCAATTTTT-C-ATAATC
* *
603203 GGGGATACTCCAACAC-CGATTTTATTTTCAAAAATATCAATTTTTCACAATC
1 GGGGATACTCCAAC-CTCGATTTTA-TTTCTAAAATATCAATTTTTCATAATC
*
603255 GAGGATACTCCAACCTCG
1 GGGGATACTCCAACCTCG
603273 TTATTTCATC
Statistics
Matches: 99, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
50 7 0.07
51 30 0.30
52 45 0.45
53 10 0.10
54 7 0.07
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAATATCAATTTTTCATAATC
Found at i:603288 original size:28 final size:28
Alignment explanation
Indices: 603252--603333 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
603242 ATTTTTCACA
* *
603252 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
603280 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
603308 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
603334 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:614350 original size:28 final size:28
Alignment explanation
Indices: 614314--614395 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
614304 ATTTTTCACA
* *
614314 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
614342 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
614370 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
614396 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:617538 original size:2 final size:2
Alignment explanation
Indices: 617531--617587 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
617521 CCTGTAGCTT
617531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
617573 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
617588 CTTGCTGCAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:618411 original size:21 final size:21
Alignment explanation
Indices: 618385--618441 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
618375 TTGATAATTT
618385 TAAATATAATATAAAAAAAT-
1 TAAATATAATATAAAAAAATA
* *
618405 TAAA-ATAACATATCAAATAATA
1 TAAATAT-A-ATATAAAAAAATA
*
618427 TAAATATAGTATAAA
1 TAAATATAATATAAA
618442 TATATAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 15 0.52
22 5 0.17
23 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAATATAATATAAAAAAATA
Found at i:618466 original size:32 final size:33
Alignment explanation
Indices: 618437--618502 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
618427 TAAATATAGT
618437 ATAAA-TATATAA-ACATATAAAATTTATATAAA
1 ATAAATTAT-TAATACATATAAAATTTATATAAA
*
618469 ATAAATTATTAATACGTATAAAATTTATAATAAA
1 ATAAATTATTAATACATATAAAATTTAT-ATAAA
618503 TATATAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 8 0.27
33 17 0.57
34 5 0.17
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (33 bp):
ATAAATTATTAATACATATAAAATTTATATAAA
Found at i:618506 original size:18 final size:18
Alignment explanation
Indices: 618451--618506 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
618441 ATATATAAAC
618451 ATATAAAATTTAT-ATAA
1 ATATAAAATTTATAATAA
*
618468 A-AT-AAA-TTATTAATAC
1 ATATAAAATTTA-TAATAA
*
618484 GTATAAAATTTATAATAA
1 ATATAAAATTTATAATAA
618502 ATATA
1 ATATA
618507 TAATAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 5 0.17
17 3 0.10
18 12 0.40
19 3 0.10
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
ATATAAAATTTATAATAA
Found at i:620115 original size:16 final size:16
Alignment explanation
Indices: 620094--620128 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
620084 TAAAAAAATC
*
620094 AATAACTCGAATCTAA
1 AATAACTCGAAACTAA
620110 AATAACTCGAAACTAA
1 AATAACTCGAAACTAA
620126 AAT
1 AAT
620129 GACCCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (16 bp):
AATAACTCGAAACTAA
Found at i:620143 original size:16 final size:16
Alignment explanation
Indices: 620119--620163 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
620109 AAATAACTCG
620119 AAACT-AAAATGACCC
1 AAACTCAAAATGACCC
*
620134 AAATTCAAAATGACCC
1 AAACTCAAAATGACCC
* *
620150 GAACTCGAAATGAC
1 AAACTCAAAATGAC
620164 TCGAATTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (16 bp):
AAACTCAAAATGACCC
Found at i:620185 original size:16 final size:16
Alignment explanation
Indices: 620125--620185 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
620115 CTCGAAACTA
* *
620125 AAATGACCCAAATTCA
1 AAATGACCCGAATTCG
*
620141 AAATGACCCGAACTCG
1 AAATGACCCGAATTCG
* *
620157 AAATGACTCGAATTTG
1 AAATGACCCGAATTCG
*
620173 AAATAACCCGAAT
1 AAATGACCCGAAT
620186 CCAAAATGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (16 bp):
AAATGACCCGAATTCG
Found at i:620193 original size:32 final size:31
Alignment explanation
Indices: 620098--620194 Score: 86
Period size: 32 Copynumber: 3.0 Consensus size: 31
620088 AAAATCAATA
* * *
620098 ACTCGAATCTAAAATAACTCGAAACTAAAATG
1 ACTCGAATTTAAAATAACCCG-AACCAAAATG
* * * * *
620130 ACCCAAATTCAAAATGACCCGAACTCGAAATG
1 ACTCGAATTTAAAATAACCCGAAC-CAAAATG
*
620162 ACTCGAATTTGAAATAACCCGAATCCAAAATG
1 ACTCGAATTTAAAATAACCCGAA-CCAAAATG
620194 A
1 A
620195 TCTGAACTTA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
31 3 0.06
32 45 0.92
33 1 0.02
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (31 bp):
ACTCGAATTTAAAATAACCCGAACCAAAATG
Found at i:621229 original size:16 final size:16
Alignment explanation
Indices: 621200--621276 Score: 75
Period size: 16 Copynumber: 4.8 Consensus size: 16
621190 TATTAAACCC
* *
621200 GAAATAATCTGAATCT
1 GAAATGATCCGAATCT
*
621216 GAAATGATCCGAATCC
1 GAAATGATCCGAATCT
* * *
621232 GAAATAATCTGAACCT
1 GAAATGATCCGAATCT
*
621248 GAAGTGA-CTCGAATCT
1 GAAATGATC-CGAATCT
621264 GAAATGATCCGAA
1 GAAATGATCCGAA
621277 CTTAAAATGA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
15 1 0.02
16 45 0.96
17 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (16 bp):
GAAATGATCCGAATCT
Found at i:621239 original size:32 final size:30
Alignment explanation
Indices: 621198--621299 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 30
621188 AGTATTAAAC
621198 CCGAAATAATCTGAATCTGAAATGATCCGAAT
1 CCGAAATAATCTGAA-CTGAAATGA-CCGAAT
*
621230 CCGAAATAATCTGAACCTGAAGTGACTCGAAT
1 CCGAAATAATCTGAA-CTGAAATGAC-CGAAT
* * * * *
621262 CTGAAATGATCCGAACTTAAAATGACCCGAAC
1 CCGAAATAATCTGAAC-TGAAATGA-CCGAAT
621294 CCGAAA
1 CCGAAA
621300 ATAACTTAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
31 2 0.03
32 55 0.95
33 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (30 bp):
CCGAAATAATCTGAACTGAAATGACCGAAT
Found at i:626447 original size:21 final size:21
Alignment explanation
Indices: 626423--626468 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
626413 TTGATCAGTT
*
626423 TTAATATTAAATTTAATTAAA
1 TTAATATTAAATTTAAATAAA
* *
626444 TTAATTTTTAATTTAAATAAA
1 TTAATATTAAATTTAAATAAA
626465 TTAA
1 TTAA
626469 ATGAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATATTAAATTTAAATAAA
Found at i:626453 original size:16 final size:17
Alignment explanation
Indices: 626434--626466 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
626424 TAATATTAAA
*
626434 TTTAA-TTAAATTAATT
1 TTTAATTTAAATAAATT
626450 TTTAATTTAAATAAATT
1 TTTAATTTAAATAAATT
626467 AAATGAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTAATTTAAATAAATT
Found at i:628085 original size:20 final size:20
Alignment explanation
Indices: 628054--628128 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
628044 TTTTACATTG
*
628054 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
628074 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
628094 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
628114 ATGTATCGATACATT
1 ATGTATCGATACATT
628129 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:628098 original size:40 final size:39
Alignment explanation
Indices: 628054--628131 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
628044 TTTTACATTG
* *
628054 ATGTATCAATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTACAATATATCGATACAT-TATGA
* * *
628094 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCAATACATTCTACAATATATCGATACATTATG
628132 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.40
Consensus pattern (39 bp):
ATGTATCAATACATTCTACAATATATCGATACATTATGA
Found at i:629069 original size:22 final size:22
Alignment explanation
Indices: 629043--629097 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
629033 AGCCTTTGAC
629043 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
629065 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
629087 CATGCATTTTT
1 CATGCATTTTT
629098 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:629104 original size:20 final size:21
Alignment explanation
Indices: 629043--629104 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
629033 AGCCTTTGAC
**
629043 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
**
629065 CATGCATTTTTTTATTATGTTT
1 CATGCA-TTTTTTAACATGTTT
629087 CATGCA-TTTTTAACATGT
1 CATGCATTTTTTAACATGT
629105 CCAGCATCTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.26
22 28 0.74
ACGTcount: A:0.21, C:0.11, G:0.10, T:0.58
Consensus pattern (21 bp):
CATGCATTTTTTAACATGTTT
Found at i:641489 original size:12 final size:12
Alignment explanation
Indices: 641471--641529 Score: 73
Period size: 13 Copynumber: 4.7 Consensus size: 12
641461 CCTTTACACC
641471 CAAAAAAAACAAA
1 CAAAAAAAA-AAA
*
641484 AAAAAAAACAAAA
1 CAAAAAAA-AAAA
641497 CAAAACAAAAAAA
1 CAAAA-AAAAAAA
641510 CAAAAAAAAAAA
1 CAAAAAAAAAAA
*
641522 GAAAAAAA
1 CAAAAAAA
641530 TAGCAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
12 14 0.34
13 23 0.56
14 4 0.10
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:641508 original size:30 final size:31
Alignment explanation
Indices: 641473--641539 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
641463 TTTACACCCA
641473 AAAAAAACAAAAAAAAAAACAAAACAAA-A-C
1 AAAAAAACAAAAAAAAAAACAAAA-AAATAGC
*
641503 AAAAAAACAAAAAAAAAAAGAAAAAAATAGC
1 AAAAAAACAAAAAAAAAAACAAAAAAATAGC
641534 AAAAAA
1 AAAAAA
641540 TAGAAGGGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 3 0.09
30 24 0.71
31 7 0.21
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (31 bp):
AAAAAAACAAAAAAAAAAACAAAAAAATAGC
Found at i:641539 original size:1 final size:1
Alignment explanation
Indices: 641472--641529 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
641462 CTTTACACCC
* * * * * *
641472 AAAAAAAACAAAAAAAAAAACAAAACAAAACAAAAAAACAAAAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
641530 TAGCAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:642801 original size:29 final size:29
