Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 33
Found at i:4643668 original size:46 final size:46
Alignment explanation
Indices: 4643616--4643780 Score: 199
Period size: 46 Copynumber: 3.6 Consensus size: 46
4643606 TATTATGAAA
* * * * *
4643616 TTTTCATTTGTGGCATCCTTTCATACAAATTATGCATTGTTATAAC
1 TTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTCATAAC
* * *
4643662 TTTTCATTTATGGCAACCTTTCATGCCAATTATGCATTGTGAT-AC
1 TTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTCATAAC
* *
4643707 ATTTTCATTTATGACGTCCTTTCATGCCAATTATACATTGTCATATA-
1 -TTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTCATA-AC
*
4643754 TTTTCATTTATGACATCTTTTCATGCC
1 TTTTCATTTATGACATCCTTTCATGCC
4643781 TTTAATGCAC
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
45 2 0.02
46 101 0.97
48 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.45
Consensus pattern (46 bp):
TTTTCATTTATGACATCCTTTCATGCCAATTATGCATTGTCATAAC
Found at i:4643789 original size:92 final size:92
Alignment explanation
Indices: 4643615--4643806 Score: 219
Period size: 92 Copynumber: 2.1 Consensus size: 92
4643605 CTATTATGAA
* * * * *
4643615 ATTTTCATTTGTGGCATCCTTTCATACAAATTATGCATTGTTATAACTTTTCATTTATGGCAACC
1 ATTTTCATTTATGACATCCTTTCATACAAATTATACATTGTCATAACTTTTCATTTATGACAACC
*
4643680 TTTCATGCCAATTATGCATTGTGATAC
66 TTTCATGCCAATTATGCACTGTGATAC
* * * *
4643707 ATTTTCATTTATGACGTCCTTTCATGCCAATTATACATTGTCATATA-TTTTCATTTATGACATC
1 ATTTTCATTTATGACATCCTTTCATACAAATTATACATTGTCATA-ACTTTTCATTTATGACAAC
* * * *
4643771 TTTTCATGCC-TTTAATGCACTGTTATGC
65 CTTTCATGCCAATT-ATGCACTGTGATAC
4643799 A-TTTCATT
1 ATTTTCATT
4643807 ACGATGCATA
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
91 9 0.11
92 74 0.88
93 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (92 bp):
ATTTTCATTTATGACATCCTTTCATACAAATTATACATTGTCATAACTTTTCATTTATGACAACC
TTTCATGCCAATTATGCACTGTGATAC
Found at i:4643893 original size:54 final size:54
Alignment explanation
Indices: 4643835--4644280 Score: 606
Period size: 54 Copynumber: 8.3 Consensus size: 54
4643825 CCATACAACC
* * *** * * * *
4643835 ATTCATTAACATATTATGAATTTCGTGGGTTGCACACATAGTGTCGTAACAATT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
* ** *
4643889 ATTCATCAACAAATGATGAATTTCGTGAGTTGCACACTTAGTGCCGAAACGGTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
*
4643943 ATTTATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
* * *
4643997 ATTCATCAACATATGATGAATTCCGTGAAATACACACTTGGTGCCGAAACAGTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
* *
4644051 TTTCATCAACATATGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAC-GTTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAG-TT
* *
4644105 ATTCATCAACATATAATGAATTTCGTGAAATGCACACTTAGTGCAGAAACAGTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
* * * **
4644159 ATTCATCAATATATGATGAATTCCATGAAATGCACACTTAGTGCCGAAATGGTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
* * * *
4644213 ATTCATCAACATATGATAAATTCCATGAAATGCACACTTAGTGCCGAAACGGTT
1 ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
4644267 ATTCATCAACATAT
1 ATTCATCAACATAT
4644281 TGTAACCCCC
Statistics
Matches: 355, Mismatches: 35, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
53 1 0.00
54 353 0.99
55 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (54 bp):
ATTCATCAACATATGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTT
Found at i:4646590 original size:31 final size:31
Alignment explanation
Indices: 4646552--4646614 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
4646542 GGTATTCTGG
4646552 TCATTTTACAGATCCAGTGTATTACAATCAT
1 TCATTTTACAGATCCAGTGTATTACAATCAT
4646583 TCATTTTACAGATCCAGTGTATTACAATCAT
1 TCATTTTACAGATCCAGTGTATTACAATCAT
4646614 T
1 T
4646615 TTCTTCCGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (31 bp):
TCATTTTACAGATCCAGTGTATTACAATCAT
Found at i:4648555 original size:17 final size:15
Alignment explanation
Indices: 4648532--4648564 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4648522 TGACTAGTAT
4648532 AATATATA-GTTACAC
1 AATATATATG-TACAC
4648547 AATATATATGTACAC
1 AATATATATGTACAC
4648562 AAT
1 AAT
4648565 TAAATGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (15 bp):
AATATATATGTACAC
Found at i:4650684 original size:12 final size:12
Alignment explanation
Indices: 4650667--4650696 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4650657 GGAGTAGGAA
4650667 TATTTTCATTAT
1 TATTTTCATTAT
*
4650679 TATTTTGATTAT
1 TATTTTCATTAT
4650691 TATTTT
1 TATTTT
4650697 TATCTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (12 bp):
TATTTTCATTAT
Found at i:4656926 original size:201 final size:201
Alignment explanation
Indices: 4656408--4657164 Score: 736
Period size: 201 Copynumber: 3.8 Consensus size: 201
4656398 TAGAGGAACT
* * * * * * * * * *
4656408 ATTTACAACATAGCTCAAGGCGAAAAGGGCTATATGTCAATGAAAGCTTTAGAGTTCGATTCCAT
1 ATTTACAGCATAACTCAAGGTGAAAAGGACTATCTATCAACGAAAACTTTCGAGTTTGATTCCAT
* * * * * * * * *
4656473 TAAACTCAAGGGCGTATTAACCGTAGGGTAGTAGCGAGGAACTACTTTCCGTTTAAAGTTTGAAC
66 TAAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAACTAATTTCCGGTTGAAGTTTGAAC
* * * * * * *
4656538 CGAGGCCTTTAAGTTAAGAACAAGACCTATGTTGGCTGTGATTTAGCAATAATGAAC-ATATCCC
131 CGAGGTCTTTAAGTCAAGAAGAAGACCTATGTTGGATGCGATTTAGCAACAATGAACTATATTCC
4656602 AGCCT-
196 AGCCTA
* * * * * * *
4656607 ATATACAGCATAACTCAAGGAGAAAATGATTATCTCTCAAC-AAAAGCTTTCAAGTTTGATTACA
1 ATTTACAGCATAACTCAAGGTGAAAAGGACTATCTATCAACGAAAA-CTTTCGAGTTTGATTCCA
* * * * * * *
4656671 TTCAGCTCGAGGG-TTAGCAACCACATGGTAGCAGCAATGAACTAATTTCCGGTTGAAGTTTAAA
65 TTAAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAACTAATTTCCGGTTGAAGTTTGAA
* * * *
4656735 CTGAGGTCTTTTAGTCAAGAAGAAGAACTGTGTTGGATGCGATTTAGCAACAATGAACTATATTC
130 CCGAGGTCTTTAAGTCAAGAAGAAGACCTATGTTGGATGCGATTTAGCAACAATGAACTATATTC
*
4656800 CAGCATA
195 CAGCCTA
* * * * *
4656807 ATTTATAGCATAGCTCAAGGTGAGAAGGGCTATCTATCAACGAAAACTTTCGAGTTTGATTCCGT
1 ATTTACAGCATAACTCAAGGTGAAAAGGACTATCTATCAACGAAAACTTTCGAGTTTGATTCCAT
* * *
4656872 TCAGCTCGAGGGCGTATTAACCGCATGGTAGCAGCGAGGAACTAATTTCCGGTTGAATTTTGAAC
66 TAAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAACTAATTTCCGGTTGAAGTTTGAAC
* * * * *
4656937 CAAGGTCTTTAAGTCAAGAAGAAGACCTATGTTTGTTGCGATTTAGCAACAAGGAACTATCTTCC
131 CGAGGTCTTTAAGTCAAGAAGAAGACCTATGTTGGATGCGATTTAGCAACAATGAACTATATTCC
*
4657002 AACCTA
196 AGCCTA
* * * * * * *
4657008 ATTTACAACATAACTTAA-GTCGAGAAA-AACTGTCTATTAACAAAAACTTTTGAGTTTGATTCC
1 ATTTACAGCATAACTCAAGGT-GA-AAAGGACTATCTATCAACGAAAACTTTCGAGTTTGATTCC
* * * * * ** *
4657071 ATTAAGTTCGAGGGCGTATCAACTGCACGGTAGCAGCGAGGAACTACTTTTCAATTGAA-TTTCA
64 ATTAAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAACTAATTTCCGGTTGAAGTTT-G
* * *
4657135 AATCGAGGTCTTTAAGCCAATAAGAAGACC
128 AACCGAGGTCTTTAAGTCAAGAAGAAGACC
4657165 AAGGTTGAAT
Statistics
Matches: 450, Mismatches: 100, Indels: 14
0.80 0.18 0.02
Matches are distributed among these distances:
198 89 0.20
199 65 0.14
200 65 0.14
201 229 0.51
202 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (201 bp):
ATTTACAGCATAACTCAAGGTGAAAAGGACTATCTATCAACGAAAACTTTCGAGTTTGATTCCAT
TAAGCTCGAGGGCGTATCAACCGCATGGTAGCAGCGAGGAACTAATTTCCGGTTGAAGTTTGAAC
CGAGGTCTTTAAGTCAAGAAGAAGACCTATGTTGGATGCGATTTAGCAACAATGAACTATATTCC
AGCCTA
Found at i:4657555 original size:39 final size:38
Alignment explanation
Indices: 4657512--4657703 Score: 162
Period size: 39 Copynumber: 4.9 Consensus size: 38
4657502 ATATAGTATT
*
4657512 GAAAAATATTTTTGAAAAACATATAATATATAATTTTTA
1 GAAAAATATTTTTG-AAAACATATAATATATAGTTTTTA
**
4657551 GAAAACGATTTTTG-AAACATATAATATATAGTTTTTA
1 GAAAAATATTTTTGAAAACATATAATATATAGTTTTTA
* * *
4657588 -AAAACTCAATTTTTGAAAA-ATAT-ATACAATATGGTTTT-
1 GAAAAAT--ATTTTTGAAAACATATAATA-TATA-GTTTTTA
* * *
4657626 GAAGACATGTTTTTGAAAACGTATAATATATAGTTTTTTTA
1 GAA-AAATATTTTTGAAAACATATAATATATAG--TTTTTA
*
4657667 -AAAAATTAATTTTTGAAAACATATAATAAATAGTTTT
1 GAAAAA-T-ATTTTTGAAAACATATAATATATAGTTTT
4657704 GAAAACGTAT
Statistics
Matches: 123, Mismatches: 16, Indels: 28
0.74 0.10 0.17
Matches are distributed among these distances:
36 5 0.04
37 25 0.20
38 25 0.20
39 34 0.28
40 12 0.10
41 22 0.18
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (38 bp):
GAAAAATATTTTTGAAAACATATAATATATAGTTTTTA
Found at i:4657569 original size:37 final size:37
Alignment explanation
Indices: 4657519--4657611 Score: 116
Period size: 37 Copynumber: 2.4 Consensus size: 37
4657509 ATTGAAAAAT
*
4657519 ATTTTTGAAAAACATATAATATATAATTTTTAGAAAA-CG
1 ATTTTTG--AAACATATAATATATAATTTTTA-AAAACCA
*
4657558 ATTTTTGAAACATATAATATATAGTTTTTAAAAACTCA
1 ATTTTTGAAACATATAATATATAATTTTTAAAAAC-CA
*
4657596 ATTTTTGAAAAATATA
1 ATTTTTGAAACATATA
4657612 TACAATATGG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
36 4 0.08
37 22 0.45
38 16 0.33
39 7 0.14
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.41
Consensus pattern (37 bp):
ATTTTTGAAACATATAATATATAATTTTTAAAAACCA
Found at i:4657600 original size:77 final size:78
Alignment explanation
Indices: 4657519--4657710 Score: 225
Period size: 77 Copynumber: 2.5 Consensus size: 78
4657509 ATTGAAAAAT
*
4657519 ATTTTTGAAAAACATATAATATATAATTTTTAGAAAACGA-TTTTTG-AAACATATAATATATAG
1 ATTTTTGAAAAACATATAATATAT-AGTTTT-GAAAACGAGTTTTTGAAAACATATAATATATAG
*
4657582 -TTTTTAAAAACTCA
64 TTTTTTAAAAAATCA
* * * *
4657596 ATTTTTGAAAAATATATACA-ATATGGTTTTGAAGAC-ATGTTTTTGAAAACGTATAATATATAG
1 ATTTTTGAAAAACATATA-ATATATAGTTTTGAAAACGA-GTTTTTGAAAACATATAATATATAG
*
4657659 TTTTTTTAAAAAATTA
64 -TTTTTTAAAAAATCA
*
4657675 ATTTTTG-AAAACATATAATAAATAGTTTTGAAAACG
1 ATTTTTGAAAAACATATAATATATAGTTTTGAAAACG
4657711 TATATAATAT
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
74 1 0.01
75 5 0.05
76 10 0.10
77 38 0.40
78 23 0.24
79 19 0.20
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (78 bp):
ATTTTTGAAAAACATATAATATATAGTTTTGAAAACGAGTTTTTGAAAACATATAATATATAGTT
TTTTAAAAAATCA
Found at i:4657697 original size:25 final size:24
Alignment explanation
Indices: 4657669--4657731 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
4657659 TTTTTTTAAA
4657669 AAATTAATTTTTGAAAACATATAAT
1 AAATTAATTTTTGAAAACATAT-AT
* *
4657694 AAA-T-AGTTTTGAAAACGTATAT
1 AAATTAATTTTTGAAAACATATAT
4657716 -AATATAATTTTT-AAAA
1 AAAT-TAATTTTTGAAAA
4657732 TATTTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.06
22 2 0.06
23 19 0.59
24 6 0.19
25 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (24 bp):
AAATTAATTTTTGAAAACATATAT
Found at i:4657726 original size:23 final size:23
Alignment explanation
Indices: 4657677--4657731 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
4657667 AAAAATTAAT
*
4657677 TTTTGAAAACATATAATAAATAG
