Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 15 of 230
Found at i:4229047 original size:14 final size:15
Alignment explanation
Indices: 4228998--4229049 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4228988 ATAAAATATA
4228998 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4229013 TATTAAATATATTAT
1 AATTAAATATATTAT
4229028 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4229041 AATTTAATA
1 AATTAAATA
4229050 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4236132 original size:47 final size:47
Alignment explanation
Indices: 4236078--4236172 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
4236068 TTTAAGTAAG
4236078 TATAATTATAAATTCTACTTTAACCTTTTAAAACAAAATATAACATT
1 TATAATTATAAATTCTACTTTAACCTTTTAAAACAAAATATAACATT
4236125 TATAATTATAAATTCTACTTTAACCTTTTAAAACAAAATATAACATT
1 TATAATTATAAATTCTACTTTAACCTTTTAAAACAAAATATAACATT
4236172 T
1 T
4236173 CAATCTAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (47 bp):
TATAATTATAAATTCTACTTTAACCTTTTAAAACAAAATATAACATT
Found at i:4236794 original size:34 final size:34
Alignment explanation
Indices: 4236709--4236803 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
4236699 ATTTTTCAAA
*
4236709 CACATATGCCAAAAGCATATATTTATACTTATAAAC
1 CACATATGCCAAATGCATATA--TATACTTATAAAC
* * * *
4236745 TACATGTGACAAATGCATATATATACTTATAATC
1 CACATATGCCAAATGCATATATATACTTATAAAC
* * *
4236779 CACATATGCCGAATGCTTACATATA
1 CACATATGCCAAATGCATATATATA
4236804 TATATCCAAC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
34 31 0.65
36 17 0.35
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (34 bp):
CACATATGCCAAATGCATATATATACTTATAAAC
Found at i:4237029 original size:41 final size:41
Alignment explanation
Indices: 4236971--4237061 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
4236961 CTTAATTTAA
4236971 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
4237013 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCGTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
*
4237054 CAGTTCAC
1 CAGATCAC
4237062 ATAAGATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 42 0.91
42 4 0.09
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:4239207 original size:42 final size:42
Alignment explanation
Indices: 4239142--4239274 Score: 126
Period size: 42 Copynumber: 3.2 Consensus size: 42
4239132 ACACTTTTCG
* * ** *
4239142 TTTAGCTTTCT-CGAGTTTATGTTTAATTCATATGAGTTTTCA
1 TTTAGCTTT-TACGAGCTTCTGTTTAACCCATATGAGTTTCCA
* *
4239184 TTTAGCTCTTT-TGAGCTTCTGTTTAACCCTTATGAGTTTCCA
1 TTTAGCT-TTTACGAGCTTCTGTTTAACCCATATGAGTTTCCA
* * * **
4239226 TTTAGCTTTTACGAGCTTCTGTTCAACCCTTATGGGTTTCTG
1 TTTAGCTTTTACGAGCTTCTGTTTAACCCATATGAGTTTCCA
4239268 TTTAGCT
1 TTTAGCT
4239275 CTTATGAACT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.04
42 72 0.94
43 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (42 bp):
TTTAGCTTTTACGAGCTTCTGTTTAACCCATATGAGTTTCCA
Found at i:4239208 original size:21 final size:21
Alignment explanation
Indices: 4239184--4239290 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
4239174 TGAGTTTTCA
*
4239184 TTTAGCTCTTTTGAGCTTCTG
1 TTTAGCTCTTATGAGCTTCTG
* * * **
4239205 TTTAACCCTTATGAGTTTCCA
1 TTTAGCTCTTATGAGCTTCTG
* *
4239226 TTTAGCTTTTACGAGCTTCTG
1 TTTAGCTCTTATGAGCTTCTG
* * * * *
4239247 TTCAACCCTTATGGGTTTCTG
1 TTTAGCTCTTATGAGCTTCTG
* *
4239268 TTTAGCTCTTATGAACTTTTG
1 TTTAGCTCTTATGAGCTTCTG
4239289 TT
1 TT
4239291 CAATCTTCAG
Statistics
Matches: 59, Mismatches: 27, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTAGCTCTTATGAGCTTCTG
Found at i:4239291 original size:42 final size:42
Alignment explanation
Indices: 4239172--4239293 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
4239162 GTTTAATTCA
* * *
4239172 TATGAGTTTTCATTTAGCTCTTTTGAGCTTCTGTTTAACCCT
1 TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAACCCT
* *
4239214 TATGAGTTTCCATTTAGCTTTTACGAGCTTCTGTTCAACCCT
1 TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAACCCT
* ** * *
4239256 TATGGGTTTCTGTTTAGCTCTTATGAACTTTTGTTCAA
1 TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAA
4239294 TCTTCAGGCT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (42 bp):
TATGAGTTTCCATTTAGCTCTTATGAGCTTCTGTTCAACCCT
Found at i:4240908 original size:42 final size:42
Alignment explanation
Indices: 4240835--4241188 Score: 437
Period size: 42 Copynumber: 8.4 Consensus size: 42
4240825 ACGTCACTAG
* * * *
4240835 CTTTTGCGGCGCTTACATAAAAAAACACCGCTAAAGATTATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
*
4240879 CTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
4240921 CTTTAGCGACGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
4240963 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
4241005 CTTTAGCGGTGCTTATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
4241047 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
** * *
4241089 CTTTAGCGGCGCTTTAGAGGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* * ** *
4241132 CTATAGCGACGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTATT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
4241174 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
4241189 TTTCACAAAC
Statistics
Matches: 276, Mismatches: 29, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
41 2 0.01
42 231 0.84
43 31 0.11
44 12 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:4241626 original size:12 final size:12
Alignment explanation
Indices: 4241609--4241648 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
4241599 TTTTAAACCT
*
4241609 CTGCTTCTATTG
1 CTGCTTCTATCG
*
4241621 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
4241633 CTGCTTCTCTCG
1 CTGCTTCTATCG
4241645 CTGC
1 CTGC
4241649 AGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:4241659 original size:21 final size:21
Alignment explanation
Indices: 4241633--4241695 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
4241623 GCTTCTCTCG
4241633 CTGCTTCTCTCGCTGCAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
4241654 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * * *
4241675 TTGCTTCCCTTGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
4241696 GTACTTTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.03, C:0.41, G:0.19, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:4244129 original size:41 final size:41
Alignment explanation
Indices: 4244084--4244405 Score: 107
Period size: 42 Copynumber: 7.1 Consensus size: 41
4244074 TTAATAAAAT
4244084 TTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
1 TTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
* * ** * *
4244125 TTAAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-TAATAAAA
1 TT--AAATATAGCT--TACATACGTAA---ATGAA--TA-TATGT-ATAATA
4244175 TTTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
1 -TTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
* * ** * *
4244217 TTAAACAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-TAATAAAA
1 TT-AA-ATATAGCT--TACATACGTAA---ATGAA--TA-TATGT-ATAATA
4244267 TTTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
1 -TTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
* * * ** * *
4244309 TCAAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATTAT-TAATAAAA
1 T--TAAATATAGCT--TACATACGTAA---ATGAA--TA-TATGT-ATAATA
4244359 TTTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
1 -TTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
4244401 TTAAA
1 TTAAA
4244406 AAATAGTAAT
Statistics
Matches: 201, Mismatches: 38, Indels: 84
0.62 0.12 0.26
Matches are distributed among these distances:
41 10 0.05
42 29 0.14
43 28 0.14
44 24 0.12
45 12 0.06
47 12 0.06
48 24 0.12
49 28 0.14
50 29 0.14
51 5 0.02
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (41 bp):
TTAAATATAGCTTACATACGTAAATGAATATATGTATAATA
Found at i:4244174 original size:92 final size:92
Alignment explanation
Indices: 4244016--4244479 Score: 894
Period size: 92 Copynumber: 5.0 Consensus size: 92
4244006 CTATTGAATG
4244016 GAATATATGTATAATATTAAAAAGAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAA
1 GAATATATGTATAATATTAAAAA-AATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAA
4244081 AATTTAAATATAGCTTACATACGTAAAT
65 AATTTAAATATAGCTTACATACGTAAAT
4244109 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
4244174 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
*
4244201 GAATATATGTATAATATTAAACAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
4244266 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
*
4244293 GAATATATGTATAATATCAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
4244358 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
4244385 GAATATATGTATAATATT-AAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
1 GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
4244449 ATTTAAATATAGCTTACATACGTAAAT
66 ATTTAAATATAGCTTACATACGTAAAT
4244476 GAAT
1 GAAT
4244480 GCTTTTAAAC
Statistics
Matches: 367, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
91 77 0.21
92 267 0.73
93 23 0.06
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (92 bp):
GAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAA
ATTTAAATATAGCTTACATACGTAAAT
Found at i:4244954 original size:14 final size:14
Alignment explanation
Indices: 4244916--4244954 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4244906 ACAGTAAGAC
*
4244916 ATTTGCACATCAAA
1 ATTTGCACATAAAA
*
4244930 ATTTCCTACATAAAA
1 ATTTGC-ACATAAAA
4244945 ATTTGCACAT
1 ATTTGCACAT