Alignment explanation
Indices: 642759--643690 Score: 1120
Period size: 28 Copynumber: 32.6 Consensus size: 29
642749 AATGTTCATC
642759 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
642788 CCTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
642817 CTTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
642845 CCTTTCAAAGCCCACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
642873 CCTTTCAAAGCCAACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
642902 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
642931 CTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
642960 CTTTTCAAAGCCTACAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
642988 CATTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
643017 CCTTTCAAAGCCCACAAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
** *
643046 TTTTTCAAAGCCCACAAATCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643075 CTTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
643103 CCTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643131 CCTTTCAGAGCCCACAAGTCAATGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643159 CCTTTCGAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * * * * *
643187 CATTGCGAAGCCCATAATTCAATGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643216 -CTTTCAAAGTCCGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643243 CCTTTTAAAGCCCACACAAGTTAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
* * * *
643274 CCTTTTAAAGCTCACGCAAGTTAGTGGTA--
1 CCTTTCAAAGC-C-CACAAGTCAGTGGCACT
* *
643303 CCTTTTAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
643332 -CTTTCAAAGCCCACAAGTCAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643359 CCTTTCAAAGCCCACGAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
643387 CCTTTCAAAGCCCACACAAGTCAGTGGCACT
1 CCTTTCAAAG-CC-CACAAGTCAGTGGCACT
643418 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* *
643448 CTTTTCAAAGCCCACGAGTCAGTGGCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
*
643477 -CTTTCAAAGCCCACAAGTTAGTGGCAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643504 CCTTTC-AAGCCCACGAGTCAGTGGTAC-
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643531 CTTTTCAAAGCCCACGAGTCAGTGGCA--
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
643558 CATTTCAAAGCCCATAAGTCAGTGTCACT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
* *
643587 -CTTTCAAAGCCCACGAGTTAGTGGCA-T
1 CCTTTCAAAGCCCACAAGTCAGTGGCACT
643614 CCTTTCAAAGCCCACGCAAGTCAGTGGCAC-
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
* **
643644 CCTTTTAAAGCCCACGCAAGTCAGTAACACT
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACT
*
643675 CTTTTCAAAGCCCACA
1 CCTTTCAAAGCCCACA
643691 TGTGTCAGTG
Statistics
Matches: 793, Mismatches: 83, Indels: 54
0.85 0.09 0.06
Matches are distributed among these distances:
27 59 0.07
28 359 0.45
29 232 0.29
30 82 0.10
31 61 0.08
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (29 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:643364 original size:144 final size:141
Alignment explanation
Indices: 642760--643690 Score: 1126
Period size: 144 Copynumber: 6.5 Consensus size: 141
642750 ATGTTCATCC
* *
642760 CTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
*
642825 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCAACAA
65 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
642890 GTCAGTGGCACT
130 GTCAGTGGCACT
* * *
642902 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCA
1 -CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCA
* *
642967 AAGCCTACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCAC
64 AAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCAC
643032 AAGTCAGTGGCACTT
128 AAGTCAGTGGCAC-T
* * * *
643047 TTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCC-TTTCAA
1 CTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * * *
643111 AGCCCACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAATGGCACCCTTTCGAAGCCCACAA
65 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAA
*
643176 GTTAGTGGCAC-
130 GTCAGTGGCACT
* * * * * * *
643187 CATTGCGAAGCCCATAATTCAATGGCA-CTCTTTCAAAGTCCGCAAGTCAGTGGCACCCTTTT-A
1 C-TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCA
* * * * * *
643250 AAGCCCACACAAGTTAGTGGCACTCCTTTTAAAGCTCACGCAAGTTAGTGGTA-CCTTTTAAAGC
64 AAG-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGC
*
643314 CCACGAGTCAGTGGCACT
124 CCACAAGTCAGTGGCACT
* *
643332 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACGAGTTAGTGGCACCC-TTTCAAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
*
643396 GCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACGCAAGTCAGTGGCACCTTTTCAAAGCCC
66 G-CC-CACAAGTCAGTGGCAC-CCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCC
*
643461 ACGAGTCAGTGGCACT
126 ACAAGTCAGTGGCACT
* * * *
643477 CTTTCAAAGCCCACAAGTTAGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGTA-CCTTTTCAAA
1 CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* * * * * *
643540 GCCCACGAGTCAGTGGCA-CATTTCAAAGCCCATAAGTCAGTGTCACTCTTTCAAAGCCCACGAG
66 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG
*
643604 TTAGTGGCA-T
131 TCAGTGGCACT
* * ** *
643614 CCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCACGCAAGTCAGTAACACTCTTT
1 -CTTTCAAAGCCCA--CAAGTCAGTGGCATCCTTTCAAAGCCCA--CAAGTCAGTGGCACCCTTT
643679 TCAAAGCCCACA
61 TCAAAGCCCACA
643691 TGTGTCAGTG
Statistics
Matches: 693, Mismatches: 71, Indels: 47
0.85 0.09 0.06
Matches are distributed among these distances:
137 1 0.00
138 49 0.07
139 1 0.00
140 60 0.09
141 32 0.05
142 57 0.08
143 185 0.27
144 236 0.34
145 72 0.10
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (141 bp):
CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG
TCAGTGGCACT
Found at i:644324 original size:20 final size:20
Alignment explanation
Indices: 644296--644370 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
644286 TTTTACCTTG
644296 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
644316 ATATATCGATAAATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
644336 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
644356 ATGTATCGATACATT
1 ATGTATCGATACATT
644371 ATGTCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:645318 original size:22 final size:22
Alignment explanation
Indices: 645285--645337 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
645275 GCCTTTGACT
645285 ATGCA-TTTTTTATTATGTTTC
1 ATGCATTTTTTTATTATGTTTC
645306 ATGCATTTTTTTATTATGTTTC
1 ATGCATTTTTTTATTATGTTTC
645328 ATGCATTTTT
1 ATGCATTTTT
645338 AACATGTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.62
Consensus pattern (22 bp):
ATGCATTTTTTTATTATGTTTC
Found at i:648595 original size:2 final size:2
Alignment explanation
Indices: 648588--648617 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
648578 TTCGAGGGTT
*
648588 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
648618 AAATTGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:649299 original size:20 final size:22
Alignment explanation
Indices: 649267--649322 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
649257 AAAGTGAAAA
649267 ATTTTTCATGTAAAAAG-TGAAT
1 ATTTTTCA-GTAAAAAGCTGAAT
649289 -TTTTTCAGT--AAAGCTGAAT
1 ATTTTTCAGTAAAAAGCTGAAT
*
649308 ATTTTTAAGTAAAAA
1 ATTTTTCAGTAAAAA
649323 ATAGATATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.14
19 5 0.17
20 10 0.34
21 7 0.24
22 3 0.10
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (22 bp):
ATTTTTCAGTAAAAAGCTGAAT
Found at i:650561 original size:17 final size:18
Alignment explanation
Indices: 650541--650584 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
650531 AATATTACCT
*
650541 TTATTTTTTTA-TTTTAA
1 TTATTATTTTATTTTTAA
650558 TTATTATTTTATTTTTAA
1 TTATTATTTTATTTTTAA
650576 TTCATTATT
1 TT-ATTATT
650585 AGAGAAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 10 0.42
18 8 0.33
19 6 0.25
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTATTTTATTTTTAA
Found at i:651508 original size:22 final size:22
Alignment explanation
Indices: 651483--651524 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
651473 ATTAGATATT
*
651483 ATTTTTAAAATAATTTTTACGA
1 ATTTATAAAATAATTTTTACGA
* *
651505 ATTTATGAAATATTTTTTAC
1 ATTTATAAAATAATTTTTAC
651525 AAACTAGTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (22 bp):
ATTTATAAAATAATTTTTACGA
Found at i:656381 original size:79 final size:79
Alignment explanation
Indices: 656250--656530 Score: 246
Period size: 79 Copynumber: 3.5 Consensus size: 79
656240 ATTTCTGAGA
* * * ** *
656250 GGATACTCCAACCCCATCGATT-TCGAGGCGATGCTTAAACCTCGTTTTTATTTTTAAAATATTA
1 GGATACTCCAACCCCATCAATTCT-GAGGAGATACTCCAATCTCGTTTTTATTTTTAAAATATTA
* *
656314 AAATTTTCATTTTGG
65 AATTTTTCATCTTGG
* **
656329 GGATACTCTAACCCCATCAATTCTGAGGAGATACTCCAATCTCGTTTTTATTTCCAAAATATTAA
1 GGATACTCCAACCCCATCAATTCTGAGGAGATACTCCAATCTCGTTTTTATTTTTAAAATATTAA
* *
656394 TTTTTTTTATCTTGG
66 -ATTTTTCATCTTGG
* * * * * * *
656409 GAATATTCCAACCCCAACCCATTATTTCTAAAGAGATATTTCAAT-TCCG-TTTTATTTTTAAAA
1 GGATACTCCAACCCC-A-TCA--A-TTCTGAGGAGATACTCCAATCT-CGTTTTTATTTTTAAAA
*
656472 TATTAAATTTTTCATCTTAG
60 TATTAAATTTTTCATCTTGG
* *
656492 GGATACTCCAACCTCATCAATTCGGATGG-GATACTCCAA
1 GGATACTCCAACCCCATCAATTCTGA-GGAGATACTCCAA
656531 CCCTGCTCTT
Statistics
Matches: 158, Mismatches: 35, Indels: 19
0.75 0.17 0.09
Matches are distributed among these distances:
78 12 0.08
79 56 0.35
80 23 0.15
81 3 0.02
82 3 0.02
83 23 0.15
84 20 0.13
85 18 0.11
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (79 bp):
GGATACTCCAACCCCATCAATTCTGAGGAGATACTCCAATCTCGTTTTTATTTTTAAAATATTAA
ATTTTTCATCTTGG
Found at i:659874 original size:200 final size:201
Alignment explanation
Indices: 659521--659917 Score: 618
Period size: 200 Copynumber: 2.0 Consensus size: 201
659511 TATCATGAAG
* *
659521 AATTATGTAAGTTGTCTTACTATCCACTAAACCTATGTCATCTTTTATAATATCTAAGTTCATTT
1 AATTATGTAAGTTGTCCTACTATCCACTAAACATATGTCATCTTTTATAATATCTAAGTTCATTT
* * * * *
659586 TGCATTATTTTGTAACATAAGATATAATACTAAGAATTAGAACATGATAACAAATTGGAAATATG
66 TGCATTATCTAGTAACACAAAATATAATACTAAGAATTAGAACATGATAACAAATTAGAAATATG
* * *
659651 CAAGATATTATTAAACATATTATAAGTAAAA-TTTCAATAAAAATTATATATGATAATTCTATAA
131 CAAGATATTATTAAACATATTATAAGTAAAACTTT-AATAAAAAATACATATGATAATTCCATAA
659715 ACAAAAC