1 TTTTGAAAACATATAATAAATAA
*
4657700 TTTTGAAAACGTAT-ATAATATAA
1 TTTTGAAAACATATAATAA-ATAA
*
4657723 TTTTTAAAA
1 TTTTGAAAA
4657732 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (23 bp):
TTTTGAAAACATATAATAAATAA
Found at i:4657811 original size:73 final size:73
Alignment explanation
Indices: 4657700--4657950 Score: 279
Period size: 73 Copynumber: 3.5 Consensus size: 73
4657690 TAATAAATAG
*
4657700 TTTTGAAAACGTATATAATATA-A-TTTTTAAAATATTTTTAAACATATATGTAATATAGTTTTG
1 TTTTGAAAACGTATATAATATATAGTTTTTAAAATATTTTTAAA-ATATATATAATATAGTTTTG
4657763 AAAATACAT
65 AAAATACAT
*
4657772 TTTTTAAAACGTATATAATATATAGTTTTT-AAATATTTTTAAATATATATATAATATAGTTTTT
1 TTTTGAAAACGTATATAATATATAGTTTTTAAAATATTTTTAAA-ATATATATAATATAG-TTTT
* *
4657836 GAAAACATAT
64 GAAAATACAT
** *
4657846 TCTTAAAAAAC--ATATAATATATAGTTTTTTTAAAATATTTTTGAAAATATA-CT-ATATAGTT
1 T-TTTGAAAACGTATATAATATATAG--TTTTTAAAATATTTTT-AAAATATATATAATATAGTT
* **
4657907 TTTAAAAT-GGT
62 TTGAAAATACAT
4657918 TTTTGAAAAC--ATATAATATATAGTTTTTAAAAT
1 TTTTGAAAACGTATATAATATATAGTTTTTAAAAT
4657951 TTGTTTTTTT
Statistics
Matches: 157, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
69 10 0.06
71 20 0.13
72 23 0.15
73 49 0.31
74 24 0.15
75 13 0.08
76 15 0.10
77 3 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (73 bp):
TTTTGAAAACGTATATAATATATAGTTTTTAAAATATTTTTAAAATATATATAATATAGTTTTGA
AAATACAT
Found at i:4658014 original size:12 final size:11
Alignment explanation
Indices: 4657989--4658027 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4657979 AATATATACA
*
4657989 TATTATTATTT
1 TATTTTTATTT
*
4658000 TATTTTCTGTTT
1 TATTTT-TATTT
4658012 TATTTTTATTT
1 TATTTTTATTT
4658023 TATTT
1 TATTT
4658028 AATCTATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:4659347 original size:13 final size:14
Alignment explanation
Indices: 4659317--4659346 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4659307 TAGTCCCTAA
4659317 TTTT-AATTCCTTT
1 TTTTAAATTCCTTT
4659330 TTTTAAATTCCTTT
1 TTTTAAATTCCTTT
4659344 TTT
1 TTT
4659347 ATTTACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTAAATTCCTTT
Found at i:4660537 original size:2 final size:2
Alignment explanation
Indices: 4660530--4660555 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4660520 AAAATTTGTT
4660530 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4660556 CTAAAATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4660981 original size:18 final size:18
Alignment explanation
Indices: 4660958--4660993 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4660948 ACTTGCATAC
*
4660958 CAAATTTGTCAAAATTGT
1 CAAATTGGTCAAAATTGT
*
4660976 CAAATTGGTCAAACTTGT
1 CAAATTGGTCAAAATTGT
4660994 TAGGATGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
CAAATTGGTCAAAATTGT
Found at i:4683526 original size:16 final size:17
Alignment explanation
Indices: 4683507--4683539 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4683497 TATTAGAATT
4683507 ATTCATTT-AATATATA
1 ATTCATTTAAATATATA
*
4683523 ATTCCTTTAAATATATA
1 ATTCATTTAAATATATA
4683540 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTCATTTAAATATATA
Found at i:4683538 original size:2 final size:2
Alignment explanation
Indices: 4683533--4683594 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4683523 ATTCCTTTAA
4683533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4683575 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
4683595 CTCACAGCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4687286 original size:8 final size:8
Alignment explanation
Indices: 4687273--4687313 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4687263 CTCATTTTTA
4687273 GAGAATTT
1 GAGAATTT
4687281 GAGAATTT
1 GAGAATTT
*
4687289 -AGAGTTT
1 GAGAATTT
*
4687296 GGGAATTT
1 GAGAATTT
4687304 GAGAATTT
1 GAGAATTT
4687312 GA
1 GA
4687314 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:4687619 original size:126 final size:127
Alignment explanation
Indices: 4687394--4687859 Score: 830
Period size: 127 Copynumber: 3.7 Consensus size: 127
4687384 ACTATTCATA
* * *
4687394 TGAAGGCGCGTTCTCGGGGGCGCGCCTTCCATTATTTTATCAAAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
4687459 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTAT-TTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATATTTCTCAGGGGACT
*
4687520 TGAAGGCGCGTTCCCGGGGGCGCTCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
4687585 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATAATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTAT-ATTTCTCAGGGGACT
*
4687648 TGAAGGCGCGTTCCCAGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
4687712 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTA-TATTTCTCAGGGGACT
* *
4687775 TGAAGGCACGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATTATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
4687839 TTATGTCACTCATGTCCCTCG
66 TTATGTCACTCATGTCCCTCG
4687860 AGAACTATAG
Statistics
Matches: 328, Mismatches: 9, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
126 108 0.33
127 186 0.57
128 34 0.10
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (127 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATATTTCTCAGGGGACT
Found at i:4688368 original size:34 final size:34
Alignment explanation
Indices: 4688263--4688370 Score: 135
Period size: 34 Copynumber: 3.1 Consensus size: 34
4688253 TAAGTTGAAA
*
4688263 TTTAATGTTAAATTTCGAATACTATAATTTATATT
1 TTTAAT-TTAAATTTCGAATAATATAATTTATATT
* * * *
4688298 TTAAATTTAAATTTTGAATAATATTATTTTTATT
1 TTTAATTTAAATTTCGAATAATATAATTTATATT
* * *
4688332 TTTATTTTAAATTTCAAATAATATAATTTGTATT
1 TTTAATTTAAATTTCGAATAATATAATTTATATT
4688366 TTTAA
1 TTTAA
4688371 AAACATTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
34 56 0.92
35 5 0.08
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (34 bp):
TTTAATTTAAATTTCGAATAATATAATTTATATT
Found at i:4688933 original size:21 final size:21
Alignment explanation
Indices: 4688883--4688993 Score: 118
Period size: 21 Copynumber: 5.3 Consensus size: 21
4688873 GGTATAAAAT
* *
4688883 CCTACGGGCTAGGCATATAA-
1 CCTACGGGCTAGGAATGTAAC
**
4688903 CCTGGTGGGCTAGGAATGTAAC
1 CCT-ACGGGCTAGGAATGTAAC
* *
4688925 CCTACGGGCTCGAAATGTAA-
1 CCTACGGGCTAGGAATGTAAC
4688945 CCTGACGGGCTAGGAATGTAAC
1 CCT-ACGGGCTAGGAATGTAAC
* *
4688967 CCTGCGGGCTCGGAATGTAAC
1 CCTACGGGCTAGGAATGTAAC
4688988 CCTACG
1 CCTACG
4688994 AATATGGCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.08
21 62 0.84
22 6 0.08
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (21 bp):
CCTACGGGCTAGGAATGTAAC
Found at i:4688946 original size:42 final size:42
Alignment explanation
Indices: 4688900--4688988 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
4688890 GCTAGGCATA
**
4688900 TAACCTGGTGGGCTAGGAATGTAACCCTACGGGCTCGAAATG
1 TAACCTGACGGGCTAGGAATGTAACCCTACGGGCTCGAAATG
* *
4688942 TAACCTGACGGGCTAGGAATGTAACCCTGCGGGCTCGGAATG
1 TAACCTGACGGGCTAGGAATGTAACCCTACGGGCTCGAAATG
4688984 TAACC
1 TAACC
4688989 CTACGAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (42 bp):
TAACCTGACGGGCTAGGAATGTAACCCTACGGGCTCGAAATG
Found at i:4689024 original size:21 final size:21
Alignment explanation
Indices: 4688998--4689045 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
4688988 CCTACGAATA
*
4688998 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
4689019 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
4689040 GGGCAT
1 TGGCAT
4689046 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:4689866 original size:16 final size:16
Alignment explanation
Indices: 4689847--4689879 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4689837 TAAAAATAGT
4689847 AAATAAAAGATAA-ATA
1 AAATAAAA-ATAAGATA
4689863 AAATAAAAATAAGATA
1 AAATAAAAATAAGATA
4689879 A
1 A
4689880 TCCTCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATAAAAATAAGATA
Found at i:4693537 original size:2 final size:2
Alignment explanation
Indices: 4693530--4693561 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4693520 AATTCCCTAA
4693530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4693562 GCAACATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4694783 original size:21 final size:21
Alignment explanation
Indices: 4694759--4694880 Score: 88
Period size: 21 Copynumber: 5.9 Consensus size: 21
4694749 CATCTGACCC
4694759 GGCTGCGGTGGCATCTGATAT
1 GGCTGCGGTGGCATCTGATAT
* *
4694780 GGCTGCAGTGACATCTGATAT
1 GGCTGCGGTGGCATCTGATAT
** *
4694801 GGAAGCGGTGGCGTCTGACTCA-
1 GGCTGCGGTGGCATCTGA-T-AT
* * *
4694823 -GCTGCTGTGACATCTGAAAT
1 GGCTGCGGTGGCATCTGATAT
* **
4694843 GGTTGCGGTACCATCTGATAT
1 GGCTGCGGTGGCATCTGATAT
* *
4694864 GGTTGTGGT-GCATCTGA
1 GGCTGCGGTGGCATCTGA
4694881 AACGACTGCG
Statistics
Matches: 77, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.01
20 7 0.09
21 67 0.87
22 1 0.01
23 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.29
Consensus pattern (21 bp):
GGCTGCGGTGGCATCTGATAT
Found at i:4694809 original size:42 final size:42
Alignment explanation
Indices: 4694763--4694882 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 42
4694753 TGACCCGGCT
*
4694763 GCGGTGGCATCTGATATGGCTGCAGTGACATCTGATATGGAA
1 GCGGTGGCATCTGATATGGCTGCAGTGACATCTGAAATGGAA
* * **
4694805 GCGGTGGCGTCTGACTCA--GCTGCTGTGACATCTGAAATGGTT
1 GCGGTGGCATCTGA-T-ATGGCTGCAGTGACATCTGAAATGGAA
** * **
4694847 GCGGTACCATCTGATATGGTTGTGGTG-CATCTGAAA
1 GCGGTGGCATCTGATATGGCTGCAGTGACATCTGAAA
4694883 CGACTGCGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.02
41 10 0.16
42 50 0.79
43 1 0.02
44 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (42 bp):
GCGGTGGCATCTGATATGGCTGCAGTGACATCTGAAATGGAA
Found at i:4694858 original size:63 final size:63
Alignment explanation
Indices: 4694746--4694865 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
4694736 CCTGCGGCAA
* * *
4694746 TGGCATCTGACCCGGCTGCGGTGGCATCTGATATGGCTGCAGTGACATCTGATATGGAAGCGG
1 TGGCATCTGACCCAGCTGCGGTGACATCTGAAATGGCTGCAGTGACATCTGATATGGAAGCGG
* * * * *
4694809 TGGCGTCTGACTCAGCTGCTGTGACATCTGAAATGGTTGCGGT-ACCATCTGATATGG
1 TGGCATCTGACCCAGCTGCGGTGACATCTGAAATGGCTGCAGTGA-CATCTGATATGG
4694866 TTGTGGTGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 47 0.98
ACGTcount: A:0.19, C:0.22, G:0.33, T:0.27
Consensus pattern (63 bp):
TGGCATCTGACCCAGCTGCGGTGACATCTGAAATGGCTGCAGTGACATCTGATATGGAAGCGG
Found at i:4695060 original size:17 final size:17
Alignment explanation
Indices: 4695038--4695071 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4695028 TGGATGCTCC
*
4695038 CGCCTCGTGCTTCCTCG
1 CGCCTCATGCTTCCTCG
4695055 CGCCTCATGCTTCCTCG
1 CGCCTCATGCTTCCTCG
