Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold162
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: 1959167
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 205334 characters in sequence are not A, C, G, or T
File 11 of 12
Found at i:1666162 original size:7 final size:6
Alignment explanation
Indices: 1666112--1666164 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
1666102 TATATAATAA
1666112 ATTTA- ATTTAT ATATT-T ATGTTAT ATTTAT A-TTAT -TTTAT ATTTAT
1 ATTTAT ATTTAT AT-TTAT AT-TTAT ATTTAT ATTTAT ATTTAT ATTTAT
1666158 AATTTAT
1 -ATTTAT
1666165 TATAAAAGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
5 13 0.32
6 17 0.41
7 11 0.27
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (6 bp):
ATTTAT
Found at i:1666167 original size:16 final size:16
Alignment explanation
Indices: 1666117--1666168 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
1666107 AATAAATTTA
1666117 ATTTATATATTTATGTTAT
1 ATTTATA-ATTTA--TTAT
*
1666136 ATTTAT-ATTATTTTAT
1 ATTTATAATT-TATTAT
1666152 ATTTATAATTTATTAT
1 ATTTATAATTTATTAT
1666168 A
1 A
1666169 AAAGTTATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 16 0.55
17 6 0.21
18 1 0.03
19 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTATAATTTATTAT
Found at i:1667077 original size:30 final size:29
Alignment explanation
Indices: 1667012--1667121 Score: 107
Period size: 30 Copynumber: 3.7 Consensus size: 29
1667002 TATCAATTTA
*
1667012 TATTCATATTAATTTATATTATGT-ATTGGG
1 TATTCATATTAATTTATATTATGTGA-T-AG
* * *
1667042 CATTCACATTAATTTATATTATATGATAAG
1 TATTCATATTAATTTATATTATGTGAT-AG
* *
1667072 TATTCATATTAATATATAATT-TGTGATTG
1 TATTCATATTAATTTAT-ATTATGTGATAG
1667101 ATATTCATATTAATTTATATT
1 -TATTCATATTAATTTATATT
1667122 TAATGGGTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 4 0.06
30 58 0.88
31 4 0.06
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (29 bp):
TATTCATATTAATTTATATTATGTGATAG
Found at i:1667650 original size:20 final size:20
Alignment explanation
Indices: 1667627--1667701 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1667617 AAGTACCCAG
*
1667627 ATGTATCGATAAATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1667647 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1667667 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1667687 ATGTATCAATACATT
1 ATGTATCGATACATT
1667702 CTATCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1671182 original size:20 final size:20
Alignment explanation
Indices: 1671157--1671233 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1671147 GTAAAAAGAT
1671157 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
1671177 AGAATGTATTGATACATTCA
1 AGAATGTATCGATACATTGA
*
1671197 TA-TATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1671217 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1671234 CTGGGTACTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1685257 original size:1 final size:1
Alignment explanation
Indices: 1685251--1685309 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
1685241 TCCTTCATAC
* * * * * * *
1685251 AAAAAAATAAAAAAAACAAAAAAAAAAATAAAAAAACAAAGAAAAAAATAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1685310 CAGAAAAGGG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:1685276 original size:20 final size:21
Alignment explanation
Indices: 1685251--1685316 Score: 91
Period size: 20 Copynumber: 3.2 Consensus size: 21
1685241 TCCTTCATAC
*
1685251 AAAAAAATAAAAAAAACAAAA
1 AAAAAAATAAAAAAAACAAAG
1685272 AAAAAAAT-AAAAAAACAAAG
1 AAAAAAATAAAAAAAACAAAG
*
1685292 AAAAAAATAACAAAAAA-ACAG
1 AAAAAAATAA-AAAAAACAAAG
1685313 AAAA
1 AAAA
1685317 GGGGTCTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.46
21 16 0.39
22 6 0.15
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.05
Consensus pattern (21 bp):
AAAAAAATAAAAAAAACAAAG
Found at i:1685314 original size:21 final size:20
Alignment explanation
Indices: 1685251--1685316 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
1685241 TCCTTCATAC
* *
1685251 AAAAAAATAAAAAAAACAAAA
1 AAAAAAATAAAAAAAA-ACAG
1685272 AAAAAAATAAAAAAACAA-AG
1 AAAAAAATAAAAAAA-AACAG
1685292 AAAAAAATAACAAAAAAACAG
1 AAAAAAATAA-AAAAAAACAG
1685313 AAAA
1 AAAA
1685317 GGGGTCTAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 13 0.32
21 27 0.66
22 1 0.02
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAAAATAAAAAAAAACAG
Found at i:1685316 original size:8 final size:8
Alignment explanation
Indices: 1685249--1685316 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 8
1685239 CGTCCTTCAT
1685249 ACAAAAAA
1 ACAAAAAA
*
1685257 A-TAAAAA
1 ACAAAAAA
*
1685264 A-AACAAA
1 ACAAAAAA
1685271 A-AAAAAA
1 ACAAAAAA
*
1685278 ATAAAAAA
1 ACAAAAAA
*
1685286 ACAAAGAA
1 ACAAAAAA
*
1685294 A-AAAATA
1 ACAAAAAA
1685301 ACAAAAAA
1 ACAAAAAA
1685309 ACAGAAAA
1 ACA-AAAA
1685317 GGGGTCTAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
7 22 0.46
8 22 0.46
9 4 0.08
ACGTcount: A:0.85, C:0.07, G:0.03, T:0.04
Consensus pattern (8 bp):
ACAAAAAA
Found at i:1686571 original size:28 final size:28
Alignment explanation
Indices: 1686528--1687227 Score: 812
Period size: 28 Copynumber: 24.4 Consensus size: 28
1686518 CGTTCATCTC
*
1686528 TTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1686556 TTCAAAGCCCATAAGTCAGTGCCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1686584 TTCAAAGCCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
1686614 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1686642 TTCAAAGACCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
*
1686672 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1686700 TTCAAAGACCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CAC-CCT
* *
1686730 TTCAAAGTCCACAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1686758 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1686786 TTCAAAGCCCACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1686814 TTCAAAGCCAACAAGT-TGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
1686842 TTCAAAGCCCACACGAGTTAGTGGCA-CCT
1 TTCAAAGCCCACA--AGTCAGTGGCACCCT
*
1686871 TTCAAAGCCCACAAGTCAGTGGTACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
1686899 TTCAAAGGCTATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1686927 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1686955 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1686983 TTCAAAGCCCACAAG-CTAGTGGCATCCT
1 TTCAAAGCCCACAAGTC-AGTGGCACCCT
1687011 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
1687039 TTCAAAACCCACAAGCCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
1687067 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
1687095 TTCAAAGCCCACAAGCCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
1687124 TTCAAAGCTCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
1687152 TTCAAAGCCCACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
*
1687184 TTCAAAGCCCACACGAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CCT
1687216 TTCAAAGCCCAC
1 TTCAAAGCCCAC
1687228 GCAAGTCGAT
Statistics
Matches: 576, Mismatches: 78, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
27 17 0.03
28 379 0.66
29 48 0.08
30 78 0.14
31 7 0.01
32 47 0.08
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:1688117 original size:20 final size:20
Alignment explanation
Indices: 1688094--1688147 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1688084 AAGTACCCAG
* * *
1688094 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATAA
*
1688114 ATGTATCAATACATGTATAA
1 ATGTATCGATACATGTATAA
1688134 ATGTATCGATACAT
1 ATGTATCGATACAT
1688148 CTAGTTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATAA
Found at i:1691903 original size:22 final size:22
Alignment explanation
Indices: 1691878--1692005 Score: 114
Period size: 22 Copynumber: 5.8 Consensus size: 22
1691868 ATAAAAGTAA
*
1691878 ACATTCTATTATAGTGATATGT
1 ACATACTATTATAGTGATATGT
* *
1691900 ACATACGT-TTGTAGTTATATGT
1 ACATAC-TATTATAGTGATATGT
**
1691922 ACATACTATTGCAGTGATATGT
1 ACATACTATTATAGTGATATGT
* * * *
1691944 ATATACAATTATAGTCATATAT
1 ACATACTATTATAGTGATATGT
* * *
1691966 ACATAATGTTATAGTGATGTGT
1 ACATACTATTATAGTGATATGT
* *
1691988 ATATATTATTATAGTGAT
1 ACATACTATTATAGTGAT
1692006 TCTTTGTGAA
Statistics
Matches: 83, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
21 1 0.01
22 81 0.98
23 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (22 bp):
ACATACTATTATAGTGATATGT
Found at i:1692109 original size:20 final size:21
Alignment explanation
Indices: 1692084--1692154 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 21
1692074 GCAAAAATGT
1692084 GTTGGTTCCCTTTGT-AAAGG
1 GTTGGTTCCCTTTGTGAAAGG
* *
1692104 GTTGGTTCTCTTAGTGAAAGG
1 GTTGGTTCCCTTTGTGAAAGG
*
1692125 ATTGGTT-CCTTTAGTGAAAAGG
1 GTTGGTTCCCTTT-GTG-AAAGG
1692147 GTTGGTTC
1 GTTGGTTC
1692155 ATTTATAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
20 16 0.39
21 14 0.34
22 11 0.27
ACGTcount: A:0.18, C:0.11, G:0.31, T:0.39
Consensus pattern (21 bp):
GTTGGTTCCCTTTGTGAAAGG
Found at i:1692129 original size:21 final size:20
Alignment explanation
Indices: 1692084--1692154 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 20
1692074 GCAAAAATGT
*
1692084 GTTGGTTCCCTTTGT-AAAGG
1 GTTGGTT-CCTTAGTGAAAGG
1692104 GTTGGTTCTCTTAGTGAAAGG
1 GTTGGTTC-CTTAGTGAAAGG
*
1692125 ATTGGTTCCTTTAGTGAAAAGG
1 GTTGGTTCC-TTAGTG-AAAGG
1692147 GTTGGTTC
1 GTTGGTTC
1692155 ATTTATAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.02
20 13 0.30
21 18 0.41
22 12 0.27
ACGTcount: A:0.18, C:0.11, G:0.31, T:0.39
Consensus pattern (20 bp):
GTTGGTTCCTTAGTGAAAGG
Found at i:1692151 original size:22 final size:21
Alignment explanation
Indices: 1692084--1692159 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 21
1692074 GCAAAAATGT
1692084 GTTGGTTCCCTTT-GT-AAAGG
1 GTTGGTT-CCTTTAGTGAAAGG
1692104 GTTGGTT-CTCTTAGTGAAAGG
1 GTTGGTTCCT-TTAGTGAAAGG
*
1692125 ATTGGTTCCTTTAGTGAAAAGG
1 GTTGGTTCCTTTAGTG-AAAGG
*
1692147 GTTGGTTCATTTA
1 GTTGGTTCCTTTA
1692160 TAATTATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 9 0.19
21 17 0.35
22 18 0.38
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.41
Consensus pattern (21 bp):
GTTGGTTCCTTTAGTGAAAGG
Found at i:1692352 original size:21 final size:22
Alignment explanation
Indices: 1692327--1692377 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