195 ACAAAAC
* * * *
659722 AATTGTGTGAGTTGTCCTACTATCTACTAAACATATGTCATCTTTTATAATATC-AAGTTTATTT
1 AATTATGTAAGTTGTCCTACTATCCACTAAACATATGTCATCTTTTATAATATCTAAGTTCATTT
* *
659786 TGCATTCTCTAGTAACACAAAATATAATATTAAGAATTAGAACATGATAACAAATTAGAAATATG
66 TGCATTATCTAGTAACACAAAATATAATACTAAGAATTAGAACATGATAACAAATTAGAAATATG
*
659851 CAAGATATTATTAGACATATTATAAGTAAAACTTTAATAAAAAATACATATGATAATTCCATAAA
131 CAAGATATTATTAAACATATTATAAGTAAAACTTTAATAAAAAATACATATGATAATTCCATAAA
659916 CA
196 CA
659918 TAAAAAAATT
Statistics
Matches: 178, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
200 126 0.71
201 52 0.29
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (201 bp):
AATTATGTAAGTTGTCCTACTATCCACTAAACATATGTCATCTTTTATAATATCTAAGTTCATTT
TGCATTATCTAGTAACACAAAATATAATACTAAGAATTAGAACATGATAACAAATTAGAAATATG
CAAGATATTATTAAACATATTATAAGTAAAACTTTAATAAAAAATACATATGATAATTCCATAAA
CAAAAC
Found at i:663258 original size:30 final size:31
Alignment explanation
Indices: 663224--663289 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
663214 TAATATTTTT
* *
663224 ATATTTTTAAATAATATAAT-AAAT-TTATAA
1 ATATTTATAAATAAAATAATAAAATATTA-AA
*
663254 ATATTTATAAATAAAATATTAAAATATTAAA
1 ATATTTATAAATAAAATAATAAAATATTAAA
663285 ATATT
1 ATATT
663290 AATTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.55
31 11 0.35
32 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
ATATTTATAAATAAAATAATAAAATATTAAA
Found at i:663278 original size:8 final size:8
Alignment explanation
Indices: 663265--663291 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
663255 TATTTATAAA
663265 TAAAATAT
1 TAAAATAT
663273 TAAAATAT
1 TAAAATAT
663281 TAAAATAT
1 TAAAATAT
663289 TAA
1 TAA
663292 TTTAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAAATAT
Found at i:663676 original size:26 final size:26
Alignment explanation
Indices: 663609--663676 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
663599 TGATTTAATT
663609 TATATTATT-ATTTAATTAATAAAAA
1 TATATTATTAATTTAATTAATAAAAA
*
663634 TAT-TTTTTAAATTTAATT-ATAAAAA
1 TATATTATT-AATTTAATTAATAAAAA
*
663659 TATAGTTATTAATATAAT
1 TATA-TTATTAATTTAAT
663677 AAATTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 4 0.11
25 13 0.36
26 15 0.42
27 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (26 bp):
TATATTATTAATTTAATTAATAAAAA
Found at i:663907 original size:2 final size:2
Alignment explanation
Indices: 663900--663927 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
663890 TAAATATTAC
663900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
663928 CCATTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:665033 original size:15 final size:15
Alignment explanation
Indices: 665013--665045 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
665003 GAGTTAATTT
665013 TTATAAATTCAAATA
1 TTATAAATTCAAATA
*
665028 TTATAAATTTAAATA
1 TTATAAATTCAAATA
665043 TTA
1 TTA
665046 ATTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATAAATTCAAATA
Found at i:665612 original size:24 final size:24
Alignment explanation
Indices: 665576--665624 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
665566 TCATGTCAAG
*
665576 TTTATATTATTTTTTGTGTTATAT
1 TTTATATTATTTTTTATGTTATAT
*
665600 TTTA-ATTATTTTTTTATGTTTTAT
1 TTTATATTA-TTTTTTATGTTATAT
665624 T
1 T
665625 CGTATTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTATATTATTTTTTATGTTATAT
Found at i:668124 original size:52 final size:51
Alignment explanation
Indices: 668008--668146 Score: 156
Period size: 52 Copynumber: 2.7 Consensus size: 51
667998 TCTGGAATGA
* * * *
668008 AAATGTATCGATACATTTTTTATTGTATCAATATATTTTGAGTTTTGACCC
1 AAATGTATCGATATATTTTTTATTGTATCGATACATTTAGAGTTTTGACCC
*
668059 AAATGTATCGATATATTTTTTATTGTATCGATACATTCTAG-GCTTTT-AGCCT
1 AAATGTATCGATATATTTTTTATTGTATCGATACATT-TAGAG-TTTTGA-CCC
* * * *
668111 AAATGTATGGATATATTCTTCAATGTATCGATACAT
1 AAATGTATCGATATATTTTTTATTGTATCGATACAT
668147 CCAATTAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
51 36 0.47
52 40 0.53
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (51 bp):
AAATGTATCGATATATTTTTTATTGTATCGATACATTTAGAGTTTTGACCC
Found at i:669999 original size:22 final size:22
Alignment explanation
Indices: 669956--669999 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
669946 TTTGGCCCAC
669956 TAAATGATTTTCCCAAAATTTT
1 TAAATGATTTTCCCAAAATTTT
* *
669978 TAAAT-ATTTTCCCTAAACTTT
1 TAAATGATTTTCCCAAAATTTT
669999 T
1 T
670000 CACAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (22 bp):
TAAATGATTTTCCCAAAATTTT
Found at i:670595 original size:30 final size:31
Alignment explanation
Indices: 670559--670619 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
670549 ACCTTTCTTA
670559 AAGTCCACAACTCAGTGGCAT-CTATTTTCC
1 AAGTCCACAACTCAGTGGCATCCTATTTTCC
** * *
670589 AAGTCCATGACTTAGTGGCATCCTTTTTTCC
1 AAGTCCACAACTCAGTGGCATCCTATTTTCC
670620 TTCAAAGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (31 bp):
AAGTCCACAACTCAGTGGCATCCTATTTTCC
Found at i:670629 original size:35 final size:33
Alignment explanation
Indices: 670589--670664 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 33
670579 TCTATTTTCC
*
670589 AAGTCCATGACTTAGTGGCATCCTTTTTTCCTTCA
1 AAGTCCATGACCTAGTGGCATCC-TTTTT-CTTCA
* *
670624 AAGTCCACGACCTAGTGGCATTCTTTTTCTTCA
1 AAGTCCATGACCTAGTGGCATCCTTTTTCTTCA
*
670657 AAGCCCAT
1 AAGTCCAT
670665 ACAAGTTAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 11 0.31
34 5 0.14
35 20 0.56
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (33 bp):
AAGTCCATGACCTAGTGGCATCCTTTTTCTTCA
Found at i:670774 original size:32 final size:32
Alignment explanation
Indices: 670651--671463 Score: 520
Period size: 31 Copynumber: 25.3 Consensus size: 32
670641 GCATTCTTTT
*
670651 TCTTC-AAAGCCCATACAAGTTAGG-GGCAACC
1 TCTTCTAAAGCCCACACAAGTT-GGTGGCAACC
* * * * ** *
670682 CCTTCTAAAGCTCACATAAGTCGGCAGTAACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * * **
670714 ATTTTC-AAAGGCCATACAAGTTAATGGCAACC
1 -TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * *
670746 TCTTCTAAAGCCTATACAAGTTGGTGGCAATC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* *
670778 TCTTCTACAGCCCACAAAAGTTGGTGGCAAACCCC
1 TCTTCTAAAGCCCACACAAGTTGGTGGC-AA--CC
* * * *
670813 TTTTCTAAAGCCCACACAAGTTAGTGACACCC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * *
670845 T-TTCTAAAGCTCACACAAGTCGATGGCAACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
*
670876 -CTTCTCTAAAACCCACACAAGTTGGTGGCAACCC
1 TC-T-TCTAAAGCCCACACAAGTTGGTGGCAA-CC
* *
670910 CCTT-TAAAGCCCATACAAGTTGGTGGCAACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * *
670941 ACCTTTCTAAAGCCCACACAAGTCGGTGGCACCC
1 -TC-TTCTAAAGCCCACACAAGTTGGTGGCAACC
* *
670975 T-TTCTAAAGCCCACACAAGTCGGTGGC-AGC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* *
671005 -CTTCTCAAAGCCCACAAAAGTTAGTGGCAACC
1 TCTTCT-AAAGCCCACACAAGTTGGTGGCAACC
**
671037 -CTTCTCTAAAGCCCACACAAGTTGGCAGCAACC
1 TC-T-TCTAAAGCCCACACAAGTTGGTGGCAACC
* *
671070 TCCTCTGAAGCCCACACAAGTTGGTGGCAACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* **
671102 ATCTTTCTAAAGCCCACACAAGTCGGTGG-TGCC
1 -TC-TTCTAAAGCCCACACAAGTTGGTGGCAACC
* * * *
671135 CCTTCTAAAGCCAACACAAGTCGGTGACAA-C
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * * *
671166 -CTTCTCAAAGCCCACATAACTCGGTGG-AAAC
1 TCTTCT-AAAGCCCACACAAGTTGGTGGCAACC
* * ** *
671197 TTTCTCTAAAGCCCACATAAGTTGACGACAACC
1 TCT-TCTAAAGCCCACACAAGTTGGTGGCAACC
* *
671230 TCCTT-TAAAACTCACACAAGTTGGTGGCAATCC
1 T-CTTCTAAAGCCCACACAAGTTGGTGGCAA-CC
* * * * * *
671263 CCTTTCTAAAGCCCACACAAGTCGATGACATCA
1 TC-TTCTAAAGCCCACACAAGTTGGTGGCAACC
* * * *
671296 T-TTTTAAAGCCAACATAAGTCGGTGGCAACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * **
671327 TTTTC-AAAGCTCACACAAGCCGGTGGCAACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
* * **
671358 -CTTCTCTAAAACCTC-CA-TAGTCCGT-GCAACC
1 TC-T-TCTAAAGCC-CACACAAGTTGGTGGCAACC
671389 TACTT-TAAAGCCCACACAAGTTGGTGGCAACCCC
1 T-CTTCTAAAGCCCACACAAGTTGGTGGCAA--CC
* * *
671423 TTTTCTAAAGCCCACACAAGTCGGTAGC-ACC
1 TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
*
671454 CCTTCTAAAG
1 TCTTCTAAAG
671464 TTTATTCAAG
Statistics
Matches: 606, Mismatches: 130, Indels: 92
0.73 0.16 0.11
Matches are distributed among these distances:
29 1 0.00
30 20 0.03
31 192 0.32
32 188 0.31
33 81 0.13
34 99 0.16
35 25 0.04
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (32 bp):
TCTTCTAAAGCCCACACAAGTTGGTGGCAACC
Found at i:671054 original size:161 final size:160
Alignment explanation
Indices: 670720--671547 Score: 794
Period size: 161 Copynumber: 5.1 Consensus size: 160
670710 AACCATTTTC
* * ** * * * *
670720 AAAGGCCATACAAGTTAATGGCAACCT-CTTCTAAAGCCTATACAAGTTGGTGGCAATCTC-TTC
1 AAAGCCCACACAAGTTGGTGGCAACCTCCTT-TAAAGCCCACACAAGTTGGTGGCAACCCCTTTC
* * * * ** *
670783 TACAGCCCACAAAAGTTGGTGGCAAACCCCTTTTCTAAAGCCCACACAAGTTAGTGACACCCTT-
65 TAAAGCCCACACAAGTCGGTGGC--A-CCC-TTTCTAAAGCCAACACAAGTCGGTGACAACCTTC
*
670847 TCTAAAGCTCACACAAGTC-GATGGCAACCCTTCTCT
126 TC-AAAGCCCACACAAGTCAG-TGGCAACCCTTCTCT
* * *
670883 AAAACCCACACAAGTTGGTGGCAACCCCCTTTAAAGCCCATACAAGTTGGTGGCAACCACCTTTC
1 AAAGCCCACACAAGTTGGTGGCAACCTCCTTTAAAGCCCACACAAGTTGGTGGCAACC-CCTTTC
* * *
670948 TAAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCCACACAAGTCGGTGGCAGCCTTCTCAA
65 TAAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAA
* *
671013 AGCCCACAAAAGTTAGTGGCAACCCTTCTCT
130 AGCCCACACAAGTCAGTGGCAACCCTTCTCT
** * * *
671044 AAAGCCCACACAAGTTGGCAGCAACCTCCTCTGAAGCCCACACAAGTTGGTGGCAACCATCTTTC
1 AAAGCCCACACAAGTTGGTGGCAACCTCCTTTAAAGCCCACACAAGTTGGTGGCAACC-CCTTTC
** *
671109 TAAAGCCCACACAAGTCGGTGGTGCCCCTTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAA
65 TAAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAA
* * * * *
671174 AGCCCACATAACTCGGTGG-AAACTTTCTCT
130 AGCCCACACAAGTCAGTGGCAACCCTTCTCT
* ** * * *
671204 AAAGCCCACATAAGTTGACGACAACCTCCTTTAAAACTCACACAAGTTGGTGGCAATCCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCAACCTCCTTTAAAGCCCACACAAGTTGGTGGCAA-CCCCTTTC
* * * * * * * *
671269 TAAAGCCCACACAAGTCGATGACATCATTTTTAAAGCCAACATAAGTCGGTGGCAACCTTTTCAA
65 TAAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAA
* * *
671334 AGCTCACACAAGCCGGTGGCAACCCTTCTCT
130 AGCCCACACAAGTCAGTGGCAACCCTTCTCT
* * ** *
671365 AAAACCTC-CA-TAGTCCGT-GCAACCTACTTTAAAGCCCACACAAGTTGGTGGCAACCCCTTTT
1 AAAGCC-CACACAAGTTGGTGGCAACCTCCTTTAAAGCCCACACAAGTTGGTGGCAACCCC-TTT