4695072 AAAAGTAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.47, G:0.21, T:0.29
Consensus pattern (17 bp):
CGCCTCATGCTTCCTCG
Found at i:4696780 original size:22 final size:22
Alignment explanation
Indices: 4696752--4696864 Score: 117
Period size: 22 Copynumber: 5.1 Consensus size: 22
4696742 ATAATTTAAA
4696752 ATAAGTTTAAAATATATATAGT
1 ATAAGTTTAAAATATATATAGT
4696774 ATAAGTTTAAAATATATATAGT
1 ATAAGTTTAAAATATATATAGT
*
4696796 ATATAGTTTAAAATATATAGT-TT
1 ATA-AGTTTAAAATATATA-TAGT
* *
4696819 TTAGAG--AAATAATATATATAGT
1 ATA-AGTTTAA-AATATATATAGT
* *
4696841 AT-AGTTTAAAATGTATATAAT
1 ATAAGTTTAAAATATATATAGT
4696862 ATA
1 ATA
4696865 TTTTTTAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.03
21 15 0.20
22 37 0.49
23 20 0.27
24 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.42
Consensus pattern (22 bp):
ATAAGTTTAAAATATATATAGT
Found at i:4696892 original size:15 final size:13
Alignment explanation
Indices: 4696859--4696891 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4696849 AAATGTATAT
4696859 AATATATTTTTTA
1 AATATATTTTTTA
4696872 AATATAGTTTTTTA
1 AATATA-TTTTTTA
4696886 AA-ATAT
1 AATATAT
4696892 AAGTATACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 9 0.47
14 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
AATATATTTTTTA
Found at i:4697032 original size:3 final size:3
Alignment explanation
Indices: 4697019--4697069 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
4697009 GTTTTATTTA
* * * *
4697019 TAT TGT TAT TAT TAT TAG TAT TAT TAT TAG TAT TAT TCAT TTT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
4697064 TAT TAT
1 TAT TAT
4697070 ATGATTGCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:4697034 original size:12 final size:12
Alignment explanation
Indices: 4697025--4697055 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4697015 TTTATATTGT
4697025 TATTATTATTAG
1 TATTATTATTAG
4697037 TATTATTATTAG
1 TATTATTATTAG
4697049 TATTATT
1 TATTATT
4697056 CATTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTATTATTAG
Found at i:4703299 original size:31 final size:31
Alignment explanation
Indices: 4703259--4703381 Score: 210
Period size: 31 Copynumber: 4.0 Consensus size: 31
4703249 TCATGTAAGT
4703259 AAGACCAATGTGTAAGAGATAGATTAATGAC
1 AAGACCAATGTGTAAGAGATAGATTAATGAC
* * *
4703290 AGGATCAATGTGTAAGAGATAGATTAATGGC
1 AAGACCAATGTGTAAGAGATAGATTAATGAC
*
4703321 AAGACCAATGTGTAAGAGATAGATTAATGGC
1 AAGACCAATGTGTAAGAGATAGATTAATGAC
4703352 AAGACCAATGTGTAAGAGATAGATTAATGA
1 AAGACCAATGTGTAAGAGATAGATTAATGA
4703382 AAGGGCATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 86 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.24
Consensus pattern (31 bp):
AAGACCAATGTGTAAGAGATAGATTAATGAC
Found at i:4704770 original size:57 final size:57
Alignment explanation
Indices: 4704701--4704814 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
4704691 ATTACATAAT
4704701 GGCACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATA
1 GGCACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATA
* *
4704758 GGCACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTTTGAATTTTCGTATA
1 GGCACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATA
4704815 AGAACTTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (57 bp):
GGCACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATA
Found at i:4704828 original size:57 final size:57
Alignment explanation
Indices: 4704704--4704843 Score: 203
Period size: 57 Copynumber: 2.5 Consensus size: 57
4704694 ACATAATGGC
* *
4704704 ACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAGGC
1 ACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGA
* *
4704761 ACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTTTGAATTTTCGTATAAGA
1 ACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGA
* *
4704818 ACTTTA-TGTGCAAAAA-CTAAGAAATT
1 AC-TGAGTGTGCAAAAAGTTAAGAAATT
4704844 ATATGAATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
56 9 0.12
57 65 0.86
58 2 0.03
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (57 bp):
ACTGAGTGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATAAGA
Found at i:4705095 original size:67 final size:67
Alignment explanation
Indices: 4705022--4705407 Score: 533
Period size: 67 Copynumber: 5.8 Consensus size: 67
4705012 GATTAAAGGG
* * * *
4705022 CCTAACTTTGTATTGACAGAAGGGTGTTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
4705087 GA
66 GA
** *
4705089 CCTAACTGTGCATTGACAGAAATATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
4705154 TG-
66 -GA
* *
4705156 CCTAACTGTGCATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGCAAGGCTAAGTGCCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
4705221 GG
66 GA
* * * *
4705223 TCTAACTGTGCATTGACAAAAACGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
4705288 GG
66 GA
* * * *
4705290 CTTAACTATGCATTGACGGAAA-GTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
4705354 GA
66 GA
* * * *
4705356 CCTAGCTATGTATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
1 CCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
4705408 TTAATAGCGT
Statistics
Matches: 285, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
66 51 0.18
67 207 0.73
68 27 0.09
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (67 bp):
CCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GA
Found at i:4705475 original size:45 final size:45
Alignment explanation
Indices: 4705425--4705570 Score: 206
Period size: 45 Copynumber: 3.2 Consensus size: 45
4705415 CGTATAAAAG
* *
4705425 GGCATGAAAGGATGCCATAAATGAAATGTATAGGGATGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATAGGGATGCATTATC
* *
4705470 AGCATGAAAGGATGCCATAATTGAAATGCATATGGG-TCCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATA-GGGATGCATTATC
*
4705515 GGCATGAAAGGATGCCATAATTGAAATGCATA-TGAGTGCATTATC
1 GGCATGAAAGGATGCCATAATTGAAATGCATAGGGA-TGCATTATC
*
4705560 GGCATAAAAGG
1 GGCATGAAAGG
4705571 GTGCATTATT
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.01
45 86 0.96
46 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAATTGAAATGCATAGGGATGCATTATC
Found at i:4713294 original size:7 final size:7
Alignment explanation
Indices: 4713284--4713350 Score: 57
Period size: 7 Copynumber: 9.1 Consensus size: 7
4713274 AATTAAAAAT
4713284 AGAAGAA
1 AGAAGAA
*
4713291 AGAAAAA
1 AGAAGAA
4713298 AGAAGAA
1 AGAAGAA
4713305 A-AAGGAA
1 AGAA-GAA
4713312 A-AAGGAAAA
1 AGAA-G--AA
*
4713321 AGGAAAAA
1 A-GAAGAA
4713329 AGAAGAA
1 AGAAGAA
4713336 AGAAGAA
1 AGAAGAA
4713343 AGAAGAA
1 AGAAGAA
4713350 A
1 A
4713351 AATAAAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
6 2 0.04
7 41 0.80
8 3 0.06
9 3 0.06
11 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:4713301 original size:14 final size:15
Alignment explanation
Indices: 4713278--4713350 Score: 80
Period size: 14 Copynumber: 4.9 Consensus size: 15
4713268 AGAAAAAATT
4713278 AAAAATAGAAGAAA-G
1 AAAAA-AGAAGAAAGG
4713293 AAAAAAGAAGAAAAAGG
1 AAAAAAGAAG--AAAGG
*
4713310 AAAAAGGAA-AAAGG
1 AAAAAAGAAGAAAGG
4713324 AAAAAAGAAGAAA-G
1 AAAAAAGAAGAAAGG
*
4713338 AAGAAAGAAGAAA
1 AAAAAAGAAGAAA
4713351 AATAAAAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
14 31 0.61
15 8 0.16
16 3 0.06
17 9 0.18
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.01
Consensus pattern (15 bp):
AAAAAAGAAGAAAGG
Found at i:4713307 original size:45 final size:45
Alignment explanation
Indices: 4713258--4713352 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
4713248 AAAATAAAGA
**
4713258 AAAAAAGG-AAAGAAAAAATTAAAAATAGAAGAAAGAAAAAAGAAG
1 AAAAAAGGAAAAGAAAAAAGGAAAAA-AGAAGAAAGAAAAAAGAAG
* *
4713303 -AAAAAGGAAAAAGGAAAAAGGAAAAAAGAAGAAAGAAGAAAGAAG
1 AAAAAAGG-AAAAGAAAAAAGGAAAAAAGAAGAAAGAAAAAAGAAG
4713348 AAAAA
1 AAAAA
4713353 TAAAAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
44 7 0.16
45 18 0.42
46 18 0.42
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (45 bp):
AAAAAAGGAAAAGAAAAAAGGAAAAAAGAAGAAAGAAAAAAGAAG
Found at i:4713330 original size:31 final size:31
Alignment explanation
Indices: 4713284--4713352 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 31
4713274 AATTAAAAAT
4713284 AGAAGAAA-GAAAAAAGAAGAAA-AAGGAAA-A
1 AGAA-AAAGGAAAAAAGAAGAAAGAA-GAAAGA
4713314 AGGAAAAAGGAAAAAAGAAGAAAGAAGAAAGA
1 A-GAAAAAGGAAAAAAGAAGAAAGAAGAAAGA
4713346 AGAAAAA
1 AGAAAAA
4713353 TAAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
30 4 0.11
31 27 0.77
32 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (31 bp):
AGAAAAAGGAAAAAAGAAGAAAGAAGAAAGA
Found at i:4713359 original size:31 final size:31
Alignment explanation
Indices: 4713253--4713360 Score: 87
Period size: 31 Copynumber: 3.4 Consensus size: 31
4713243 AGGAGAAAAT
** *
4713253 AAAGAAAAAAAGGAAAGAAAAAATTAAAAATAGAA
1 AAAGAAAAAAA-G-AAG-AAAAAGGAAAAA-GGAA
4713288 GAAAG-AAAAAAGAAGAAAAAGGAAAAAGGAA
1 -AAAGAAAAAAAGAAGAAAAAGGAAAAAGGAA
*
4713319 AAAGGAAAAAAGAAGAAAGAA-GAAAGAA-GAA
1 AAAGAAAAAAAGAAGAAA-AAGGAAA-AAGGAA
*
4713350 AAATAAAAAAA
1 AAAGAAAAAAA
4713361 ATAAAGTAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
30 4 0.06
31 32 0.50
32 14 0.22
33 3 0.05
34 1 0.02
35 6 0.09
36 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (31 bp):
AAAGAAAAAAAGAAGAAAAAGGAAAAAGGAA
Found at i:4714930 original size:135 final size:134
Alignment explanation
Indices: 4714685--4715354 Score: 841
Period size: 135 Copynumber: 5.0 Consensus size: 134
4714675 AAAGAGTGGA
* * * *
4714685 GGAGTGAATCAAA-TTTTCTTGAGTCTGACCTCCCCTAAA-AGTAGTGGAGTAGATTCTTCTTCT
1 GGAGTGAATCAAATTTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTTTTCTTCT
* * * * *
4714748 CTC-TATTTTATCTTCCTGAAGAGCAGTGAAA-CAAATCACATTTGATTCAATCTTCCCTGAAGA
66 TTCAGATTTGATCTTCCTGAAGAGCAG-CAAAGCAAATCACATTCGATTCAATCTTCCCTGAAGA
4714811 GCAGT
130 GCAGT
* * *
4714816 GGAGTGAATCAAATTTTTCTCGAGTATGACCTCCCCTAAAGAGTAGCGGAGCATATTTTTTTTTC
1 GGAGTGAATCAAATTTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGA-TTTTTCTTC
* * *
4714881 TTTCAGATTTGGTCATCCTGAAGAGCAGCAAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGA
65 TTTCAGATTTGATCTTCCTGAAGAGCAGCAAAGCAAATCACATTCGATTCAATCTTCCCTGAAGA
4714946 GCAGT
130 GCAGT
*
4714951 GGAGTGAATCAAA-TTTTCTCGAGTCTAACCTCCCCTAAAGAGTAGCGGAGCAGATTCTTCTTCT
1 GGAGTGAATCAAATTTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGA-T-TT-TTCT
* * ** * *
4715015 TCTTTCAGATTTGATCTTCATGAAAAAGCAGTGAAGCAAATCACGTTCGATTCAATCTTCCCAGA
63 TCTTTCAGATTTGATCTTCCTG-AAGAGCAGCAAAGCAAATCACATTCGATTCAATCTTCCCTGA
*
4715080 AGAGCAAT
127 AGAGCAGT
* *
4715088 GGAGTGAATCAAATTTTTCTCGGGTCTGACCTCCCCTAAAGAGTAGCGGAGCATATTTTT-TTCT
1 GGAGTGAATCAAATTTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTTTTCTTCT
* * * ** * * *
4715152 TTCAAATTTGATCTTTCTGAAGAGTAGTGAAGTAAATCACATTCGATTCAATCTTCCATGAAGAA
66 TTCAGATTTGATCTTCCTGAAGAGCAGCAAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAG
4715217 CAGT
131 CAGT
* * * *
4715221 TGAGTGAATCAATTTTTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCGAAGCAGATTCTTCTT
1 GGAGTGAATCAA-ATTTTT-CTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTTTTCTT
* * * *
4715286 CTTTCAGATTTGGTCTTCCTGAAGAGCAGCGAAA-CAAATCAAATTTGATTCAATCTTCCCAGAA
64 CTTTCAGATTTGATCTTCCTGAAGAGCAGC-AAAGCAAATCACATTCGATTCAATCTTCCCTGAA
4715350 GAGCA
128 GAGCA
4715355 TCGAAATGAA
Statistics
Matches: 465, Mismatches: 61, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
131 13 0.03
132 24 0.05
133 64 0.14
134 78 0.17
135 109 0.23
136 80 0.17
137 59 0.13
138 38 0.08
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (134 bp):
GGAGTGAATCAAATTTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGCGGAGCAGATTTTTCTTCT
TTCAGATTTGATCTTCCTGAAGAGCAGCAAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAG
CAGT
Found at i:4715680 original size:14 final size:14
Alignment explanation
Indices: 4715663--4715703 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
4715653 AGATGGGAGG
4715663 GGGAAGATGAGTGA
1 GGGAAGATGAGTGA
4715677 GGGAAGATGAGTGA
1 GGGAAGATGAGTGA
4715691 GGGAAGATGAGTG
1 GGGAAGATGAGTG
4715704 GTAATTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.51, T:0.15
Consensus pattern (14 bp):
GGGAAGATGAGTGA
Found at i:4719677 original size:90 final size:90
Alignment explanation
Indices: 4719561--4719738 Score: 311
Period size: 90 Copynumber: 2.0 Consensus size: 90
4719551 TAATCCCGAA
* * * *
4719561 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
4719626 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGGTAACTTGGATATAAAAGGAT
4719651 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
*
4719716 TAGGGTAACTTGGCTATAAAAGG
66 TAGGGTAACTTGGATATAAAAGG
4719739 GTGTGTTAGG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAC
TAGGGTAACTTGGATATAAAAGGAT
Found at i:4721294 original size:18 final size:18
Alignment explanation
Indices: 4721259--4721299 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4721249 CCTATGTTGC
* *
4721259 ACGGATACGGATATGGGG
1 ACGGATACGGAGACGGGG
*
4721277 ACGGATACGGGGACGGGG
1 ACGGATACGGAGACGGGG
4721295 ACGGA
1 ACGGA
4721300 AAACGGCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.49, T:0.10
Consensus pattern (18 bp):
ACGGATACGGAGACGGGG
Found at i:4721496 original size:75 final size:75
Alignment explanation
Indices: 4721398--4721595 Score: 240
Period size: 75 Copynumber: 2.6 Consensus size: 75
4721388 AATCATAAAT
* * * * *
4721398 AATGTCAAATATCAAGACTCAAACAACAATATTAAGTTTATAATAGTAAAATCCATAA-ACAAA-
1 AATGTCAAATTTCAAGACTCAAACCATAATATTAAGTCTATAATAATAAAATCCATAATA-AAAT
4721461 CAACAATATTAA
65 C-ACAATATTAA
* * * *
4721473 AATGTCAAATTTCAATATTCAAACCATAATATTAACTCTAGAATAATAAAATCCATAATAAAATC
1 AATGTCAAATTTCAAGACTCAAACCATAATATTAAGTCTATAATAATAAAATCCATAATAAAATC
*
4721538 ATAATATTAA
66 ACAATATTAA
* *
4721548 AGTGTCAAATCTT-AAGACTCAAACCATAATATTAAGTCTATAAAAATA
1 AATGTCAAAT-TTCAAGACTCAAACCATAATATTAAGTCTATAATAATA
4721596 TTAAACTCAA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
75 100 0.96
76 4 0.04
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (75 bp):
AATGTCAAATTTCAAGACTCAAACCATAATATTAAGTCTATAATAATAAAATCCATAATAAAATC
ACAATATTAA
Found at i:4721542 original size:11 final size:12
Alignment explanation
Indices: 4721515--4721543 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4721505 TAACTCTAGA
4721515 ATAATAAAATCC
1 ATAATAAAATCC
4721527 ATAATAAAAT-C
1 ATAATAAAATCC
4721538 ATAATA
1 ATAATA
4721544 TTAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:4721840 original size:21 final size:21
Alignment explanation
Indices: 4721815--4721858 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
4721805 TTCCTCATCT
*
4721815 TCCCAAAGTTCCAATCTTTCA
1 TCCCAAAGTTCAAATCTTTCA
*
4721836 TCCCAAAGTTTAAATCTTTCA
1 TCCCAAAGTTCAAATCTTTCA
4721857 TC
1 TC
4721859 AATGGCTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.36
Consensus pattern (21 bp):
TCCCAAAGTTCAAATCTTTCA
Found at i:4724974 original size:16 final size:17
Alignment explanation
Indices: 4724955--4724987 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4724945 TTATATAATA
4724955 TTATA-AATATAATTTT
1 TTATATAATATAATTTT
*
4724971 TTATATAATATAGTTTT
1 TTATATAATATAATTTT
4724988 CAAAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATATAATATAATTTT
Found at i:4726115 original size:28 final size:28
Alignment explanation
Indices: 4726062--4726116 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
4726052 GTAATTACCC
**
4726062 TTAATATAATATTGATATAATATTTTAT
1 TTAATATAATATAAATATAATATTTTAT
*
4726090 TTAATATAATAATAAATTTAAT-TTTTA
1 TTAATATAAT-ATAAATATAATATTTTA
4726117 ATATTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TTAATATAATATAAATATAATATTTTAT
Found at i:4726504 original size:163 final size:163
Alignment explanation
Indices: 4726234--4726559 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
4726224 AATTCTAAAT
4726234 AACAGGACAACAACTAAACACTAACATTAGCTATCAGCATATATACATATGGATAAATTGAAAAA
1 AACAGGACAACAACTAAACACTAACATTAGCTATCAGCATATATACATATGGATAAATTGAAAAA
4726299 TATGGTTATATTGTTGAATAATTTGTTTATGTCTCATTGATAAATGAGAATATTGTTCTTTCTAA
66 TATGGTTATATTGTTGAATAATTTGTTTATGTCTCATTGATAAATGAGAATATTGTTCTTTCTAA
4726364 AGGTTTTGGATTCAACTACATGGTGTATATATG
131 AGGTTTTGGATTCAACTACATGGTGTATATATG
4726397 AACAGGACAACAACTAAACACTAACATTAGCTATCAGCATATATACATATGGATAAATTGAAAAA
1 AACAGGACAACAACTAAACACTAACATTAGCTATCAGCATATATACATATGGATAAATTGAAAAA
4726462 TATGGTTATATTGTTGAATAATTTGTTTATGTCTCATTGATAAATGAGAATATTGTTCTTTCTAA
66 TATGGTTATATTGTTGAATAATTTGTTTATGTCTCATTGATAAATGAGAATATTGTTCTTTCTAA
4726527 AGGTTTTGGATTCAACTACATGGTGTATATATG
131 AGGTTTTGGATTCAACTACATGGTGTATATATG
4726560 TTGCCAATTG
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (163 bp):
AACAGGACAACAACTAAACACTAACATTAGCTATCAGCATATATACATATGGATAAATTGAAAAA
TATGGTTATATTGTTGAATAATTTGTTTATGTCTCATTGATAAATGAGAATATTGTTCTTTCTAA
AGGTTTTGGATTCAACTACATGGTGTATATATG
Found at i:4729637 original size:37 final size:36
Alignment explanation
Indices: 4729568--4729640 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
4729558 TCATTAAACC
* *
4729568 TTTTTATATTTTCAATTTTGTAAAAAATATATATAA
1 TTTTTATAATTTAAATTTTGTAAAAAATATATATAA
*
4729604 TTTTTATGAATTTAAATTTTTTAAAGAAA-ATATATAA
1 TTTTTAT-AATTTAAATTTTGTAAA-AAATATATATAA
4729641 ATATTTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 7 0.22
37 22 0.69
38 3 0.09
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TTTTTATAATTTAAATTTTGTAAAAAATATATATAA
Found at i:4730608 original size:3 final size:3
Alignment explanation
Indices: 4730602--4730633 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4730592 TGTAATTTAT
4730602 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4730634 AAATGAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4731385 original size:42 final size:42
Alignment explanation
Indices: 4731323--4731404 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
4731313 AAGGTCTTAT
* * *
4731323 CATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAG
*
4731365 CATCATGCTCAAAAGACTTACTGATGACCCGAAGGATTTA
1 CATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTA
4731405 CTTTAATCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
CATCATGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:4731912 original size:42 final size:41
Alignment explanation
Indices: 4731831--4731927 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
4731821 AGGTCTTATG
* * * *
4731831 GATGACCCGAAGGCTTTATCATCTTGCTCGAAAGGCTTACA
1 GATGACCCGAAGGATTTAACATCATGCTCGAAAGACTTACA
*
4731872 GATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGATTT-AACATCATGCTCGAAAGACTTACA
* *
4731914 GATGGCCCAAAGGA
1 GATGACCCGAAGGA
4731928 CTTACAAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (41 bp):
GATGACCCGAAGGATTTAACATCATGCTCGAAAGACTTACA
Found at i:4734972 original size:3 final size:3
Alignment explanation
Indices: 4734964--4735026 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
4734954 TAATTTATTA
4734964 AAT AAT AAT AAT AAAT AAT AA- AAT AAT AAT -AT AAT AAT AAT AGA-
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
4735008 AAT AAT AGT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AA
4735027 AAATGATGGA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
2 7 0.13
3 41 0.79
4 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4734993 original size:11 final size:11
Alignment explanation
Indices: 4734963--4735014 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
4734953 GTAATTTATT
4734963 AAATAATAATA
1 AAATAATAATA
*
4734974 ATA-AATAATA
1 AAATAATAATA
4734984 AAATAATAATA
1 AAATAATAATA
*
4734995 TAATAATAATA
1 AAATAATAATA
4735006 GAAATAATA
1 -AAATAATA
4735015 GTAATAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.26
11 19 0.54
12 7 0.20
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AAATAATAATA
Found at i:4735014 original size:26 final size:28
Alignment explanation
Indices: 4734965--4735026 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 28
4734955 AATTTATTAA
4734965 ATAATAATAATAAATAATAAAATAATAAT
1 ATAATAATAATAAATAAT-AAATAATAAT
* *
4734994 ATAATAATAATAGA-AAT-AATAGTAAT
1 ATAATAATAATAAATAATAAATAATAAT
*
4735020 AAAATAA
1 ATAATAA
4735027 AAATGATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 14 0.47
28 3 0.10
29 13 0.43
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (28 bp):
ATAATAATAATAAATAATAAATAATAAT
Found at i:4735019 original size:29 final size:29
Alignment explanation
Indices: 4734965--4735026 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
4734955 AATTTATTAA
*
4734965 ATAATAATAATAAATAATAAAATAATAAT
1 ATAATAATAATAAATAATAAAATAATAAA
* *
4734994 ATAATAATAATAGA-AATAATAGTAATAAA
1 ATAATAATAATAAATAATAA-AATAATAAA
4735023 ATAA
1 ATAA
4735027 AAATGATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (29 bp):
ATAATAATAATAAATAATAAAATAATAAA
Found at i:4735025 original size:20 final size:20
Alignment explanation
Indices: 4734964--4735030 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4734954 TAATTTATTA
*
4734964 AATAATAATAATA-AATAAT
1 AATAAAAATAATATAATAAT
*
4734983 AA-AATAATAATATAATAAT
1 AATAAAAATAATATAATAAT
*
4735002 AATAGAAATAATAGTAATAA-
1 AATAAAAATAATA-TAATAAT
4735022 AATAAAAAT
1 AATAAAAAT
4735031 GATGGACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.24
19 10 0.24
20 16 0.38
21 6 0.14