1692317 TTTTGTGGGA
1692327 ATTGGTTCTCTTAGT-GAAGGG
1 ATTGGTTCTCTTAGTGGAAGGG
* *
1692348 GTTGGTTCTTTTAGTGGAAGGG
1 ATTGGTTCTCTTAGTGGAAGGG
1692370 ATTGGTTC
1 ATTGGTTC
1692378 ATTTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.16, C:0.08, G:0.35, T:0.41
Consensus pattern (22 bp):
ATTGGTTCTCTTAGTGGAAGGG
Found at i:1692374 original size:22 final size:21
Alignment explanation
Indices: 1692309--1692382 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 21
1692299 TGTGAAAAAG
* *
1692309 TTGGTTCTTTTTGTG--GGAA
1 TTGGTTCTTTTAGTGAAGGGA
* *
1692328 TTGGTTCTCTTAGTGAAGGGG
1 TTGGTTCTTTTAGTGAAGGGA
1692349 TTGGTTCTTTTAGTGGAAGGGA
1 TTGGTTCTTTTAGT-GAAGGGA
*
1692371 TTGGTTCATTTA
1 TTGGTTCTTTTA
1692383 TAGTTATACG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 13 0.29
21 15 0.33
22 17 0.38
ACGTcount: A:0.15, C:0.07, G:0.32, T:0.46
Consensus pattern (21 bp):
TTGGTTCTTTTAGTGAAGGGA
Found at i:1692517 original size:20 final size:21
Alignment explanation
Indices: 1692468--1692518 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
1692458 AAATTGTTAA
*
1692468 TTCTCTTTGTGAAGGGATTGG
1 TTCTCTTAGTGAAGGGATTGG
1692489 TTC-CTTTAGTGAA-GGATAT-G
1 TTCTC-TTAGTGAAGGGAT-TGG
1692509 TTCTCTTAGT
1 TTCTCTTAGT
1692519 AAAAAGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (21 bp):
TTCTCTTAGTGAAGGGATTGG
Found at i:1693333 original size:22 final size:22
Alignment explanation
Indices: 1693289--1693366 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
1693279 GATATATATG
* * * *
1693289 TACTATTATAATCATATGTACA
1 TACTATTATAGTGAAATGCACA
*
1693311 TGCTATTATAGTGAAATGCACA
1 TACTATTATAGTGAAATGCACA
**
1693333 TACTATTATAGTGAAATATACA
1 TACTATTATAGTGAAATGCACA
1693355 TAC-AGTTATAGT
1 TACTA-TTATAGT
1693367 CATATGTGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 1 0.02
22 46 0.98
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (22 bp):
TACTATTATAGTGAAATGCACA
Found at i:1693673 original size:16 final size:16
Alignment explanation
Indices: 1693649--1693690 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1693639 TATATATACA
1693649 TTATGATATAGTGATAAG
1 TTAT-ATATAGTGAT-AG
*
1693667 -TATATATAGTTATAG
1 TTATATATAGTGATAG
1693682 TTATATATA
1 TTATATATA
1693691 CATAACGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (16 bp):
TTATATATAGTGATAG
Found at i:1693679 original size:44 final size:45
Alignment explanation
Indices: 1693630--1693726 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 45
1693620 AGTCAATTTC
* * *
1693630 AGTTATAGTTATATATACATTATGATATAGTGATAAGTATATA-T
1 AGTTATAGTTATATATACATAACGATATAGTGATAAGTACATACT
*
1693674 AGTTATAGTTATATATACATAACGTTATAGTGATAAGTACATACT
1 AGTTATAGTTATATATACATAACGATATAGTGATAAGTACATACT
1693719 A-TTATAGT
1 AGTTATAGT
1693727 GATTTTTTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (45 bp):
AGTTATAGTTATATATACATAACGATATAGTGATAAGTACATACT
Found at i:1693700 original size:22 final size:21
Alignment explanation
Indices: 1693630--1693704 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
1693620 AGTCAATTTC
1693630 AGTTATAGTTATATATACATTA
1 AGTTATAGTTATATATACA-TA
* * * *
1693652 TGATATAGTGATA-AGTATATA
1 AGTTATAGTTATATA-TACATA
1693673 TAGTTATAGTTATATATACATA
1 -AGTTATAGTTATATATACATA
1693695 ACGTTATAGT
1 A-GTTATAGT
1693705 GATAAGTACA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.10
22 36 0.88
23 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (21 bp):
AGTTATAGTTATATATACATA
Found at i:1693714 original size:22 final size:22
Alignment explanation
Indices: 1693655--1693729 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
1693645 TACATTATGA
*
1693655 TATAGTGATAAGTATATATA-GT
1 TATAGTGATAAGTACATA-ACGT
*
1693677 TATAGTTATATA-TACATAACGT
1 TATAGTGATA-AGTACATAACGT
*
1693699 TATAGTGATAAGTACAT-ACTAT
1 TATAGTGATAAGTACATAAC-GT
1693721 TATAGTGAT
1 TATAGTGAT
1693730 TTTTTGTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 4 0.09
22 40 0.89
23 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (22 bp):
TATAGTGATAAGTACATAACGT
Found at i:1693959 original size:63 final size:60
Alignment explanation
Indices: 1693854--1694023 Score: 189
Period size: 63 Copynumber: 2.7 Consensus size: 60
1693844 AAGGGATTGA
*
1693854 GAAAAATGCAGAAGTTTTAAGAGATGAACCGACCCTTGAGCATAAAAGAATCAACTCC-TATGG
1 GAAAAATGCAAAAG-TTTAAGAGATGAACCGA-CCTT-AGCATAAAAGAATCAACTCCTTAT-G
* *
1693917 GAAAAATGTAAAAGTTTCAAGAGATGAACCGACTCTCTAGCATAAAAGAATCGACTCCTTATG
1 GAAAAATGCAAAAGTTT-AAGAGATGAACCGAC-CT-TAGCATAAAAGAATCAACTCCTTATG
* * *
1693980 GACAAATTGCATAAGTTTAAGAAGATGAACTGACCTTTAGCATA
1 GA-AAAATGCAAAAGTTTAAG-AGATGAACCGACC-TTAGCATA
1694024 GATTTTTTAC
Statistics
Matches: 93, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
62 4 0.04
63 61 0.66
64 28 0.30
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (60 bp):
GAAAAATGCAAAAGTTTAAGAGATGAACCGACCTTAGCATAAAAGAATCAACTCCTTATG
Found at i:1694601 original size:24 final size:22
Alignment explanation
Indices: 1694569--1694633 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
1694559 TAAGTTAAAC
1694569 ATAACTTATATGTATATATAG-CT
1 ATAA-TTATATGTATATAT-GCCT
*
1694592 ATAAAATTATATGTACATATGCCT
1 AT--AATTATATGTATATATGCCT
*
1694616 ATAATAATATGTATATAT
1 ATAATTATATGTATATAT
1694634 CATAATAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 14 0.39
23 3 0.08
24 17 0.47
25 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAATTATATGTATATATGCCT
Found at i:1694641 original size:22 final size:23
Alignment explanation
Indices: 1694576--1694641 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
1694566 AACATAACTT
*
1694576 ATATGTATATATAGCTATAA-AATT
1 ATATGTATATAT-GC-ATAATAATA
* *
1694600 ATATGTACATATGCCT-ATAATA
1 ATATGTATATATGCATAATAATA
1694622 ATATGTATATAT-CATAATAA
1 ATATGTATATATGCATAATAA
1694642 CTAAGGGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 19 0.54
23 2 0.06
24 11 0.31
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (23 bp):
ATATGTATATATGCATAATAATA
Found at i:1694715 original size:21 final size:22
Alignment explanation
Indices: 1694667--1694716 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
1694657 GTTTTACAAC
*
1694667 GAGAACCAACCCCTTTTCACTAA
1 GAGAACCAACCCC-TTTCACGAA
* *
1694690 AAGAACCAACTCC-TTCACGAA
1 GAGAACCAACCCCTTTCACGAA
1694711 GAGAAC
1 GAGAAC
1694717 TAATCTCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 12 0.52
23 11 0.48
ACGTcount: A:0.40, C:0.32, G:0.12, T:0.16
Consensus pattern (22 bp):
GAGAACCAACCCCTTTCACGAA
Found at i:1695691 original size:29 final size:29
Alignment explanation
Indices: 1695658--1695795 Score: 82
Period size: 29 Copynumber: 4.8 Consensus size: 29
1695648 AAACTCATTA
* *
1695658 AATACAAATTAATATGAATATCAATCACC
1 AATACAAATTAATATGAATACCAATCAAC
* * * * * *
1695687 AATACACATTAACATAAATGCCTATCAAT
1 AATACAAATTAATATGAATACCAATCAAC
* * * *
1695716 AATACAAATTAATGTGAATGCCTATCATAT
1 AATACAAATTAATATGAATACCAATCA-AC
* * ** *
1695746 AATACAAATCAATATTG-ATACAAATTGAT
1 AATACAAATTAATA-TGAATACCAATCAAC
*
1695775 AATACATA-TAATATGAATACC
1 AATACAAATTAATATGAATACC
1695796 CCTGAGAAAA
Statistics
Matches: 84, Mismatches: 22, Indels: 7
0.74 0.19 0.06
Matches are distributed among these distances:
27 2 0.02
28 8 0.10
29 53 0.63
30 19 0.23
31 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (29 bp):
AATACAAATTAATATGAATACCAATCAAC
Found at i:1696158 original size:30 final size:27
Alignment explanation
Indices: 1696114--1696170 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 27
1696104 CTTTTTATGA
*
1696114 ACTTTTTTTTAAAATATAATCTCTCATT
1 ACTTTTTTTTAAAATAAAATCTC-CATT
1696142 ACTTCTTTTTTAAAAATAAAATCTCCATT
1 ACTT-TTTTTT-AAAATAAAATCTCCATT
1696171 TCCCTCAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (27 bp):
ACTTTTTTTTAAAATAAAATCTCCATT
Found at i:1696821 original size:20 final size:20
Alignment explanation
Indices: 1696792--1696850 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
1696782 TAATTTAAAT
*
1696792 TTAAATTATTATTTATTTTA
1 TTAAAATATTATTTATTTTA
1696812 TTAAAATATTATTT-TTATT-
1 TTAAAATATTATTTATT-TTA
* *
1696831 TTAATA-ATTATATATTTTA
1 TTAAAATATTATTTATTTTA
1696850 T
1 T
1696851 AATTATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 15 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTAAAATATTATTTATTTTA
Found at i:1696854 original size:15 final size:16
Alignment explanation
Indices: 1696827--1696858 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1696817 ATATTATTTT
1696827 TATTTTAATAATTATA
1 TATTTTAATAATTATA
1696843 TATTTT-ATAATTATA
1 TATTTTAATAATTATA
1696858 T
1 T
1696859 TTAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTAATAATTATA
Found at i:1699684 original size:20 final size:20
Alignment explanation
Indices: 1699641--1699714 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
1699631 TACATAGTTC
***
1699641 TGTATCGATACATTTCAAACA
1 TGTATCGATACA-TTCACTTA
1699662 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* *
1699682 TGTATCAATACATTCACTGTT
1 TGTATCGATACATTCACT-TA
1699703 TGTATCGATACA
1 TGTATCGATACA
1699715 AATTGTAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:1703354 original size:15 final size:15
Alignment explanation
Indices: 1703322--1703369 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
1703312 TTTTAAATTT
* *
1703322 TTTTAAAATTTCTT-
1 TTTTATAATTTTTTA
1703336 TTTTATAATTTTTTA
1 TTTTATAATTTTTTA
1703351 TTTTAT-ATTTTTTGA
1 TTTTATAATTTTTT-A
1703366 TTTT
1 TTTT
1703370 TTTTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTATAATTTTTTA
Found at i:1705046 original size:20 final size:20
Alignment explanation
Indices: 1705005--1705044 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1704995 ATCTTCGATG
1705005 TAAAAATATCTCGATAACCC
1 TAAAAATATCTCGATAACCC
*
1705025 TAAAATATATCTCGGTAACC
1 TAAAA-ATATCTCGATAACC
1705045 TAGAAGGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAAATATCTCGATAACCC
Found at i:1705129 original size:153 final size:154
Alignment explanation
Indices: 1704887--1705182 Score: 414
Period size: 153 Copynumber: 1.9 Consensus size: 154
1704877 TTTAAAAATG
*** * * **
1704887 AACCTAGAAGGGTGAACCTATCTTAAATGTAACACTTTGGCATAAAATCACCTTAGTGACTACCT
1 AACCTAGAAGGGTGAACCTATCTTAAACACAAAACTTTGGAATAAAATCACCCCAGTGACTACCT
*** * * *
1704952 ACAACTTGGTGTTAAAGAAATTACCAAAATGCCCTTGAAATATATCTTCGATGTAAAAATATCTC
66 ACAACTCAATGTTAAAGAAATTACCAAAATGCCCTTGAAATATACCTTCGACGTAAAAATATCTA