* * *** ** * * *
671427 CTAAAGCCCACACAAGTCGGTAGCACCCCTTCTAAAGTTTATTCAAGTCAGTGATAGCCCCATTC
64 CTAAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCAACACAAGTCGGTGACA--ACC-TTC
* * *
671492 -AAAAGCCCATACAAGTCAGTGGCAACCCTT-TCA
126 TCAAAGCCCACACAAGTCAGTGGCAACCCTTCTCT
*
671525 AAAGCCCACATAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
671548 TTTCTTTTTA
Statistics
Matches: 547, Mismatches: 103, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
158 4 0.01
159 76 0.14
160 143 0.26
161 238 0.44
162 12 0.02
163 47 0.09
164 4 0.01
165 23 0.04
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (160 bp):
AAAGCCCACACAAGTTGGTGGCAACCTCCTTTAAAGCCCACACAAGTTGGTGGCAACCCCTTTCT
AAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAAA
GCCCACACAAGTCAGTGGCAACCCTTCTCT
Found at i:671190 original size:31 final size:32
Alignment explanation
Indices: 670738--671447 Score: 521
Period size: 31 Copynumber: 22.0 Consensus size: 32
670728 TACAAGTTAA
* * *
670738 TGGCAACC-TCTTCTAAAGCCTATACAAGTTGG
1 TGGCAACCTTC-TCTAAAGCCCACACAAGTCGG
* * * *
670770 TGGCAATC-TCTTCTACAGCCCACAAAAGTTGG
1 TGGCAACCTTC-TCTAAAGCCCACACAAGTCGG
* **
670802 TGGCAAACCCCTTTTCTAAAGCCCACACAAGTTAG
1 TGGC-AA--CCTTCTCTAAAGCCCACACAAGTCGG
* * * *
670837 TGACACCCTT-TCTAAAGCTCACACAAGTCGA
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* *
670868 TGGCAACCCTTCTCTAAAACCCACACAAGTTGG
1 TGGCAA-CCTTCTCTAAAGCCCACACAAGTCGG
** * * *
670901 TGGCAACCCCCTTTAAAGCCCATACAAGTTGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
670933 TGGCAACCACCTT-TCTAAAGCCCACACAAGTCGG
1 TGGC-A--ACCTTCTCTAAAGCCCACACAAGTCGG
*
670967 TGGCACCCTT-TCTAAAGCCCACACAAGTCGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* * **
670998 TGGCAGCCTTCTC-AAAGCCCACAAAAGTTAG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
*
671029 TGGCAACCCTTCTCTAAAGCCCACACAAGTTGG
1 TGGCAA-CCTTCTCTAAAGCCCACACAAGTCGG
** * * *
671062 CAGCAACCTCCTCTGAAGCCCACACAAGTTGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
*
671094 TGGCAACCATCTTTCTAAAGCCCACACAAGTCGG
1 TGGCAACC-T-TCTCTAAAGCCCACACAAGTCGG
*** * *
671128 TGGTGCCCCT-TCTAAAGCCAACACAAGTCGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* * *
671159 TGACAACCTTCTC-AAAGCCCACATAACTCGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* * * * *
671190 TGGAAACTTTCTCTAAAGCCCACATAAGTTGA
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* * * * * * *
671222 CGACAACCTCCTTTAAAACTCACACAAGTTGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
*
671254 TGGCAATCCCCTT-TCTAAAGCCCACACAAGTCGA
1 TGGCAA---CCTTCTCTAAAGCCCACACAAGTCGG
* * * * * *
671288 TGACATCATT-TTTAAAGCCAACATAAGTCGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* * *
671319 TGGCAACCTTTTC-AAAGCTCACACAAGCCGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
* * *
671350 TGGCAACCCTTCTCTAAAACCTC-CA-TAGTCCG
1 TGGCAA-CCTTCTCTAAAGCC-CACACAAGTCGG
* * *
671382 T-GCAACCTACTTTAAAGCCCACACAAGTTGG
1 TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
*
671413 TGGCAACCCCTTTTCTAAAGCCCACACAAGTCGG
1 TGGCAA--CCTTCTCTAAAGCCCACACAAGTCGG
671447 T
1 T
671448 AGCACCCCTT
Statistics
Matches: 532, Mismatches: 118, Indels: 54
0.76 0.17 0.08
Matches are distributed among these distances:
29 1 0.00
30 13 0.02
31 181 0.34
32 163 0.31
33 54 0.10
34 91 0.17
35 28 0.05
36 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (32 bp):
TGGCAACCTTCTCTAAAGCCCACACAAGTCGG
Found at i:671368 original size:129 final size:127
Alignment explanation
Indices: 670946--671370 Score: 321
Period size: 129 Copynumber: 3.3 Consensus size: 127
670936 CAACCACCTT
* * *
670946 TCTAAAGCCCACACAAGTCGGTGGC-ACCCTT-TCTAAAGCCCACACAAGTCGGT-G-GCAGCCT
1 TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAACCCACACAAGTCGGTGGTGC-CCCT
* * * * * * * * * ** * *
671007 TCTCAAAGCCCACAAAAGT-TAGTGGCAACCCTTCTCTAAAGCCCACACAAGTTGGCAGCAACCT
65 TCT-AAAGCCAACACAAGTCGA-TGACAA-CATTCTC-AAAGCCAACATAACTCGGTGGAAACTT
*
671071 CC
126 TC
* *
671073 TCTGAAGCCCACACAAGTTGGTGGCAACCATCTT-TCTAAAGCCCACACAAGTCGGTGGTGCCCC
1 TCTAAAGCCCACACAAGTTGGTGGCAACC--CTTCTCTAAAACCCACACAAGTCGGTGGTGCCCC
* * *
671137 TTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAAAGCCCACATAACTCGGTGGAAACTTTC
64 TTCTAAAGCCAACACAAGTCGATGACAACATTCTCAAAGCCAACATAACTCGGTGGAAACTTTC
* ** * * * * *
671201 TCTAAAGCCCACATAAGTTGACGACAA-CCTCCTTTAAAACTCACACAAGTTGGTGGCAAT-CCC
1 TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAACCCACACAAGTCGGTGG---TGCCC
* * * * * *
671264 CTTTCTAAAGCCCACACAAGTCGATGACATCATTTTTAAAGCCAACATAAGTCGGTGGCAACCTT
63 C-TTCTAAAGCCAACACAAGTCGATGACAACATTCTCAAAGCCAACATAACTCGGTGG-AAACTT
671329 T-
126 TC
* **
671330 TC-AAAGCTCACACAAGCCGGTGGCAACCCTTCTCTAAAACC
1 TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAACC
671371 TCCATAGTCC
Statistics
Matches: 240, Mismatches: 45, Indels: 24
0.78 0.15 0.08
Matches are distributed among these distances:
125 2 0.01
126 20 0.08
127 24 0.10
128 67 0.28
129 69 0.29
130 49 0.20
131 7 0.03
132 2 0.01
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (127 bp):
TCTAAAGCCCACACAAGTTGGTGGCAACCCTTCTCTAAAACCCACACAAGTCGGTGGTGCCCCTT
CTAAAGCCAACACAAGTCGATGACAACATTCTCAAAGCCAACATAACTCGGTGGAAACTTTC
Found at i:671499 original size:321 final size:322
Alignment explanation
Indices: 670740--671541 Score: 820
Period size: 321 Copynumber: 2.5 Consensus size: 322
670730 CAAGTTAATG
* * * * * *
670740 GCAACCT-CTTCTAAAGCCTATACAAGTTGGTGGCAATC-TC-TTCTACAGCCCACAAAAGTTGG
1 GCAACCTAC-TCTAAAGCCCACACAAGTTGGTGGCAACCATCTTTCTAAAGCCCACACAAGTCGG
* * * * * *
670802 TGGCAAACCCCTTTTCTAAAGCCCACACAAGTTAGTGACACCCTTTCT-AAAGCTCACACAAGTC
65 TAGC--ACCCC--TTCTAAAGCCAACACAAGTCAGTGACAACC-TTCTAAAAGCCCACACAACTC
* * * ** * * *
670866 -GATGGCAACCCTTCTCTAAAACCCACACAAGTTGGTGGCAACCCCCTTTAAAGCCCATACAAGT
125 AG-TGGCAAACCTTCTCTAAAGCCCACATAAGTTGACGACAACCCCCTTTAAAACCCACACAAGT
* * * *
670930 TGGTGGCAACCACCTTTCTAAAGCCCACACAAGTCGGTGGCACCCTTTCTAAAGCCCACACAAGT
189 TGGTGGCAACCACCTTTCTAAAGCCCACACAAGTCGATGACACCATTTCTAAAGCCAACACAAGT
* ** * *
670995 CGGTGGCAGCCTTCTCAAAGCCCACAAAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTT
254 CGGTGGCAACCTTCTCAAAGCCCACAAAAGCCAGTGGCAACCCTTCTCTAAAACCCACACAAGTC
*
671060 GGCA
319 CGCA
* *
671064 GCAACCTCCTCTGAAGCCCACACAAGTTGGTGGCAACCATCTTTCTAAAGCCCACACAAGTCGGT
1 GCAACCTACTCTAAAGCCCACACAAGTTGGTGGCAACCATCTTTCTAAAGCCCACACAAGTCGGT
* ** * * * *
671129 GGTGCCCCTTCTAAAGCCAACACAAGTCGGTGACAACCTTCTCAAAGCCCACATAACTCGGTGG-
66 AGCACCCCTTCTAAAGCCAACACAAGTCAGTGACAACCTTCTAAAAGCCCACACAACTCAGTGGC
* * *
671193 AAACTTTCTCTAAAGCCCACATAAGTTGACGACAACCTCCTTTAAAACTCACACAAGTTGGTGGC
131 AAACCTTCTCTAAAGCCCACATAAGTTGACGACAACCCCCTTTAAAACCCACACAAGTTGGTGGC
* * *
671258 AATCC-CCTTTCTAAAGCCCACACAAGTCGATGACATCATTTTTAAAGCCAACATAAGTCGGTGG
196 AA-CCACCTTTCTAAAGCCCACACAAGTCGATGACACCATTTCTAAAGCCAACACAAGTCGGTGG
* * * * * *
671322 CAACCTTTTCAAAGCTCACACAAGCCGGTGGCAACCCTTCTCTAAAACCTC-CA-TAGTCCG-T
260 CAACCTTCTCAAAGCCCACAAAAGCCAGTGGCAACCCTTCTCTAAAACC-CACACAAGTCCGCA
* *
671383 GCAACCTACTTTAAAGCCCACACAAGTTGGTGGCAACC-CCTTTTCTAAAGCCCACACAAGTCGG
1 GCAACCTACTCTAAAGCCCACACAAGTTGGTGGCAACCATC-TTTCTAAAGCCCACACAAGTCGG
*** ** * * * *
671447 TAGCACCCCTTCTAAAGTTTATTCAAGTCAGTGATAGCCCCATTC-AAAAGCCCATACAAGTCAG
65 TAGCACCCCTTCTAAAGCCAACACAAGTCAGTGACA--ACC-TTCTAAAAGCCCACACAACTCAG
* *
671511 TGGCAACCCTT-TCAAAAGCCCACATAAGTTG
127 TGGCAAACCTTCTCTAAAGCCCACATAAGTTG
671542 GTGGCATTTC
Statistics
Matches: 397, Mismatches: 69, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
318 1 0.00
319 84 0.21
320 4 0.01
321 193 0.49
322 53 0.13
323 1 0.00
324 36 0.09
325 3 0.01
326 22 0.06
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (322 bp):
GCAACCTACTCTAAAGCCCACACAAGTTGGTGGCAACCATCTTTCTAAAGCCCACACAAGTCGGT
AGCACCCCTTCTAAAGCCAACACAAGTCAGTGACAACCTTCTAAAAGCCCACACAACTCAGTGGC
AAACCTTCTCTAAAGCCCACATAAGTTGACGACAACCCCCTTTAAAACCCACACAAGTTGGTGGC
AACCACCTTTCTAAAGCCCACACAAGTCGATGACACCATTTCTAAAGCCAACACAAGTCGGTGGC
AACCTTCTCAAAGCCCACAAAAGCCAGTGGCAACCCTTCTCTAAAACCCACACAAGTCCGCA
Found at i:671546 original size:32 final size:32
Alignment explanation
Indices: 670656--671547 Score: 552
Period size: 32 Copynumber: 27.7 Consensus size: 32
670646 CTTTTTCTTC
* * *
670656 AAAGCCCATACAAGTTAGG-GGCAACCCCTTCT
1 AAAGCCCACACAAG-TCGGTGGCAACCCTTTCT
* * ** * *
670688 AAAGCTCACATAAGTCGGCAGTAACCATTT-T
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* * ***
670719 CAAAGGCCATACAAGTTAATGGCAA-CCTCTTCT
1 -AAAGCCCACACAAGTCGGTGGCAACCCT-TTCT
* * * *
670752 AAAGCCTATACAAGTTGGTGGCAA-TCTCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCT-TTCT
* * *
670784 ACAGCCCACAAAAGTTGGTGGCAAACCCCTTTTCT
1 AAAGCCCACACAAGTCGGTGGC-AA-CCC-TTTCT
** *
670819 AAAGCCCACACAAGTTAGTGAC-ACCCTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* *
670850 AAAGCTCACACAAGTCGATGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TCT
* * *
670883 AAAACCCACACAAGTTGGTGGCAACCCCCTT-T
1 AAAGCCCACACAAGTCGGTGGCAA-CCCTTTCT
* *
670915 AAAGCCCATACAAGTTGGTGGCAACCACCTTTCT
1 AAAGCCCACACAAGTCGGTGGCAA-C-CCTTTCT
670949 AAAGCCCACACAAGTCGGTGGC-ACCCTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
*
670980 AAAGCCCACACAAGTCGGTGGC-AGCC-TTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* **
671010 CAAAGCCCACAAAAGTTAGTGGCAACCCTTCTCT
1 -AAAGCCCACACAAGTCGGTGGCAACCCTT-TCT
* ** *
671044 AAAGCCCACACAAGTTGGCAGCAA-CCTCCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCT-TTCT
* *
671076 GAAGCCCACACAAGTTGGTGGCAACCATCTTTCT
1 AAAGCCCACACAAGTCGGTGGCAACC--CTTTCT
** *
671110 AAAGCCCACACAAGTCGGTGG-TGCCCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* *
671141 AAAGCCAACACAAGTCGGTGACAA-CC-TTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* * * *
671171 CAAAGCCCACATAACTCGGTGG-AAACTTTCTCT
1 -AAAGCCCACACAAGTCGGTGGCAACCCTT-TCT
* * ** * *
671204 AAAGCCCACATAAGTTGACGACAACCTCCTT-T
1 AAAGCCCACACAAGTCGGTGGCAACC-CTTTCT
* * *
671236 AAAACTCACACAAGTTGGTGGCAATCCCCTTTCT
1 AAAGCCCACACAAGTCGGTGGCAA--CCCTTTCT
* * * * *
671270 AAAGCCCACACAAGTCGATGAC-ATCATTTTT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* * *
671301 AAAGCCAACATAAGTCGGTGGCAACCTTTTC-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* *
671332 AAAGCTCACACAAGCCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTT-TCT
* * *
671365 AAAACCTC-CA-TAGTCCGT-GCAA-CCTACTT-T
1 AAAGCC-CACACAAGTCGGTGGCAACCCT--TTCT