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AATAAAAATAATATAATAAT
Found at i:4736097 original size:30 final size:30
Alignment explanation
Indices: 4736056--4736124 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
4736046 AACCTAAAAA
*
4736056 TTCTTACTCTTGATGAGCTTATTGGTCCCC
1 TTCTCACTCTTGATGAGCTTATTGGTCCCC
*
4736086 TTCTCACTCTTGATGAGCTTATTGGTTCCC
1 TTCTCACTCTTGATGAGCTTATTGGTCCCC
4736116 TTCTCACTC
1 TTCTCACTC
4736125 ATGAGTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.13, C:0.29, G:0.14, T:0.43
Consensus pattern (30 bp):
TTCTCACTCTTGATGAGCTTATTGGTCCCC
Found at i:4739202 original size:21 final size:21
Alignment explanation
Indices: 4739176--4739272 Score: 158
Period size: 21 Copynumber: 4.6 Consensus size: 21
4739166 TATAAAATTA
*
4739176 TCCCGAAGGACTTCATATATG
1 TCCCGAAGGACCTCATATATG
4739197 TCCCGAAGGACCTCATATATG
1 TCCCGAAGGACCTCATATATG
*
4739218 TCCTGAAGGACCTCATATATG
1 TCCCGAAGGACCTCATATATG
*
4739239 TCCCGAAGGACCTCATATATA
1 TCCCGAAGGACCTCATATATG
*
4739260 TCCCAAAGGACCT
1 TCCCGAAGGACCT
4739273 TGAAGAACCT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (21 bp):
TCCCGAAGGACCTCATATATG
Found at i:4749520 original size:30 final size:31
Alignment explanation
Indices: 4749463--4749531 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
4749453 CAACCATTCA
* *
4749463 TAACTTTTCCAAAATTACTGAATTGGTCCCC
1 TAACTTTTCAAAAATTACAGAATTGGTCCCC
4749494 TAACTTTTCAAAAATTACAGAA-TGGTCCCC
1 TAACTTTTCAAAAATTACAGAATTGGTCCCC
*
4749524 TAATTTTT
1 TAACTTTT
4749532 AAGGCTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 15 0.43
31 20 0.57
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (31 bp):
TAACTTTTCAAAAATTACAGAATTGGTCCCC
Found at i:4750356 original size:29 final size:30
Alignment explanation
Indices: 4750291--4750358 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
4750281 AAATTACCAT
* * *
4750291 TTTGGTCTCTAAACTTTTCAAAGTTTATAC
1 TTTGGTCACCAAACTTTACAAAGTTTATAC
4750321 TTTGGTCACCAAACTTTACAAA-TTTATAAC
1 TTTGGTCACCAAACTTTACAAAGTTTAT-AC
4750351 -TTGGTCAC
1 TTTGGTCAC
4750359 TCACTAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (30 bp):
TTTGGTCACCAAACTTTACAAAGTTTATAC
Found at i:4752425 original size:21 final size:21
Alignment explanation
Indices: 4752391--4752447 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
4752381 CATGTAAAAT
*
4752391 TGTCCCGAATGACCTCATATA
1 TGTCCCGAAAGACCTCATATA
*
4752412 TGTCCTGAAAGACCTCATATA
1 TGTCCCGAAAGACCTCATATA
4752433 TGTCCC-AAAGGACCT
1 TGTCCCGAAA-GACCT
4752448 TAAAGAACCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 3 0.09
21 29 0.91
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (21 bp):
TGTCCCGAAAGACCTCATATA
Found at i:4754928 original size:14 final size:14
Alignment explanation
Indices: 4754909--4754939 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4754899 TCAATTAAAG
4754909 TGAACAGTCAGCGT
1 TGAACAGTCAGCGT
*
4754923 TGAACAGTCAGTGT
1 TGAACAGTCAGCGT
4754937 TGA
1 TGA
4754940 TCAAAGTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (14 bp):
TGAACAGTCAGCGT
Found at i:4757317 original size:41 final size:41
Alignment explanation
Indices: 4757264--4757688 Score: 423
Period size: 41 Copynumber: 10.4 Consensus size: 41
4757254 CAAAATGGTA
*
4757264 ACTTTAGCGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
* * * * *
4757305 ACTTTAGTGGCGTTTTTATATAAAACGCCACGATAGAGTAGT
1 ACTTTAGTGGCGTTTTTATACAAAA-GCCGCTATAGACTCGT
** ** * *
4757347 ACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTC-A
1 ACTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
* * * * * *
4757387 ACTTTAGCGGTGTTTTTATACAAAACGTCG-TGATATAGTAGT
1 ACTTTAGTGGCGTTTTTATACAAAA-GCCGCT-ATAGACTCGT
* *
4757429 ACTTTAGTGGCGTTTTTATACAAACA-TCGCTATAGACTCGA
1 ACTTTAGTGGCGTTTTTATACAAA-AGCCGCTATAGACTCGT
* *
4757470 ACTTTAGTGGCGGTTTTATACAAACGCCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
* * * * * *
4757511 AATTTTGTGGCGTTTGTGTTTACAAACGCCGCTATAGGCTTGT
1 ACTTTAGTGGCGTTT-T-TATACAAAAGCCGCTATAGACTCGT
* *
4757554 ACTTTAGTGG-TTTTTTATACAAACGCCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
* * *
4757594 ACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
* *
4757635 ACATTAGTGGCGTTTTTATACAAACA-CCGC--TAGACTTGT
1 ACTTTAGTGGCGTTTTTATACAAA-AGCCGCTATAGACTCGT
4757674 ACTTTAGTGGCGTTT
1 ACTTTAGTGGCGTTT
4757689 ATTTTTTAAA
Statistics
Matches: 319, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
39 22 0.07
40 54 0.17
41 154 0.48
42 58 0.18
43 31 0.10
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (41 bp):
ACTTTAGTGGCGTTTTTATACAAAAGCCGCTATAGACTCGT
Found at i:4757603 original size:165 final size:163
Alignment explanation
Indices: 4757267--4757693 Score: 477
Period size: 165 Copynumber: 2.6 Consensus size: 163
4757257 AATGGTAACT
* *
4757267 TTAGCGGCGTTTTTATACAAA-AGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATATAAAAC
1 TTAGTGGCGTTTTTATACAAACA-CCGCTATAGACTCGTACTTTAGTGGCGTTTTTATA-CAAAC
* * ** ** *
4757331 GCCACGATAGAGTAGTACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTCAACTTTAGCG
64 GCCGC-ATAGACTAGTACTTTAGTGGCGTTTTTTTACAAACGCCGCTATAGACTCAACTTTAGCG
* * * *
4757396 GTGTTTTTATACAAAACGTCGTGATATAGTAGTACT
128 GTGTTTTTATACAAAACGCCGTGATAGACTAGTACA
* * *
4757432 TTAGTGGCGTTTTTATACAAACATCGCTATAGACTCGAACTTTAGTGGCGGTTTTATACAAACGC
1 TTAGTGGCGTTTTTATACAAACACCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* * * * ** *
4757497 CGCTATAGACTCGTAATTTTGTGGCGTTTGTGTTTACAAACGCCGCTATAGGCTTGTACTTTAGT
66 CGC-ATAGACTAGTACTTTAGTGGCGTTT-T-TTTACAAACGCCGCTATAGAC-TCAACTTTAGC
*
4757562 GGT-TTTTTATAC-AAACGCCGCT-ATAGACTCGTACA
127 GGTGTTTTTATACAAAACGCCG-TGATAGACTAGTACA
* * * *
4757597 TTAGTGGCGTTTTTATACAAACGCCACTATAGACTCGTACATTAGTGGCGTTTTTATACAAACAC
1 TTAGTGGCGTTTTTATACAAACACCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
*
4757662 CGC-TAGACTTGTACTTTAGTGGCGTTTATTTT
66 CGCATAGACTAGTACTTTAGTGGCGTTT-TTTT
4757694 TTAAAACGCC
Statistics
Matches: 221, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
162 3 0.01
163 22 0.10
164 25 0.11
165 130 0.59
166 30 0.14
167 11 0.05
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (163 bp):
TTAGTGGCGTTTTTATACAAACACCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
CGCATAGACTAGTACTTTAGTGGCGTTTTTTTACAAACGCCGCTATAGACTCAACTTTAGCGGTG
TTTTTATACAAAACGCCGTGATAGACTAGTACA
Found at i:4757613 original size:124 final size:122
Alignment explanation
Indices: 4757261--4757683 Score: 446
Period size: 124 Copynumber: 3.4 Consensus size: 122
4757251 CCACAAAATG
* * *
4757261 GTAACTTTAGCGGCGTTTTTATACAAAAGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATAT
1 GTAA-TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGT-G-GTTTTT-TAT
* * * * ** **
4757326 A-AAACGCCACGATAGAGTAGTACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTC
62 ACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * * * * *
4757386 --AACTTTAGCGGTGTTTTTATACAAAACGTCG-TGATATAGTAGTACTTTAGTGGCGTTTTTAT
1 GTAA-TTTAGTGGCGTTTTTATAC-AAACGCCGCT-ATAGACTTGTACTTTAGTGG-TTTTTTAT
** * *
4757448 ACAAACATCGCTATAGACTCGAACTTTAGTGGCGGTTTTATACAAACGCCGCTATAGACTC
62 ACAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * *
4757509 GTAATTTTGTGGCGTTTGTGTTTACAAACGCCGCTATAGGCTTGTACTTTAGTGGTTTTTTATAC
1 GTAATTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTTGTACTTTAGTGGTTTTTTATAC
* *
4757574 AAACGCCGCTATAGACTCGTACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTC
64 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
*
4757633 GTACA-TTAGTGGCGTTTTTATACAAACACCGC--TAGACTTGTACTTTAGTGG
1 GTA-ATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGG
4757684 CGTTTATTTT
Statistics
Matches: 249, Mismatches: 39, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
120 18 0.07
122 17 0.07
123 75 0.30
124 107 0.43
125 27 0.11
126 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (122 bp):
GTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGGTTTTTTATACAA
ACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
Found at i:4757644 original size:206 final size:204
Alignment explanation
Indices: 4757263--4757685 Score: 530
Period size: 206 Copynumber: 2.1 Consensus size: 204
4757253 ACAAAATGGT
* * * *
4757263 AACTTTAGCGGCGTTTTTATACAAAAGCCGCTATAGACTCGTACTTTAGTGGCGTTTTTATATAA
1 AACTTTAGTGGCGGTTTTATACAAAAGCCGCTATAGACTCGTAATTTAGTGGCGTTTGTATATAA
*
4757328 AACGCCACGATAGAGTAGTACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTCAACTTTA
66 AACGCCACGATAGAGTAGTACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTCAACATTA
* * * * * * *
4757393 GCGGTGTTTTTATACAAAACGTCGTGATATAGTAGTACTTTAGTGGCGTTTTTATACAAACATCG
131 GCGGCGTTTTTATACAAAACGCCCTGATAGACTAGTACATTAGTGGCGTTTTTATACAAACACCG
4757458 CTATAGACTCG
196 C--TAGACTCG
* * * *
4757469 AACTTTAGTGGCGGTTTTATACAAACGCCGCTATAGACTCGTAATTTTGTGGCGTTTGTGTTTAC
1 AACTTTAGTGGCGGTTTTATACAAAAGCCGCTATAGACTCGTAATTTAGTGGCGTTTGTATATA-
* * * ** *
4757534 AAACGCCGCTATAG-GCTTGTACTTTAGTGGT-TTTTTATACAAACGCCGCTATAGACTCGTACA
65 AAACGCCACGATAGAG-TAGTACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTC-AACA
* *
4757597 TTAGTGGCGTTTTTATAC-AAACGCCACT-ATAGACTCGTACATTAGTGGCGTTTTTATACAAAC
128 TTAGCGGCGTTTTTATACAAAACGCC-CTGATAGACTAGTACATTAGTGGCGTTTTTATACAAAC
*
4757660 ACCGCTAGACTTG
192 ACCGCTAGACTCG
*
4757673 TACTTTAGTGGCG
1 AACTTTAGTGGCG
4757686 TTTATTTTTT
Statistics
Matches: 187, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
204 19 0.10
206 125 0.67
207 43 0.23
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (204 bp):
AACTTTAGTGGCGGTTTTATACAAAAGCCGCTATAGACTCGTAATTTAGTGGCGTTTGTATATAA
AACGCCACGATAGAGTAGTACTTTAGCAGTATTTTTATACAAACGCCGCTATAGACTCAACATTA
GCGGCGTTTTTATACAAAACGCCCTGATAGACTAGTACATTAGTGGCGTTTTTATACAAACACCG
CTAGACTCG
Found at i:4760161 original size:36 final size:36
Alignment explanation
Indices: 4760121--4760200 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
4760111 TGAACGGTTG
*
4760121 GGAATTTAATCAACATTCTACTGCTGCTGTTCAAGT
1 GGAATTTAATCAACATTCTACTGCTGATGTTCAAGT
*
4760157 GGAATTTAATTAACATTCTACTGCTGATGTTCAAGT
1 GGAATTTAATCAACATTCTACTGCTGATGTTCAAGT
4760193 GGAATTTA
1 GGAATTTA
4760201 GTTACATTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (36 bp):
GGAATTTAATCAACATTCTACTGCTGATGTTCAAGT
Found at i:4761252 original size:15 final size:15
Alignment explanation
Indices: 4761232--4761261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4761222 TCATAGCCTG
*
4761232 TAGAGAAATGCCCGA
1 TAGAGAAATACCCGA
4761247 TAGAGAAATACCCGA
1 TAGAGAAATACCCGA
4761262 ATCTATTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (15 bp):
TAGAGAAATACCCGA
Found at i:4762977 original size:42 final size:43
Alignment explanation