*
1705017 GATAACCCTAAAATATATCTCGGT
131 GATAACACTAAAATATATCTCGGT
* *
1705041 AACCTAGAAGGGTGAACCTATCTTAAACACAAAACTTTGGAAT-AAATCACCCCGGTGACTATCT
1 AACCTAGAAGGGTGAACCTATCTTAAACACAAAACTTTGGAATAAAATCACCCCAGTGACTACCT
* *
1705105 ACAACTCAATGTTAAAGAAATTACCAAAATGCCCTTGAGATATACCTTCGACGTGAAAATATCTA
66 ACAACTCAATGTTAAAGAAATTACCAAAATGCCCTTGAAATATACCTTCGACGTAAAAATATCTA
*
1705170 GGTAACACTAAAA
131 GATAACACTAAAA
1705183 GACAAAAAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
153 85 0.69
154 38 0.31
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (154 bp):
AACCTAGAAGGGTGAACCTATCTTAAACACAAAACTTTGGAATAAAATCACCCCAGTGACTACCT
ACAACTCAATGTTAAAGAAATTACCAAAATGCCCTTGAAATATACCTTCGACGTAAAAATATCTA
GATAACACTAAAATATATCTCGGT
Found at i:1705232 original size:153 final size:152
Alignment explanation
Indices: 1704899--1705290 Score: 365
Period size: 153 Copynumber: 2.5 Consensus size: 152
1704889 CCTAGAAGGG
* * * * **
1704899 TGAACCTATCTTAAATGTAACACTTTGGCATAAAATCACCTTAGTGACTACCTACAACTTGGTGT
1 TGAACCTATCTTAAATGCAAC-CTTTGGCATAAAATCACCCTGGTGACTATCTACAAC-TCATGT
* * * *
1704964 TAAAGAAATTACCAAAATGCCCTTGAAATATATCTTCGATGTAAAAATATCTCGATAACCCTAAA
64 TAAAGAAATTACCAAAATGCCCTTGAAATATACCTTCGACGTAAAAATATCTAGATAACACTAAA
* * ***** * * * *
1705029 ATATATCTCGGTAACCTAGAAGGG
129 AGAAAAAAAAGTAACATAAAAAGA
** * * *
1705053 TGAACCTATCTTAAACACAAAACTTTGGAAT-AAATCACCCCGGTGACTATCTACAACTCAATGT
1 TGAACCTATCTTAAATGC-AACCTTTGGCATAAAATCACCCTGGTGACTATCTACAACTC-ATGT
* * *
1705117 TAAAGAAATTACCAAAATGCCCTTGAGATATACCTTCGACGTGAAAATATCTAGGTAACACTAAA
64 TAAAGAAATTACCAAAATGCCCTTGAAATATACCTTCGACGTAAAAATATCTAGATAACACTAAA
*
1705182 AGACAAAAAAAG-ATCATAAAAAGA
129 AGA-AAAAAAAGTAACATAAAAAGA
* * * * ** *
1705206 TGAACCTATCCTAAATGCATACCTTTGGCATAAAAGCATCCTGATGACTATCTAGGACTCATTTC
1 TGAACCTATCTTAAATGCA-ACCTTTGGCATAAAATCACCCTGGTGACTATCTACAACTCATGT-
*
1705271 TAAAAAAATTACCAAAATGC
64 TAAAGAAATTACCAAAATGC
1705291 TTTTAGGGTA
Statistics
Matches: 189, Mismatches: 43, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
152 2 0.01
153 119 0.63
154 66 0.35
155 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (152 bp):
TGAACCTATCTTAAATGCAACCTTTGGCATAAAATCACCCTGGTGACTATCTACAACTCATGTTA
AAGAAATTACCAAAATGCCCTTGAAATATACCTTCGACGTAAAAATATCTAGATAACACTAAAAG
AAAAAAAAGTAACATAAAAAGA
Found at i:1707584 original size:21 final size:21
Alignment explanation
Indices: 1707551--1707591 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1707541 TTAAGTAAAA
1707551 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1707572 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
1707592 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1707657 original size:20 final size:19
Alignment explanation
Indices: 1707632--1707701 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
1707622 CCCTGAAAAA
1707632 TATCGATACACATTTAAATG
1 TATCGATACACA-TTAAATG
* **
1707652 TATCGATACAGATTGCATAG
1 TATCGATACACATTAAAT-G
**
1707672 TATCGATACACACAAATATG
1 TATCGATACACATTAA-ATG
1707692 TATCGATACA
1 TATCGATACA
1707702 AGACATTGGC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 34 0.85
21 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
TATCGATACACATTAAATG
Found at i:1707754 original size:53 final size:53
Alignment explanation
Indices: 1707671--1707807 Score: 211
Period size: 53 Copynumber: 2.6 Consensus size: 53
1707661 AGATTGCATA
*
1707671 GTATCGATACACACAAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
* *
1707725 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
* * *
1707778 GTATCAATTCACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1707808 TTGGTAGTAG
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 63 0.82
54 14 0.18
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACACTGGCAGTAGCCAAATTT
Found at i:1707880 original size:32 final size:32
Alignment explanation
Indices: 1707839--1707929 Score: 139
Period size: 32 Copynumber: 2.9 Consensus size: 32
1707829 TTTCACTGTT
*
1707839 CATCACTATTCATAACTGTTCAAGTATCGATA
1 CATCACTATTCATCACTGTTCAAGTATCGATA
*
1707871 CATCACTATTCATCACTGTTCATGTATCGATA
1 CATCACTATTCATCACTGTTCAAGTATCGATA
* *
1707903 CATCACTGTTCA-CACTGTTCACGTATC
1 CATCACTATTCATCACTGTTCAAGTATC
1707930 ATGTATCGTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
31 14 0.25
32 41 0.75
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (32 bp):
CATCACTATTCATCACTGTTCAAGTATCGATA
Found at i:1707983 original size:13 final size:13
Alignment explanation
Indices: 1707965--1708003 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1707955 TCACTATTCA
1707965 TGTATCGATACAT
1 TGTATCGATACAT
*
1707978 TGTATCGATACAG
1 TGTATCGATACAT
1707991 TGTATCGATACAT
1 TGTATCGATACAT
1708004 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1708979 original size:9 final size:9
Alignment explanation
Indices: 1708961--1709002 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
1708951 ACTCATTGGT
*
1708961 TGCCATGGC
1 TGCCAAGGC
1708970 TGCCAAGGC
1 TGCCAAGGC
1708979 TGCCAAGGC
1 TGCCAAGGC
* *
1708988 TCCCAAGGT
1 TGCCAAGGC
1708997 TGCCAA
1 TGCCAA
1709003 ACATTAACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (9 bp):
TGCCAAGGC
Found at i:1723009 original size:11 final size:11
Alignment explanation
Indices: 1722985--1723027 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
1722975 CGTAATTCGT
1722985 AAAAAAAAACA
1 AAAAAAAAACA
*
1722996 AAAAACAAAAAA
1 AAAAA-AAAACA
1723008 AAATAAAAAACA
1 AAA-AAAAAACA
*
1723020 AATAAAAA
1 AAAAAAAA
1723028 TCATCATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 10 0.37
12 15 0.56
13 2 0.07
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:1723028 original size:17 final size:17
Alignment explanation
Indices: 1722985--1723028 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
1722975 CGTAATTCGT
*
1722985 AAAAAAAAACAAAAAAC
1 AAAAAAAAATAAAAAAC
1723002 AAAAAAAAATAAAAAAC
1 AAAAAAAAATAAAAAAC
*
1723019 AAATAAAAAT
1 AAAAAAAAAT
1723029 CATCATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAAAAATAAAAAAC
Found at i:1724992 original size:17 final size:15
Alignment explanation
Indices: 1724972--1725022 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
1724962 TTAGGAAAAA
1724972 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
1724989 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
* *
1725003 AA-AAAGAAAAAAAA
1 AAGAAAGAAAGAAAG
1725017 AAGAAA
1 AAGAAA
1725023 AAAATATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:1725023 original size:17 final size:17
Alignment explanation
Indices: 1724969--1725024 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
1724959 AAGTTAGGAA
* *
1724969 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAAAAAAAAG
** * *
1724986 ATGAAGAAGAAAGAAAG
1 AAAAAGAAAAAAAAAAG
1725003 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
1725020 AAAAA
1 AAAAA
1725025 AATATGAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:1725033 original size:11 final size:11
Alignment explanation
Indices: 1724967--1725026 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
1724957 AAAAGTTAGG
1724967 AAAAAAAGAAA
1 AAAAAAAGAAA
* *
1724978 GAAAGAAGATGAA
1 AAAAAAAGA--AA
* *
1724991 GAAGAAAG-AA
1 AAAAAAAGAAA
*
1725001 AGAAAAAGAAA
1 AAAAAAAGAAA
1725012 AAAAAAAGAAA
1 AAAAAAAGAAA
1725023 AAAA
1 AAAA
1725027 TATGAAATGG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 7 0.18
11 23 0.61
13 8 0.21
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:1731492 original size:19 final size:18
Alignment explanation
Indices: 1731465--1731517 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
1731455 ACAAAAAATG
*
1731465 AAAAGAAAAAAAAAGTGCA
1 AAAACAAAAAAAAAG-GCA
*
1731484 AAAACAAAATAAAAAGGGA
1 AAAACAAAA-AAAAAGGCA
*
1731503 ACAACAAAAATAAAA
1 AAAACAAAAA-AAAA
1731518 AACGAGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 22 0.76
20 6 0.21
ACGTcount: A:0.75, C:0.08, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAACAAAAAAAAAGGCA
Found at i:1731499 original size:20 final size:19
Alignment explanation
Indices: 1731465--1731518 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
1731455 ACAAAAAATG
*
1731465 AAAAGAAAA-AAAAAGTGCA
1 AAAACAAAATAAAAAG-GCA
*
1731484 AAAACAAAATAAAAAGGGA
1 AAAACAAAATAAAAAGGCA
*
1731503 ACAACAAAAATAAAAA
1 AAAAC-AAAATAAAAA
1731519 ACGAGGACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.76, C:0.07, G:0.11, T:0.06
Consensus pattern (19 bp):
AAAACAAAATAAAAAGGCA
Found at i:1732860 original size:27 final size:27
Alignment explanation
Indices: 1732789--1733607 Score: 1377
Period size: 27 Copynumber: 30.0 Consensus size: 27
1732779 ACTGTGACCT
*
1732789 CTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1732816 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
1732844 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
1732871 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1732898 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1732925 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1732952 CTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1732979 CTTTTAAGTCCACAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1733007 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733034 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1733061 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1733089 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1733116 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733143 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1733171 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
1733198 TTTTTAAGTCCACAACTTCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733225 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733252 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733279 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
1733307 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1733334 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1733362 CTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1733389 CTTTTAAGTCCACAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1733417 CTTTTAAATCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
1733444 CTTTTAAGCCCACAACTCCGTGGTACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733471 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