4244955 CAAATCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (14 bp):
ATTTGCACATAAAA
Found at i:4245593 original size:6 final size:6
Alignment explanation
Indices: 4245582--4245609 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4245572 AAGTAAGAAT
4245582 TGGGGC TGGGGC TGGGGC TGGGGC TGGG
1 TGGGGC TGGGGC TGGGGC TGGGGC TGGG
4245610 TGAGAGCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.68, T:0.18
Consensus pattern (6 bp):
TGGGGC
Found at i:4247567 original size:23 final size:23
Alignment explanation
Indices: 4247537--4247581 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4247527 CAATATTAAT
*
4247537 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
4247560 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
4247582 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:4255335 original size:34 final size:35
Alignment explanation
Indices: 4255263--4255336 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 35
4255253 ATAAAAAATT
* * *
4255263 TAAAAGAATAATTTATTTATTTTTAATTTAATATA
1 TAAAAGAATAATTTATTTATTTTTAATATAAGAAA
*
4255298 TAAAA-AATTATTTATTTATTTTTAA-ATAGAGAAA
1 TAAAAGAATAATTTATTTATTTTTAATATA-AGAAA
4255332 TAAAA
1 TAAAA
4255337 TGCAATCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.06
34 27 0.79
35 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (35 bp):
TAAAAGAATAATTTATTTATTTTTAATATAAGAAA
Found at i:4257611 original size:16 final size:16
Alignment explanation
Indices: 4257578--4257611 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4257568 CACCTATGTT
* *
4257578 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
4257594 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
4257610 AA
1 AA
4257612 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:4260434 original size:21 final size:21
Alignment explanation
Indices: 4260408--4260448 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4260398 AGACGAGCAA
* *
4260408 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4260429 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4260449 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4262387 original size:16 final size:16
Alignment explanation
Indices: 4262354--4262387 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4262344 GGAGATTGTT
* *
4262354 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
4262370 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
4262386 AA
1 AA
4262388 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:4280238 original size:22 final size:22
Alignment explanation
Indices: 4280210--4280252 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4280200 ACTTTAAGCG
4280210 ATGCGAATTAACATTGTTAACA
1 ATGCGAATTAACATTGTTAACA
4280232 ATGCGAATTAACATTGTTAAC
1 ATGCGAATTAACATTGTTAAC
4280253 GATCAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
ATGCGAATTAACATTGTTAACA
Found at i:4284979 original size:19 final size:19
Alignment explanation
Indices: 4284946--4284993 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4284936 TAAACAATTC
4284946 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
4284963 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
4284982 AATAATATAAAT
1 AATAATATAAAT
4284994 AGTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:4292352 original size:19 final size:20
Alignment explanation
Indices: 4292315--4292354 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
4292305 TCTTTTCGCA
* *
4292315 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
4292335 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
4292354 T
1 T
4292355 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:4294268 original size:21 final size:21
Alignment explanation
Indices: 4294243--4294282 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4294233 AAATGTTGTT
4294243 TCATTCTTTACGATTTTTTTC
1 TCATTCTTTACGATTTTTTTC
**
4294264 TCATTCTTTTGGATTTTTT
1 TCATTCTTTACGATTTTTT
4294283 CTGCCAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.07, T:0.65
Consensus pattern (21 bp):
TCATTCTTTACGATTTTTTTC
Found at i:4295242 original size:14 final size:14
Alignment explanation
Indices: 4295223--4295249 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4295213 GCTTTGAGTC
4295223 CAAAAAATAAAAAT
1 CAAAAAATAAAAAT
4295237 CAAAAAATAAAAA
1 CAAAAAATAAAAA
4295250 AAGAGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (14 bp):
CAAAAAATAAAAAT
Found at i:4297751 original size:44 final size:44
Alignment explanation
Indices: 4297702--4298616 Score: 268
Period size: 44 Copynumber: 20.8 Consensus size: 44
4297692 CCAGTAATTC
* *
4297702 TATCTCCCTAGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** *
4297746 TATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
4297790 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * *
4297834 TATCTCCCTGGGTAACAGTGGAATACATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** * *
4297878 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * *
4297922 TACCTCCTTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * *
4297966 TATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * *
4298010 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * *
4298054 TACCTCCCTAAGGTTA-CAGTGGAGTACATTAAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * * * *
4298098 TATCTTCATGGGTAACAGTGGAATAGATTGATGA-TATCAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTA-CAGATCT
** * * ** **** *
4298142 TGCCTTCCT--GTATTGACAGTGGA-TCAGATCAAAGATGGTGGATTT
1 TATCTCCCTAGGCA--G-CAGTGGAGT-AGATTGAAGATTACAGATCT
* * * * *
4298187 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * *
4298231 TATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * ** *
4298275 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * *
4298319 TACCTCCCTGAGGTTA-TAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * *
4298363 TATCTCCCTGGGTAGCAGTGGAATACATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * ** * *
4298407 TATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * *
4298451 TACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * * * *
4298495 TATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * ** *
4298539 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * *
4298583 TACCTCCCTGAGGTTA-CAGTGGAGTATATTGAAG
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG
4298617 CCAGTAATTC
Statistics
Matches: 619, Mismatches: 193, Indels: 117
0.67 0.21 0.13
Matches are distributed among these distances:
40 2 0.00
41 16 0.03
42 18 0.03
43 118 0.19
44 300 0.48
45 143 0.23
46 12 0.02
47 7 0.01
48 1 0.00
49 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:4297903 original size:529 final size:529
Alignment explanation
Indices: 4296573--4298631 Score: 3428
Period size: 529 Copynumber: 3.9 Consensus size: 529
4296563 CCTAGGTAGT
* * *
4296573 AGTGGAGT-AGATCGAAGATGGCGGGTTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
1 AGTGGA-TCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCC
* * * *
4296637 AGTAATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGCAGATTACAGATTTTATCTCCCTAAGC
65 AGTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGC
* * *
4296702 AGTAGTGGAGCAGATCGAAGATGTCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAG
130 AGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAG
*
4296767 CCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAA
195 CCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAA
* ** * *
4296832 GCAGTAGTGGAGCAGATCAAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTAA
260 GCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGA
* * *
4296897 AGCCAGTAATTTTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
325 AGCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCT
* * * *
4296962 AAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTATAGTAGAGTACATT
390 AAGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATT
* * * * ** *
4297027 GAAGCCAGTAATTCTATCTCCCTCGGCAGCAGTGGAATAGATTGAAGAT-TACAGATCTTATCTC
455 GAAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATAT-CAGATCTTGCCTT
*
4297091 CCTAAGTA--G-T
519 CCT--GTATTGAC
* *
4297101 AGTGGAGCAGATCAAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
* *
4297166 GTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
* * * *
4297231 GTAGTGGAGTAGATCGAAGATGGCGGATTTTACCTCACTGAGGTTACTGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* *
4297296 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATAGAAGATTACAGATCTTATCTCCCTAAG
196 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
*
4297361 CAGTAGCGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
* * * *
4297426 GCCAGTAATTCTATCTCCCTGGACAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTA
326 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
* *
4297491 AGCAGTAGTGGAGCAGATC-AAGGATGGCGGATTTTACCTCCCTAAGGTTACAGTGGAGTACATT
391 AGCAGTAGTGGAGTAGATCGAA-GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATT
4297555 GAAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATCAGATCTTGCCTTC
455 GAAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATCAGATCTTGCCTTC
4297620 CTGTATTGAC
520 CTGTATTGAC
4297630 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
*
4297695 GTAATTCTATCTCCCTAGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
*
4297760 GTAGTAGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
* *
4297825 CAGTAATTCTATCTCCCTGGGTAACAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
196 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
* *