*
671395 AAAGCCCACACAAGTTGGTGGCAACCCCTTTTCT
1 AAAGCCCACACAAGTCGGTGGCAA-CCC-TTTCT
* *
671429 AAAGCCCACACAAGTCGGTAGC-ACCCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
*** ** * ** * * *
671460 AAAGTTTATTCAAGTCAGTGATAGCCCCATTCA
1 AAAGCCCACACAAGTCGGTGGCA-ACCCTTTCT
* * *
671493 AAAGCCCATACAAGTCAGTGGCAACCCTTTCA
1 AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
* *
671525 AAAGCCCACATAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
671548 TTTCTTTTTA
Statistics
Matches: 667, Mismatches: 147, Indels: 92
0.74 0.16 0.10
Matches are distributed among these distances:
29 1 0.00
30 21 0.03
31 197 0.30
32 226 0.34
33 100 0.15
34 95 0.14
35 26 0.04
36 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTTCT
Found at i:671732 original size:52 final size:53
Alignment explanation
Indices: 671632--671758 Score: 132
Period size: 52 Copynumber: 2.4 Consensus size: 53
671622 AATTTTGTTG
* * * *
671632 GCCTTGAATTAGCACATTAGCACATTTTTCTTTCTTTAAGTCTAATATCGCTA
1 GCCTTGAATTAGCATATCAGCACATTTGTCTATCTTTAAGTCTAATATCGCTA
* * * * *
671685 GCCTTGAATTAGCATATCGGCACCTTTGT-TATCTTTAAGT-TCGATATCGTTG
1 GCCTTGAATTAGCATATCAGCACATTTGTCTATCTTTAAGTCT-AATATCGCTA
* *
671737 GCCTTGAATAAGCATATTAGCA
1 GCCTTGAATTAGCATATCAGCA
671759 TTTTTATCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
51 1 0.02
52 36 0.59
53 24 0.39
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (53 bp):
GCCTTGAATTAGCATATCAGCACATTTGTCTATCTTTAAGTCTAATATCGCTA
Found at i:672547 original size:29 final size:29
Alignment explanation
Indices: 672510--672597 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
672500 TCTTTTTCCA
* *
672510 AAAGCCCACGACTCCGTGGCACCCTTTTT
1 AAAGTCCACGACTCAGTGGCACCCTTTTT
* **
672539 AAAGTCCACGACTTAGTGGCACCTCTTCTCC
1 AAAGTCCACGACTCAGTGGCACC-CTT-TTT
* *
672570 AAA-TCCACGACTCAATGGCATCCTTTTT
1 AAAGTCCACGACTCAGTGGCACCCTTTTT
672598 TCCTTCAAAG
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
28 1 0.02
29 23 0.49
30 19 0.40
31 4 0.09
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (29 bp):
AAAGTCCACGACTCAGTGGCACCCTTTTT
Found at i:672682 original size:32 final size:32
Alignment explanation
Indices: 672646--672854 Score: 156
Period size: 32 Copynumber: 6.5 Consensus size: 32
672636 CAAAGCTCAT
*
672646 ATAAGTTGGTGGTAACCAT-TTTCAAAACCTAC
1 ATAAGTTGGTGGTAACC-TCTTTCAAAACCCAC
* * * *
672678 ATAAGTTGGTAGCAACCTCTTTTAAAGCCCAC
1 ATAAGTTGGTGGTAACCTCTTTCAAAACCCAC
* **
672710 ACAAGTTGGTGGTAACCTC-TTCTAAATTCCAC
1 ATAAGTTGGTGGTAACCTCTTTC-AAAACCCAC
* * * * * *
672742 ACAAGTCGATGGCAACCTCTTTTAAAGCCCAC
1 ATAAGTTGGTGGTAACCTCTTTCAAAACCCAC
* * * *
672774 ACAAGTTAGTGATAACCTC-TTCTAAAGCCCAC
1 ATAAGTTGGTGGTAACCTCTTTC-AAAACCCAC
* * *
672806 ACAAGTAGGTGGTAACCT-TTCTCAAAGCCCAC
1 ATAAGTTGGTGGTAACCTCTT-TCAAAACCCAC
*
672838 ATAAGTTGGTGGAAACC
1 ATAAGTTGGTGGTAACC
672855 CCCTTTTTAA
Statistics
Matches: 142, Mismatches: 29, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
31 5 0.04
32 133 0.94
33 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (32 bp):
ATAAGTTGGTGGTAACCTCTTTCAAAACCCAC
Found at i:672717 original size:64 final size:64
Alignment explanation
Indices: 672648--673772 Score: 506
Period size: 64 Copynumber: 17.5 Consensus size: 64
672638 AAGCTCATAT
* * * * *
672648 AAGTTGGTGGTAACCATTTTC-AAAACCTACATAAGTTGGTAGCAACCTCTTTTAAAGCCCACAC
1 AAGTTGGTGGTAACC-TCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
* *
672712 AAGTTGGTGGTAACCTCTTCTAAATTCC-ACACAAGTCGATGGCAACCTCTTTTAAAGCCCACAC
1 AAGTTGGTGGTAACCTCTTCTAAA-GCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
* * * * * * *
672776 AAGTTAGTGATAACCTCTTCTAAAGCCCACACAAGTAGGTGGTAACCT-TTCTCAAAGCCCACAT
1 AAGTTGGTGGTAACCTCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTT-TTAAAGCCCACAC
* * * * * * *
672840 AAGTTGGTGGAAACCCCCTTTTTAAAGCCTACATAAGTCAGTGGC-ACCCCTTTTAAAGCCAACA
1 AAGTTGGTGGTAA-CCTC-TTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACA
*
672904 G
64 C
* * * * * * * * *
672905 GAGTCGGTGG-CACCCCTTCTAAAG-CTCACACAAATCGATGGCAATCC-CCTCTAAAGGCCACA
1 AAGTTGGTGGTAACCTCTTCTAAAGCCT-ACACAAGTCGGTGGCAA-CCTCTTTTAAAGCCCACA
672967 C
64 C
* * * * * * * * *
672968 AAGTTAGTGGTTACCCCTTTTCTAAAGCCCACATAAGTCGGTAGC-ATCTCTTCTAAAGCCCATA
1 AAGTTGGTGG-TA-ACCTCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACA
673032 C
64 C
*** * * * * * *
673033 AAGTCAATGGCAA-C-CTTCTCCAAGCCTACATAAGTCGATGGCAA-CTTTTCTCTAAAGCCTAC
1 AAGTTGGTGGTAACCTCTTCT-AAAGCCTACACAAGTCGGTGGCAACCTCTT-T-TAAAGCCCAC
673095 AC
63 AC
* * * * * * * * *
673097 AAGTCGATAGCAACCTCATT-TAAAGCCCACAAAAGTTGGTGACAATCCCCTTTCTAAAGCCCAC
1 AAGTTGGTGGTAACCTC-TTCTAAAGCCTACACAAGTCGGTGGCAA-CCTCTTT-TAAAGCCCAC
*
673161 AT
63 AC
* * * * * * * * *
673163 AAGTCGATGG-CACATCTTTTAAAGCCTTCACAAGTCGGTGGCAACCT-TCTCAAAGCTCACAC
1 AAGTTGGTGGTAACCTCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
* * * * ** * * * *
673225 AAGTCGGTGGCAACCTTTTTCTGAAGCC-ATTCAAGTCGATGGCAACCCCCTTTAAAGCTCACAC
1 AAGTTGGTGGTAACC-TCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
* * * *
673289 ATGTTGGTGGTAACCCCCTTTCTAAAG-TTCACACAAGTCGGTGGC-ACC-CTTTCTAAAGCTCA
1 AAGTTGGTGGTAA-CCTC-TTCTAAAGCCT-ACACAAGTCGGTGGCAACCTCTTT-TAAAGCCCA
673351 CAC
62 CAC
* * * * * * *
673354 AAGTAGGTGGTAACCATC-TC-AAAGCCCATATAAATCGGTGGCAACCT-TCTTAAAGCCAACAC
1 AAGTTGGTGGTAACC-TCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
* * * * ** * * *
673416 AAGTCGATGGTAACC-CTTCTCTAAAACCCACACAAGTCGGTGATAACCCCATTTAAAACCCACA
1 AAGTTGGTGGTAACCTC-T-TCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACA
673480 C
64 C
* * * * * * * *
673481 AAGTTGGTAGCAATCCCCTCTCTAAAGCCAACACAA-TCTGTGGC-ACCCCTTCTAAAGCCTACA
1 AAGTTGGTGGTAA-CCTCT-TCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACA
673544 C
64 C
* * * * * ** * *
673545 AAGTCGGTGGTAACTTTTTC-AAAGCCCACATAAGTCAATGGTAACCT-TTCTCTAAAACCCACA
1 AAGTTGGTGGTAACCTCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTT-T-TAAAGCCCACA
673608 C
64 C
* * * * * * * * * *
673609 AAGTCGGTGGTAACCCCATCTAAAGCCCATACAAGTTGTTGGCAATCTTTTTTCTAAAGCCTACA
1 AAGTTGGTGGTAACCTCTTCTAAAGCCTACACAAGTCGGTGGCAA-CCTCTTT-TAAAGCCCACA
*
673674 T
64 C
* * * * * *** * * * *
673675 AAGTCGGTGAT-ACCCCCTCTAAAGCCCACACAAGTAAATGGCAAACT-TCTCAAAGCCCACAT
1 AAGTTGGTGGTAACCTCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
* * * *
673737 AAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAG
1 AAGTTGGTGGTAACCTCT-TCTAAAGCCTACACAAG
673773 CCTACAAACT
Statistics
Matches: 806, Mismatches: 202, Indels: 106
0.72 0.18 0.10
Matches are distributed among these distances:
60 1 0.00
61 17 0.02
62 126 0.16
63 70 0.09
64 266 0.33
65 198 0.25
66 119 0.15
67 9 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (64 bp):
AAGTTGGTGGTAACCTCTTCTAAAGCCTACACAAGTCGGTGGCAACCTCTTTTAAAGCCCACAC
Found at i:673321 original size:34 final size:34
Alignment explanation
Indices: 673209--673368 Score: 127
Period size: 32 Copynumber: 4.9 Consensus size: 34
673199 GGTGGCAACC
* * **
673209 TTCTCAAAGCTCACACAAGTCGGTGGCAA-CCTTT
1 TTCT-AAAGCTCACACAAGTAGGTGGTAACCCCCT
* ** * * *
673243 TTCTGAAGC-CATTCAAGTCGATGGCAACCCCC-
1 TTCTAAAGCTCACACAAGTAGGTGGTAACCCCCT
* *
673275 TT-TAAAGCTCACACATGTTGGTGGTAACCCCCT
1 TTCTAAAGCTCACACAAGTAGGTGGTAACCCCCT
* * *
673308 TTCTAAAGTTCACACAAGTCGGTGG---CACCCT
1 TTCTAAAGCTCACACAAGTAGGTGGTAACCCCCT
673339 TTCTAAAGCTCACACAAGTAGGTGGTAACC
1 TTCTAAAGCTCACACAAGTAGGTGGTAACC
673369 ATCTCAAAGC
Statistics
Matches: 99, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
31 33 0.33
32 34 0.34
33 8 0.08
34 24 0.24
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (34 bp):
TTCTAAAGCTCACACAAGTAGGTGGTAACCCCCT
Found at i:673357 original size:160 final size:159
Alignment explanation
Indices: 672648--673683 Score: 572
Period size: 160 Copynumber: 6.5 Consensus size: 159
672638 AAGCTCATAT
** * * * *
672648 AAGTTGGTGGTAA-CCATTTTC-AAAACCTACATAAGTTGGTAGCAACCTCTTT-TAAAGCCCAC
1 AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGC-A-CTCTTTCTAAAG-CCAC
* * * * * * *
672710 ACAAGTTGGTGGTAACC-TCTTCTAAATTCCACACAAGTCGATGGCAACCTCTT-T-TAAAGCCC
63 ACAAGTCGGTGGCAACCTTC-TC-AAA-GCCACATAAGTCGGTGGCAACCTTTTCTCTAAAGCCT
* ** *
672772 ACACAAGT-TAGTGATAA-CCTCTTCTAAAGCCCACAC
125 ACACAAGTCGA-TGGCAACCCCCTT-TAAAG-CCACAC
* * * * *
672808 AAGTAGGTGGTAA---CCTTTCTCAAAGCCCACATAAGTTGGTGGAAACCCCCTTTTTAAAGCCT
1 AAGTTGGTGGTAACCCCCTTTCT-AAAGCCCACATAAGTCGGTGG---CACTCTTTCTAAAGCC-
* * * * ** **
672870 ACATAAGTCAGTGGCACCCCTT-TTAAAGCCAACAGGAGTCGGTGGC-ACC-CCT-TCTAAAG-C
61 ACACAAGTCGGTGGCA-ACCTTCTCAAAGCC-ACATAAGTCGGTGGCAACCTTTTCTCTAAAGCC
* * *
672930 TCACACAAATCGATGGCAATCCCCTCTAAAGGCCACAC
124 T-ACACAAGTCGATGGCAACCCCCTTTAAA-GCCACAC
* * * * *
672968 AAGTTAGTGGTTACCCCTTTTCTAAAGCCCACATAAGTCGGTAGCA-TCTCTTCTAAAGCCCATA
1 AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGCACTCT-TTCTAAAG-CCACA
** * *
673032 CAAGTCAATGGCAACCTTCTCCAAGCCTACATAAGTCGATGGCAA-CTTTTCTCTAAAGCCTACA
64 CAAGTCGGTGGCAACCTTCTCAAAGCC-ACATAAGTCGGTGGCAACCTTTTCTCTAAAGCCTACA
* * * *
673096 CAAGTCGATAGCAACCTCATTTAAAGCCCACAA
128 CAAGTCGATGGCAACCCCCTTTAAAG-CCACAC
** * * *
673129 AAGTTGGTGACAATCCCCTTTCTAAAGCCCACATAAGTCGATGGCACATCTTT-TAAAGCCTTCA
1 AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGCAC-TCTTTCTAAAGCC-ACA
* * **
673193 CAAGTCGGTGGCAACCTTCTCAAAGCTCACACAAGTCGGTGGCAACCTTTT-TCTGAAGCC-ATT
64 CAAGTCGGTGGCAACCTTCTCAAAGC-CACATAAGTCGGTGGCAACCTTTTCTCTAAAGCCTACA
673256 CAAGTCGATGGCAACCCCCTTTAAAGCTCACAC
128 CAAGTCGATGGCAACCCCCTTTAAAGC-CACAC
* ** * *
673289 ATGTTGGTGGTAACCCCCTTTCTAAAGTTCACACAAGTCGGTGGCACCCTTTCTAAAGCTCACAC
1 AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGCACTCTTTCTAAAGC-CACAC
* * * * * *
673354 AAGTAGGTGGTAACCATCTCAAAGCCCATATAAATCGGTGGCAACC--TTCT-TAAAGCCAACAC
65 AAGTCGGTGGCAACCTTCTCAAAG-CCACATAAGTCGGTGGCAACCTTTTCTCTAAAGCCTACAC
* * * *
673416 AAGTCGATGGTAACCCTTCTCTAAAACCCACAC
129 AAGTCGATGGCAACCC-CCT-TTAAAGCCACAC
* * * * * * * * *
673449 AAGTCGGTGATAA-CCCCATT-TAAAACCCACACAAGTTGGTAGCAATCCCCTCTCTAAAGCCAA
1 AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGC-A--CTCTTTCTAAAGCC-A
* * * * *
673512 CACAA-TCTGTGGCACCCCTTCT-AAAGCCTACACAAGTCGGTGGTAA-CTTTT-TC-AAAGCCC
62 CACAAGTCGGTGGCA-ACCTTCTCAAAGCC-ACATAAGTCGGTGGCAACCTTTTCTCTAAAGCCT
* * * ** * *
673572 ACATAAGTCAATGGTAACCTTTCTCTAAAACCCACAC
125 ACACAAGTCGATGGCAACC-CCCT-TTAAAGCCACAC
* * * * * * *