1733499 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733526 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
1733553 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* **
1733581 CTTTTAAGTTCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
1733608 ATTTCAAAGC
Statistics
Matches: 749, Mismatches: 34, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
27 515 0.69
28 234 0.31
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1732875 original size:55 final size:54
Alignment explanation
Indices: 1732789--1733607 Score: 1377
Period size: 55 Copynumber: 15.0 Consensus size: 54
1732779 ACTGTGACCT
*
1732789 CTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
*
1732844 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1732898 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1732952 CTTTTAAGTCCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
1733007 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
1733061 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
*
1733116 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
1733171 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTTCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1733225 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1733279 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1733334 CTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1733389 CTTTTAAGTCCACAACTCCATGGCATCCCTTTTAAATCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1733444 CTTTTAAGCCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
1733499 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * **
1733553 CTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGTTCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
1733608 ATTTCAAAGC
Statistics
Matches: 727, Mismatches: 31, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
54 308 0.42
55 419 0.58
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1733053 original size:82 final size:82
Alignment explanation
Indices: 1732789--1733607 Score: 1403
Period size: 82 Copynumber: 10.0 Consensus size: 82
1732779 ACTGTGACCT
*
1732789 CTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCATCCCTTTTAAGT
*
1732853 CCACAACTCCGTGGCACT
65 CCACAACTCCGTGGCACC
1732871 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1732935 CACAACTCCGTGGCACC
66 CACAACTCCGTGGCACC
* *
1732952 CTTTTAAGTCCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCATGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1733017 CACAACTCCGTGGCACC
66 CACAACTCCGTGGCACC
*
1733034 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1733099 CACAACTCCGTGGCACC
66 CACAACTCCGTGGCACC
*
1733116 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1733181 CACAACTCCGTGGCACC
66 CACAACTCCGTGGCACC
* * *
1733198 TTTTTAAGTCCACAACTTCGTGGCACTCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1733262 CACAACTCCGTGGCACC
66 CACAACTCCGTGGCACC
1733279 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
*
1733343 CCATAACTCCGTGGCATCC
65 CCACAACTCCGTGGCA-CC
* * *
1733362 CTTTTAAGTCCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCATGGCATCCCTTTTAAATC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1733427 CACAACTCCGTGGCACC
66 CACAACTCCGTGGCACC
* *
1733444 CTTTTAAGCCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
*
1733509 CACAACTCTGTGGCACC
66 CACAACTCCGTGGCACC
* *
1733526 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGTT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
**
1733591 CACAACTTTGTGGCACC
66 CACAACTCCGTGGCACC
1733608 ATTTCAAAGC
Statistics
Matches: 701, Mismatches: 32, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
81 150 0.21
82 500 0.71
83 51 0.07
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (82 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
CACAACTCCGTGGCACC
Found at i:1733650 original size:32 final size:32
Alignment explanation
Indices: 1733606--1734342 Score: 1082
Period size: 32 Copynumber: 23.3 Consensus size: 32
1733596 CTTTGTGGCA
1733606 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
** * *
1733638 CTTTTTCAAAG-CC-CACAAGTCAGTAGC-A-
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1733666 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
1733698 CCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1733726 CCATTTCAAAGCCCACACAAGTCGGTGGC-A-
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * * *
1733756 CTATTTCAAAGCCCACATAAGTCGATAGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1733788 CCATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAA-C
*
1733821 CCATTTCAAAGCCCACACAAGTCTGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
1733853 CCTTTTCAAAGCCCACACAAGTCAGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1733885 CCATTTCAAAGCCCACACAAGTCGGTGGCAA-
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1733916 CCATTTTCAAAGCCCACATAAGTCGGTGGCAAC
1 CCA-TTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1733949 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1733981 CTATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1734013 CCATTTCAAAGCCCACATAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1734045 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1734077 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
1734109 CCTTTTCAAAGCCCACAGAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1734141 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* *
1734173 CCATTTCAAAGCTCACACAAGTCCGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * *
1734205 CCATTCCAAAGCCCACATAAGTCGATGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1734237 CCATTTCAAAGCCCACACAAATCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1734269 CCTTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
* * ** *
1734301 CTATTTAAAAGCCCATGCAAGTCAGTGGCAAC
1 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
*
1734333 CCTTTTCAAA
1 CCATTTCAAA
1734343 TCACCATTTT
Statistics
Matches: 633, Mismatches: 61, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.03
29 6 0.01
30 76 0.12
31 9 0.01
32 490 0.77
33 33 0.05
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.19
Consensus pattern (32 bp):
CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
Found at i:1735608 original size:17 final size:16
Alignment explanation
Indices: 1735574--1735628 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
1735564 AGTTAGGAAA
*
1735574 AAAAAGAAAGAAAGAAG
1 AAAAAGAAA-AAAAAAG
**
1735591 ATGAAGAAGAAAAAAAG
1 AAAAAGAA-AAAAAAAG
1735608 AAAAAGAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
1735624 AAAAA
1 AAAAA
1735629 AATATGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 13 0.41
17 18 0.56
18 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:1735629 original size:17 final size:17
Alignment explanation
Indices: 1735570--1735628 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 17
1735560 AAAAAGTTAG
* *
1735570 GAAAAAAAAGAAAGAAA
1 GAAAAAGAAGAAAAAAA
1735587 GAAGATGAAGAAGAAAAAAA
1 GAA-A--AAGAAGAAAAAAA
1735607 GAAAAAGAA-AAAAAAA
1 GAAAAAGAAGAAAAAAA
1735623 GAAAAA
1 GAAAAA
1735629 AATATGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 13 0.35
17 8 0.22
18 1 0.03
19 1 0.03
20 14 0.38
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (17 bp):
GAAAAAGAAGAAAAAAA
Found at i:1735637 original size:11 final size:10
Alignment explanation
Indices: 1735571--1735630 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 10
1735561 AAAAGTTAGG
1735571 AAAAAAAAGA
1 AAAAAAAAGA
1735581 AAGAAAGAAGATGA
1 AA-AAA-AA-A-GA
*
1735595 AGAAGAAAA-A
1 A-AAAAAAAGA
*
1735605 AAGAAAAAGA
1 AAAAAAAAGA
1735615 AAAAAAAAGA
1 AAAAAAAAGA
1735625 AAAAAA
1 AAAAAA
1735631 TATGAAATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
9 5 0.12
10 20 0.50
11 3 0.08
12 3 0.08
13 3 0.08
14 5 0.12
15 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:1737825 original size:30 final size:31
Alignment explanation
Indices: 1737791--1737858 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
1737781 CCACGACTTT
* *
1737791 GTGGCACCCT-TCTAAAGCCCACACAGGCCG
1 GTGGCACCCTCTCAAAAGCCCACACAAGCCG
* *
1737821 GTGGCAATCCTCTCAAAAGCCCACACAAGTCG
1 GTGGC-ACCCTCTCAAAAGCCCACACAAGCCG
1737853 GTGGCA
1 GTGGCA
1737859 TCTACTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 5 0.16
31 5 0.16
32 22 0.69
ACGTcount: A:0.26, C:0.35, G:0.24, T:0.15
Consensus pattern (31 bp):
GTGGCACCCTCTCAAAAGCCCACACAAGCCG
Found at i:1738042 original size:52 final size:52
Alignment explanation
Indices: 1737867--1738048 Score: 172
Period size: 52 Copynumber: 3.5 Consensus size: 52
1737857 CATCTACTTC
* * *
1737867 TAAGCCCAATGTTGTTGGCCTTGAATCAACATATTGGCACAT-TTTTC-TTTCT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCA-ATCTTTTCATTT-T
* * * ** * *
1737919 TCAAGTCCAATG-CGCTAGCCTTGAATCAGCACATTGGCACCCTTGTCATCTT
1 T-AAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCAATCTTTTCATTTT
* * * *
1737971 TAAGCCCAATATCACTGGCCTTGAATCAACATATTGGCATTCTTTTCATTTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCAATCTTTTCATTTT
* *
1738023 TAAGTCTAATGTCGTTGGCCTTGAAT
1 TAAGTCCAATGTCGCTGGCCTTGAAT
1738049 TAGCACATTG
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
51 8 0.08
52 82 0.81
53 11 0.11
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAACATATTGGCAATCTTTTCATTTT
Found at i:1738083 original size:39 final size:39
Alignment explanation
Indices: 1738024--1738101 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
1738014 TTTCATTTTT
* * *
1738024 AAGTCTAATGTCGTTGGCCTTGAATTAGCACATTGGCAC
1 AAGTCCAATGTCGTTAGCCTTGAATCAGCACATTGGCAC
*
1738063 AAGTCCAATGTCGTTAGCCTTGAATCAGCATATTGGCAC
1 AAGTCCAATGTCGTTAGCCTTGAATCAGCACATTGGCAC
1738102 TTTTATCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (39 bp):
AAGTCCAATGTCGTTAGCCTTGAATCAGCACATTGGCAC
Found at i:1738183 original size:49 final size:49
Alignment explanation
Indices: 1738080--1738210 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 49
1738070 ATGTCGTTAG
* * * * * *
1738080 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCACTGTCACTGA
1 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCACTGA
* *
1738129 CCTTGAATCATCACATTGGCACCTTCATCTTTAAATCCAATAT-AGCTGG
1 CCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCA-CTGA
* *