4297890 TAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
*
4297955 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTA
326 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
* * *
4298020 GGCAGTAGTGGAGTAGATCGAAGATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTA
391 AGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
* *
4298085 AAGCCAGTAATTCTATCTTCATGGGTAACAGTGGAATAGATTGATGATATCAGATCTTGCCTTCC
456 AAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATCAGATCTTGCCTTCC
4298150 TGTATTGAC
521 TGTATTGAC
4298159 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
4298224 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
66 GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
*
4298289 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTATAGTGGAGTACATTGAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
*
4298354 CAGTAATTCTATCTCCCTGGGTAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
196 CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
*
4298419 TAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
*
4298484 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTA
326 GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
* * *
4298549 GGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTG
391 AGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
4298614 AAGCCAGTAATTCTATCT
456 AAGCCAGTAATTCTATCT
4298632 CTCTAGTCGG
Statistics
Matches: 1450, Mismatches: 74, Indels: 13
0.94 0.05 0.01
Matches are distributed among these distances:
526 3 0.00
527 2 0.00
528 481 0.33
529 962 0.66
530 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (529 bp):
AGTGGATCAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
CAGTAATTCTATCTCCCTGGGCAGCAGTGGAATACATTGAAGATTACAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAA
GCCAGTAATTCTATCTCCATGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTA
AGCAGTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTG
AAGCCAGTAATTCTATCTTCATGGGCAACAGTGGAATAGATTGAAGATATCAGATCTTGCCTTCC
TGTATTGAC
Found at i:4298704 original size:132 final size:132
Alignment explanation
Indices: 4296536--4298660 Score: 3274
Period size: 132 Copynumber: 16.1 Consensus size: 132
4296526 TAGCGTGAAG
* * * * *
4296536 TAGATTGAATATTACAGATCTTATCTCCCTAGGTAGTAGTGGAGTAGATCGAAGATGGCGGGTTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
*
4296601 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4296666 AA
131 AA
* * *
4296668 TAGATTGCAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGTCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
*
4296733 TACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4296798 AA
131 AA
* **
4296800 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * *
4296865 TACCTCCCTGAGGTTACAGTAGAGTACATTAAAGCCAGTAATTTTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4296930 AA
131 AA
*
4296932 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * *
4296997 TACCTCCCTGAGGTTATAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTCGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4297062 AA
131 AA
* * **
4297064 TAGATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGATGGTAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
4297129 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4297194 AA
131 AA
* *
4297196 TAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
4297261 TACCTCACTGAGGTTACTGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4297326 AA
131 AA
* *
4297328 TAGATAGAAGATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
4297393 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGACAGCAGTGA
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4297458 AA
131 AA
4297460 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAGGATGGCGGATT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAA-GATGGCGGATT
* * * *
4297524 TTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCATGGGCAACAGTG
65 TTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTG
4297589 GAA
130 GAA
** * * * * * *
4297592 TAGATTGAAGA-TATCAGATCTTGCCTTCCT--GTATTGACAGTGGATCAGATCAAAGATGGTGG
1 TAGATTGAAGATTA-CAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGATGGCGG
*
4297654 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCA
62 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
*
4297719 GTGAAA
127 GTGGAA
* *
4297725 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
4297790 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4297855 AA
131 AA
* *
4297857 TACATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * *
4297922 TACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCATGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4297987 AA
131 AA
* * * * *
4297989 TAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * * * * *
4298054 TACCTCCCTAAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTTCATGGGTAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4298119 AA
131 AA
* ** * * * * * *
4298121 TAGATTGATGA-TATCAGATCTTGCCTTCCT--GTATTGACAGTGGATCAGATCAAAGATGGTGG
1 TAGATTGAAGATTA-CAGATCTTATCTCCCTAAGCA--G-TAGTGGAGCAGATCGAAGATGGCGG
4298183 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
62 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCA
*
4298248 GTGAAA
127 GTGGAA
*
4298254 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
4298319 TACCTCCCTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGTAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4298384 AA
131 AA
* *
4298386 TACATTGAAGATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCGGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* *
4298451 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCATGGGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4298516 AA
131 AA
* * * *
4298518 TAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
* * * * *
4298583 TACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCTCTAGTCGGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
4298648 AA
131 AA
* *
4298650 TCGATCGAAGA
1 TAGATTGAAGA
4298661 AAGTAGATCT
Statistics
Matches: 1818, Mismatches: 159, Indels: 32
0.90 0.08 0.02
Matches are distributed among these distances:
130 4 0.00
131 6 0.00
132 1583 0.87
133 215 0.12
134 6 0.00
135 4 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
TAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGG
AA
Found at i:4298730 original size:43 final size:44
Alignment explanation
Indices: 4298652--4298747 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 44
4298642 CAGTGGAATC
* *
4298652 GATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCATGTATTGGCATGAAGTA
*
4298696 GATCGAAGAAAGTAGTTC-TATCTTCATGTATTGGCATGAAGTA
1 GATCGAAGAAAGTAGATCTTATCTTCATGTATTGGCATGAAGTA
*
4298739 GATCAAAGA
1 GATCGAAGA
4298748 GAGCAAATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 31 0.65
44 17 0.35
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.30
Consensus pattern (44 bp):
GATCGAAGAAAGTAGATCTTATCTTCATGTATTGGCATGAAGTA
Found at i:4300288 original size:15 final size:16
Alignment explanation
Indices: 4300262--4300294 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4300252 ATTTAGTCCC
*
4300262 TTTTTTACAATTTGTT
1 TTTTTTACAATTTATT
4300278 TTTTTTA-AATTTATT
1 TTTTTTACAATTTATT
4300293 TT
1 TT
4300295 CTCTCATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTTACAATTTATT
Found at i:4300313 original size:3 final size:3
Alignment explanation
Indices: 4300300--4300359 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
4300290 ATTTTCTCTC
* * *
4300300 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
4300346 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
4300360 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4300344 original size:24 final size:21
Alignment explanation
Indices: 4300300--4300362 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4300290 ATTTTCTCTC
*
4300300 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
4300321 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
4300340 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
4300360 ATT
1 ATT
4300363 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:4300362 original size:8 final size:9
Alignment explanation
Indices: 4300300--4300363 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
4300290 ATTTTCTCTC
4300300 ATTATTTATT
1 ATTATTT-TT
4300310 ATTATTGTTAT
1 ATTATT-TT-T
4300321 ATTATTTATT
1 ATTATTT-TT
* **
4300331 ATCATCATT
1 ATTATTTTT
4300340 ATTATTTTT
1 ATTATTTTT
4300349 ATTATTTTT
1 ATTATTTTT
4300358 A-TATTT
1 ATTATTT
4300364 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:4313693 original size:29 final size:28
Alignment explanation
Indices: 4313661--4313721 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
4313651 AAAAAGCCCT
4313661 TTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
4313690 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGAAATGGGCCA
4313718 TTTT
1 TTTT
4313722 CCGCAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:4338720 original size:57 final size:57
Alignment explanation
Indices: 4338657--4338774 Score: 218
Period size: 57 Copynumber: 2.1 Consensus size: 57
4338647 GAGCTTTCGA
* *
4338657 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTTAGTAATT
1 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTGAGTAACT
4338714 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTGAGTAACT
1 TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTGAGTAACT
4338771 TTGG
1 TTGG
4338775 GTGTAGTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (57 bp):
TTGGTGCAAATAGTGCAAGCAAAAAAGGTCATACATGATACAACAATTTGAGTAACT
Found at i:4339096 original size:11 final size:11
Alignment explanation
Indices: 4339057--4339249 Score: 122
Period size: 11 Copynumber: 19.2 Consensus size: 11
4339047 GGCCCATTTT
4339057 TATTTTAAAAA
1 TATTTTAAAAA
4339068 T-TTTT-AAAA
1 TATTTTAAAAA
*
4339077 -A-TTAAAAAA
1 TATTTTAAAAA
4339086 GTATTTTAAAAA
1 -TATTTTAAAAA
4339098 TATTTTAAAAA
1 TATTTTAAAAA
4339109 TATTTT--AAA
1 TATTTTAAAAA
*
4339118 -A-TTAAAAAA
1 TATTTTAAAAA
4339127 TATTTTAAAAA
1 TATTTTAAAAA
4339138 TATTTT-AAAA
1 TATTTTAAAAA
4339148 TATTTT--AAA
1 TATTTTAAAAA
4339157 -A--TTAAAAA
1 TATTTTAAAAA
* **
4339165 AATTAAAAAAA
1 TATTTTAAAAA
4339176 GTATTTTAAAAA
1 -TATTTTAAAAA
4339188 TATTTT--AAA
1 TATTTTAAAAA
4339197 -A-TTTAAAAA
1 TATTTTAAAAA
* *
4339206 -AATTAAAAAA
1 TATTTTAAAAA
* *
4339216 GTATGTAAAAAA
1 -TATTTTAAAAA
4339228 TATTTT-AAAA
1 TATTTTAAAAA
*
4339238 T-TTTAAAAAA
1 TATTTTAAAAA
4339248 TA
1 TA
4339250 AATATATTTA
Statistics
Matches: 145, Mismatches: 15, Indels: 44
0.71 0.07 0.22
Matches are distributed among these distances:
6 2 0.01
7 5 0.03
8 8 0.06
9 28 0.19
10 32 0.22
11 47 0.32
12 23 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4339131 original size:29 final size:29
Alignment explanation
Indices: 4339093--4339148 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
4339083 AAAGTATTTT
4339093 AAAAATATTTTAAAAATATTTTAAAATTA
1 AAAAATATTTTAAAAATATTTTAAAATTA
4339122 AAAAATATTTTAAAAATATTTTAAAAT
1 AAAAATATTTTAAAAATATTTTAAAAT
4339149 ATTTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAAATATTTTAAAAATATTTTAAAATTA
Found at i:4339136 original size:40 final size:41
Alignment explanation
Indices: 4339057--4339249 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 41
4339047 GGCCCATTTT
*
4339057 TATTTTAAAAAT-TTTTAAAAATTAAAAAAGTATTTTAAAAA-
1 TATTTTAAAAATATTTT-AAAATTAAAAAA-TATTTAAAAAAG
*
4339098 TATTTTAAAAATATTTTAAAATTAAAAAATATTTTAAAAA-
1 TATTTTAAAAATATTTTAAAATTAAAAAATATTTAAAAAAG
*
4339138 TATTTT-AAAATATTTTAAAATTAAAAAA-ATTAAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAATATTTAAAAAAG
4339177 TATTTTAAAAATATTTTAAAATTTAAAAAA-A-TTAAAAAAG
1 TATTTTAAAAATATTTTAAAA-TTAAAAAATATTTAAAAAAG
* *
4339217 TATGTAAAAAATATTTTAAAATTTTAAAAAATA
1 TATTTTAAAAATATTTTAAAA--TTAAAAAATA
4339250 AATATATTTA
Statistics
Matches: 141, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
38 8 0.06
39 28 0.20
40 58 0.41
41 42 0.30
42 5 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (41 bp):
TATTTTAAAAATATTTTAAAATTAAAAAATATTTAAAAAAG
Found at i:4339238 original size:50 final size:48
Alignment explanation
Indices: 4339115--4339237 Score: 167
Period size: 50 Copynumber: 2.5 Consensus size: 48
4339105 AAAATATTTT
**
4339115 AAAATTAAAAAATATTTTAAAAATATTTTAAAATATTTTAAAATTAAA
1 AAAATTAAAAAATATTTTAAAAATATTTTAAAATATTAAAAAATTAAA
4339163 AAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAT-TTAAAAAAATTAAA
1 AAAATT-AAAAAA-TATTTTAAAAATATTTTAAAATATT-AAAAAATTAAA
4339213 AAAGTATGTAAAAAATATTTTAAAA
1 AAA--AT-TAAAAAATATTTTAAAA
4339238 TTTTAAAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
48 6 0.09
49 8 0.12
50 34 0.51
51 10 0.15
52 8 0.12
53 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (48 bp):
AAAATTAAAAAATATTTTAAAAATATTTTAAAATATTAAAAAATTAAA
Found at i:4339248 original size:50 final size:46
Alignment explanation
Indices: 4339088--4339248 Score: 137
Period size: 50 Copynumber: 3.3 Consensus size: 46
4339078 TTAAAAAAGT
***
4339088 ATTTTAAAAATATTTTAAAAATATTTTAAAATTAAAAAATATTTTAAAAA
1 ATTTTAAAAA-A-TTTAAAAAT-TAAAAAAATTAAAAAATATTTT-AAAA
* *
4339138 TATTTTAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAA
1 -ATTTTAAAAAATTTAAAAATTAAAAAAATT-AAAAAA-TATTTTAAAA
*
4339187 ATATTT-TAAAATTTAAAAAAATTAAAAAAGTATGTAAAAAATATTTT-AAA
1 AT-TTTAAAAAATTT--AAAAATTAAAAAA--AT-TAAAAAATATTTTAAAA
4339237 ATTTTAAAAAAT
1 ATTTTAAAAAAT
4339249 AAATATATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 19
0.77 0.08 0.16
Matches are distributed among these distances:
48 15 0.16
49 24 0.26
50 29 0.32
51 15 0.16
52 8 0.09
53 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (46 bp):
ATTTTAAAAAATTTAAAAATTAAAAAAATTAAAAAATATTTTAAAA
Found at i:4356520 original size:21 final size:21
Alignment explanation
Indices: 4356496--4356539 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
4356486 TGACCAAATG
4356496 AATTATTGGAACAATCCTAAT
1 AATTATTGGAACAATCCTAAT
4356517 AATTATTGGAACAATCCTAAT
1 AATTATTGGAACAATCCTAAT
4356538 AA
1 AA
4356540 CCTAACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (21 bp):
AATTATTGGAACAATCCTAAT
Found at i:4362322 original size:16 final size:17
Alignment explanation
Indices: 4362291--4362374 Score: 62
Period size: 17 Copynumber: 4.7 Consensus size: 17
4362281 CCGATATAAT
* * *
4362291 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
4362308 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
4362324 AAATATTTTTAAAATACTTTTT
1 AAATATTTTT---A-A-TTTTA
* *
4362346 TATTATTTTTAATTTTA
1 AAATATTTTTAATTTTA
4362363 AAATATTTTTAA
1 AAATATTTTTAA
4362375 AATACTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
16 13 0.25
17 23 0.44
18 1 0.02
19 1 0.02
20 1 0.02
21 1 0.02
22 12 0.23
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:4362333 original size:11 final size:11
Alignment explanation
Indices: 4362319--4362384 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
4362309 AATTTTTTAA
4362319 TTTTAAAATAT
1 TTTTAAAATAT
4362330 TTTTAAAATACT
1 TTTTAAAATA-T
* *
4362342 TTTT-TATTAT
1 TTTTAAAATAT
4362352 TTTT---A-A-
1 TTTTAAAATAT
4362358 TTTTAAAATAT
1 TTTTAAAATAT
4362369 TTTTAAAATACT
1 TTTTAAAATA-T
4362381 TTTT
1 TTTT
4362385 TTTATTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
6 4 0.09
7 1 0.02
9 1 0.02
10 6 0.13
11 23 0.51
12 10 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:4362383 original size:28 final size:28
Alignment explanation
Indices: 4362330--4362383 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
4362320 TTTAAAATAT
* * *
4362330 TTTTAAAATACTTTTTTATTATTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTAA
4362358 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTT-AAATACTTTT
4362384 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAATACTTTTAA
Found at i:4362394 original size:39 final size:40
Alignment explanation
Indices: 4362302--4362396 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 40
4362292 AATATATTTA
*
4362302 TTTTTTA-AATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
4362341 TTTTTTATTA-TTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
4362380 TTTTTT-TTATTTTTTAA
1 TTTTTTATTATTTTTTAA
4362397 AATAAATTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
38 3 0.06
39 49 0.92
40 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:4362406 original size:23 final size:23
Alignment explanation
Indices: 4362368--4362426 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
4362358 TTTTAAAATA
* **
4362368 TTTTTAAAAT-ACTTTTTTTTAT
1 TTTTTAAAATAAATTTTTGGTAT
4362390 TTTTTAAAATAAATTTTTGGTAT
1 TTTTTAAAATAAATTTTTGGTAT
*
4362413 TTATTAAAA-AAATT
1 TTTTTAAAATAAATT
4362427 GACCGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (23 bp):
TTTTTAAAATAAATTTTTGGTAT
Found at i:4365637 original size:43 final size:43
Alignment explanation
Indices: 4365567--4365674 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
4365557 ACACACCAAC
* *
4365567 CTGGCAC-CACAGTGCATCATCAGATAAACTAAAGCAAATAAA
1 CTGGCACACAAAGTGCATCATCAAATAAACTAAAGCAAATAAA
* * * *
4365609 CTGGCACACAAAGTGCATAATCAAATAAACTGAAGTAAATATA
1 CTGGCACACAAAGTGCATCATCAAATAAACTAAAGCAAATAAA
*
4365652 CTGGCACACGAAGTGCATCATCA
1 CTGGCACACAAAGTGCATCATCA
4365675 TACAAGCTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 7 0.12
43 50 0.88
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (43 bp):
CTGGCACACAAAGTGCATCATCAAATAAACTAAAGCAAATAAA
Found at i:4365685 original size:43 final size:42
Alignment explanation
Indices: 4365567--4365694 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 42
4365557 ACACACCAAC
* * * *
4365567 CTGGCAC-CACAGTGCATCATCAGATAAACTAAAGCAAATAAA
1 CTGGCACACAAAGTGCATCATCAAATAAACTGAAG-AAATATA
*
4365609 CTGGCACACAAAGTGCATAATCAAATAAACTGAAGTAAATATA
1 CTGGCACACAAAGTGCATCATCAAATAAACTGAAG-AAATATA
* * * *
4365652 CTGGCACACGAAGTGCATCATCATACAAGCTGAAAGAAATATA
1 CTGGCACACAAAGTGCATCATCAAATAAACTG-AAGAAATATA
4365695 TTGACTCATG
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 7 0.10
43 63 0.86
44 3 0.04
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (42 bp):
CTGGCACACAAAGTGCATCATCAAATAAACTGAAGAAATATA
Found at i:4365871 original size:49 final size:49
Alignment explanation
Indices: 4365810--4365939 Score: 217
Period size: 49 Copynumber: 2.7 Consensus size: 49
4365800 CACTTTTTCT
4365810 ATTTGA-TATTGATTAGAATAAGGTGTTTCAACCTTACTACATTGCTTCC
1 ATTTGACT-TTGATTAGAATAAGGTGTTTCAACCTTACTACATTGCTTCC
* *
4365859 ATTTGACTTTGATTAGAATAAGGTGTTTCAACCTTACTACATTGTTTCT
1 ATTTGACTTTGATTAGAATAAGGTGTTTCAACCTTACTACATTGCTTCC
*
4365908 ATTTGACTTTGATTAGAATAAGGTTTTTCAAC
1 ATTTGACTTTGATTAGAATAAGGTGTTTCAAC
4365940 ATATAAATAG
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
49 76 0.99
50 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (49 bp):
ATTTGACTTTGATTAGAATAAGGTGTTTCAACCTTACTACATTGCTTCC
Found at i:4370587 original size:20 final size:20
Alignment explanation