673609 AAGTCGGTGGTAA-CCCC-ATCTAAAGCCCATACAAGTTGTTGGCAATCTTTTTTCTAAAGCCTA
1 AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGC-A-C-TCTTTCTAAAGCC-A
*
673672 CATAAGTCGGTG
62 CACAAGTCGGTG
673684 ATACCCCCTC
Statistics
Matches: 689, Mismatches: 135, Indels: 103
0.74 0.15 0.11
Matches are distributed among these distances:
158 36 0.05
159 79 0.11
160 325 0.47
161 189 0.27
162 47 0.07
163 12 0.02
164 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (159 bp):
AAGTTGGTGGTAACCCCCTTTCTAAAGCCCACATAAGTCGGTGGCACTCTTTCTAAAGCCACACA
AGTCGGTGGCAACCTTCTCAAAGCCACATAAGTCGGTGGCAACCTTTTCTCTAAAGCCTACACAA
GTCGATGGCAACCCCCTTTAAAGCCACAC
Found at i:673397 original size:191 final size:190
Alignment explanation
Indices: 673197--673624 Score: 466
Period size: 191 Copynumber: 2.2 Consensus size: 190
673187 CCTTCACAAG
* * * * * **
673197 TCGGTGGCAACCTTCTCAAAGCTCACACAAGTCGGTGGCAACCTTTTTCT-GAAGCCATTCAAGT
1 TCGGTGGCAACCTTCTCAAAGC-CACACAAGTCGGTGGTAACCCTTCTCTAAAACCCACACAAGT
* * * * * * * * *
673261 CGATGGCAACCCCCTTTAAAGCTCACACATGTTGGTGGTAACCCCCTTTCTAAAGTTC-ACACAA
65 CGATGACAACCCCATTTAAAACCCACACAAGTTGGTAGCAACCCCCTCTCTAAAG-CCAACACAA
* *
673325 GTCGGTGGCACCCTTTCTAAAG-CTCACACAAGTAGGTGGTAACCATCTCAAAGCCCATATAAA
129 -TCGGTGGCACCCCTTCTAAAGCCT-ACACAAGTAGGTGGTAACCATCTCAAAGCCCACATAAA
* *
673388 TCGGTGGCAACCTTCTTAAAGCCAACACAAGTCGATGGTAACCCTTCTCTAAAACCCACACAAGT
1 TCGGTGGCAACCTTCTCAAAGCC-ACACAAGTCGGTGGTAACCCTTCTCTAAAACCCACACAAGT
* * *
673453 CGGTGATAACCCCATTTAAAACCCACACAAGTTGGTAGCAATCCCCTCTCTAAAGCCAACACAAT
65 CGATGACAACCCCATTTAAAACCCACACAAGTTGGTAGCAACCCCCTCTCTAAAGCCAACACAAT
* * ** * *
673518 CTGTGGCACCCCTTCTAAAGCCTACACAAGTCGGTGGTAACTTTTTCAAAGCCCACATAAG
130 CGGTGGCACCCCTTCTAAAGCCTACACAAGTAGGTGGTAACCATCTCAAAGCCCACATAAA
** * *
673579 TCAATGGTAACCTTTCTCTAAAACCCACACAAGTCGGTGGTAACCC
1 TCGGTGGCAACC-TTCTC--AAAGCCACACAAGTCGGTGGTAACCC
673625 CATCTAAAGC
Statistics
Matches: 195, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
190 1 0.01
191 104 0.53
192 66 0.34
193 19 0.10
194 5 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (190 bp):
TCGGTGGCAACCTTCTCAAAGCCACACAAGTCGGTGGTAACCCTTCTCTAAAACCCACACAAGTC
GATGACAACCCCATTTAAAACCCACACAAGTTGGTAGCAACCCCCTCTCTAAAGCCAACACAATC
GGTGGCACCCCTTCTAAAGCCTACACAAGTAGGTGGTAACCATCTCAAAGCCCACATAAA
Found at i:673438 original size:352 final size:352
Alignment explanation
Indices: 673022--673772 Score: 819
Period size: 352 Copynumber: 2.1 Consensus size: 352
673012 CATCTCTTCT
* ** ** * * **
673022 AAAGCCCATACAAGTCAATGGCAACCTTCTCCAAGCCTACATAAGTCGATGGCAACTTTTCTCTA
1 AAAGCCCATATAAGTCGGTGGCAACCTTCTTAAAGCCAACACAAGTCGATGGCAACCCTTCTCTA
* * * * *
673087 AAGCCTACACAAGTCGAT-AGCAACCTCATTTAAAGCCCACAAAAGTTGGT-GACAATCCCCTTT
66 AAACCCACACAAGTCGATGA-CAACCCCATTTAAAACCCACAAAAGTTGGTAG-CAATCCCCTCT
* * * * *
673150 CTAAAGCCCACATAAGTC-GATGGCACATCTTTTAAAGCCTTCACAAGTCGGTGGCAACCTTCTC
129 CTAAAGCCAACACAA-TCTG-TGGCACACCTTCTAAAGCCTACACAAGTCGGTGGCAACCTTCTC
* ** * * * ** * *
673214 AAAGCTCACACAAGTCGGTGGCAACCTTTTTCT-GAAGCCATTCAAGTCGATGGCAACCCCCTTT
192 AAAGCCCACACAAGTCAATGGCAACCTTTCTCTAAAACCCACACAAGTCGATGGCAACCCCATCT
* * * * * **
673278 AAAGCTCACACATGTTGGTGGTAACCCCCTTTCTAAAG-TTCACACAAGTCGGTGGCACCCTTTC
257 AAAGCCCACACAAGTTGGTGGCAACCCCCTTTCTAAAGCCT-ACACAAGTCGGTGACACCCCCTC
* ** * *
673342 TAAAGCTCACACAAGTAGGTGGTAACCATCTC
321 TAAAGCCCACACAAGTAAATGGCAAACATCTC
* *
673374 AAAGCCCATATAAATCGGTGGCAACCTTCTTAAAGCCAACACAAGTCGATGGTAACCCTTCTCTA
1 AAAGCCCATATAAGTCGGTGGCAACCTTCTTAAAGCCAACACAAGTCGATGGCAACCCTTCTCTA
* * *
673439 AAACCCACACAAGTCGGTGATAACCCCATTTAAAACCCACACAAGTTGGTAGCAATCCCCTCTCT
66 AAACCCACACAAGTCGATGACAACCCCATTTAAAACCCACAAAAGTTGGTAGCAATCCCCTCTCT
* * * *
673504 AAAGCCAACACAATCTGTGGCACCCCTTCTAAAGCCTACACAAGTCGGTGGTAACTTTTTCAAAG
131 AAAGCCAACACAATCTGTGGCACACCTTCTAAAGCCTACACAAGTCGGTGGCAACCTTCTCAAAG
* * * *
673569 CCCACATAAGTCAATGGTAACCTTTCTCTAAAACCCACACAAGTCGGTGGTAACCCCATCTAAAG
196 CCCACACAAGTCAATGGCAACCTTTCTCTAAAACCCACACAAGTCGATGGCAACCCCATCTAAAG
* * * *** * *
673634 CCCATACAAGTTGTTGGCAATCTTTTTTCTAAAGCCTACATAAGTCGGTGATACCCCCTCTAAAG
261 CCCACACAAGTTGGTGGCAACCCCCTTTCTAAAGCCTACACAAGTCGGTGACACCCCCTCTAAAG
*
673699 CCCACACAAGTAAATGGCAAACTTCTC
326 CCCACACAAGTAAATGGCAAACATCTC
* *
673726 AAAGCCCACATAAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAG
1 AAAGCCCATATAAGTCGGTGGCAACC-TTCT-TAAAGCCAACACAAG
673773 CCTACAAACT
Statistics
Matches: 326, Mismatches: 66, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
351 66 0.20
352 239 0.73
353 7 0.02
354 14 0.04
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (352 bp):
AAAGCCCATATAAGTCGGTGGCAACCTTCTTAAAGCCAACACAAGTCGATGGCAACCCTTCTCTA
AAACCCACACAAGTCGATGACAACCCCATTTAAAACCCACAAAAGTTGGTAGCAATCCCCTCTCT
AAAGCCAACACAATCTGTGGCACACCTTCTAAAGCCTACACAAGTCGGTGGCAACCTTCTCAAAG
CCCACACAAGTCAATGGCAACCTTTCTCTAAAACCCACACAAGTCGATGGCAACCCCATCTAAAG
CCCACACAAGTTGGTGGCAACCCCCTTTCTAAAGCCTACACAAGTCGGTGACACCCCCTCTAAAG
CCCACACAAGTAAATGGCAAACATCTC
Found at i:673643 original size:32 final size:32
Alignment explanation
Indices: 672691--673772 Score: 504
Period size: 31 Copynumber: 33.8 Consensus size: 32
672681 AGTTGGTAGC
* * *
672691 AACCTCTTTTAAAGCCCACACAAGTTGGTGGT
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* ** * *
672723 AACCTCTTCTAAATTCCACACAAGTCGATGGC
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * ** *
672755 AACCTCTTTTAAAGCCCACACAAGTTAGTGAT
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* *
672787 AACCTCTTCTAAAGCCCACACAAGTAGGTGGT
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * * *
672819 AA-CCTTTCTCAAAGCCCACATAAGTTGGTGGA
1 AACCCCTTCT-AAAGCCCACACAAGTCGGTGGT
* * * *
672851 AACCCCCTTTTTAAAGCCTACATAAGTCAGTGG-
1 AA-CCCC-TTCTAAAGCCCACACAAGTCGGTGGT
* * * **
672884 CACCCCTTTTAAAGCCAACAGGAGTCGGTGG-
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * * * *
672915 CACCCCTTCTAAAGCTCACACAAATCGATGGC
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* **
672947 AATCCCC-TCTAAAGGCCACACAAGTTAGTGGT
1 AA-CCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * *
672979 TACCCCTTTTCTAAAGCCCACATAAGTCGGTAG-
1 AACCCC--TTCTAAAGCCCACACAAGTCGGTGGT
* * * * ** *
673012 CATCTCTTCTAAAGCCCATACAAGTCAATGGC
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * * * *
673044 AA--CCTTCTCCAAGCCTACATAAGTCGATGGC
1 AACCCCTTCT-AAAGCCCACACAAGTCGGTGGT
*** * * * *
673075 AACTTTTCTCTAAAGCCTACACAAGTCGATAGC
1 AACCCCT-TCTAAAGCCCACACAAGTCGGTGGT
* * * **
673108 AACCTCATT-TAAAGCCCACAAAAGTTGGTGAC
1 AACC-CCTTCTAAAGCCCACACAAGTCGGTGGT
* *
673140 AATCCCCTTTCTAAAGCCCACATAAGTCGATGG-
1 AA-CCCC-TTCTAAAGCCCACACAAGTCGGTGGT
* ** * ** *
673173 CACATCTTTTAAAGCCTTCACAAGTCGGTGGC
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* *
673205 AA--CCTTCTCAAAGCTCACACAAGTCGGTGGC
1 AACCCCTTCT-AAAGCCCACACAAGTCGGTGGT
** * ** * *
673236 AACCTTTTTCTGAAG-CCATTCAAGTCGATGGC
1 AACC-CCTTCTAAAGCCCACACAAGTCGGTGGT
* * *
673268 AACCCCCTT-TAAAGCTCACACATGTTGGTGGT
1 AA-CCCCTTCTAAAGCCCACACAAGTCGGTGGT
**
673300 AACCCCCTTTCTAAAGTTCACACAAGTCGGTGG-
1 AA-CCCC-TTCTAAAGCCCACACAAGTCGGTGGT
* * * *
673333 CACCCTTTCTAAAGCTCACACAAGTAGGTGGT
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * * * *
673365 AA--CCATCTCAAAGCCCATATAAATCGGTGGC
1 AACCCCTTCT-AAAGCCCACACAAGTCGGTGGT
* *
673396 AA--CCTTCTTAAAGCCAACACAAGTCGATGGT
1 AACCCCTTC-TAAAGCCCACACAAGTCGGTGGT
* * *
673427 AACCCTTCTCTAAAACCCACACAAGTCGGTGAT
1 AACCCCT-TCTAAAGCCCACACAAGTCGGTGGT
* * * *
673460 AACCCCATT-TAAAACCCACACAAGTTGGTAGC
1 AACCCC-TTCTAAAGCCCACACAAGTCGGTGGT
* *
673492 AATCCCCTCTCTAAAGCCAACACAA-TCTGTGG-
1 AA-CCCCT-TCTAAAGCCCACACAAGTCGGTGGT
* *
673524 CACCCCTTCTAAAGCCTACACAAGTCGGTGGT
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
*** * **
673556 AACTTTTTC-AAAGCCCACATAAGTCAATGGT
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
** *
673587 AACCTTTCTCTAAAACCCACACAAGTCGGTGGT
1 AACCCCT-TCTAAAGCCCACACAAGTCGGTGGT
* * * * *
673620 AACCCCATCTAAAGCCCATACAAGTTGTTGGC
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
*** * * *
673652 AATCTTTTTTCTAAAGCCTACATAAGTCGGTGAT
1 AA-C-CCCTTCTAAAGCCCACACAAGTCGGTGGT
* *** *
673686 -ACCCCCTCTAAAGCCCACACAAGTAAATGGC
1 AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
* * *
673717 AA--ACTTCTCAAAGCCCACATAAGTCGGTGGC
1 AACCCCTTCT-AAAGCCCACACAAGTCGGTGGT
**
673748 AACCTTTCTCTAAAGCCCACACAAG
1 AACCCCT-TCTAAAGCCCACACAAG
673773 CCTACAAACT
Statistics
Matches: 790, Mismatches: 212, Indels: 95
0.72 0.19 0.09
Matches are distributed among these distances:
30 32 0.04
31 274 0.35
32 242 0.31
33 119 0.15
34 120 0.15
35 3 0.00
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (32 bp):
AACCCCTTCTAAAGCCCACACAAGTCGGTGGT
Found at i:673679 original size:66 final size:64
Alignment explanation
Indices: 673531--673772 Score: 204
Period size: 65 Copynumber: 3.8 Consensus size: 64
673521 TGGCACCCCT
* * **** * * * *
673531 TCTAAAGCCTACACAAGTCGGTGGTAACTTTTTC-AAAGCCCACATAAGTCAATGGTAACCTTTC
1 TCTAAAGCCCACATAAGTCGGTGGTAACCCCATCTAAAGCCCACACAAGTAAATGGCAAAC-TTC
* * * *** *
673595 TCTAAAACCCACACAAGTCGGTGGTAACCCCATCTAAAGCCCATACAAGTTGTTGGCAATCTTTT
1 TCTAAAGCCCACATAAGTCGGTGGTAACCCCATCTAAAGCCCACACAAGTAAATGGCAAAC--TT
*
673660 T
64 C
* * *
673661 TCTAAAGCCTACATAAGTCGGTGAT-ACCCCCTCTAAAGCCCACACAAGTAAATGGCAAACTTC
1 TCTAAAGCCCACATAAGTCGGTGGTAACCCCATCTAAAGCCCACACAAGTAAATGGCAAACTTC
* *
673724 TC-AAAGCCCACATAAGTCGGTGGCAACCTTTC-TCTAAAGCCCACACAAG
1 TCTAAAGCCCACATAAGTCGGTGGTAACC--CCATCTAAAGCCCACACAAG
673773 CCTACAAACT
Statistics
Matches: 144, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
62 19 0.13
63 7 0.05
64 45 0.31
65 49 0.34
66 24 0.17
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (64 bp):
TCTAAAGCCCACATAAGTCGGTGGTAACCCCATCTAAAGCCCACACAAGTAAATGGCAAACTTC
Found at i:673769 original size:161 final size:160
Alignment explanation
Indices: 673392--673772 Score: 458
Period size: 160 Copynumber: 2.4 Consensus size: 160
673382 TATAAATCGG
* * * * *
673392 TGGCAACCTTCTTAAAGCCAACACAAGTCGATGGTAACCCTTCTCTAAAACCCACACAAGTCGGT
1 TGGCAAACTTCTCAAAGCCCACATAAGTCGATGGTAACCTTTCTCTAAAACCCACACAAGTCGGT
* *
673457 GATAACCCCATTTAAAACCCACACAAGTTGGTAGCAATCCCCTCTCTAAAGCCAACACAATCTGT
66 GATAACCCCATCTAAAACCCACACAAGTTGGTAGCAATCCCCTCTCTAAAGCCAACACAATCGGT
* * * ***
673522 GGCACCCCTTCTAAAGCCTACACAAGTCGG
131 GACACCCCCTCTAAAGCCCACACAAGTAAA
* * *
673552 TGG-TAACTTTTTCAAAGCCCACATAAGTCAATGGTAACCTTTCTCTAAAACCCACACAAGTCGG