1738178 TCTTGAATCAGCACATTGCCACCTTCATCTTTA
1 CCTTGAATCAGCACATTGGCACCTTCATCTTTA
1738211 CATCTGATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (49 bp):
CCTTGAATCAGCACATTGGCACCTTCATCTTTAAATCCAATATCACTGA
Found at i:1738232 original size:49 final size:49
Alignment explanation
Indices: 1738077--1738234 Score: 149
Period size: 49 Copynumber: 3.2 Consensus size: 49
1738067 CCAATGTCGT
* * * * * * *
1738077 TAGCCTTGAATCAGCATATTGGCACTTTTATCTTTAAGTCCACTGTCA-C
1 TAGCCTTGAATCAGCACATTGCCACCTTCATCTTTAAATCCAATAT-AGC
* *
1738126 T-GACCTTGAATCATCACATTGGCACCTTCATCTTTAAATCCAATATAGC
1 TAG-CCTTGAATCAGCACATTGCCACCTTCATCTTTAAATCCAATATAGC
* * * ** *
1738175 TGGTCTTGAATCAGCACATTGCCACCTTCATCTTTACATCTGATATCGC
1 TAGCCTTGAATCAGCACATTGCCACCTTCATCTTTAAATCCAATATAGC
1738224 TAGCCTTGAAT
1 TAGCCTTGAAT
1738235 TAACATATTG
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
48 2 0.02
49 87 0.97
50 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (49 bp):
TAGCCTTGAATCAGCACATTGCCACCTTCATCTTTAAATCCAATATAGC
Found at i:1738386 original size:52 final size:52
Alignment explanation
Indices: 1738330--1738461 Score: 129
Period size: 61 Copynumber: 2.4 Consensus size: 52
1738320 TCACTGACTG
*
1738330 TGAATCAGCACATTGACATTTTTCACATCTTTAAGCCCAATATCGTTGGCCT
1 TGAATCAGCACATTGACATTCTTCACATCTTTAAGCCCAATATCGTTGGCCT
* * * *
1738382 TGAATCAACATGTTGGCACCTTTATCATTCTTCTCATCTTTAAGCCCAATATCGTTGGTCT
1 TGAAT---CA-----GCACATTGA-CATTCTTCACATCTTTAAGCCCAATATCGTTGGCCT
*
1738443 TGAATCAGCATATTGACAT
1 TGAATCAGCACATTGACAT
1738462 CTTTATCATT
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
52 8 0.13
53 6 0.10
55 2 0.03
58 2 0.03
60 7 0.11
61 38 0.60
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TGAATCAGCACATTGACATTCTTCACATCTTTAAGCCCAATATCGTTGGCCT
Found at i:1738466 original size:61 final size:61
Alignment explanation
Indices: 1738346--1738481 Score: 200
Period size: 61 Copynumber: 2.2 Consensus size: 61
1738336 AGCACATTGA
* * *
1738346 CATTTTTCACATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATGTTGGCACCTTTAT
1 CATTTTTCTCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGACACCTTTAT
* * * *
1738407 CATTCTTCTCATCTTTAAGCCCAATATCGTTGGTCTTGAATCAGCATATTGACATCTTTAT
1 CATTTTTCTCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGACACCTTTAT
*
1738468 CATTTTTTTCATCT
1 CATTTTTCTCATCT
1738482 CCATCATCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (61 bp):
CATTTTTCTCATCTTTAAGCCCAATATCGTTGGCCTTGAATCAACATATTGACACCTTTAT
Found at i:1739181 original size:20 final size:20
Alignment explanation
Indices: 1739156--1739211 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1739146 ACTACCAAGG
*
1739156 AAATGTATCAATACATTAAT
1 AAATGTATCGATACATTAAT
1739176 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTAAT
1739196 AAATGTATCGATACAT
1 AAATGTATCGATACAT
1739212 CAGTACATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:1741880 original size:65 final size:65
Alignment explanation
Indices: 1741788--1742025 Score: 207
Period size: 65 Copynumber: 3.7 Consensus size: 65
1741778 AAACATGACC
* * * * * *
1741788 AGATGTAA-CTTAGGTCTAGAAGATTGACCAGGGCAAAACCAATACAGTCAAGCAAAATTG-TAG
1 AGATGTAATCCTAGGTCTAGAAGGTTGACCAGGGCAAAACCAATACAATCAAACAAAAGTGAT-C
1741851 A
65 A
* * * **
1741852 AGATGTAATCCTAGGTTTAGAAGGTTGACCAAGGAAAAATTAATACAATCAAACAAAAGTGATCA
1 AGATGTAATCCTAGGTCTAGAAGGTTGACCAGGGCAAAACCAATACAATCAAACAAAAGTGATCA
* * * ** * * *
1741917 AGATATAATCCTAGGTCTAAAAGGTTGACCAGGACAAAACTGATACAATCAAAC-TAGGATGACC
1 AGATGTAATCCTAGGTCTAGAAGGTTGACCAGGGCAAAACCAATACAATCAAACAAAAG-TGATC
1741981 A
65 A
* * * *
1741982 AGATTTAA-CCTAGGTCTA-AAGGGTTGACTAAGGCAAAATCAATA
1 AGATGTAATCCTAGGTCTAGAA-GGTTGACCAGGGCAAAACCAATA
1742026 TAGTTAAATA
Statistics
Matches: 141, Mismatches: 29, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
63 2 0.01
64 37 0.26
65 101 0.72
66 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (65 bp):
AGATGTAATCCTAGGTCTAGAAGGTTGACCAGGGCAAAACCAATACAATCAAACAAAAGTGATCA
Found at i:1742019 original size:64 final size:63
Alignment explanation
Indices: 1741798--1742129 Score: 192
Period size: 65 Copynumber: 5.1 Consensus size: 63
1741788 AGATGTAACT
* * * * * * * *
1741798 TAGGTCTAGAAGATTGACCAGGGCAAAACCAATACAGTCAAGCAAAATTGTA-GAAGATGTAATC
1 TAGGTCTA-AAGGTTGA-CAAGGCAAAACTAATACAATCAAACAAAAGTG-ACCAAGATATAATC
1741862 C
63 C
* * * *
1741863 TAGGTTTAGAAGGTTGACCAAGGAAAAATTAATACAATCAAACAAAAGTGATCAAGATATAATCC
1 TAGGTCTA-AAGGTTGA-CAAGGCAAAACTAATACAATCAAACAAAAGTGACCAAGATATAATCC
* * * * *
1741928 TAGGTCTAAAAGGTTGACCAGGACAAAACTGATACAATCAAAC-TAGGATGACCAAGATTTAA-C
1 TAGGTCT-AAAGGTTGACAAGG-CAAAACTAATACAATCAAACAAAAG-TGACCAAGATATAATC
1741991 C
63 C
* * * * * * * *
1741992 TAGGTCTAAAGGGTTGACTAAGGCAAAA-TCAATATAGTTAAATAAAGGTGACTAGGATA-AAAC
1 TAGGTCTAAA-GGTTGAC-AAGGCAAAACT-AATACAATCAAACAAAAGTGACCAAGATATAATC
1742055 C
63 C
* * * * *
1742056 TTGAGTCTAAAAGGGTTGACTAGG-ATGAAACTAATAGAGTCAAGC-AAAGATGACCAAGATATA
1 TAG-GTCT-AAA-GGTTGACAAGGCA--AAACTAATACAATCAAACAAAAG-TGACCAAGATATA
1742119 ATCC
60 ATCC
1742123 TAGGTCT
1 TAGGTCT
1742130 TGAGGGTTGA
Statistics
Matches: 210, Mismatches: 41, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
63 6 0.03
64 49 0.23
65 111 0.53
66 37 0.18
67 7 0.03
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.22
Consensus pattern (63 bp):
TAGGTCTAAAGGTTGACAAGGCAAAACTAATACAATCAAACAAAAGTGACCAAGATATAATCC
Found at i:1742073 original size:130 final size:129
Alignment explanation
Indices: 1741801--1742166 Score: 296
Period size: 130 Copynumber: 2.8 Consensus size: 129
1741791 TGTAACTTAG
* * * * * * * *
1741801 GTCTAGAAGATTGACCAGGGCAAAACCAATACAGTCAAGCAAA-ATTGTA-GAAGATGTAATCCT
1 GTCTAAAAGGTTGACCAGGACAAAACTAATACAATCAAACAAAGA-TG-ACCAAGATATAATCCT
* * * * * * * * * *
1741864 AGGTTTAGAA-GGTTGACCAAGGAAAAATTAATACAATCAAACAAAAGTGA-TCAAGATATAATC
64 AGGTCTA-AAGGGTTGACTAA-GCAAAACTAATATAGTCAAATAAAGGTGACT-AGGATA-AAAC
*
1741927 CTAG-
125 CTTGA
* * * *
1741931 GTCTAAAAGGTTGACCAGGACAAAACTGATACAATCAAACTAGGATGACCAAGATTTAA-CCTAG
1 GTCTAAAAGGTTGACCAGGACAAAACTAATACAATCAAACAAAGATGACCAAGATATAATCCTAG
*
1741995 GTCTAAAGGGTTGACTAAGGCAAAA-TCAATATAGTTAAATAAAGGTGACTAGGATAAAACCTTG
66 GTCTAAAGGGTTGACTAA-GCAAAACT-AATATAGTCAAATAAAGGTGACTAGGATAAAACCTTG
1742059 A
129 A
* ** * * *
1742060 GTCTAAAAGGGTTGACTAGGATGAAACTAATAGAGTCAAGCAAAGATGACCAAGATATAATCCTA
1 GTCTAAAA-GGTTGACCAGGACAAAACTAATACAATCAAACAAAGATGACCAAGATATAATCCTA
** * *
1742125 GGTCTTGAGGGTTGATTAAGTAAAACTAATATAGTCAAATAA
65 GGTCTAAAGGGTTGACTAAGCAAAACTAATATAGTCAAATAA
1742167 GGTAAAAACT
Statistics
Matches: 190, Mismatches: 37, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
128 9 0.05
129 54 0.28
130 105 0.55
131 22 0.12
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (129 bp):
GTCTAAAAGGTTGACCAGGACAAAACTAATACAATCAAACAAAGATGACCAAGATATAATCCTAG
GTCTAAAGGGTTGACTAAGCAAAACTAATATAGTCAAATAAAGGTGACTAGGATAAAACCTTGA
Found at i:1742783 original size:76 final size:76
Alignment explanation
Indices: 1742703--1742912 Score: 253
Period size: 75 Copynumber: 2.8 Consensus size: 76
1742693 GCTAGACAAT
* * *
1742703 AAGAGCACAATGGGTAATATGTGGTTTCTAAAATTTCTATCAAAAGCCAAAACAAA-TAGATAAC
1 AAGAGCACAATGGGTAATATATGGTTTCTAAAATTTCCATCAATAGCCAAAACAAACT-GATAAC
*
1742767 GAGTTCAAGAAG
65 GAGTTCAAAAAG
* ** * **
1742779 AAGAGGACAATACGAAATATATGGTTTCTAAAATTTCCATCAATAG-CTGAACAAACTGATAACG
1 AAGAGCACAATGGGTAATATATGGTTTCTAAAATTTCCATCAATAGCCAAAACAAACTGATAACG
1742843 AGTTCAAAAAG
66 AGTTCAAAAAG
* ** * *
1742854 AAAAGCATGATGGGTAATATATGGTTTCTATAATTTCCCATCAATAGCGAAAACAAACT
1 AAGAGCACAATGGGTAATATATGGTTTCTAAAATTT-CCATCAATAGCCAAAACAAACT
1742913 AATAGTAGAA
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
75 52 0.47
76 50 0.45
77 8 0.07
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (76 bp):
AAGAGCACAATGGGTAATATATGGTTTCTAAAATTTCCATCAATAGCCAAAACAAACTGATAACG
AGTTCAAAAAG
Found at i:1748167 original size:31 final size:31
Alignment explanation
Indices: 1747251--1748151 Score: 916
Period size: 31 Copynumber: 29.1 Consensus size: 31
1747241 CACGGGTGTT
* * * *
1747251 ACCAACTTGTGCGGACTTTGTCTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
*
1747282 ACCAACTCATGTGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
1747313 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* * *
1747344 ACCAATTCGTGTGGGCTTAGACTCA-GGTGCT
1 ACCAACTCGTGTGGGCTTTGACT-AGGGTGCC
* * * * *
1747375 GCCAAGTTGTGCGGGCTTTGATTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1747406 ACCAACTCGTGTGGGCTTCGACTTA-GGTGCT
1 ACCAACTCGTGTGGGCTTTGAC-TAGGGTGCC
* * * * * * *
1747437 GCCAACTCATGCGGGCCTAGACTCA-AGTGCT
1 ACCAACTCGTGTGGGCTTTGACT-AGGGTGCC
* * *
1747468 GCCAACTTGTGCGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
*
1747499 ACCAACTCGTGTGGGCTTTGACTAGGTTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* * * *
1747530 ACCAACTTGTGTGGGCTTTGACTCGAGTGTC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* * **
1747561 GCCAATTTATGTGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1747592 ACCAACTCGTGTGGGCTTTAACTAAGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1747623 ACCAACTCGTGTGGGCTTAGACTCGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1747654 ACCAACTCGTGTGGGCTTAGACTCGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
*
1747685 ACCAACTGGTGTGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
*
1747716 ACCAACTCGTGTGGGCTTTGACTTGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* * *** *
1747747 GCCAACTTGTGCAAGTTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1747778 ACCAACACGTGTGGGCTTCGACTCA-GGTGCC
1 ACCAACTCGTGTGGGCTTTGACT-AGGGTGCC
* * * * *
1747809 ACTAGCTCGCGTGGGCTTAGACTCA-GGTGTC
1 ACCAACTCGTGTGGGCTTTGACT-AGGGTGCC
* *** * *
1747840 ACCAACTTGTGCAAGCTTTGATTAAGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
*
1747871 ACCAACTCGTGTGGGCTTTGATTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1747902 ACCATCTCGTGTGGGCTTTGATTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* * *
1747933 ACCAACTCGTGTGGGCTTAGATTCGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* * * * * * *
1747964 GCCAACTTGTGCGAGCTTAGACTCGAGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
**
1747995 ACCAACTCGTACGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
** * *
1748026 ACCAACTCGTGCAGGCTTTGAATTGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1748057 GCCAACTCGTGTGGGCTTT-ATGTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGA-CTAGGGTGCC