Indices: 4370545--4370594 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
4370535 GCTTGTACGA
* * *
4370545 GTTTGCAGTTTGGTGTCTCT
1 GTTTGCACTTTGATGCCTCT
*
4370565 GTTTGCACTTTGATGCCTTT
1 GTTTGCACTTTGATGCCTCT
*
4370585 GTTAGCACTT
1 GTTTGCACTT
4370595 CGGTGCACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (20 bp):
GTTTGCACTTTGATGCCTCT
Found at i:4372045 original size:39 final size:38
Alignment explanation
Indices: 4371978--4372111 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
4371968 ACTAGTATGG
*
4371978 CACCCAGTGCCTCATCGG-ATAGTTCGAAGCAATAATTGA
1 CACCCAGTGCCTCATCGGCATAG-CCGAAG-AATAATTGA
* * * *
4372017 CACCCAGTGTCTCATCGGCAGAGCCGAAGAA-AGTTGG
1 CACCCAGTGCCTCATCGGCATAGCCGAAGAATAATTGA
* * * * * *
4372054 TACCCAGTACCTCATCGACTCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCGGC-ATAGCCGAAG-AATA-ATTGA
*
4372095 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
4372112 ACTCGAGGTC
Statistics
Matches: 72, Mismatches: 18, Indels: 8
0.73 0.18 0.08
Matches are distributed among these distances:
37 19 0.26
38 9 0.12
39 24 0.33
40 4 0.06
41 16 0.22
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCATAGCCGAAGAATAATTGA
Found at i:4372259 original size:27 final size:25
Alignment explanation
Indices: 4372212--4372282 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
4372202 TCACATATAT
**
4372212 TTTCAATTCAATCACAATTTCTCACAC
1 TTTCAATTCAATCATTATTTC-CAC-C
*
4372239 TTTCAATTCAATCATTTTTTCCACC
1 TTTCAATTCAATCATTATTTCCACC
*
4372264 -TTCAA-TCAATAATTATTTC
1 TTTCAATTCAATCATTATTTC
4372283 ACAAATTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 12 0.31
24 5 0.13
25 1 0.03
26 3 0.08
27 18 0.46
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTCAATTCAATCATTATTTCCACC
Found at i:4372267 original size:24 final size:25
Alignment explanation
Indices: 4372213--4372285 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 25
4372203 CACATATATT
* * *
4372213 TTCAATTCAATCACAATTTCTCACACT
1 TTCAATTCAAT--CATTTTTTCACACC
4372240 TTCAATTCAATCATTTTTTC-CACC
1 TTCAATTCAATCATTTTTTCACACC
* *
4372264 TTCAA-TCAATAATTATTTCACA
1 TTCAATTCAATCATTTTTTCACA
4372286 AATTCACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 12 0.30
24 10 0.25
25 7 0.17
27 11 0.28
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (25 bp):
TTCAATTCAATCATTTTTTCACACC
Found at i:4372434 original size:3 final size:3
Alignment explanation
Indices: 4372426--4372475 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
4372416 ATTCCCACTC
* * * *
4372426 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4372473 ATA
1 ATA
4372476 CTTACCTCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4372477 original size:12 final size:12
Alignment explanation
Indices: 4372426--4372475 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
4372416 ATTCCCACTC
*
4372426 ATAATAATAATA
1 ATAATAATATTA
*
4372438 ATAATAATACTA
1 ATAATAATATTA
4372450 ATAATAA-ATTA
1 ATAATAATATTA
*
4372461 ATACTAATATTA
1 ATAATAATATTA
4372473 ATA
1 ATA
4372476 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAATAATATTA
Found at i:4372703 original size:11 final size:11
Alignment explanation
Indices: 4372689--4372714 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4372679 CTTTTTCTTC
4372689 TTTCTCCCCTG
1 TTTCTCCCCTG
4372700 TTTCTCCCCTG
1 TTTCTCCCCTG
4372711 TTTC
1 TTTC
4372715 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:4373077 original size:7 final size:7
Alignment explanation
Indices: 4373065--4373091 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4373055 TTTAATTTAA
4373065 TAATAAC
1 TAATAAC
4373072 TAATAAC
1 TAATAAC
4373079 TAATAAC
1 TAATAAC
4373086 TAATAA
1 TAATAA
4373092 TAAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAC
Found at i:4373098 original size:14 final size:13
Alignment explanation
Indices: 4373062--4373094 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
4373052 TCTTTTAATT
4373062 TAATAATAACTAA
1 TAATAATAACTAA
4373075 TAACTAATAACTAA
1 TAA-TAATAACTAA
4373089 TAATAA
1 TAATAA
4373095 ATAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (13 bp):
TAATAATAACTAA
Found at i:4374311 original size:40 final size:39
Alignment explanation
Indices: 4374257--4374391 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
4374247 ACCAGTTTGG
* *
4374257 CACCTAATGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAATGCCTCATCGGATAATCCGAAGT-ATAAATTGA
* * * *
4374297 CACCCAATGTCTCATCGGCTAAACCGAAG--TAAATTGG
1 CACCCAATGCCTCATCGGATAATCCGAAGTATAAATTGA
* * * *
4374334 CATCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAATGCCTCATCGGA-TAATCCGAAGTA-TAAATTGA
* * *
4374375 CACTCAGTGTCTCATCG
1 CACCCAATGCCTCATCG
4374392 ACTCGAAGCC
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
40 24 0.32
41 21 0.28
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (39 bp):
CACCCAATGCCTCATCGGATAATCCGAAGTATAAATTGA
Found at i:4376160 original size:17 final size:18
Alignment explanation
Indices: 4376133--4376171 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
4376123 GCTTTTATTT
4376133 ATATAAATAAATATTAAA
1 ATATAAATAAATATTAAA
4376151 ATAT-AATAAATATTAAA
1 ATATAAATAAATATTAAA
4376168 ATAT
1 ATAT
4376172 TATGGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATATAAATAAATATTAAA
Found at i:4376238 original size:11 final size:11
Alignment explanation
Indices: 4376222--4376246 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4376212 TATAAAAATG
4376222 ATTAAATTTCA
1 ATTAAATTTCA
4376233 ATTAAATTTCA
1 ATTAAATTTCA
4376244 ATT
1 ATT
4376247 TTTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTAAATTTCA
Found at i:4381733 original size:23 final size:22
Alignment explanation
Indices: 4381690--4381737 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
4381680 CGGATTGAAA
**
4381690 TTTAATTATAATTTTTTTTATAT
1 TTTAATTATAATTTTCATTAT-T
4381713 TTTAATTTATAA-TTTCATTATT
1 TTTAA-TTATAATTTTCATTATT
4381735 TTT
1 TTT
4381738 GAATGGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 12 0.55
24 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTAATTATAATTTTCATTATT
Found at i:4382575 original size:45 final size:45
Alignment explanation
Indices: 4382522--4382617 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
4382512 ATTCAAATAT
4382522 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
1 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
4382567 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
1 ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
*
4382612 AGTATT
1 ATTATT
4382618 GTACTATCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (45 bp):
ATTATTTTAGGTTATCTTAACATCAATCAGTGTTAAATTTAGTTA
Found at i:4390277 original size:18 final size:18
Alignment explanation
Indices: 4390254--4390290 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4390244 GAACCACAGT
4390254 ATGGAAATTCCTCTGGTC
1 ATGGAAATTCCTCTGGTC
4390272 ATGGAAATTCCTCTGGTC
1 ATGGAAATTCCTCTGGTC
4390290 A
1 A
4390291 CGATCAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (18 bp):
ATGGAAATTCCTCTGGTC
Found at i:4396980 original size:27 final size:27
Alignment explanation
Indices: 4396950--4397014 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
4396940 CTCACTCGAG
*
4396950 GCTATAATACTACAACCATTCAGGAGT
1 GCTATAATACTACAACCATTCAAGAGT
* * *
4396977 GCTATAGTACGACAACCATTTAAGAGT
1 GCTATAATACTACAACCATTCAAGAGT
* *
4397004 GTTATGATACT
1 GCTATAATACT
4397015 TGTAATGGCC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (27 bp):
GCTATAATACTACAACCATTCAAGAGT
Found at i:4401775 original size:42 final size:42
Alignment explanation
Indices: 4401723--4401821 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
4401713 GATCTTGGTA
* ***
4401723 TCGCACACTTAGTGCTCGTTATTCGACATCGTCATTTTTGTT
1 TCGCACACTTAGTGCTCGTTATTCAACATCGTCATTTGAATT
4401765 TCGCACACTTAGTGCTCGTTATTCAACATCGTCATTTGAATT
1 TCGCACACTTAGTGCTCGTTATTCAACATCGTCATTTGAATT
4401807 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
4401822 CATTCGTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCTCGTTATTCAACATCGTCATTTGAATT
Found at i:4402739 original size:27 final size:27
Alignment explanation
Indices: 4402709--4402774 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
4402699 CTCACTCGAG
*
4402709 GCTATAATACTACAACCATTCAGGAGT
1 GCTATAATACTACAACCATTCAAGAGT
* * *
4402736 GCTATAGTACGACAACCATTTAAGAGT
1 GCTATAATACTACAACCATTCAAGAGT
* *
4402763 GTTATGATACTA
1 GCTATAATACTA
4402775 ATTAATGACC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (27 bp):
GCTATAATACTACAACCATTCAAGAGT
Found at i:4420625 original size:18 final size:18
Alignment explanation
Indices: 4420602--4420644 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4420592 TATTTAAAAA
4420602 AATAAA-AAAATTATATTT
1 AATAAATAAAATTAT-TTT
*
4420620 AATAAATATAATTATTTT
1 AATAAATAAAATTATTTT
*
4420638 CATAAAT
1 AATAAAT
4420645 GATGTCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAAATAAAATTATTTT
Found at i:4423015 original size:24 final size:21
Alignment explanation
Indices: 4422988--4423057 Score: 65
Period size: 20 Copynumber: 3.3 Consensus size: 21
4422978 TTTTTTTGGT
4422988 AATTTTTTTAAAATATAAATTTTA
1 AATTTTTTTAAAA-AT--ATTTTA
*
4423012 AA-TTTTTTATAAATATTTTA
1 AATTTTTTTAAAAATATTTTA
* *
4423032 AA-TTTTTGAAAATTATTTT-
1 AATTTTTTTAAAAATATTTTA
4423051 AATTTTT
1 AATTTTT
4423058 GTTGTGAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.05
20 26 0.63
22 2 0.05
23 9 0.22
24 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
AATTTTTTTAAAAATATTTTA
Found at i:4423044 original size:19 final size:21