Indices: 4762874--4763078 Score: 240
Period size: 42 Copynumber: 4.9 Consensus size: 43
4762864 TTTGTATTAC
* * * *
4762874 AAACTCCACTAAAAACAACAAAATTAGCGTCGTTTGTGGC--A
1 AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAA
* * *
4762915 AAACGCCACTAAAGATAAGAGAATTAGCGGCGTTTGTGGCCAA
1 AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAA
* * *
4762958 AAA-GCCACTAAAAACAAGAGAAATAACAGCG-TT-TGGCAAAA
1 AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGC-AAA
* *
4762999 AAACACCACTAAAAACAAGAGAATTAGCGGTGTTTGTGGCAAA
1 AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAA
* *
4763042 AAATGCCACTAAAAACAAGAGAATTAGCGGTGTTTGT
1 AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGT
4763079 TCTTTTAAAT
Statistics
Matches: 139, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.03
41 41 0.29
42 46 0.33
43 44 0.32
44 4 0.03
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (43 bp):
AAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGGCAAA
Found at i:4768943 original size:42 final size:41
Alignment explanation
Indices: 4768841--4768947 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
4768831 GCCCGAATGT
* * *
4768841 CTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGA
* * * *
4768882 CTTATATATGACCCTAAGGATTTAAACATCATT-CTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-AACATC-TTGCTCGAAAGA
4768924 CTTACT-GATGGCCCGAAGGACTTA
1 CTTA-TAGATGGCCCGAAGGACTTA
4768948 CTAAGTAAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
41 18 0.35
42 31 0.60
43 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTAACATCTTGCTCGAAAGA
Found at i:4768948 original size:241 final size:238
Alignment explanation
Indices: 4768505--4769195 Score: 914
Period size: 245 Copynumber: 2.9 Consensus size: 238
4768495 CCAGCCTCAC
* * * * *
4768505 ATTTCAGAAAAATCAGTTTTCAGGAAAGATTTAAATGAGAAACTTTGGAAATCACTTACTCTTTT
1 ATTTCAG-AAAATCAGTTTTCAGAAAAAATTTAAATGAGAAACTTTGGAAAT-GCTTTCTCATTT
* *
4768570 TTCAAAAATCATGTGAAAACA---T--CCGAAGGTCTTATAGATGGCCCGACGGACTTATCATCT
64 TTCAAAAATCATGTGAAAACATTCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCT
* * *
4768630 TACTCGAAAGAGTTATAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGC
129 TGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTA-TGATGGC
*
4768695 TCAAATGACTTAC-ATAGTAAAAAAACTTTGGAAATCGTTTTCTTA-T
193 CCAAATGACTTACTA-AGT-AAAAAACTTTGGAAATCGTTTTCTTACT
* *
4768741 ATTTCAAGACAAATCAATTTTCAGAAAATATTTAAATGAGAAACTTTGGAAATGCTTTCTCATTT
1 ATTTC-AGA-AAATCAGTTTTCAGAAAAAATTTAAATGAGAAACTTTGGAAATGCTTTCTCATTT
* * * *
4768806 TTCGAAAATCATGTAAAAACATTCTGCCCGAATGTCTTATGGATGGCCTGAAGGACTTATCATCT
64 TTCAAAAATCATGTGAAAACATTCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCT
* * *
4768871 TGCTCGAAAGACTTATATATGACCCTAAGGATTTAAACATCATTCTCGAAAGACTTACTGATGGC
129 TGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTA-TGATGGC
* * *
4768936 CCGAAGGACTTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACT
193 CCAAATGACTTACTAAGTAAAAAACTTTGGAAATCGTTTTCTTACT
*
4768982 -TTTCAGAAAAGTCAGTTTTCAAAAGAAAAAAAAATTAAATGAGAAACTTTGGAAATTGCTTTCT
1 ATTTCAGAAAA-TCAGTTTTC---AG--AAAAAATTTAAATGAGAAACTTTGGAAA-TGCTTTCT
* * *
4769046 CATTTTTCAAAAATCTTGTGAAAACATTCTGCCTGAAGGTCTTATGGATGGCCCGAATGACTTAT
59 CATTTTTCAAAAATCATGTGAAAACATTCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTAT
* *
4769111 CATCTTGCTCGAAAGACTTATAGATGACCCGAATGATTTAAACA-CGATGCTCGAAAAACTTATG
124 CATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATC-ATGCTCGAAAGACTTATG
4769175 ATGGCCCAAATGACTTACTAA
188 ATGGCCCAAATGACTTACTAA
4769196 TCAAGAAACC
Statistics
Matches: 398, Mismatches: 40, Indels: 26
0.86 0.09 0.06
Matches are distributed among these distances:
236 34 0.09
237 42 0.11
238 3 0.01
239 12 0.03
240 29 0.07
241 106 0.27
242 3 0.01
244 48 0.12
245 121 0.30
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (238 bp):
ATTTCAGAAAATCAGTTTTCAGAAAAAATTTAAATGAGAAACTTTGGAAATGCTTTCTCATTTTT
CAAAAATCATGTGAAAACATTCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTG
CTCGAAAGACTTATAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTATGATGGCCCA
AATGACTTACTAAGTAAAAAACTTTGGAAATCGTTTTCTTACT
Found at i:4769143 original size:41 final size:40
Alignment explanation
Indices: 4769086--4769191 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 40
4769076 GCCTGAAGGT
* * *
4769086 CTTATGGATGGCCCGAATGACTTATCATC-TTGCTCGAAAGA
1 CTTAT-GATGGCCCGAATGACTTAACA-CGATGCTCGAAAAA
* *
4769127 CTTATAGATGACCCGAATGATTTAAACACGATGCTCGAAAAA
1 CTTAT-GATGGCCCGAATGACTT-AACACGATGCTCGAAAAA
*
4769169 CTTATGATGGCCCAAATGACTTA
1 CTTATGATGGCCCGAATGACTTA
4769192 CTAATCAAGA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
40 1 0.02
41 35 0.65
42 18 0.33
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (40 bp):
CTTATGATGGCCCGAATGACTTAACACGATGCTCGAAAAA
Found at i:4769447 original size:53 final size:56
Alignment explanation
Indices: 4769249--4769498 Score: 278
Period size: 57 Copynumber: 4.5 Consensus size: 56
4769239 GTTTACAATT
* *
4769249 ATCATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTT-AAAATTC-TTTGGAAATA
1 ATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTT-G-AATA
* * * * *
4769305 ATCATCAAGAAGCCCCAGAAAATTAGGCTTAGCTTCTTTAAAAATTCATTGGAAATA
1 ATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTG-AATA
*
4769362 ATCATTAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTG-A-A
1 ATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAATA
* * * * *
4769416 A-CATCAAGAAACCCCTGAAAATCAGGTTTAGCTTCATTC-AAATTAATTAGAAAA
1 ATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAATA
*
4769470 CATCATATCAAGAAACCTCTGAAAATCAG
1 -ATC--ATCAAGAAACCCCTGAAAATCAG
4769499 ACCTAGTTTT
Statistics
Matches: 170, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
52 9 0.05
53 36 0.21
54 3 0.02
55 2 0.01
56 37 0.22
57 59 0.35
58 24 0.14
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (56 bp):
ATCATCAAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTCATTTGAATA
Found at i:4774447 original size:28 final size:28
Alignment explanation
Indices: 4774389--4774489 Score: 112
Period size: 28 Copynumber: 3.4 Consensus size: 28
4774379 CCGAAATACC
4774389 TATCCATATGTTCCGAAGAACATAGGTAAT
1 TATCCATATGTTCCG-A-AACATAGGTAAT
*
4774419 TATCCATATGTTCAGAAACATAGGTAAT
1 TATCCATATGTTCCGAAACATAGGTAAT
* * *
4774447 TGTCCATATGTCCCGAATGATATAGGTAAT
1 TATCCATATGTTCCGAA--ACATAGGTAAT
4774477 CATATCCATATGT
1 --TATCCATATGT
4774490 CCTGAAGGAC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 26 0.43
29 1 0.02
30 24 0.39
32 10 0.16
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (28 bp):
TATCCATATGTTCCGAAACATAGGTAAT
Found at i:4774687 original size:2 final size:2
Alignment explanation
Indices: 4774680--4774712 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4774670 TGGCTTATCT
*
4774680 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4774713 TCACAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4775576 original size:148 final size:148
Alignment explanation
Indices: 4775411--4775702 Score: 584
Period size: 148 Copynumber: 2.0 Consensus size: 148
4775401 AAAGTTTTCA
4775411 TTCAAGGGGGGTATCGATACACTCCTAAGGTATCGGTACCCTTTGAACGTCTTCCCAGATTTTTC
1 TTCAAGGGGGGTATCGATACACTCCTAAGGTATCGGTACCCTTTGAACGTCTTCCCAGATTTTTC
4775476 TCTTGAGGTATCGGTACCTGATGAATGGGTACCGATACCCCTTGCCCAAAATTCACATTTTAAAC
66 TCTTGAGGTATCGGTACCTGATGAATGGGTACCGATACCCCTTGCCCAAAATTCACATTTTAAAC
4775541 ATGAAAATTCACTCTCAT
131 ATGAAAATTCACTCTCAT
4775559 TTCAAGGGGGGTATCGATACACTCCTAAGGTATCGGTACCCTTTGAACGTCTTCCCAGATTTTTC
1 TTCAAGGGGGGTATCGATACACTCCTAAGGTATCGGTACCCTTTGAACGTCTTCCCAGATTTTTC
4775624 TCTTGAGGTATCGGTACCTGATGAATGGGTACCGATACCCCTTGCCCAAAATTCACATTTTAAAC
66 TCTTGAGGTATCGGTACCTGATGAATGGGTACCGATACCCCTTGCCCAAAATTCACATTTTAAAC
4775689 ATGAAAATTCACTC
131 ATGAAAATTCACTC
4775703 AAACCTACTT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 144 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (148 bp):
TTCAAGGGGGGTATCGATACACTCCTAAGGTATCGGTACCCTTTGAACGTCTTCCCAGATTTTTC
TCTTGAGGTATCGGTACCTGATGAATGGGTACCGATACCCCTTGCCCAAAATTCACATTTTAAAC
ATGAAAATTCACTCTCAT
Found at i:4775956 original size:42 final size:42
Alignment explanation
Indices: 4775897--4775980 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4775887 CAAGTCAATT
4775897 TTCACTTTAAAACTTATTTACTAACTCAATCTCAATAATTCC
1 TTCACTTTAAAACTTATTTACTAACTCAATCTCAATAATTCC
4775939 TTCACTTTAAAACTTATTTACTAACTCAATCTCAATAATTCC
1 TTCACTTTAAAACTTATTTACTAACTCAATCTCAATAATTCC
4775981 CTTAAAAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (42 bp):
TTCACTTTAAAACTTATTTACTAACTCAATCTCAATAATTCC
Found at i:4777235 original size:19 final size:19
Alignment explanation
Indices: 4777213--4777250 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4777203 AAACTCATTC
*
4777213 CTTATCATCTCTTGTACTT
1 CTTATCATCTATTGTACTT
4777232 CTTATCATCTATTGTACTT
1 CTTATCATCTATTGTACTT
4777251 GTATTTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.05, T:0.53
Consensus pattern (19 bp):
CTTATCATCTATTGTACTT
Found at i:4779061 original size:30 final size:30
Alignment explanation
Indices: 4779027--4779116 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 30
4779017 CCGAAAGACC
* * *
4779027 TATCCATATGTTCGGAAGAACATATGTAAT
1 TATCCATATGTCCCGAAGAACATAGGTAAT
* *
4779057 TATCCATATGTCCCGAAGGACATAGGTAACA
1 TATCCATATGTCCCGAAGAACATAGGTAA-T
* * *
4779088 TGTCCATATATCCCGAAGGACATAGGTAA
1 TATCCATATGTCCCGAAGAACATAGGTAA
4779117 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
30 25 0.48
31 27 0.52
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (30 bp):
TATCCATATGTCCCGAAGAACATAGGTAAT
Found at i:4779102 original size:31 final size:31
Alignment explanation
Indices: 4779059--4779117 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
4779049 TATGTAATTA
*
4779059 TCCATATGTCCCGAAGGACATAGGTAACATG
1 TCCATATATCCCGAAGGACATAGGTAACATG
4779090 TCCATATATCCCGAAGGACATAGGTAAC
1 TCCATATATCCCGAAGGACATAGGTAAC
4779118 CCTCGACTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (31 bp):
TCCATATATCCCGAAGGACATAGGTAACATG
Found at i:4788118 original size:24 final size:24
Alignment explanation
Indices: 4788091--4788140 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
4788081 TTTTTCCCTG
** *
4788091 ATCATCTTTGGTTTGATTTCTTCA
1 ATCATCTTCAGTTTCATTTCTTCA
4788115 ATCATCTTCAGTTTCATTTCTTCA
1 ATCATCTTCAGTTTCATTTCTTCA
4788139 AT
1 AT
4788141 TCTCTCTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (24 bp):
ATCATCTTCAGTTTCATTTCTTCA
Found at i:4789707 original size:95 final size:95
Alignment explanation
Indices: 4789583--4789772 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