** *
1748088 ACCAACTTTTGTGGGCTTTGACTA-GGTGCT
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
* *
1748118 GCCAACTCGTGCGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
1748149 ACC
1 ACC
1748152 GACTTGCATG
Statistics
Matches: 722, Mismatches: 138, Indels: 20
0.82 0.16 0.02
Matches are distributed among these distances:
30 30 0.04
31 687 0.95
32 5 0.01
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (31 bp):
ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
Found at i:1748267 original size:66 final size:66
Alignment explanation
Indices: 1748143--1748474 Score: 384
Period size: 66 Copynumber: 5.0 Consensus size: 66
1748133 CTTTGACTAG
* ** * *
1748143 GGTGCCACCGACTTGCATGGGCTTT-AGAGGAAAA-GAAAAGCATCTTGCTCTTTGAGGACTAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGAAAAGCATCTTGCTCTTTGAGGACTAAA
1748206 A
66 A
* *
1748207 GGTGCCACCCACTTGTGTGGGCTTTAAAAAGAAAATGGAAAGCATCTTGCTCTTTGAGGACTAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGAAAAGCATCTTGCTCTTTGAGGACTAAA
1748272 A
66 A
* * * ** * * * *
1748273 TGTGCCACTAACTTATGTGGGCTTTAAAAAGAAAACAAAAAAGCGTCCTACTTTTTGAGGACTAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA-TGAAAAGCATCTTGCTCTTTGAGGACTAA
1748338 AA
65 AA
* * * *
1748340 TGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAACGAAAAGCATCTTGCTCTTAGAGGACTAAA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGAAAAGCATCTTGCTCTTTGAGGACTAAA
1748405 A
66 A
* * * * *
1748406 CGTGCAACCAACTTGTGTGGGCTTTGAAAAGGAGAT-AAAAGCAGT-TCTGCTCTTTGAGGACTA
1 GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGAAAAGCA-TCT-TGCTCTTTGAGGACTA
1748469 AAA
64 AAA
1748472 GGT
1 GGT
1748475 TCCATGGAGT
Statistics
Matches: 229, Mismatches: 34, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
64 22 0.10
65 15 0.07
66 134 0.59
67 58 0.25
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (66 bp):
GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGAAAAGCATCTTGCTCTTTGAGGACTAAA
A
Found at i:1748345 original size:133 final size:133
Alignment explanation
Indices: 1748193--1748436 Score: 389
Period size: 133 Copynumber: 1.8 Consensus size: 133
1748183 CATCTTGCTC
* * * *
1748193 TTTGAGGACTAAAAGGTGCCACCCACTTGTGTGGGCTTTAAAAAGAAAATGGAAAGCATCTTGCT
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAACGAAAAGCATCTTGCT
* * * *
1748258 CTTTGAGGACTAAAATGTGCCACTAACTTATGTGGGCTTTAAAAAGAAAACAAAAAAGCGTCCTA
66 CTTAGAGGACTAAAACGTGCAACCAACTTATGTGGGCTTTAAAAAGAAAACAAAAAAGCGTCCTA
1748323 CTT
131 CTT
*
1748326 TTTGAGGACTAAAATGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAACGAAAAGCATCTTGCT
1 TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAACGAAAAGCATCTTGCT
* *
1748391 CTTAGAGGACTAAAACGTGCAACCAACTTGTGTGGGCTTTGAAAAG
66 CTTAGAGGACTAAAACGTGCAACCAACTTATGTGGGCTTTAAAAAG
1748437 GAGATAAAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 100 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (133 bp):
TTTGAGGACTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAACGAAAAGCATCTTGCT
CTTAGAGGACTAAAACGTGCAACCAACTTATGTGGGCTTTAAAAAGAAAACAAAAAAGCGTCCTA
CTT
Found at i:1748515 original size:34 final size:34
Alignment explanation
Indices: 1748468--1748633 Score: 158
Period size: 34 Copynumber: 4.9 Consensus size: 34
1748458 TTTGAGGACT
*
1748468 AAAA-GGTTCCATGGAGTTATAGACTTAAAAAGA
1 AAAAGGGTGCCATGGAGTTATAGACTTAAAAAGA
**
1748501 AAAAGGGTGCCATGGAGTT-GCGAACTTAAAAAGAA
1 AAAAGGGTGCCATGGAGTTATAG-ACTTAAAAAG-A
** * * *
1748536 AAAAGGGTGCCACAGAGTTGTGGATTTAAAAAGA
1 AAAAGGGTGCCATGGAGTTATAGACTTAAAAAGA
** * *
1748570 AAAAGGGTGCCACAGAGTTATGGACTTTAAAAGA
1 AAAAGGGTGCCATGGAGTTATAGACTTAAAAAGA
* * *
1748604 AAGA-GGTTCCATGGAGTTGTAGACTTAAAA
1 AAAAGGGTGCCATGGAGTTATAGACTTAAAA
1748634 GGGTACCACG
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
33 25 0.23
34 58 0.52
35 27 0.24
36 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.22
Consensus pattern (34 bp):
AAAAGGGTGCCATGGAGTTATAGACTTAAAAAGA
Found at i:1748599 original size:35 final size:34
Alignment explanation
Indices: 1748481--1748605 Score: 160
Period size: 34 Copynumber: 3.6 Consensus size: 34
1748471 AGGTTCCATG
* **
1748481 GAGTTATAGACTTAAAAAGAAAAAGGGTGCCATG
1 GAGTTATGGACTTAAAAAGAAAAAGGGTGCCACA
** *
1748515 GAGTTGCGAACTTAAAAAGAAAAAAGGGTGCCACA
1 GAGTTATGGACTTAAAAAG-AAAAAGGGTGCCACA
* *
1748550 GAGTTGTGGATTTAAAAAGAAAAAGGGTGCCACA
1 GAGTTATGGACTTAAAAAGAAAAAGGGTGCCACA
*
1748584 GAGTTATGGACTTTAAAAGAAA
1 GAGTTATGGACTTAAAAAGAAA
1748606 GAGGTTCCAT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
34 49 0.63
35 29 0.37
ACGTcount: A:0.44, C:0.10, G:0.26, T:0.20
Consensus pattern (34 bp):
GAGTTATGGACTTAAAAAGAAAAAGGGTGCCACA
Found at i:1749799 original size:13 final size:13
Alignment explanation
Indices: 1749781--1749813 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1749771 GAAATTTTTG
1749781 AAAATAAAAAAAT
1 AAAATAAAAAAAT
*
1749794 AAAATAAAATAAT
1 AAAATAAAAAAAT
1749807 -AAATAAA
1 AAAATAAA
1749814 TATTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:1755865 original size:14 final size:13
Alignment explanation
Indices: 1755845--1755885 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
1755835 GTTTCTTTAT
*
1755845 GAAAAGAAAAAAG
1 GAAAAGAAAAAAA
1755858 GAAAAAGAAAAATAA
1 G-AAAAGAAAAA-AA
1755873 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
1755886 TAAGAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 20 0.80
15 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:1756221 original size:7 final size:7
Alignment explanation
Indices: 1756206--1756281 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 7
1756196 TAGGGCAAGC
1756206 AAAAA-A
1 AAAAAGA
1756212 AAAAAG-
1 AAAAAGA
1756218 AAAAAG-
1 AAAAAGA
* *
1756224 AATAACA
1 AAAAAGA
**
1756231 AAAACCA
1 AAAAAGA
1756238 A-AAAGA
1 AAAAAGA
1756244 AACAAA-A
1 AA-AAAGA
1756251 AAAAAGA
1 AAAAAGA
*
1756258 AAAGAGAA
1 AAAAAG-A
1756266 AAAAAGA
1 AAAAAGA
1756273 AAAAAGA
1 AAAAAGA
1756280 AA
1 AA
1756282 TAATGTAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
6 22 0.39
7 25 0.45
8 9 0.16
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:1756260 original size:19 final size:17
Alignment explanation
Indices: 1756206--1756281 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 17
1756196 TAGGGCAAGC
1756206 AAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAA-AAAAAG
**
1756224 AATAACAAAAACCAAAAAG
1 AA-AA-AAAAAAAAAAAAG
1756243 AAACAAAAAAAAAGAAAAG
1 AAA-AAAAAAAAA-AAAAG
* *
1756262 AGAAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAAAG
1756279 AAA
1 AAA
1756282 TAATGTAGGA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
17 7 0.15
18 17 0.36
19 18 0.38
20 5 0.11
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:1756267 original size:15 final size:14
Alignment explanation
Indices: 1756206--1756281 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 14
1756196 TAGGGCAAGC
1756206 AAAAAA-AAAAAGA
1 AAAAAAGAAAAAGA
*
1756219 AAAAGAATAACAAA-A
1 AAAA-AAGAA-AAAGA
1756234 ACCAAAAAGAAACAA-A
1 A--AAAAAGAAA-AAGA
1756250 AAAAAAGAAAAGAGA
1 AAAAAAGAAAA-AGA
1756265 AAAAAAGAAAAAAGA
1 AAAAAAG-AAAAAGA
1756280 AA
1 AA
1756282 TAATGTAGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
13 5 0.09
14 12 0.23
15 18 0.34
16 15 0.28
17 3 0.06
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.01
Consensus pattern (14 bp):
AAAAAAGAAAAAGA
Found at i:1756267 original size:17 final size:17
Alignment explanation
Indices: 1756210--1756279 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
1756200 GCAAGCAAAA
*
1756210 AAAAAAAG-AAAAAGAAT
1 AAAAAAAGAAAAAAG-AG
** *
1756227 AACAAAAACCAAAAAGAA
1 AA-AAAAAGAAAAAAGAG
*
1756245 ACAAAAAAAAAGAAAAGAG
1 A-AAAAAAGAA-AAAAGAG
1756264 AAAAAAAGAAAAAAGA
1 AAAAAAAGAAAAAAGA
1756280 AATAATGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 8 0.19
18 21 0.49
19 14 0.33
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.01
Consensus pattern (17 bp):
AAAAAAAGAAAAAAGAG
Found at i:1757273 original size:47 final size:46
Alignment explanation
Indices: 1757208--1757299 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 46
1757198 ACCAAACTGT
* * * * *
1757208 TTTTACCCTTGTTTGATTGTATTGGCGTTAGGACCTGGTCAAACTCA
1 TTTTACCCTTATTCGATTGTATTAGCATTA-GACATGGTCAAACTCA
*
1757255 TTTTACCCTTATTCGATTGTATTAGCATTAGTCATGGTCAAACTC
1 TTTTACCCTTATTCGATTGTATTAGCATTAGACATGGTCAAACTC
1757300 TTCTCACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 13 0.33
47 26 0.67
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (46 bp):
TTTTACCCTTATTCGATTGTATTAGCATTAGACATGGTCAAACTCA
Found at i:1757454 original size:47 final size:46
Alignment explanation
Indices: 1757355--1757516 Score: 141
Period size: 47 Copynumber: 3.5 Consensus size: 46
1757345 ATTTTCAATG
* **
1757355 TTGTTTGACTATATTGG--TTAGGACCTGGTCAAACTTTTTTTACCCT
1 TTGTTTGACTATATTGGCATTAGGACTTGGTCAAAC-TTTTCCA-CCT
* * *
1757401 CT-TTTGACTATATTGGCATTAGAATTTGGTCAAACTCTTTCCACCT
1 TTGTTTGACTATATTGGCATTAGGACTTGGTCAAACT-TTTCCACCT
* * * * * *
1757447 TTGTTTGAATATATTGACGTTAGGACTTGGTTAAACTATTCTCACCC
1 TTGTTTGACTATATTGGCATTAGGACTTGGTCAAACTTTTC-CACCT
* *
1757494 TTGTTTGACTGTATTGGAATTAG
1 TTGTTTGACTATATTGGCATTAG
1757517 TCCTAGTTAA
Statistics
Matches: 91, Mismatches: 20, Indels: 9
0.76 0.17 0.08
Matches are distributed among these distances:
45 14 0.15
46 9 0.10
47 68 0.75
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (46 bp):
TTGTTTGACTATATTGGCATTAGGACTTGGTCAAACTTTTCCACCT
Found at i:1757575 original size:46 final size:46
Alignment explanation
Indices: 1757525--1757675 Score: 176
Period size: 47 Copynumber: 3.2 Consensus size: 46
1757515 AGTCCTAGTT
* *
1757525 AAACCTTTTTCATTCTTGTTTGACTGTATCGGTTACCACCCTGGTC
1 AAACCCTTTTCATTCTTATTTGACTGTATCGGTTACCACCCTGGTC
* * *
1757571 AAACCCTTTTCATTCTTCATTTGACTATATTGGTTACCACCTTGGTC
1 AAACCCTTTTCATTCTT-ATTTGACTGTATCGGTTACCACCCTGGTC
* * * ** * *
1757618 AAACCCTTTTCATCCTTATTTGATTGCATCAATTATCACCCTAGTC
1 AAACCCTTTTCATTCTTATTTGACTGTATCGGTTACCACCCTGGTC
1757664 AAACCCTGTTTC
1 AAACCCT-TTTC
1757676 CCGATTTAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
46 43 0.49
47 45 0.51
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (46 bp):
AAACCCTTTTCATTCTTATTTGACTGTATCGGTTACCACCCTGGTC
Found at i:1757822 original size:45 final size:46