Alignment explanation
Indices: 4423006--4423058 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
4422996 TAAAATATAA
*
4423006 ATTTTAAATTTTTTATAAA-T
1 ATTTTAAATTTTTGATAAATT
4423026 ATTTTAAATTTTTGA-AAATT
1 ATTTTAAATTTTTGATAAATT
4423046 ATTTT-AATTTTTG
1 ATTTTAAATTTTTG
4423059 TTGTGAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTTAAATTTTTGATAAATT
Found at i:4424983 original size:32 final size:33
Alignment explanation
Indices: 4424944--4425006 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
4424934 TATACCAAAC
*
4424944 AATAAATAATA-TTT-AAGAATCTTTTTATCTAA
1 AATAAATAATATTTTAAAG-ATATTTTTATCTAA
*
4424976 AATAAATATTATTTTAAAGATATTTTTATCT
1 AATAAATAATATTTTAAAGATATTTTTATCT
4425007 TTTAGGCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 10 0.37
33 14 0.52
34 3 0.11
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (33 bp):
AATAAATAATATTTTAAAGATATTTTTATCTAA
Found at i:4425031 original size:17 final size:18
Alignment explanation
Indices: 4424999--4425032 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4424989 TTAAAGATAT
4424999 TTTTATCTTTTAGGCCCC
1 TTTTATCTTTTAGGCCCC
*
4425017 TTTTAT-TTTTGGGCCC
1 TTTTATCTTTTAGGCCC
4425033 TGGGCGGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.53
Consensus pattern (18 bp):
TTTTATCTTTTAGGCCCC
Found at i:4426657 original size:41 final size:41
Alignment explanation
Indices: 4426595--4426742 Score: 242
Period size: 41 Copynumber: 3.6 Consensus size: 41
4426585 AATTTAACAT
* *
4426595 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
4426636 ATTCATATCACCAGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
4426677 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
4426718 ATTCAGATCACCGGCACTTAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTG
4426743 ATTCAGATCA
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:4426985 original size:41 final size:41
Alignment explanation
Indices: 4426928--4427022 Score: 181
Period size: 41 Copynumber: 2.3 Consensus size: 41
4426918 TTCGTTCCTT
*
4426928 TGATTCAGATCACCGGCACTTAGCCTGTTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
4426969 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
1 TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
4427010 TGATTCAGATCAC
1 TGATTCAGATCAC
4427023 AAATTTCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCC
Found at i:4427377 original size:2 final size:2
Alignment explanation
Indices: 4427372--4427396 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4427362 TTCAACTCAC
4427372 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4427397 CTTATTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4445930 original size:26 final size:26
Alignment explanation
Indices: 4445893--4445942 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4445883 TAAACTTGTA
*
4445893 CAATTTGCTGCTGCTGGTCTTTTGAC
1 CAATTTGCTGCTGCTGGTCCTTTGAC
* *
4445919 CAATTTGTTGCTGTTGGTCCTTTG
1 CAATTTGCTGCTGCTGGTCCTTTG
4445943 TTGCAATGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (26 bp):
CAATTTGCTGCTGCTGGTCCTTTGAC
Found at i:4450434 original size:26 final size:26
Alignment explanation
Indices: 4450391--4450440 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
4450381 TAAACTTGTA
*
4450391 CAATTTGCTGCTGCTGGTCTTTTGAC
1 CAATTTGCTGCTGCTGGTCCTTTGAC
* * *
4450417 CAATTTGTTGTTGTTGGTCCTTTG
1 CAATTTGCTGCTGCTGGTCCTTTG
4450441 TTGCAATGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (26 bp):
CAATTTGCTGCTGCTGGTCCTTTGAC
Found at i:4453904 original size:7 final size:7
Alignment explanation
Indices: 4453889--4453925 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
4453879 CCCTTATCAT
*
4453889 CACCATG
1 CACCTTG
4453896 CACCTTG
1 CACCTTG
4453903 CACCTTG
1 CACCTTG
4453910 CACCTTG
1 CACCTTG
4453917 CACCTTG
1 CACCTTG
4453924 CA
1 CA
4453926 GAGAAAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.19, C:0.43, G:0.14, T:0.24
Consensus pattern (7 bp):
CACCTTG
Found at i:4461159 original size:190 final size:190
Alignment explanation
Indices: 4460836--4461221 Score: 745
Period size: 190 Copynumber: 2.0 Consensus size: 190
4460826 ATAACCAAGA
4460836 AAAACACATTTAATGTATCTCGGTTCCAATTTTCCATTATCGACATGAGTATACGTAGGACACCC
1 AAAACACATTTAATGTATCTCGGTTCCAATTTTCCATTATCGACATGAGTATACGTAGGACACCC
* * *
4460901 AAAGATCTTTAAATCAGAATAGTCTGCAGGATTACCAGACCATACCTCTTGTGGAGTCTTTTTCT
66 AAAGATCTTTAAATCAGAATAGTCAGCAAGATTACCAAACCATACCTCTTGTGGAGTCTTTTTCT
4460966 CAATGGCAACGGATGGAGATCGATTAATCAAAAAACATACAATAGAGGCTGCTTTGGCCC
131 CAATGGCAACGGATGGAGATCGATTAATCAAAAAACATACAATAGAGGCTGCTTTGGCCC
4461026 AAAACACATTTAATGTATCTCGGTTCCAATTTTCCATTATCGACATGAGTATACGTAGGACACCC
1 AAAACACATTTAATGTATCTCGGTTCCAATTTTCCATTATCGACATGAGTATACGTAGGACACCC
4461091 AAAGATCTTTAAATCAGAATAGTCAGCAAGATTACCAAACCATACCTCTTGTGGAGTCTTTTTCT
66 AAAGATCTTTAAATCAGAATAGTCAGCAAGATTACCAAACCATACCTCTTGTGGAGTCTTTTTCT
4461156 CAATGGCAACGGATGGAGATCGATTAATCAAAAAACATACAATAGAGGCTGCTTTGGCCC
131 CAATGGCAACGGATGGAGATCGATTAATCAAAAAACATACAATAGAGGCTGCTTTGGCCC
4461216 AAAACA
1 AAAACA
4461222 ACTTCGGTAA
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 193 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (190 bp):
AAAACACATTTAATGTATCTCGGTTCCAATTTTCCATTATCGACATGAGTATACGTAGGACACCC
AAAGATCTTTAAATCAGAATAGTCAGCAAGATTACCAAACCATACCTCTTGTGGAGTCTTTTTCT
CAATGGCAACGGATGGAGATCGATTAATCAAAAAACATACAATAGAGGCTGCTTTGGCCC
Found at i:4474262 original size:7 final size:7
Alignment explanation
Indices: 4474247--4474283 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
4474237 CCCTTATCAT
*
4474247 CACCATG
1 CACCTTG
4474254 CACCTTG
1 CACCTTG
4474261 CACCTTG
1 CACCTTG
4474268 CACCTTG
1 CACCTTG
4474275 CACCTTG
1 CACCTTG
4474282 CA
1 CA
4474284 GAGAAAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.19, C:0.43, G:0.14, T:0.24
Consensus pattern (7 bp):
CACCTTG
Found at i:4484956 original size:11 final size:11
Alignment explanation
Indices: 4484942--4484973 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4484932 ATATAATAGT
4484942 AAAATAACAAC
1 AAAATAACAAC
*
4484953 AAAACAACAAC
1 AAAATAACAAC
4484964 AAAATAACAA
1 AAAATAACAA
4484974 TAATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.75, C:0.19, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:4494379 original size:17 final size:17
Alignment explanation
Indices: 4494359--4494392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4494349 TAAGAGATTA
4494359 TAAATAAAAATAAACAT
1 TAAATAAAAATAAACAT
* *
4494376 TAAATCAAAATATACAT
1 TAAATAAAAATAAACAT
4494393 ACATCGTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAATAAAAATAAACAT
Found at i:4494955 original size:7 final size:7
Alignment explanation
Indices: 4494945--4494970 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4494935 AAGGGAATTA
4494945 GGGGATT
1 GGGGATT
4494952 GGGGATT
1 GGGGATT
4494959 GGGGATT
1 GGGGATT
4494966 GGGGA
1 GGGGA
4494971 GGGGAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.62, T:0.23
Consensus pattern (7 bp):
GGGGATT
Found at i:4495615 original size:14 final size:14
Alignment explanation
Indices: 4495598--4495644 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
4495588 GAAGAGAATG
4495598 AAAAATAAAGAAAA
1 AAAAATAAAGAAAA
* **
4495612 AAAAAGAAAGTTAA
1 AAAAATAAAGAAAA
*
4495626 AAAAATAAA-ACAA
1 AAAAATAAAGAAAA
4495639 AAAAAT
1 AAAAAT
4495645 TAAATTGCTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (14 bp):
AAAAATAAAGAAAA
Found at i:4497324 original size:21 final size:22
Alignment explanation
Indices: 4497300--4497347 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4497290 CATATTTGGT
*
4497300 ATTTG-CATTTAATTTTTTCTA
1 ATTTGTCATTAAATTTTTTCTA
* *
4497321 ATTTGTTATTAAATTTTTTTTA
1 ATTTGTCATTAAATTTTTTCTA
4497343 ATTTG
1 ATTTG
4497348 GTGTTTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (22 bp):
ATTTGTCATTAAATTTTTTCTA
Found at i:4497846 original size:27 final size:26
Alignment explanation
Indices: 4497761--4497846 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
4497751 TCTTAAAAAG
* *
4497761 AAAAAAAACTTAAATACCAAATTAAA
1 AAAAAAAATTTAAATAACAAATTAAA
* * *
4497787 AAATATCAAATTTTAATAACAAATTAGAT
1 AAA-A-AAAATTTAAATAACAAATTA-AA
*
4497816 AAAAGAAATTTAAATAACAAATTAAA
1 AAAAAAAATTTAAATAACAAATTAAA
4497842 AAAAA
1 AAAAA
4497847 TTTAATATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
26 8 0.17
27 19 0.40
28 17 0.35
29 4 0.08
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAAAAATTTAAATAACAAATTAAA
Found at i:4508593 original size:17 final size:17
Alignment explanation
Indices: 4508567--4508602 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
4508557 AGATAATCAG
*
4508567 TTGGGTTAAGGGCACAA
1 TTGGGCTAAGGGCACAA
4508584 TTGGGCTAAGGGCACAA
1 TTGGGCTAAGGGCACAA
4508601 TT
1 TT
4508603 TCTAACAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (17 bp):
TTGGGCTAAGGGCACAA
Found at i:4509275 original size:16 final size:16
Alignment explanation
Indices: 4509254--4509290 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4509244 TTGGTTCGCT
*
4509254 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
4509270 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
4509286 GTAAT
1 GTAAT
4509291 AGTATTCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:4509595 original size:120 final size:120
Alignment explanation
Indices: 4509459--4509748 Score: 537
Period size: 120 Copynumber: 2.4 Consensus size: 120
4509449 TTAATCATAT
4509459 TTTAACATAATTATTATTAAATATAATTTAATAAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAACATAATTATTATTAAATATAATTTAAT-AAAAATATATAATTTAATAAAATTCTTAATAT