4789573 ATATATTATA
4789583 TCAAATTAACTATATAATGATTGTTTGTTCGTTGATTAATGTGTTTATTTAATCTGATTAACTTA
1 TCAAATTAACTATATAATGATTGTTTGTTCGTTGATTAATGTGTTTATTTAATCTGATTAACTTA
4789648 GGTGAGACCATGTCCACGGAGGAGAATTTG
66 GGTGAGACCATGTCCACGGAGGAGAATTTG
4789678 TCAAATTAACTATATAATGATTGTTTGTTCGTTGATTAATGTGTTTATTTAATCTGATTAACTTA
1 TCAAATTAACTATATAATGATTGTTTGTTCGTTGATTAATGTGTTTATTTAATCTGATTAACTTA
4789743 GGTGAGACCATGTCCACGGAGGAGAATTTG
66 GGTGAGACCATGTCCACGGAGGAGAATTTG
4789773 AAAATTCTGC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (95 bp):
TCAAATTAACTATATAATGATTGTTTGTTCGTTGATTAATGTGTTTATTTAATCTGATTAACTTA
GGTGAGACCATGTCCACGGAGGAGAATTTG
Found at i:4791481 original size:16 final size:16
Alignment explanation
Indices: 4791460--4791506 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
4791450 AAATATTGAT
4791460 ATATAATATTTTTATA
1 ATATAATATTTTTATA
*
4791476 ATATAAT-TTTTTA-C
1 ATATAATATTTTTATA
*
4791490 ATAT-ATATTTTTTTA
1 ATATAATATTTTTATA
4791505 AT
1 AT
4791507 TACTGTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 2 0.08
14 9 0.35
15 8 0.31
16 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATAATATTTTTATA
Found at i:4791515 original size:29 final size:29
Alignment explanation
Indices: 4791455--4791526 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
4791445 TACCAAAATA
*
4791455 TTGATATATAATATTTTTATAATATAATTT
1 TTGACATAT-ATATTTTTATAATATAATTT
* * *
4791485 TTTACATATATATTTTTTTAAT-TACTGTT
1 TTGACATATATATTTTTATAATATAAT-TT
*
4791514 TTGATATATATAT
1 TTGACATATATAT
4791527 ATTGTTTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
28 3 0.09
29 25 0.71
30 7 0.20
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (29 bp):
TTGACATATATATTTTTATAATATAATTT
Found at i:4791828 original size:23 final size:23
Alignment explanation
Indices: 4791797--4791847 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
4791787 GTTTTAAAAT
4791797 AAATATTTTTTTTACTTTCGTTA
1 AAATATTTTTTTTACTTTCGTTA
* *
4791820 AAATGTTTTTTTTACTTTCTTTA
1 AAATATTTTTTTTACTTTCGTTA
4791843 AAATA
1 AAATA
4791848 AATTAGTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (23 bp):
AAATATTTTTTTTACTTTCGTTA
Found at i:4791850 original size:27 final size:27
Alignment explanation
Indices: 4791789--4791850 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 27
4791779 GGAGAGATGT
4791789 TTTAAAATAAATATTTTTTTTACTTTC
1 TTTAAAATAAATATTTTTTTTACTTTC
* *
4791816 GTT---A-AAATGTTTTTTTTACTTTC
1 TTTAAAATAAATATTTTTTTTACTTTC
4791839 TTTAAAATAAAT
1 TTTAAAATAAAT
4791851 TAGTTTCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
23 20 0.71
24 1 0.04
26 1 0.04
27 6 0.21
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (27 bp):
TTTAAAATAAATATTTTTTTTACTTTC
Found at i:4796884 original size:195 final size:194
Alignment explanation
Indices: 4796504--4796897 Score: 715
Period size: 195 Copynumber: 2.0 Consensus size: 194
4796494 ACTTGGACCA
4796504 GCATTCAGGGAGCAGGGTAGTGCCTCGATCAGATTGCCACTAGAGCAGTTATAAGGAAAGAGAGT
1 GCATTCAGGGAGCAGGGTAGTGCCTCGATCAGATTGCCACTAGAGCAGTTATAAGGAAAGAGAGT
4796569 AGGCGACAGAGAAGGATTTTGACTAGGAAGCTTTGGAGGTGGCTATTTACACACAGTTCTTCTCC
66 AGGCGACAGAGAAGGATTTTGACTAGGAAGCTTTGGAGGTGGCTATTTACACACAGTTCTTCTCC
4796634 CTCCTTTTCGATGTTTTTGGAAGAAGCGGTGGCTACGTGGGAGGTTAGTAAGTTGTTGGGGATCT
131 CTCCTTTTCGATGTTTTTGGAAGAAGCGGTGGCTACGT-GGAGGTTAGTAAGTTGTTGGGGATCT
4796699 GCATTCAGGGAGCAGGGTAGTGCCTCGATCAGATTGCCAGTCTAGAGCAGTTATAAGG-AAGAGA
1 GCATTCAGGGAGCAGGGTAGTGCCTCGATCAGATTGCCA--CTAGAGCAGTTATAAGGAAAGAGA
4796763 GTAGGCGACAGAGAAGGATTTTGACTAGGAAGCTTTGGAGGTGGCTAGTTTACACACAGTTTCTT
64 GTAGGCGACAGAGAAGGATTTTGACTAGGAAGCTTTGGAGGTGGCTA-TTTACACACAG-TTCTT
4796828 CTCCCTCCTTTTCGATGTTTTTGGAAGAAGCGGTGGCTACGT-G-GGTTAGTAAGTTGTTGGGGA
127 CTCCCTCCTTTTCGATGTTTTTGGAAGAAGCGGTGGCTACGTGGAGGTTAGTAAGTTGTTGGGGA
4796891 TCT
192 TCT
4796894 -CATT
1 GCATT
4796898 TAAAGAAGGC
Statistics
Matches: 195, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
194 4 0.02
195 62 0.32
196 54 0.28
197 28 0.14
198 47 0.24
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.28
Consensus pattern (194 bp):
GCATTCAGGGAGCAGGGTAGTGCCTCGATCAGATTGCCACTAGAGCAGTTATAAGGAAAGAGAGT
AGGCGACAGAGAAGGATTTTGACTAGGAAGCTTTGGAGGTGGCTATTTACACACAGTTCTTCTCC
CTCCTTTTCGATGTTTTTGGAAGAAGCGGTGGCTACGTGGAGGTTAGTAAGTTGTTGGGGATCT
Found at i:4811510 original size:4 final size:4
Alignment explanation
Indices: 4811501--4811531 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
4811491 GTTAACTATG
4811501 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
4811532 ACATGCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:4816597 original size:22 final size:23
Alignment explanation
Indices: 4816537--4816617 Score: 146
Period size: 23 Copynumber: 3.6 Consensus size: 23
4816527 AACCCGTGGA
4816537 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGG
4816560 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGG
4816583 GGGTATCGGTA-CCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGG
*
4816605 GGGTATCGATACC
1 GGGTATCGGTACC
4816618 TTCTGCGCCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
22 21 0.38
23 35 0.62
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (23 bp):
GGGTATCGGTACCCATTCAAAGG
Found at i:4817816 original size:68 final size:72
Alignment explanation
Indices: 4817693--4817830 Score: 248
Period size: 68 Copynumber: 2.0 Consensus size: 72
4817683 TAAAAACAAT
4817693 GTAGTGTCAACCTTCCCTTTTCAAAAACCTTTTTCAATTAAAAATTTTGACAATCTTTCATTCCA
1 GTAGTGTCAACCTTCCCTTTTCAAAAACCTTTTTCAATTAAAAATTTTGACAATCTTTCATTCCA
4817758 AGCTCAA
66 AGCTCAA
4817765 GTAGTGTCAACCTT-CCTTTTCAAAAA-C-TTTTCAATT-AAAATTTTGACAATCTTTCATTCCA
1 GTAGTGTCAACCTTCCCTTTTCAAAAACCTTTTTCAATTAAAAATTTTGACAATCTTTCATTCCA
4817826 AGCTC
66 AGCTC
4817831 TAAGAGCTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
68 30 0.45
69 9 0.14
70 1 0.02
71 12 0.18
72 14 0.21
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.38
Consensus pattern (72 bp):
GTAGTGTCAACCTTCCCTTTTCAAAAACCTTTTTCAATTAAAAATTTTGACAATCTTTCATTCCA
AGCTCAA
Found at i:4831355 original size:2 final size:2
Alignment explanation
Indices: 4831350--4831390 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
4831340 TATACTTTTG
4831350 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4831391 CTTACACATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4833872 original size:3 final size:3
Alignment explanation
Indices: 4833864--4833896 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
4833854 TTCATCGTCA
4833864 TAT TAT TAT TAT TA- TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
4833897 AGACCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:4833886 original size:18 final size:18
Alignment explanation
Indices: 4833863--4833897 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4833853 TTTCATCGTC
4833863 ATATTATTATTATTATAT
1 ATATTATTATTATTATAT
4833881 ATATTATTATTATTATA
1 ATATTATTATTATTATA
4833898 GACCAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTATTATTATTATAT
Found at i:4834213 original size:22 final size:22
Alignment explanation
Indices: 4834188--4834231 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4834178 GCAGCCCACG
* *
4834188 ACCATCCCTATGGTGAGTCACC
1 ACCATACCTATGGTGACTCACC
*
4834210 ACCATAGCTATGGTGACTCACC
1 ACCATACCTATGGTGACTCACC
4834232 TAGGAAACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (22 bp):
ACCATACCTATGGTGACTCACC
Found at i:4835303 original size:16 final size:16
Alignment explanation
Indices: 4835284--4835342 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
4835274 GTTATTATTT
4835284 TATTTATATAAAAATA
1 TATTTATATAAAAATA
*
4835300 TATTTGAT-TAAATATTA
1 TATTT-ATATAAA-AATA
*
4835317 TATTTATA-AAAACAAA
1 TATTTATATAAAA-ATA
*
4835333 TATATATATA
1 TATTTATATA
4835343 GTTTTATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.03
16 22 0.65
17 11 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TATTTATATAAAAATA
Found at i:4835437 original size:31 final size:33
Alignment explanation
Indices: 4835377--4835438 Score: 85
Period size: 31 Copynumber: 1.9 Consensus size: 33
4835367 TTATATTTCT
*
4835377 TTAATTTTATTCATATTAATATATATTATTTGA
1 TTAATTTTATTCAAATTAATATATATTATTTGA
4835410 TTAATTTTA-T-AAATTAATA-ATATTTATTT
1 TTAATTTTATTCAAATTAATATATA-TTATTT
4835439 TTAAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 14 0.52
32 1 0.04
33 9 0.33
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (33 bp):
TTAATTTTATTCAAATTAATATATATTATTTGA
Found at i:4835537 original size:2 final size:2
Alignment explanation
Indices: 4835530--4835567 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4835520 AAATAAATAA
4835530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4835568 TTACTTCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4838279 original size:43 final size:44
Alignment explanation
Indices: 4838214--4838300 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
4838204 TGGCTTTAGA
* * *
4838214 GAAGTTAGGAGGGAAAGTTATCCCCTATATGT-AAAGTTTTGTT
1 GAAGTTAGGACGGAAAGCTATCCCCTACATGTAAAAGTTTTGTT
* *
4838257 GAAGTTAGGACTGAAAGCTATCCTCTACATGTAAAAGTTTTGTT
1 GAAGTTAGGACGGAAAGCTATCCCCTACATGTAAAAGTTTTGTT
4838301 TGATGCACGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGCTATCCCCTACATGTAAAAGTTTTGTT
Found at i:4841237 original size:16 final size:16
Alignment explanation
Indices: 4841199--4841241 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
4841189 ATACTTGAAG
4841199 AAGAAAAAAGAAGAAAA
1 AAGAAAAAAGAAG-AAA
4841216 ACAGAAAAAAGGAAG-AA
1 A-AGAAAAAA-GAAGAAA
4841233 AAGAAAAAA
1 AAGAAAAAA
4841242 TTGAATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.33
17 4 0.17
18 8 0.33
19 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAGAAGAAA
Found at i:4841241 original size:18 final size:18
Alignment explanation
Indices: 4841196--4841241 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
4841186 ATTATACTTG
4841196 AAGAAGAAAAAAGAAGAA
1 AAGAAGAAAAAAGAAGAA
4841214 AA-ACAGAAAAAAGGAAGAA
1 AAGA-AGAAAAAA-GAAGAA
4841233 AAGAA-AAAA
1 AAGAAGAAAA
4841242 TTGAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 14 0.56
19 9 0.36
20 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAGAAGAAAAAAGAAGAA
Found at i:4841732 original size:32 final size:32
Alignment explanation
Indices: 4841691--4841751 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
4841681 TGGAAACAAG
* *
4841691 AAGTATCTCTACGAGATGAGCATACCAACGAA
1 AAGTATCTCTACAAGATGAGCATAACAACGAA
4841723 AAGTATCTCTACAAGATGAGCATAACAAC
1 AAGTATCTCTACAAGATGAGCATAACAAC
4841752 CATTTCTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (32 bp):