Alignment explanation
Indices: 1757747--1757848 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 46
1757737 TTCATGATTG
* * *
1757747 TTTGACTGTATCAGTTATCATCCTGGTCAAACCTTTTCCATTCTCA
1 TTTGACTTTATCAGTTATCACCCTGATCAAACCTTTTCCATTCTCA
* * *
1757793 TTTGACTTTATCAGTT-TTACCCTGATCAAACCTTTTTCGTTCTCA
1 TTTGACTTTATCAGTTATCACCCTGATCAAACCTTTTCCATTCTCA
*
1757838 -TTGGCTTTATC
1 TTTGACTTTATC
1757849 GATTTCGCCC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 10 0.20
45 24 0.49
46 15 0.31
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.45
Consensus pattern (46 bp):
TTTGACTTTATCAGTTATCACCCTGATCAAACCTTTTCCATTCTCA
Found at i:1758022 original size:85 final size:84
Alignment explanation
Indices: 1757912--1758135 Score: 227
Period size: 85 Copynumber: 2.6 Consensus size: 84
1757902 TCAACTCTCT
* * * * *
1757912 CATCCCTTGTTTACCTATCAACTTAGTCTTGTGTAAATCCTTTTATCCTTTGTTGACTTTTCAGT
1 CATCCCTTGTCTACCTGTCAGCTTAGTCTTG-GTAAATCTTTTTATCCTTTGTTGACTTGTCAGT
*
1757977 TCAATCCTGATCAA-CTATTG
65 TCAATCCCGATCAACCT-TTG
* * * *
1757997 CATCCCTTGTCTACCTGTCGGCTTAGTCCTAGGTAAATCTTTTTATCTTTTGTTGACTTGTCGGT
1 CATCCCTTGTCTACCTGTCAGCTTAGT-CTTGGTAAATCTTTTTATCCTTTGTTGACTTGTCAGT
* * *
1758062 TTATTCCCGGTCAACCTTTG
65 TCAATCCCGATCAACCTTTG
* ** * *
1758082 TATCTTTTGCCTACCTGAT-AGCTTAGTCTTGGGTAACTCTTTTTATCCTTTGTT
1 CATCCCTTGTCTACCTG-TCAGCTTAGTCTT-GGTAAATCTTTTTATCCTTTGTT
1758136 AACCTGACTA
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
84 2 0.02
85 106 0.93
86 6 0.05
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (84 bp):
CATCCCTTGTCTACCTGTCAGCTTAGTCTTGGTAAATCTTTTTATCCTTTGTTGACTTGTCAGTT
CAATCCCGATCAACCTTTG
Found at i:1765441 original size:22 final size:23
Alignment explanation
Indices: 1765416--1765463 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
1765406 TTTTAATATG
1765416 TCCAGCA-TCTCATTGAATG-TTA
1 TCCAGCAGT-TCATTGAATGATTA
* *
1765438 TCCATCAGTTCATTGTATGATTA
1 TCCAGCAGTTCATTGAATGATTA
1765461 TCC
1 TCC
1765464 CATTTTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (23 bp):
TCCAGCAGTTCATTGAATGATTA
Found at i:1766740 original size:97 final size:97
Alignment explanation
Indices: 1766629--1766872 Score: 355
Period size: 97 Copynumber: 2.5 Consensus size: 97
1766619 TTTATTTATT
* * *
1766629 GGGGATACTCCAACCCTATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAATACATCAAAGTT
1 GGGGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTT
*
1766694 TAAATCTTCTTCTCACTTAAATTGTCACCATC
66 TAAATCTTATTCTCACTTAAATTGTCACCATC
* * **
1766726 GGGGACACTTCAACCCCATTCCTCCG-AGAGGATACTCCAACCCCGCTTTTACACGTATCAAAGT
1 GGGGACACTCCAACCCCATTCCTCCGAAG-GGATACTCCAACCCCGCTTTTAAACACATCAAAGT
* *
1766790 TTAAATTTTATTCTCACTTAAATTGTCATCATC
65 TTAAATCTTATTCTCACTTAAATTGTCACCATC
* * *
1766823 GGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAATCCCGTTTTT
1 GGGGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAACCCCGCTTTT
1766873 CAATCAAAAA
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
96 2 0.02
97 128 0.98
98 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (97 bp):
GGGGACACTCCAACCCCATTCCTCCGAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTT
TAAATCTTATTCTCACTTAAATTGTCACCATC
Found at i:1770860 original size:51 final size:52
Alignment explanation
Indices: 1770772--1770874 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 52
1770762 ATCAAGTTTT
1770772 TAATATTTTTGAAAATCCAAATATTATTGGCATCCATCAGGAAGACTAGAAA
1 TAATATTTTTGAAAATCCAAATATTATTGGCATCCATCAGGAAGACTAGAAA
*
1770824 TAATATTTTTGGAAATCC-AATATTATTGGCATCCATCAGGAAGACTAGAAA
1 TAATATTTTTGAAAATCCAAATATTATTGGCATCCATCAGGAAGACTAGAAA
1770875 AACATTAAAG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 33 0.66
52 17 0.34
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (52 bp):
TAATATTTTTGAAAATCCAAATATTATTGGCATCCATCAGGAAGACTAGAAA
Found at i:1772479 original size:20 final size:20
Alignment explanation
Indices: 1772454--1772491 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1772444 TATATATGAT
1772454 AAAATTGAA-ATCATATCATA
1 AAAATT-AACATCATATCATA
1772474 AAAATTAACATCATATCA
1 AAAATTAACATCATATCA
1772492 ACAAACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAATTAACATCATATCATA
Found at i:1775105 original size:3 final size:3
Alignment explanation
Indices: 1775097--1775123 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1775087 GATTAAAAAA
1775097 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1775124 AAACCCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1775585 original size:14 final size:15
Alignment explanation
Indices: 1775562--1775599 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1775552 AAATTTTAAT
*
1775562 TAAATTTAAAACA-A
1 TAAATATAAAACAGA
1775576 TAAATATAAAACAGA
1 TAAATATAAAACAGA
*
1775591 TAATTATAA
1 TAAATATAA
1775600 GAATTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAATATAAAACAGA
Found at i:1776087 original size:52 final size:52
Alignment explanation
Indices: 1776031--1776137 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 52
1776021 TAATTGTTAA
* *
1776031 TTTAATA-AAAAATAAATTTCATAATTAATATA-TTTATAT-TATATTTATATAT
1 TTTAATATAAAAA-AAA-TT-ATAATTAAAATATTTTATATGTATATATATATAT
** *
1776083 TTTAATATATTAAAAATTATATTTAAAATATTTTATATGTATATATATATAT
1 TTTAATATAAAAAAAATTATAATTAAAATATTTTATATGTATATATATATAT
1776135 TTT
1 TTT
1776138 TATCAAAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
50 10 0.21
51 9 0.19
52 25 0.53
53 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (52 bp):
TTTAATATAAAAAAAATTATAATTAAAATATTTTATATGTATATATATATAT
Found at i:1776320 original size:16 final size:16
Alignment explanation
Indices: 1776301--1776334 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1776291 TTTCAGGTTC
1776301 GGGTCATTTCGAGTTT
1 GGGTCATTTCGAGTTT
* *
1776317 GGGTTATTTCGGGTTT
1 GGGTCATTTCGAGTTT
1776333 GG
1 GG
1776335 ATTATTTTGG
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:0.09, C:0.09, G:0.38, T:0.44
Consensus pattern (16 bp):
GGGTCATTTCGAGTTT
Found at i:1776339 original size:16 final size:16
Alignment explanation
Indices: 1776306--1776347 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1776296 GGTTCGGGTC
* *
1776306 ATTTCGAGTTTGGGTT
1 ATTTCGGGTTTGGATT
1776322 ATTTCGGGTTTGGATT
1 ATTTCGGGTTTGGATT
*
1776338 ATTTTGGGTT
1 ATTTCGGGTT
1776348 CAAATCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.05, G:0.31, T:0.52
Consensus pattern (16 bp):
ATTTCGGGTTTGGATT
Found at i:1776384 original size:16 final size:17
Alignment explanation
Indices: 1776352--1776387 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1776342 TGGGTTCAAA
*
1776352 TCATTTCAGGGTTCGAG
1 TCATTTCAGGATTCGAG
1776369 TCATTTC-GGATTCGAG
1 TCATTTCAGGATTCGAG
1776385 TCA
1 TCA
1776388 ATCGGGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.36
Consensus pattern (17 bp):
TCATTTCAGGATTCGAG
Found at i:1777229 original size:16 final size:16
Alignment explanation
Indices: 1777208--1777263 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
1777198 AATTGTCTGG
* *
1777208 ATCATTTTGGGTTTGA
1 ATCATTTCGAGTTTGA
1777224 ATCATTTCGAGTTTG-
1 ATCATTTCGAGTTTGA
1777239 ATCATTTCGAGTTTGA
1 ATCATTTCGAGTTTGA
*
1777255 ATTATTTCG
1 ATCATTTCG
1777264 GATTTCGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 15 0.42
16 21 0.58
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (16 bp):
ATCATTTCGAGTTTGA
Found at i:1777244 original size:15 final size:15
Alignment explanation
Indices: 1777207--1777254 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
1777197 TAATTGTCTG
* *
1777207 GATCATTTTGGGTTT
1 GATCATTTCGAGTTT
1777222 GAATCATTTCGAGTTT
1 G-ATCATTTCGAGTTT
1777238 GATCATTTCGAGTTT
1 GATCATTTCGAGTTT
1777253 GA
1 GA
1777255 ATTATTTCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.21, C:0.10, G:0.23, T:0.46
Consensus pattern (15 bp):
GATCATTTCGAGTTT
Found at i:1789597 original size:157 final size:160
Alignment explanation
Indices: 1789307--1789597 Score: 365
Period size: 157 Copynumber: 1.8 Consensus size: 160
1789297 CGAAAAATTG
* ** *
1789307 GAGTATCCTTAAGAATGTAAATTCAAGATTTTTCGTAAGAAAAATTGAGGTTATAATATCCCTTT
1 GAGTATCCTTAAAAATGTAAATTCAAGATTTTTCGTAAGAAAAATCAAGGTTATAATATCCC-TC
* * * * * *
1789372 TTAGAGAGATAGTGTTTGAATATCCCCAAGGATGTAAATTCAAGATTATTTGTAAGAAAAACTAG
65 TCAAAAAGATAGAGTTAGAATATCCCCAAGGATGTAAATTCAAGATTATTTGTAAGAAAAAATAG
1789437 GTTAGGGTATACTTTTGAAGAGATGAAGTTA
130 GTTAGGGTATACTTTTGAAGAGATGAAGTTA
* *
1789468 GAGTATCTTTAAAAATGTAAATTCAAGA-TTTTCGTAAGAAAAA-CAAGGTTGA-AGTATCCC-C
1 GAGTATCCTTAAAAATGTAAATTCAAGATTTTTCGTAAGAAAAATCAAGGTT-ATAATATCCCTC
* * * * * * *
1789529 TCAAAAAGATAGAGTTAGAGTATCCTCGAGTATGTAAATTTAAGATTGTTTGTAAGAAAAAATGG
65 TCAAAAAGATAGAGTTAGAATATCCCCAAGGATGTAAATTCAAGATTATTTGTAAGAAAAAATAG
1789594 GTTA
130 GTTA
1789598 AAGTATACCC
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
157 56 0.51
159 12 0.11
160 16 0.15
161 26 0.24
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.33
Consensus pattern (160 bp):
GAGTATCCTTAAAAATGTAAATTCAAGATTTTTCGTAAGAAAAATCAAGGTTATAATATCCCTCT
CAAAAAGATAGAGTTAGAATATCCCCAAGGATGTAAATTCAAGATTATTTGTAAGAAAAAATAGG
TTAGGGTATACTTTTGAAGAGATGAAGTTA
Found at i:1789623 original size:79 final size:78
Alignment explanation
Indices: 1789307--1789623 Score: 244
Period size: 79 Copynumber: 4.0 Consensus size: 78
1789297 CGAAAAATTG
* * *
1789307 GAGTATCCTTAAGAATGTAAATTCAAGATTTTTCGTAAGAAAAATTGAGGTTATAA-TAT-CCCT
1 GAGTATCCTCAAAAATGTAAATTCAAGATTTTT-GTAAGAAAAAAT-AGGTTA-AAGTATACCC-
* * * * *
1789370 TTTTAGAGAGATAGTGTTT
62 --TCAAAGAGATGGAGTTA
* * ** * ** ** **
1789389 GAATATCCCCAAGGATGTAAATTCAAGATTATTTGTAAGAAAAACTAGGTTAGGGTATACTTTTG
1 GAGTATCCTCAAAAATGTAAATTCAAGATT-TTTGTAAGAAAAAATAGGTTAAAGTATACCCTCA
*
1789454 AAGAGATGAAGTTA
65 AAGAGATGGAGTTA
* * * * *
1789468 GAGTATCTTTAAAAATGTAAATTCAAGATTTTCGTAAGAAAAACA-AGGTTGAAGTATCCCCTCA
1 GAGTATCCTCAAAAATGTAAATTCAAGATTTTTGTAAGAAAAA-ATAGGTTAAAGTATACCCTCA
* *
1789532 AAAAGATAGAGTTA
65 AAGAGATGGAGTTA
* ** * *
1789546 GAGTATCCTCGAGTATGTAAATTTAAGATTGTTTGTAAGAAAAAATGGGTTAAAGTATACCCTCA
1 GAGTATCCTCAAAAATGTAAATTCAAGATT-TTTGTAAGAAAAAATAGGTTAAAGTATACCCTCA
1789611 AAGAGATGGAGTT
65 AAGAGATGGAGTT
1789624 GGACTACCCC
Statistics
Matches: 183, Mismatches: 46, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
78 59 0.32
79 74 0.40
81 9 0.05
82 38 0.21
83 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (78 bp):