*
4509524 -AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 CAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4509579 TTTAACATAATTATTATGAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATC
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATC
4509644 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4509699 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
4509749 CTAAAGTTTG
Statistics
Matches: 165, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
119 32 0.19
120 133 0.81
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATC
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:4541414 original size:21 final size:21
Alignment explanation
Indices: 4541388--4541428 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4541378 ATCTGCTCAA
* *
4541388 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4541409 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4541429 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4550975 original size:57 final size:57
Alignment explanation
Indices: 4550903--4551011 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
4550893 GATCCTATCC
4550903 TGATATAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCAGACGGGTGATCT
1 TGATATAGCCCTCCCGAAGAATATGTG-GAAAATAGATCTAGCCCAGACGGGTGATCT
* * *
4550960 TGATATAGCCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGT
4551012 AATCCGAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
56 5 0.10
57 43 0.90
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCAGACGGGTGATCT
Found at i:4556670 original size:3 final size:3
Alignment explanation
Indices: 4556650--4556741 Score: 60
Period size: 3 Copynumber: 30.3 Consensus size: 3
4556640 TTAGCATCTT
* ** * * *
4556650 TTA TTA TTT TTA ACA TTA TTA TTT TTA ATA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
4556698 TCG TCT- TTA CTA TTA TTA TTA GTA TTGA TTA TTA TTA TCA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T
4556742 ATTTCTGTTT
Statistics
Matches: 65, Mismatches: 21, Indels: 6
0.71 0.23 0.07
Matches are distributed among these distances:
2 1 0.02
3 61 0.94
4 3 0.05
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:4557467 original size:110 final size:109
Alignment explanation
Indices: 4557269--4557684 Score: 609
Period size: 109 Copynumber: 3.8 Consensus size: 109
4557259 AAGGAAAATT
*
4557269 TTTCTAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTG-CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
*
4557334 TCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
*
4557379 TTTCAAAATAAGGCAATGTTTTGCCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTTGGGTG
1 TTTCAAAATAAGGCAATGTTTTG-CGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* *
4557444 TCGATTTTTCTCGTTCAACCAAATTGCTTAATATCCTTTTAAAAA
65 TCGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
* * *
4557489 TTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTGT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
4557554 CGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
* * ** * ** * * * * *
4557598 TTTCGAAGTAAGATAATATTTTGCGTTTGGAAATTTAAGGAAACGTGCCCTAATGCGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
*
4557663 CGATTTTTC-CATTTAACCAAAT
66 CGATTTTTCTCATTCAACCAAAT
4557685 AGCCAAATAT
Statistics
Matches: 284, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 12 0.04
109 143 0.50
110 129 0.45
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGT
CGATTTTTCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAA
Found at i:4560363 original size:65 final size:65
Alignment explanation
Indices: 4560255--4560386 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
4560245 ATAAGTACAG
*
4560255 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAACTAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
4560320 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
1 TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
4560385 TA
1 TA
4560387 GATTTATGTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (65 bp):
TACAAAAATTGCCAACGAAATTAACGGAATAACATAAAATAATAGAATGCGAAGACTTAGAGGGA
Found at i:4575465 original size:20 final size:19
Alignment explanation
Indices: 4575436--4575479 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
4575426 TTCAAAATAT
*
4575436 AAAAATTTAACAACTATAA
1 AAAAATTTAAAAACTATAA
*
4575455 AAAAATATTAAAAATTATAA
1 AAAAAT-TTAAAAACTATAA
4575475 AAAAA
1 AAAAA
4575480 CTGGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAAATTTAAAAACTATAA
Found at i:4576971 original size:138 final size:144
Alignment explanation
Indices: 4576716--4577080 Score: 510
Period size: 138 Copynumber: 2.5 Consensus size: 144
4576706 GGAAAAATCT
*
4576716 AAAAAAGCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
1 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
* * *
4576781 CTGAGCTAGACGGGCTAATTGATAGTGATTGTGTAAATCTTTTACAAATTCAAAACT-A-A-TCC
66 CTGAGCTAGACGGGCCAATTAATACTGATTGTGTAAATCTTTTACAAATTCAAAACTAATATTCC
*
4576843 -TTGC-AAAAAG-C
131 ATTGCGAAAAAGTA
* * * * **
4576854 AAAAGATCGCCCACCGTGGGGTTCGAACCCATGACCACAAGATTAAGAGCCTTGCGCTCTAAAGA
1 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
*
4576919 CTGAGCTAGACGGGCCAATTAATACTGATTGTGTACAT-TTCTTACAAATTCAAAACTAATAGTT
66 CTGAGCTAGACGGGCCAATTAATACTGATTGTGTAAATCTT-TTACAAATTCAAAACTAATA--T
4576983 TCCAGTTGCTTGGAAAAAGTA
128 TCCA-TTGC---GAAAAAGTA
4577004 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
1 AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
4577069 CTGAGCTAGACG
66 CTGAGCTAGACG
4577081 AGCTTCTTGT
Statistics
Matches: 196, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
137 2 0.01
138 108 0.55
139 1 0.01
140 1 0.01
143 3 0.02
145 4 0.02
149 6 0.03
150 71 0.36
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (144 bp):
AAAAAATCGCCCACCGTGGGGCTCGAACCCACGACCACAAGGTTAAGAGCCTTGCGCTCTACCGA
CTGAGCTAGACGGGCCAATTAATACTGATTGTGTAAATCTTTTACAAATTCAAAACTAATATTCC
ATTGCGAAAAAGTA
Found at i:4591315 original size:9 final size:9
Alignment explanation
Indices: 4591301--4591370 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
4591291 TGGAATTATA
4591301 AAAAAATAT
1 AAAAAATAT
4591310 AAAAAA-AT
1 AAAAAATAT
*
4591318 AAAAATTAT
1 AAAAAATAT
4591327 AAAAATTATTAT
1 AAAAA--A-TAT
*
4591339 AAATTAAT-T
1 AAA-AAATAT
*
4591348 AAAAATTAT
1 AAAAAATAT
4591357 AAAAAATGAT
1 AAAAAAT-AT
4591367 AAAA
1 AAAA
4591371 TGATTTACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 9 0.19
9 24 0.50
10 7 0.15
11 1 0.02
12 6 0.12
13 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAAATAT
Found at i:4591331 original size:10 final size:10
Alignment explanation
Indices: 4591294--4591370 Score: 72
Period size: 10 Copynumber: 8.0 Consensus size: 10
4591284 TACATTATGG
4591294 AATTATAAAA
1 AATTATAAAA
*
4591304 AAATATAAAA
1 AATTATAAAA
4591314 AA--AT-AAA
1 AATTATAAAA
4591321 AATTAT-AAA
1 AATTATAAAA
* *
4591330 AATTATTATA
1 AATTATAAAA
*
4591340 AATTAATTAAA
1 AATT-ATAAAA
4591351 AATTATAAAA
1 AATTATAAAA
*
4591361 AATGATAAAA
1 AATTATAAAA
4591371 TGATTTACTA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
7 5 0.09
8 2 0.03
9 11 0.19
10 31 0.53
11 9 0.16
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (10 bp):
AATTATAAAA
Found at i:4592761 original size:17 final size:17
Alignment explanation
Indices: 4592736--4592770 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4592726 TATGTGTCAT
*
4592736 AAATTACATAATATAAA
1 AAATAACATAATATAAA
4592753 AAATAACATAATATAAA
1 AAATAACATAATATAAA
4592770 A
1 A
4592771 TATTATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAACATAATATAAA
Found at i:4593194 original size:20 final size:20
Alignment explanation
Indices: 4593171--4593212 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4593161 TGATTTTACA
*
4593171 TATTTTGTTT-TAAATATTTT
1 TATTTT-TTTATAAATAATTT
4593191 TATTTTTTTATAAATAATTT
1 TATTTTTTTATAAATAATTT
4593211 TA
1 TA
4593213 CAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTTTTTATAAATAATTT
Found at i:4598573 original size:15 final size:15
Alignment explanation
Indices: 4598549--4598578 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4598539 GACACCCTTC
*
4598549 TTTTATTTTTTTATT
1 TTTTAATTTTTTATT
4598564 TTTTAATTTTTTATT
1 TTTTAATTTTTTATT
4598579 AACTTTTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTAATTTTTTATT
Found at i:4598592 original size:19 final size:18
Alignment explanation
Indices: 4598570--4598614 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4598560 TATTTTTTAA
*
4598570 TTTTTTATTAACTTTTGTC
1 TTTTTT-TTAAATTTTGTC
*
4598589 TTTTTCTTTAAATTTTTTC
1 TTTTT-TTTAAATTTTGTC
4598608 TTTTTTT
1 TTTTTTT
4598615 AAGTTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 20 0.87
20 1 0.04
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTTTTAAATTTTGTC
Found at i:4598621 original size:17 final size:17
Alignment explanation
Indices: 4598571--4598631 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
4598561 ATTTTTTAAT
* *
4598571 TTTTTATTAACTTTTGTC
1 TTTTT-TTAAATTTTATC
*
4598589 TTTTTCTTTAAATTTTTTC
1 -TTTT-TTTAAATTTTATC
* *
4598608 TTTTTTTAAGTTTTATA
1 TTTTTTTAAATTTTATC
4598625 TTTTTTT
1 TTTTTTT
4598632 CTTATTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 17 0.47
18 4 0.11
19 14 0.39
20 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTTTAAATTTTATC
Found at i:4598639 original size:18 final size:19
Alignment explanation
Indices: 4598608--4598659 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