1 TGGCAAAC-TTCTCAAAGCCCACATAAGTCGATGGTAACCTTTCTCTAAAACCCACACAAGTCGG
* * * * * *** * * *
673616 TGGTAACCCCATCTAAAGCCCATACAAGTTGTTGGCAATCTTTTTTCTAAAGCCTACATAAGTCG
65 TGATAACCCCATCTAAAACCCACACAAGTTGGTAGCAATCCCCTCTCTAAAGCCAACACAA-TCG
*
673681 GTGATACCCCCTCTAAAGCCCACACAAGTAAA
129 GTGACACCCCCTCTAAAGCCCACACAAGTAAA
* * *
673713 TGGCAAACTTCTCAAAGCCCACATAAGTCGGTGGCAACCTTTCTCTAAAGCCCACACAAG
1 TGGCAAACTTCTCAAAGCCCACATAAGTCGATGGTAACCTTTCTCTAAAACCCACACAAG
673773 CCTACAAACT
Statistics
Matches: 184, Mismatches: 34, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
159 2 0.01
160 102 0.55
161 77 0.42
162 3 0.02
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (160 bp):
TGGCAAACTTCTCAAAGCCCACATAAGTCGATGGTAACCTTTCTCTAAAACCCACACAAGTCGGT
GATAACCCCATCTAAAACCCACACAAGTTGGTAGCAATCCCCTCTCTAAAGCCAACACAATCGGT
GACACCCCCTCTAAAGCCCACACAAGTAAA
Found at i:674218 original size:32 final size:32
Alignment explanation
Indices: 674170--674994 Score: 512
Period size: 32 Copynumber: 25.5 Consensus size: 32
674160 TTTTTTTTTC
* * *
674170 AAAGCTCACACCAGTTGGTGGCAA-CTATTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* * *
674201 CAAAACCCATACAAGTTGGTGGCAACCTCTTTT
1 -AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* *
674234 AAAGCCCACATAAGTTGGCGGCAACCTCTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* * *
674266 AAAGCCTACACAAGTCGGTGGCAACCT-TTAT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
*
674297 CAAAGCCCATACAAGTTGGTGGCAACCTCTTCT
1 -AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* * * *
674330 AAAACCTACACAAGTTGATGGCAACCCCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CCTC-TTCT
** * *
674364 AAAGCCCATGCAAGTTAGTGGC-ACCCCTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
*** *
674395 AAAGCCCACACAAGTCAATGACAACC-CTTCTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTC-T-TCT
* * * *
674428 AGAGCCCATACAAGTCGGTGGCAACCCCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CCTC-TTCT
** * *
674462 AAAGCCCATGCAAGTTAGTGGC-ACCCCTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
** *
674493 AAAGCCCACACAAGTTAATGACAACC-CTTCTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTC-T-TCT
* * * * *
674526 AGAGCCCATACAAGTCGGTGGCAACCCCCTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* * * * *
674558 AAATCCCACATAAGTTAGCGGCAACCCTATTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CCT-CTTCT
* * *
674592 AAAGCCTACACAAGTCGGT-G-ATACCCCTTCT
1 AAAGCCCACACAAGTTGGTGGCA-ACCTCTTCT
* * * * *
674623 AAAACCTACATAAGTCGGTGGCAACCTTTTC-
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* * *
674654 AAAGCCCACATAAGTCGATGGCAACC-CTTCTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTC-T-TCT
* * * *
674687 AAAGCCCACACAAGTCGATGGTAACCTCTTCC
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* * * *
674719 AAAACCCACACAAATTGGTGGCAACTCCCTTTTT
1 AAAGCCCACACAAGTTGGTGGCAAC-CTC-TTCT
* * * *
674753 AAAACCCACATAA-TTCGGTGGC-ACCCCTTAT
1 AAAGCCCACACAAGTT-GGTGGCAACCTCTTCT
* * * *
674784 AAAGCCCATATAAGTTGGTGAC-ACCCCTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
* *** *
674815 AAAGCTCACACAAGTAAATGGCAA--ACTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
** **
674845 CAAAGCCCACACAAGTCAGTGTTAACC-CTTCTCT
1 -AAAGCCCACACAAGTTGGTGGCAACCTC-T-TCT
* * ** *
674879 AAAACCCATACAAGTCAGTGGCAACCTTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
*
674911 AAAGCCCACACAAGTTGGTGGCAACCCCCTTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CCTC-TTCT
* *
674945 AAAGCCCACGCAAGTTGGTGGCAACCCATTTTCT
1 AAAGCCCACACAAGTTGGTGGCAA-CC-TCTTCT
674979 AAAGCCCACACAAGTT
1 AAAGCCCACACAAGTT
674995 ATGATCTTTC
Statistics
Matches: 629, Mismatches: 127, Indels: 72
0.76 0.15 0.09
Matches are distributed among these distances:
30 5 0.01
31 154 0.24
32 214 0.34
33 120 0.19
34 133 0.21
35 3 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (32 bp):
AAAGCCCACACAAGTTGGTGGCAACCTCTTCT
Found at i:674441 original size:33 final size:32
Alignment explanation
Indices: 674356--674993 Score: 169
Period size: 31 Copynumber: 19.7 Consensus size: 32
674346 GATGGCAACC
* * * *
674356 CCCTTTCTAAAGCCCATGCAAGTTAGTGGC-A
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* *
674387 CCCCTTCTAAAGCCCACACAAGTCAATGACAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* ** *
674419 CCCTTCTCTAGAGCCCATACAAGTCGGTGGCAA
1 CCCTT-TCTAAAGCCCATACAAGTCAATGACAA
* * * *
674452 CCCCCTTTCTAAAGCCCATGCAAGTTAGTGGC-A
1 --CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * *
674485 CCCCTTCTAAAGCCCACACAAGTTAATGACAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* ** *
674517 CCCTTCTCTAGAGCCCATACAAGTCGGTGGCAA
1 CCCTT-TCTAAAGCCCATACAAGTCAATGACAA
** * * * * ** *
674550 CCCCCTCTAAATCCCACATAAGTTAGCGGCAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * ** *
674582 CCCTATTTCTAAAGCCTACACAAGTCGGTGA-TA
1 CCC--TTTCTAAAGCCCATACAAGTCAATGACAA
* * * * * ** *
674615 CCCCTTCTAAAACCTACATAAGTCGGTGGCAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * * * *
674647 CCTTTTC-AAAGCCCACATAAGTCGATGGCAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * **
674678 CCCTTCTCTAAAGCCCACACAAGTCGATGGTAA
1 CCCTT-TCTAAAGCCCATACAAGTCAATGACAA
* * * * *** *
674711 -CCTCTTCCAAAACCCACACAAATTGGTGGCAA
1 CCCT-TTCTAAAGCCCATACAAGTCAATGACAA
* * * * * ** *
674743 CTCCCTTTTTAAAACCCACATAATTCGGTGGC-A
1 --CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * * ***
674776 CCCCTTATAAAGCCCATATAAGTTGGTGAC-A
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * * * *
674807 CCCCTTCTAAAGCTCACACAAGTAAATGGCAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
* * * **
674839 -AC-TTCTCAAAGCCCACACAAGTCAGTGTTAA
1 CCCTTTCT-AAAGCCCATACAAGTCAATGACAA
* * *
674870 CCCTTCTCTAAAACCCATACAAGTCAGTGGCAA
1 CCCTT-TCTAAAGCCCATACAAGTCAATGACAA
* * *** *
674903 CCTTTTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCCTTTCTAAAGCCCATACAAGTCAATGACAA
** *** *
674935 CCCCCTTTCTAAAGCCCACGCAAGTTGGTGGCAA
1 --CCCTTTCTAAAGCCCATACAAGTCAATGACAA
*
674969 CCCATTTTCTAAAGCCCACACAAGT
1 CCC--TTTCTAAAGCCCATACAAGT
674994 TATGATCTTT
Statistics
Matches: 478, Mismatches: 105, Indels: 45
0.76 0.17 0.07
Matches are distributed among these distances:
30 4 0.01
31 162 0.34
32 93 0.19
33 100 0.21
34 111 0.23
35 8 0.02
ACGTcount: A:0.31, C:0.32, G:0.15, T:0.22
Consensus pattern (32 bp):
CCCTTTCTAAAGCCCATACAAGTCAATGACAA
Found at i:674662 original size:161 final size:160
Alignment explanation
Indices: 674170--674995 Score: 650
Period size: 161 Copynumber: 5.1 Consensus size: 160
674160 TTTTTTTTTC
* * ** ** * * * *
674170 AAAGCTCACACCAGTTGGTGGCAACTATTCTC-AAAACCCATACAAGTTGGTGGCAACCTCTTTT
1 AAAGCCCACACAAGTTAATGGCAACCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCCTTCT
* * * * * * * *
674234 AAAGCCCACATAAGTTGGCGGCAA-CCTCTTCTAAAGCCTACACAAGTCGGTGGCAA-CCTTTAT
66 AAAACCCACACAAGTTAGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGGT-G-AACCCCTTCT
* *
674297 CAAAGCCCATACAAGTTGGTGGCAACCTCTTCT
129 -AAAGCCCACATAAGTTGGTGGCAACCTCTTCT
* * * * **
674330 AAAACCTACACAAGTTGATGGCAACCCCCTT-TCTAAAGCCCATGCAAGTTAGTGGC-ACCCCTT
1 AAAGCCCACACAAGTTAATGGCAA--CCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCCTT
* * * * * * *
674393 CTAAAGCCCACACAAGTCAATGACAACCCTTCTCTAGAGCCCATACAAGTCGGTGGCAACCCCCT
64 CTAAAACCCACACAAGTTAGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGGT-G-AA-CCCC-
*** * *
674458 TTCTAAAGCCCATGCAAGTTAGTGGC-ACCCCTTCT
125 TTCTAAAGCCCACATAAGTTGGTGGCAACCTCTTCT
* * *
674493 AAAGCCCACACAAGTTAATGACAACCCTTCTCTAGAGCCCATACAAGTCGGTGGCAACCCCCTCT
1 AAAGCCCACACAAGTTAATGGCAACCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCCTTCT
* * * *
674558 AAATCCCACATAAGTTAGCGGCAACCCTATTTCTAAAGCCTACACAAGTCGGTGATACCCCTTCT
66 AAAACCCACACAAGTTAGTGGCAACCCT-TTTCTAAAGCCCACACAAGTCGGTGA-ACCCCTTCT
* * * *
674623 AAAACCTACATAAGTCGGTGGCAACCTTTTC-
129 AAAGCCCACATAAGTTGGTGGCAACCTCTTCT
* ** * * * * *
674654 AAAGCCCACATAAGTCGATGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGTAACCTCTTCC
1 AAAGCCCACACAAGTTAATGGCAACCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCCTTCT
* * * * * * *
674719 AAAACCCACACAAATTGGTGGCAACTCCCTTTT-TAAAACCCACATAATTCGGTGGCACCCCTTA
66 AAAACCCACACAAGTTAGTGGCAA--CCCTTTTCTAAAGCCCACACAAGTCGGT-GAACCCCTTC
* * *
674783 TAAAGCCCATATAAGTTGGTGAC-ACCCCTTCT
128 TAAAGCCCACATAAGTTGGTGGCAACCTCTTCT
* * * * * ** *
674815 AAAGCTCACACAAGTAAATGGCAA-ACTTCTC-AAAGCCCACACAAGTCAGTGTTAACCCTTCTC
1 AAAGCCCACACAAGTTAATGGCAACCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCCT-TC
* * *
674878 TAAAACCCATACAAGTCAGTGGCAA-CCTTTTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTT
65 TAAAACCCACACAAGTTAGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGGT-G-AA-CCCC-T
** *
674942 TCTAAAGCCCACGCAAGTTGGTGGCAACCCATTTTCT
126 TCTAAAGCCCACATAAGTTGGTGGCAA-CC-TCTTCT
674979 AAAGCCCACACAAGTTA
1 AAAGCCCACACAAGTTA
674996 TGATCTTTCT
Statistics
Matches: 528, Mismatches: 114, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
157 6 0.01
158 18 0.03
159 25 0.05
160 57 0.11
161 206 0.39
162 86 0.16
163 66 0.12
164 61 0.12
165 3 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.23
Consensus pattern (160 bp):
AAAGCCCACACAAGTTAATGGCAACCCTTCTCTAAAGCCCATACAAGTCGGTGGCAACCCCTTCT
AAAACCCACACAAGTTAGTGGCAACCCTTTTCTAAAGCCCACACAAGTCGGTGAACCCCTTCTAA
AGCCCACATAAGTTGGTGGCAACCTCTTCT
Found at i:674797 original size:130 final size:128
Alignment explanation
Indices: 674197--674994 Score: 510
Period size: 130 Copynumber: 6.2 Consensus size: 128
674187 GTGGCAACTA
* * * * *
674197 TTCTCAAAACCCATACAAGTTGGTGGCAACCTCTTTTAAAGCCCACATAAGTTGGCGGCAACCTC
1 TTCT-AAAACCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCACATAA-TTGGTGGC-ACCCC
* * * * * *
674262 TTCTAAAGCCTACACAAGTCGGTGGCAACCTTTATC-AAAGCCCATACAAGTTGGTGGCAA-CCT
63 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCT
674325 C
128 C
* * * *
674326 TTCTAAAACCTACACAAGTTGATGGCAACCCCCTTTCTAAAGCCCATGCA-AGTTAGTGGCACCC
1 TTCTAAAACCCACACAAGTTGGTGGCAA-CCCC-TTCTAAAGCCCA--CATAATTGGTGGCACCC
** * * * *
674390 CTTCTAAAGCCCACACAAGTCAATGACAACCCTTCTCTAGAGCCCATACAAGTCGGTGGCAACCC
62 CTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCC
*
674455 CC
127 TC
* ** * * ** * *
674457 TTTCTAAAGCCCATGCAAGTTAGTGGC-ACCCCTTCTAAAGCCCACACAAGTTAATGACAACCCT
1 -TTCTAAAACCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCACATAA-TTGGTGGC-ACCCC