GAGTATCCTCAAAAATGTAAATTCAAGATTTTTGTAAGAAAAAATAGGTTAAAGTATACCCTCAA
AGAGATGGAGTTA
Found at i:1791318 original size:13 final size:13
Alignment explanation
Indices: 1791300--1791325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1791290 TACACAAAGT
1791300 ATGTATCGATACA
1 ATGTATCGATACA
1791313 ATGTATCGATACA
1 ATGTATCGATACA
1791326 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1791344 original size:34 final size:32
Alignment explanation
Indices: 1791282--1791346 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1791272 TAGCCAAACT
**
1791282 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
1791314 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
1791347 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:1800074 original size:13 final size:13
Alignment explanation
Indices: 1800056--1800081 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1800046 TACACAAAGT
1800056 ATGTATCGATACA
1 ATGTATCGATACA
1800069 ATGTATCGATACA
1 ATGTATCGATACA
1800082 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1800102 original size:34 final size:32
Alignment explanation
Indices: 1800038--1800102 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
1800028 TAGCCAAACT
**
1800038 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
*
1800070 TGTATCGATACACAAAAAAATTGTATCTATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
1800103 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 13 0.46
33 4 0.14
34 11 0.39
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:1801307 original size:25 final size:24
Alignment explanation
Indices: 1801279--1801330 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
1801269 TAAGAAATGC
*
1801279 ATGAATATTTCAAAAACATGTTAGG
1 ATGAAGATTT-AAAAACATGTTAGG
** *
1801304 ATGAAGATTTAAGCATATGTTAGG
1 ATGAAGATTTAAAAACATGTTAGG
1801328 ATG
1 ATG
1801331 TGATGGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (24 bp):
ATGAAGATTTAAAAACATGTTAGG
Found at i:1803719 original size:67 final size:66
Alignment explanation
Indices: 1803514--1803721 Score: 179
Period size: 68 Copynumber: 3.1 Consensus size: 66
1803504 GTAATACTAG
* * * *
1803514 GTCACTTTCATC-AACGTAAGACCTCAATGGTCTGCTCACCACAATGGCATAACAATAAGTGACA
1 GTCACTTTCATCAAAC-TAAGA-CTTAATGATCTACTCGCCAC-ATGGCATAACAATAAGTGACA
1803578 CCAA
63 CCAA
* * * * * * * *
1803582 GTTATTTTCATCAAATTAAGACTTCAATGATCTATTTGCCATAATGGCACT-ACAACAAGTAACA
1 GTCACTTTCATCAAACTAAGACTT-AATGATCTACTCGCCA-CATGGCA-TAACAATAAGTGACA
1803646 CCAA
63 CCAA
* * * *
1803650 GTCACTTTCATTAAACTAAGACCTT-ATCGGTTTACTCGCCACATGGCATAACAATAAGTGACAT
1 GTCACTTTCATCAAACTAAGA-CTTAAT-GATCTACTCGCCACATGGCATAACAATAAGTGACAC
1803714 CAA
64 CAA
1803717 GTCAC
1 GTCAC
1803722 CCTTAGAAAG
Statistics
Matches: 109, Mismatches: 24, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
66 1 0.01
67 29 0.27
68 73 0.67
69 6 0.06
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (66 bp):
GTCACTTTCATCAAACTAAGACTTAATGATCTACTCGCCACATGGCATAACAATAAGTGACACCA
A
Found at i:1805370 original size:20 final size:20
Alignment explanation
Indices: 1805345--1805382 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1805335 CTGCCAAGGA
*
1805345 AATGTATCGATACATTGTTC
1 AATGTATCAATACATTGTTC
1805365 AATGTATCAATACATTGT
1 AATGTATCAATACATTGT
1805383 ATCGATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCAATACATTGTTC
Found at i:1805389 original size:33 final size:33
Alignment explanation
Indices: 1805347--1805412 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1805337 GCCAAGGAAA
*
1805347 TGTATCGATACATTGTTCAATGTATCAATACAT
1 TGTATCGATACATTGATCAATGTATCAATACAT
** *
1805380 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCAATACAT
1805413 CTAGGAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCAATACAT
Found at i:1806854 original size:89 final size:89
Alignment explanation
Indices: 1806703--1806865 Score: 317
Period size: 89 Copynumber: 1.8 Consensus size: 89
1806693 AACTACTCTG
*
1806703 GGGCAGTGCAAATGAGTTCATGATGCTCATACCACTCTCTCCTTTCGGTCACGATGTTCGGATGT
1 GGGCAGTGAAAATGAGTTCATGATGCTCATACCACTCTCTCCTTTCGGTCACGATGTTCGGATGT
1806768 CCATGACTCTCTCATACCACTCCA
66 CCATGACTCTCTCATACCACTCCA
1806792 GGGCAGTGAAAATGAGTTCATGATGCTCATACCACTCTCTCCTTTCGGTCACGATGTTCGGATGT
1 GGGCAGTGAAAATGAGTTCATGATGCTCATACCACTCTCTCCTTTCGGTCACGATGTTCGGATGT
1806857 CCATGACTC
66 CCATGACTC
1806866 GAGTTTAAAC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (89 bp):
GGGCAGTGAAAATGAGTTCATGATGCTCATACCACTCTCTCCTTTCGGTCACGATGTTCGGATGT
CCATGACTCTCTCATACCACTCCA
Found at i:1808571 original size:13 final size:13
Alignment explanation
Indices: 1808553--1808578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1808543 CAATTTTTTG
1808553 TGTATCGATACAT
1 TGTATCGATACAT
1808566 TGTATCGATACAT
1 TGTATCGATACAT
1808579 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1809318 original size:21 final size:21
Alignment explanation
Indices: 1809277--1809320 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1809267 CTCTCCTTTA
* *
1809277 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1809298 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1809319 TC
1 TC
1809321 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1813216 original size:15 final size:15
Alignment explanation
Indices: 1813196--1813226 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1813186 ATTTCGTTTG
*
1813196 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1813211 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1813226 G
1 G
1813227 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1815059 original size:21 final size:21
Alignment explanation
Indices: 1815030--1815074 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1815020 AAGTTTTCAT
*
1815030 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1815050 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1815072 TTT
1 TTT
1815075 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1817316 original size:13 final size:13
Alignment explanation
Indices: 1817298--1817323 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1817288 CAATTTTTTG
1817298 TGTATCGATACAT
1 TGTATCGATACAT
1817311 TGTATCGATACAT
1 TGTATCGATACAT
1817324 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1824353 original size:20 final size:20
Alignment explanation
Indices: 1824327--1824382 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
1824317 AATGGCCTCC
*
1824327 ATGTATCGATACAATTTGCT
1 ATGTATCGATACAATTTGCA
* * *
1824347 TTGTATCGATAC-ATCTGGA
1 ATGTATCGATACAATTTGCA
1824366 ATGTATCGATACAATTT
1 ATGTATCGATACAATTT
1824383 TTTTAACCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTTGCA
Found at i:1830163 original size:16 final size:16
Alignment explanation
Indices: 1830132--1830182 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
1830122 GAAAACTCTA
* *
1830132 AATTTGAATTAAAAAT
1 AATTTAAATTTAAAAT
* *
1830148 ATTTTAAATTTGAAAT
1 AATTTAAATTTAAAAT
1830164 AATTTAAATTTAAAAT
1 AATTTAAATTTAAAAT
1830180 AAT
1 AAT
1830183 GAAGATTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
AATTTAAATTTAAAAT
Found at i:1830554 original size:18 final size:17
Alignment explanation
Indices: 1830536--1830575 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
1830526 TATTTATATA
1830536 AAATTTAATATTTTAAT
1 AAATTTAATATTTTAAT
*
1830553 AAATTT-ATATTAT-AT
1 AAATTTAATATTTTAAT
1830568 AAATTTAA
1 AAATTTAA
1830576 AAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTAATATTTTAAT
Found at i:1830599 original size:5 final size:5
Alignment explanation
Indices: 1830581--1830642 Score: 55
Period size: 5 Copynumber: 13.2 Consensus size: 5
1830571 TTTAAAAATA
*
1830581 TATATT TATGT TATAT TATAT TATA- TAT-T TAATAT TATAT TATA- TAT-T
1 TATA-T TATAT TATAT TATAT TATAT TATAT T-ATAT TATAT TATAT TATAT
1830629 TATA- TA-AT TATAT T
1 TATAT TATAT TATAT T
1830643 TAAAATTATT
Statistics
Matches: 47, Mismatches: 2, Indels: 15
0.73 0.03 0.23
Matches are distributed among these distances:
3 1 0.02
4 14 0.30
5 27 0.57
6 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:1830617 original size:19 final size:19
Alignment explanation
Indices: 1830557--1830642 Score: 86
Period size: 19 Copynumber: 4.4 Consensus size: 19
1830547 TTTAATAAAT
*
1830557 TTATATTATATAAATTTAAAA
1 TTATATTATAT--ATTTAATA
* *
1830578 ATATA-TATTTATGTT-ATA
1 TTATATTATATAT-TTAATA
1830596 TTATATTATATATTTAATA
1 TTATATTATATATTTAATA
1830615 TTATATTATATATTTATATAA
1 TTATATTATATATTTA-AT-A
1830636 TTATATT
1 TTATATT
1830643 TAAAATTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
18 10 0.18
19 27 0.49
20 6 0.11
21 12 0.22
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (19 bp):
TTATATTATATATTTAATA
Found at i:1830623 original size:24 final size:23
Alignment explanation
Indices: 1830579--1830642 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
1830569 AATTTAAAAA
*
1830579 TATATATTTATGTTATATTATAT
1 TATATATTTATATTATATTATAT
1830602 TATATATTTAATATTATATTATA-
1 TATATATTT-ATATTATATTATAT
* *
1830625 TATTTATATA-ATTATATT
1 TATATATTTATATTATATT
1830643 TAAAATTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 8 0.22
22 1 0.03
23 16 0.43
24 12 0.32
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATATATTTATATTATATTATAT
Found at i:1830638 original size:21 final size:21
Alignment explanation
Indices: 1830579--1830642 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 21
1830569 AATTTAAAAA
*
1830579 TATATATTTATGTTATATTATAT
1 TATATATTTAT-ATA-ATTATAT
1830602 TATATATTTA-AT-ATTATAT
1 TATATATTTATATAATTATAT
1830621 TATATATTTATATAATTATAT
1 TATATATTTATATAATTATAT
1830642 T
1 T
1830643 TAAAATTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 17 0.45
20 2 0.05
21 9 0.24
23 10 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TATATATTTATATAATTATAT
Found at i:1830651 original size:12 final size:14
Alignment explanation
Indices: 1830581--1830644 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
1830571 TTTAAAAATA
*
1830581 TATATTTATGTTATAT
1 TATATTTAT-ATA-AT
*
1830597 TATA-TTATATATT
1 TATATTTATATAAT
*
1830610 TA-ATATTATATTA-
1 TATAT-TTATATAAT
1830623 TATATTTATATAAT
1 TATATTTATATAAT
1830637 TATATTTA
1 TATATTTA
1830645 AAATTATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 1 0.03
13 12 0.31
14 18 0.46
15 4 0.10
16 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TATATTTATATAAT
Done.