4598598 AAATTTTTTC
4598608 TTTTT-TTAAGTTTTATATT-
1 TTTTTATTAA-TTTTAT-TTA
*
4598627 TTTTTCTT-ATTTTATTTA
1 TTTTTATTAATTTTATTTA
4598645 TTTTTATTAATTTTA
1 TTTTTATTAATTTTA
4598660 AAAAATTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
19 12 0.41
20 2 0.07
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTATTAATTTTATTTA
Found at i:4598722 original size:21 final size:23
Alignment explanation
Indices: 4598693--4598743 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
4598683 AATATTTTAT
*
4598693 AATATATATTTTTTAA-AATATTA
1 AATATATA-TTTTTAATAATATAA
4598716 AATATATATTTTTAATAATATAA
1 AATATATATTTTTAATAATATAA
4598739 AATAT
1 AATAT
4598744 TTAAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATATATATTTTTAATAATATAA
Found at i:4598747 original size:39 final size:39
Alignment explanation
Indices: 4598687--4598762 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
4598677 ATTTGAAATA
* * * *
4598687 TTTTATAATATATATTTTTTAAA-ATATTAAATATATAT
1 TTTTATAATATAAAATATTTAAATATATTAAAGATATAT
*
4598725 TTTTAATAATATAAAATATTTAAATATTTTAAAGATAT
1 TTTT-ATAATATAAAATATTTAAATATATTAAAGATAT
4598763 GACCTTTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 4 0.13
39 16 0.52
40 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (39 bp):
TTTTATAATATAAAATATTTAAATATATTAAAGATATAT
Found at i:4598834 original size:21 final size:21
Alignment explanation
Indices: 4598795--4598834 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4598785 TTTTTTAATA
*
4598795 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
4598816 TTTTATAATATT-TTAAATT
1 TTTTA-AATATTATTAAATT
4598835 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:4599138 original size:15 final size:15
Alignment explanation
Indices: 4599114--4599162 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4599104 AATTAAAAAT
*
4599114 AAAAAT-ATTTGTTA
1 AAAAATAATTTATTA
*
4599128 AAAAATAATTTATTT
1 AAAAATAATTTATTA
*
4599143 AAAAATATATATATTA
1 AAAAATA-ATTTATTA
4599159 AAAA
1 AAAA
4599163 GTAAAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 6 0.21
15 13 0.45
16 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
AAAAATAATTTATTA
Found at i:4599872 original size:72 final size:73
Alignment explanation
Indices: 4599791--4599939 Score: 237
Period size: 73 Copynumber: 2.1 Consensus size: 73
4599781 AAACTTAAAG
* * * * *
4599791 AAATTAAATATATT-AAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAATATA
1 AAATTAAATATATTAAAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAATATA
4599855 TTTTTTAA
66 TTTTTTAA
*
4599863 AAATTAAATATATTAAAAAAAATGTTAAGTATAACTAATATTAAAATTATAATATATTCAATATA
1 AAATTAAATATATTAAAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAATATA
4599928 TTTTTTAA
66 TTTTTTAA
4599936 AAAT
1 AAAT
4599940 ATATTTTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 14 0.20
73 56 0.80
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (73 bp):
AAATTAAATATATTAAAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAATATA
TTTTTTAA
Found at i:4600096 original size:20 final size:20
Alignment explanation
Indices: 4600067--4600123 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
4600057 TAAGTTTTTT
*
4600067 AAAATTAATAATAAAAAATA
1 AAAATAAATAATAAAAAATA
*
4600087 AAAATAAATAA-ATAAAGATA
1 AAAATAAATAATA-AAAAATA
* *
4600107 AAGACAAA-AATAAAAAA
1 AAAATAAATAATAAAAAA
4600124 AAATGTCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAATAAATAATAAAAAATA
Found at i:4600099 original size:14 final size:13
Alignment explanation
Indices: 4600076--4600123 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
4600066 TAAAATTAAT
4600076 AATAAAAAATAAA
1 AATAAAAAATAAA
4600089 AATAAATAAATAAA
1 AATAAA-AAATAAA
* * *
4600103 GAT-AAAGACAAA
1 AATAAAAAATAAA
4600115 AATAAAAAA
1 AATAAAAAA
4600124 AAATGTCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
12 7 0.25
13 12 0.43
14 9 0.32
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:4600184 original size:20 final size:20
Alignment explanation
Indices: 4600142--4600185 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4600132 GAGAAATGAC
*
4600142 AAAAGTTAAAAAAAAGTAAA
1 AAAAGTTAAAAAAAAGAAAA
* *
4600162 AAAATTTAAAAAAAA-AAAT
1 AAAAGTTAAAAAAAAGAAAA
4600181 AAAAG
1 AAAAG
4600186 CAGGGTGTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (20 bp):
AAAAGTTAAAAAAAAGAAAA
Found at i:4600291 original size:14 final size:15
Alignment explanation
Indices: 4600265--4600293 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4600255 ATCTTTTCAG
4600265 AATTTTTTAAATTAT
1 AATTTTTTAAATTAT
4600280 AATTTTTT-AATTAT
1 AATTTTTTAAATTAT
4600294 TTTTAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTTTTTAAATTAT
Found at i:4600436 original size:21 final size:22
Alignment explanation
Indices: 4600402--4600449 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
4600392 TATAAGAAAT
*
4600402 AATTTCAAATATATATATTTAA
1 AATTTCAAAAATATATATTTAA
* *
4600424 AATTT-AAAAATATATTTTTGA
1 AATTTCAAAAATATATATTTAA
4600445 AATTT
1 AATTT
4600450 TTTTATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:4600570 original size:21 final size:20
Alignment explanation
Indices: 4600546--4600589 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
4600536 TATAAGACAT
*
4600546 AATTTAAAAAATAATATTTAA
1 AATTTAAAAAATAAT-TTAAA
4600567 AATTTAAAAAATAATTTAAA
1 AATTTAAAAAATAATTTAAA
4600587 AAT
1 AAT
4600590 AATATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTTAAAAAATAATTTAAA
Found at i:4600601 original size:12 final size:11
Alignment explanation
Indices: 4600460--4600611 Score: 64
Period size: 13 Copynumber: 12.9 Consensus size: 11
4600450 TTTTATTTTG
4600460 TTTAAAAATATA
1 TTTAAAAATA-A
4600472 TTTTAAAAATATA
1 -TTTAAAAATA-A
*
4600485 TTTAAAATTTAAAA
1 TTTAAAA---ATAA
4600499 TTTAGAAAATTAA
1 TTTA-AAAA-TAA
4600512 TTTCAAAAATATA
1 TTT-AAAAATA-A
*
4600525 TTTTTAAAAT--
1 -TTTAAAAATAA
*
4600535 TTATAAGACATAA
1 TT-TAA-AAATAA
4600548 TTTAAAAAATAA
1 TTT-AAAAATAA
*
4600560 TATTTAAAAT--
1 T-TTAAAAATAA
*
4600570 TTAAAAAATAA
1 TTTAAAAATAA
4600581 TTTAAAAATAA
1 TTTAAAAATAA
*
4600592 TATTTAAAAT--
1 T-TTAAAAATAA
4600602 TTTAAAAATA
1 TTTAAAAATA
4600612 TATATTATAA
Statistics
Matches: 109, Mismatches: 12, Indels: 39
0.68 0.08 0.24
Matches are distributed among these distances:
9 15 0.14
10 4 0.04
11 14 0.13
12 29 0.27
13 33 0.30
14 9 0.08
15 5 0.05
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:4600607 original size:21 final size:23
Alignment explanation
Indices: 4600581--4600623 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
4600571 TAAAAAATAA
4600581 TTTAAAAATA-ATATT-TAAAAT
1 TTTAAAAATATATATTATAAAAT
4600602 TTTAAAAATATATATTATAAAA
1 TTTAAAAATATATATTATAAAA
4600624 CATTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 5 0.25
23 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAAATATATATTATAAAAT
Found at i:4600644 original size:144 final size:144
Alignment explanation
Indices: 4600372--4600632 Score: 350
Period size: 144 Copynumber: 1.8 Consensus size: 144
4600362 AAATATTATT
* *
4600372 AAAAATATATTTTTAAAATTTATAAGAAATAATTTCAAATATATATATTTAAAATTTAAAAATAT
1 AAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAATATATATTTAAAATTTAAAAATAT
* ** * * *** * * *
4600437 ATTTTTGAAATTTTTTTATTTTGTTTAAAAATATATTTTAAAAATATATTTAAAATTTAAAATTT
66 AATTTAAAAATATATTTAAAATGTTTAAAAATATATATTAAAAACATATTCAAAATTTAAAATTT
4600502 AGAAAATTAATTTC
131 AGAAAATTAATTTC
*
4600516 AAAAATATATTTTTAAAATTTATAAGACATAATTTAAAAAATA-ATATTTAAAATTTAAAAA-AT
1 AAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAATATATATTTAAAATTTAAAAATAT
4600579 AATTTAAAAATAATATTTAAAAT-TTTAAAAATATATATTATAAAACAT-TTCAAA
66 AATTTAAAAAT-ATATTTAAAATGTTTAAAAATATATATTA-AAAACATATTCAAA
4600633 TTTTTTTAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
142 31 0.31
143 30 0.30
144 40 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (144 bp):
AAAAATATATTTTTAAAATTTATAAGAAATAATTTAAAAAATATATATTTAAAATTTAAAAATAT
AATTTAAAAATATATTTAAAATGTTTAAAAATATATATTAAAAACATATTCAAAATTTAAAATTT
AGAAAATTAATTTC
Found at i:4600692 original size:36 final size:37
Alignment explanation
Indices: 4600652--4600729 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 37
4600642 ATTAATAACA
*
4600652 AAAAATA-AATAACATAAATAAACAAAATAAAA-T-AAG
1 AAAAATATAA-AACATAAAAAAACAAAA-AAAATTAAAG
* *
4600688 AAAAATATAAAACTTAAAAAAAGAAAAAAAATTAAAG
1 AAAAATATAAAACATAAAAAAACAAAAAAAATTAAAG
4600725 AAAAA
1 AAAAA
4600730 GACAAAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
35 4 0.11
36 22 0.61
37 10 0.28
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (37 bp):
AAAAATATAAAACATAAAAAAACAAAAAAAATTAAAG
Found at i:4601574 original size:19 final size:20
Alignment explanation
Indices: 4601549--4601598 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
4601539 TGAACAAAAC
4601549 AAAAATCACGAAAAATGTGG
1 AAAAATCACGAAAAATGTGG
* *
4601569 -AAAATCATG-AAACTGTGG
1 AAAAATCACGAAAAATGTGG
4601587 ACAAAATCACGA
1 A-AAAATCACGA
4601599 TAATATTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAAATCACGAAAAATGTGG
Found at i:4607068 original size:25 final size:25
Alignment explanation
Indices: 4607008--4607072 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
4606998 CACACCACAA
*
4607008 CTCTTATGAGCATCCCGATATTTGG
1 CTCTTATGAGCTTCCCGATATTTGG
***
4607033 CTCTCCCGAGCTTCCCGAT-TTATGG
1 CTCTTATGAGCTTCCCGATATT-TGG
4607058 CTCTTATGAGCTTCC
1 CTCTTATGAGCTTCC
4607073 TAATATACAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.35
Consensus pattern (25 bp):
CTCTTATGAGCTTCCCGATATTTGG
Done.