* * * * * * *
674521 TCTCTAGAGCCCATACAAGTCGGTGGCAACCC-CCTCTAAATCCCACATAAGT-TAGCGGCAACC
63 T-TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGA-TGGCAACC
*
674584 CTAT
126 CT-C
* * * * * * *
674588 TTCTAAAGCCTACACAAGTCGGT-G-ATACCCCTTCTAAAACCTACATAAGTCGGTGGCA-ACCT
1 TTCTAAAACCCACACAAGTTGGTGGCA-ACCCCTTCTAAAGCCCACATAA-TTGGTGGCACCCCT
* * * *
674650 TTTCAAAGCCCACATAAGTCGATGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGTAA-CCT
64 TCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCT
674714 C
128 C
* * * *
674715 TTCCAAAACCCACACAAATTGGTGGCAACTCCCTTTTTAAAACCCACATAATTCGGTGGCACCCC
1 TTCTAAAACCCACACAAGTTGGTGGCAAC-CCC-TTCTAAAGCCCACATAATT-GGTGGCACCCC
* * * * * * * ** * *
674780 TTATAAAGCCCATATAAGTTGGTGAC-ACCCCT-TCTAAAGCTCACACAAGTAAATGGCAAACTT
63 TTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCT
674843 C
128 C
* ** ** * * * * ** **
674844 -TC-AAAGCCCACACAAGTCAGTGTTAACCCTTCTCTAAAACCCATACAAGTCAGTGGCAACCTT
1 TTCTAAAACCCACACAAGTTGGTGGCAACCCCT-TCTAAAGCCCACATAA-TTGGTGGC-ACCCC
* * * *
674907 TTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTT-TCTAAAGCCCACGCAAGTTGGTGGCAACC
63 TTCTAAAGCCCACACAAGTCGGTGGCAA--CCCTTCTCTAAAGCCCACACAAGTCGATGGCAACC
*
674971 CATT
126 C-TC
*
674975 TTCTAAAGCCCACACAAGTT
1 TTCTAAAACCCACACAAGTT
674995 ATGATCTTTC
Statistics
Matches: 518, Mismatches: 117, Indels: 64
0.74 0.17 0.09
Matches are distributed among these distances:
125 1 0.00
126 20 0.04
127 67 0.13
128 79 0.15
129 95 0.18
130 181 0.35
131 36 0.07
132 24 0.05
133 15 0.03
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (128 bp):
TTCTAAAACCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCACATAATTGGTGGCACCCCTTC
TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGATGGCAACCCTC
Found at i:681107 original size:30 final size:30
Alignment explanation
Indices: 681073--681136 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
681063 TATTAATTTT
*
681073 TATAAAAAGAAATAAAAATTTATTTAAAAA
1 TATAAAAAGAAATAAAAATCTATTTAAAAA
* ** *
681103 TATAAAAATATTTGAAAATCTATTTAAAAA
1 TATAAAAAGAAATAAAAATCTATTTAAAAA
681133 TATA
1 TATA
681137 GATTCAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (30 bp):
TATAAAAAGAAATAAAAATCTATTTAAAAA
Found at i:681329 original size:15 final size:16
Alignment explanation
Indices: 681311--681344 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
681301 AAATTTTGTC
681311 AAAAA-TTATTTTTAA
1 AAAAATTTATTTTTAA
*
681326 AAAAATTTGTTTTTAA
1 AAAAATTTATTTTTAA
681342 AAA
1 AAA
681345 TAAAAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAAAATTTATTTTTAA
Found at i:681857 original size:73 final size:73
Alignment explanation
Indices: 681763--681908 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
681753 AAAAGGAAAT
* * *
681763 AAAGAGGAACGAATTAAGAGGAAAAACAGGTACTGAGTGAAAGCATTAAAATTAAGTGGAAATGA
1 AAAGAGGAACGAATGAAGAGGAAAAACAGGTACTGAGTGAAAGCATGAAAATCAAGTGGAAATGA
681828 CCATACTC
66 CCATACTC
*
681836 AAAGAGGAACGAATGAAGAGGAAAAACAGGTACTGAGTGGAAGCATGAAAATCAAGTGGAAATGA
1 AAAGAGGAACGAATGAAGAGGAAAAACAGGTACTGAGTGAAAGCATGAAAATCAAGTGGAAATGA
681901 CCATACTC
66 CCATACTC
681909 GACGTCAGAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.16
Consensus pattern (73 bp):
AAAGAGGAACGAATGAAGAGGAAAAACAGGTACTGAGTGAAAGCATGAAAATCAAGTGGAAATGA
CCATACTC
Found at i:681991 original size:2 final size:2
Alignment explanation
Indices: 681984--682030 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
681974 ACTAGAATGA
681984 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
682026 AG AG A
1 AG AG A
682031 AAGGGAAGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:683140 original size:3 final size:3
Alignment explanation
Indices: 683119--683153 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
683109 CCAGTGAGTG
* *
683119 TTA TTG TTA TTA TTT TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
683154 TTGCATGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:686759 original size:1 final size:1
Alignment explanation
Indices: 686753--686795 Score: 77
Period size: 1 Copynumber: 43.0 Consensus size: 1
686743 GATATTCTCT
*
686753 CCCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
686796 AACAATAAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.98, G:0.00, T:0.02
Consensus pattern (1 bp):
C
Found at i:687945 original size:45 final size:41
Alignment explanation
Indices: 687879--688004 Score: 121
Period size: 47 Copynumber: 2.9 Consensus size: 41
687869 ATTTGTATAA
**
687879 AATTTATATCTTCATATTATATTTATATATTTTATTATGTCAT
1 AATTTATAT-TTTTTATTATATTTATATATTTTATTATGT-AT
* *
687922 AA-TTATATTTAAGGTATT-TTATATTTATATAAATTTTAATATGTTT
1 AATTTATATTT----T-TTATTATATTTATAT--ATTTTATTATGTAT
687968 AATTTATATTTTTTATTATATTTATATATTTTATTAT
1 AATTTATATTTTTTATTATATTTATATATTTTATTAT
688005 ATTATGATCG
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
41 11 0.16
42 8 0.12
43 15 0.22
45 12 0.17
46 4 0.06
47 19 0.28
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (41 bp):
AATTTATATTTTTTATTATATTTATATATTTTATTATGTAT
Found at i:687992 original size:18 final size:18
Alignment explanation
Indices: 687969--688007 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
687959 AATATGTTTA
*
687969 ATTTATATTTTTTATTAT
1 ATTTATATATTTTATTAT
687987 ATTTATATATTTTATTAT
1 ATTTATATATTTTATTAT
688005 ATT
1 ATT
688008 ATGATCGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTATATATTTTATTAT
Found at i:688053 original size:32 final size:32
Alignment explanation
Indices: 687936--688096 Score: 106
Period size: 32 Copynumber: 5.1 Consensus size: 32
687926 ATATTTAAGG
*
687936 TATTTTATATTTATATAAATTTTAATAT-GTT
1 TATTTTATATTTATATAAATTTTAATATATTT
* * *
687967 TAATTTATATTT-TTTATTATATTT-ATATATTT
1 TATTTTATATTTATATA-AAT-TTTAATATATTT
** *
687999 TA--TTATA-TTATGAT-CGTATTTAAAATATTT
1 TATTTTATATTTAT-ATAAAT-TTTAATATATTT
*
688029 TATTTTATATTTATATAAATTTTAATACA-TT
1 TATTTTATATTTATATAAATTTTAATATATTT
* *
688060 AATAATTAT-TATTATATAAATTTTAATATATATT
1 TAT-TTTATAT-TTATATAAATTTTAATATAT-TT
688094 TAT
1 TAT
688097 GTCATGTATT
Statistics
Matches: 100, Mismatches: 16, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
29 7 0.07
30 18 0.18
31 23 0.23
32 43 0.43
33 5 0.05
34 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (32 bp):
TATTTTATATTTATATAAATTTTAATATATTT
Found at i:688089 original size:14 final size:14
Alignment explanation
Indices: 688040--688091 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
688030 ATTTTATATT
688040 TATATAAATTTTAA
1 TATATAAATTTTAA
* *
688054 TACATTAATAATTATTAT
1 TATA-T-A-AATT-TTAA
688072 TATATAAATTTTAA
1 TATATAAATTTTAA
688086 TATATA
1 TATATA
688092 TTTATGTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
14 12 0.40
15 5 0.17
16 2 0.07
17 5 0.17
18 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:689387 original size:20 final size:19
Alignment explanation
Indices: 689362--689408 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 19
689352 AATTATTTTA
689362 TTAAATTTATTTAATAAATT
1 TTAAATTTATTT-ATAAATT
689382 TTAAATTTTTATTTATAAATT
1 TTAAA--TTTATTTATAAATT
*
689403 TGAAAT
1 TTAAAT
689409 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 5 0.21
21 11 0.46
22 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAAATTTATTTATAAATT
Found at i:689401 original size:21 final size:22
Alignment explanation
Indices: 689367--689408 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
689357 TTTTATTAAA
*
689367 TTTATTTAATAAATTTTAAATT
1 TTTATTTAATAAATTTGAAATT
689389 TTTATTT-ATAAATTTGAAAT
1 TTTATTTAATAAATTTGAAAT
689409 ATATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTATTTAATAAATTTGAAATT
Found at i:689494 original size:11 final size:12
Alignment explanation
Indices: 689475--689569 Score: 50
Period size: 12 Copynumber: 7.4 Consensus size: 12
689465 AAATATGATG
689475 TTTAAAATA-TA
1 TTTAAAATATTA
*
689486 TTTATAATATTA
1 TTTAAAATATTA
*
689498 TTTTGTAAATTATTTA
1 --TT-TAAAATA-TTA
689514 TTTAAAATATTA
1 TTTAAAATATTA
** *
689526 TTTTTAATATAA
1 TTTAAAATATTA
689538 TTTTAATTATATATTA
1 -TTTAA--A-ATATTA
*
689554 -TTAAAATATTT
1 TTTAAAATATTA
689565 TTTAA
1 TTTAA
689570 TGTTCCATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
11 13 0.21
12 19 0.30
13 9 0.14
14 8 0.13
15 6 0.10
16 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (12 bp):
TTTAAAATATTA
Found at i:689540 original size:28 final size:28
Alignment explanation
Indices: 689484--689540 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
689474 GTTTAAAATA
* *
689484 TATTTATAATATTATTTTGTAAATTATT
1 TATTTAAAATATTATTTTGTAAATAATT
689512 TATTTAAAATATTATTTT-TAATATAATT
1 TATTTAAAATATTATTTTGTAA-ATAATT
689540 T
1 T
689541 TAATTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TATTTAAAATATTATTTTGTAAATAATT
Found at i:689558 original size:39 final size:40
Alignment explanation
Indices: 689475--689567 Score: 106
Period size: 39 Copynumber: 2.4 Consensus size: 40
689465 AAATATGATG
* *
689475 TTTAAAATA-TATTTATAATATTATTTTGTAAATTATTTA
1 TTTAAAATATTATTTTTAATATTAATTTGTAAATTATTTA
*
689514 TTTAAAATATTATTTTTAATA-TAATTT-T-AATTATATA
1 TTTAAAATATTATTTTTAATATTAATTTGTAAATTATTTA
689551 TTATTAAAATATT-TTTT
1 -T-TTAAAATATTATTTT
689568 AATGTTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
37 8 0.17
38 6 0.12
39 24 0.50
40 10 0.21
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (40 bp):
TTTAAAATATTATTTTTAATATTAATTTGTAAATTATTTA
Found at i:689616 original size:19 final size:20
Alignment explanation
Indices: 689592--689630 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
689582 ATCAAAAGAT
689592 TTTTAA-AAATAATTTATTG
1 TTTTAATAAATAATTTATTG
*
689611 TTTTAATTATATAATTTATT
1 TTTTAA-TAAATAATTTATT
689631 ACTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTAATAAATAATTTATTG
Found at i:692927 original size:2 final size:2
Alignment explanation
Indices: 692920--692951 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
692910 AATCCCAGCC
*
692920 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
692952 TAAAGTCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:693276 original size:3 final size:3
Alignment explanation
Indices: 693268--693308 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
693258 AGACAGCCAT
693268 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
693309 GGATGACGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Done.