AAGTATCTCTACAAGATGAGCATAACAACGAA
Found at i:4846623 original size:77 final size:77
Alignment explanation
Indices: 4846441--4847004 Score: 970
Period size: 77 Copynumber: 7.4 Consensus size: 77
4846431 TTATTTCCCA
4846441 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
*
4846505 AAGCCTCGGGGT
66 AAGCCTCAGGGT
*
4846517 CATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
*
4846582 AAGCCTCTGGGT
66 AAGCCTCAGGGT
* *
4846594 CATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCGTTCGGGAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
4846659 AAGCCTCAGGGT
66 AAGCCTCAGGGT
* *
4846671 CATCTGTACGACCTACAGTGCATGATGCTTTCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
* *
4846735 AATCCTTAGGGT
66 AAGCCTCAGGGT
*
4846747 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGATCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
4846812 AAGCCTCAGGGT
66 AAGCCTCAGGGT
* * *
4846824 CATCTATAAGCCCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
4846889 AAGCCTCAGGGT
66 AAGCCTCAGGGT
* *
4846901 CATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGAAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
4846966 AAGCCTCAGGGT
66 AAGCCTCAGGGT
*
4846978 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGACCTACAGTGCATGATG
4847005 ATATGACCTT
Statistics
Matches: 459, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
76 128 0.28
77 331 0.72
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (77 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
AAGCCTCAGGGT
Found at i:4846733 original size:153 final size:154
Alignment explanation
Indices: 4846441--4847004 Score: 963
Period size: 153 Copynumber: 3.7 Consensus size: 154
4846431 TTATTTCCCA
4846441 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
* *
4846505 AAGCCTCGGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTT
66 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
4846570 TGATGTTTTTTAAAGCCTCTGGGT
131 TGATGTTTTTTAAAGCCTCTGGGT
* *
4846594 CATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCGTTCGGGAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
* *
4846659 AAGCCTCAGGGTCATCTGTACGACCTACAGTGCATGATGCTTTCAAAAAGCCTTCGGGAGCTTTT
66 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
*
4846724 TGATG-TTTTTAAATCCT-TAGGGT
131 TGATGTTTTTTAAAGCCTCT-GGGT
*
4846747 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGATCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
* * *
4846812 AAGCCTCAGGGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTT
66 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
*
4846877 TGATGTTTTTTAAAGCCTCAGGGT
131 TGATGTTTTTTAAAGCCTCTGGGT
* *
4846901 CATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGAAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
*
4846966 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCAAGATG
66 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATG
4847005 ATATGACCTT
Statistics
Matches: 384, Mismatches: 23, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
152 1 0.00
153 198 0.52
154 185 0.48
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (154 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTTA
AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
TGATGTTTTTTAAAGCCTCTGGGT
Found at i:4846848 original size:230 final size:230
Alignment explanation
Indices: 4846441--4847004 Score: 975
Period size: 230 Copynumber: 2.4 Consensus size: 230
4846431 TTATTTCCCA
4846441 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
*
4846506 AGCCTCGGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTTT
* * *
4846571 GATGTTTTTTAAAGCCTCTGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCGTT
131 GATGTTTTTTAAAGCCTCAGGGTCATCTATAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
*
4846636 CGGGAGCTTTTTGATGTTTTTTAAAGCCTCAGGGT
196 CAGGAGCTTTTTGATGTTTTTTAAAGCCTCAGGGT
* *
4846671 CATCTGTACGACCTACAGTGCATGATGCTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
* * * *
4846736 ATCCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGATCTTTTT
66 AGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTTT
* *
4846801 GATGTTTTTTAAAGCCTCAGGGTCATCTATAAGCCCTACAGTGCATGATGTTTTCAAAAAGCCTT
131 GATGTTTTTTAAAGCCTCAGGGTCATCTATAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
4846866 CAGGAGCTTTTTGATGTTTTTTAAAGCCTCAGGGT
196 CAGGAGCTTTTTGATGTTTTTTAAAGCCTCAGGGT
* *
4846901 CATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGAAGCTTTTTGATGTTTTTTA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTTA
*
4846966 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCAAGATG
65 AAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATG
4847005 ATATGACCTT
Statistics
Matches: 313, Mismatches: 20, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
230 271 0.87
231 42 0.13
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (230 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
AGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTAAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTTTAAAGCCTCAGGGTCATCTATAAGACCTACAATGCATGATGTTTTCAAAAAGCCTT
CAGGAGCTTTTTGATGTTTTTTAAAGCCTCAGGGT
Found at i:4847161 original size:3 final size:3
Alignment explanation
Indices: 4847155--4847204 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
4847145 TTTTTCATCA
* *
4847155 TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAG TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4847202 TAT
1 TAT
4847205 ATACCCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4847518 original size:22 final size:22
Alignment explanation
Indices: 4847493--4847535 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4847483 CAGTCCACGA
* *
4847493 CCATCCCTATGGTGAGTCACCG
1 CCATACCTATGGTGACTCACCG
*
4847515 CCATAGCTATGGTGACTCACC
1 CCATACCTATGGTGACTCACC
4847536 TAGGAAACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23
Consensus pattern (22 bp):
CCATACCTATGGTGACTCACCG
Found at i:4848620 original size:17 final size:17
Alignment explanation
Indices: 4848571--4848630 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 17
4848561 ATTTTGTTAT
*
4848571 TATTTTATTTATATAAA
1 TATTATATTTATATAAA
*
4848588 -AATATATTTGAT-TAAA
1 TATTATATTT-ATATAAA
*
4848604 TATTGTATTTATATAAAA
1 TATTATATTTATAT-AAA
4848622 TATATATAT
1 TAT-TATAT
4848631 ACATAGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 13 0.39
17 10 0.30
18 6 0.18
19 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTATATTTATATAAA
Found at i:4848820 original size:2 final size:2
Alignment explanation
Indices: 4848808--4848840 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4848798 AATATTTTCT
*
4848808 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4848841 TTACTTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4849587 original size:28 final size:29
Alignment explanation
Indices: 4849526--4849587 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
4849516 TTTTTATATA
*
4849526 AAAATTTAAAATATTTGTACATCAATTAT
1 AAAATTTAAAATATTTATACATCAATTAT
*
4849555 GAAATTTAAAA-ATTTAT-CTATC-ATGTAT
1 AAAATTTAAAATATTTATAC-ATCAAT-TAT
4849583 AAAAT
1 AAAAT
4849588 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.11
28 15 0.54
29 10 0.36
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (29 bp):
AAAATTTAAAATATTTATACATCAATTAT
Found at i:4850760 original size:21 final size:21
Alignment explanation
Indices: 4850711--4850761 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4850701 TTAATGTTGG
* *
4850711 TACCAAACTTTAGAGTATTGA
1 TACCAGACTTTAGAGTATCGA
*
4850732 TGCCAGACTTTAGA-TATCGA
1 TACCAGACTTTAGAGTATCGA
4850752 TACCGAGACT
1 TACC-AGACT
4850762 AGGGAATGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (21 bp):
TACCAGACTTTAGAGTATCGA
Found at i:4852927 original size:9 final size:9
Alignment explanation
Indices: 4852915--4853289 Score: 98
Period size: 9 Copynumber: 40.3 Consensus size: 9
4852905 TTTTCTTCCC
4852915 TTTATTTAT
1 TTTATTTAT
4852924 TTTA-TTAT
1 TTTATTTAT
*
4852932 TATTA-ATACT
1 T-TTATTTA-T
* *
4852942 TATATATAT
1 TTTATTTAT
*
4852951 ATATATT-AT
1 -TTTATTTAT
4852960 TTTTAT-TAT
1 T-TTATTTAT
4852969 -TTATTTATT
1 TTTATTTA-T
4852978 TTTATTT-T
1 TTTATTTAT
* **
4852986 TTTCTTGCT
1 TTTATTTAT
4852995 TTTATTTA-
1 TTTATTTAT
4853003 TTTATTTATT
1 TTTATTTA-T
*
4853013 TATTATAATATT
1 T-TTAT-TTA-T
4853025 TTTACTATTAT
1 TTTA-T-TTAT
*
4853036 TTTCTTTTAT
1 TTT-ATTTAT
**
4853046 TTTATTTGC
1 TTTATTTAT
* *
4853055 TTCATTTTT
1 TTTATTTAT
*
4853064 TTTCTTTAT
1 TTTATTTAT
*
4853073 TTCATTT-T
1 TTTATTTAT
4853081 ATTT-TTTATT
1 -TTTATTTA-T
4853091 TTTAATTT-T
1 TTT-ATTTAT
*
4853100 TTTACTTTCT
1 TTTA-TTTAT
*
4853110 TTATCTTTAT
1 TT-TATTTAT
*
4853120 TTTGTTTAT
1 TTTATTTAT
*
4853129 TTTATTTCT
1 TTTATTTAT
*
4853138 TTTGTTTAT
1 TTTATTTAT
4853147 TTTATTTAT
1 TTTATTTAT
*
4853156 GTTTCTTTA-
1 -TTTATTTAT
*
4853165 -TT-TTCAT
1 TTTATTTAT
*
4853172 TTTGTTTAT
1 TTTATTTAT
4853181 TTTATTTACT
1 TTTATTTA-T
4853191 TCTTATCTTTACT
1 T-TTA--TTTA-T
** *
4853204 TTGCCTTTTT
1 TT-TATTTAT
4853214 TTTA-TT-T
1 TTTATTTAT
*
4853221 TTTCTTTAT
1 TTTATTTAT
* *
4853230 CTTTCTTTAC
1 -TTTATTTAT
*
4853240 TTCATTTAT
1 TTTATTTAT
*
4853249 TTTATCTT-C
1 TTTAT-TTAT
4853258 TTTATTTCAT
1 TTTATTT-AT
*
4853268 TTTTTTTCAT
1 TTTATTT-AT
4853278 TTTATTTAT
1 TTTATTTAT
4853287 TTT
1 TTT
4853290 TATTACCTTT
Statistics
Matches: 276, Mismatches: 51, Indels: 78
0.68 0.13 0.19
Matches are distributed among these distances:
6 3 0.01
7 10 0.04
8 35 0.13
9 118 0.43
10 71 0.26
11 22 0.08
12 10 0.04
13 7 0.03
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTATTTAT
Found at i:4853044 original size:80 final size:82
Alignment explanation
Indices: 4852838--4853046 Score: 200
Period size: 81 Copynumber: 2.6 Consensus size: 82
4852828 CATTTTTATT
* * * * *
4852838 TTTATTTTATT-TTAATATTACATTTTTTATATATTATTTTC-TTTAGTATTGATATTATTTTTA
1 TTTATTTTATTATTATTAATACA-TATATATATATTATTTTCTTTTATTATTGATATTATTTTTA
4852901 TATATTTTCTTCCCTTTA
65 TATATTTTCTTCCCTTTA
* * *
4852919 TTTATTTTATTATTATTAATACTTATATATATATATATTAT-TTTTATTATTTAT-TTATTTTTA
1 TTTATTTTATTATTATTAATACATATATATATAT-TATTTTCTTTTATTATTGATATTATTTTTA
* * *
4852982 T-TTTTTTCTTGCTTTTA
65 TATATTTTCTTCCCTTTA
* *
4852999 TTTA-TTTATTTATTTATT-ATA-ATATTTTTACTATTATTTTCTTTTATT
1 TTTATTTTA-TTA-TTATTAATACATATATATA-TATTATTTTCTTTTATT
4853047 TTATTTGCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
79 15 0.14
80 33 0.31
81 35 0.33
82 23 0.22
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (82 bp):
TTTATTTTATTATTATTAATACATATATATATATTATTTTCTTTTATTATTGATATTATTTTTAT
ATATTTTCTTCCCTTTA
Done.