Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 98 of 207
Found at i:29156086 original size:22 final size:20
Alignment explanation
Indices: 29155949--29156079 Score: 83
Period size: 20 Copynumber: 6.6 Consensus size: 20
29155939 AGTATTTTCT
* *
29155949 TTTAGGAATTTTGGTAAATC
1 TTTAGAAATTTTGATAAATC
* ** *
29155969 TTTAGATATTTCAATGAATC
1 TTTAGAAATTTTGATAAATC
*
29155989 GTTA-AATATTTTGATAAATC
1 TTTAGAA-ATTTTGATAAATC
*** *
29156009 TTTA-AAA-AAAG-TAAAAC
1 TTTAGAAATTTTGATAAATC
*
29156026 TTTTG-AATTATTGATAAATC
1 TTTAGAAATT-TTGATAAATC
29156046 TTTAGAAATTTTGATAAATC
1 TTTAGAAATTTTGATAAATC
29156066 ATCTTAGAAATTTT
1 -T-TTAGAAATTTT
29156080 AGTAAATGAT
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
17 10 0.12
18 1 0.01
19 3 0.04
20 51 0.63
21 5 0.06
22 11 0.14
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.44
Consensus pattern (20 bp):
TTTAGAAATTTTGATAAATC
Found at i:29157616 original size:77 final size:76
Alignment explanation
Indices: 29157489--29157701 Score: 365
Period size: 75 Copynumber: 2.8 Consensus size: 76
29157479 TATCTGTTAT
*
29157489 CGGTGGATTCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
29157554 CATTCAGAAATA
66 CATTCA-AAATA
*
29157566 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC-TTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
* *
29157630 CATTTAAGATA
66 CATTCAAAATA
*
29157641 CGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTT
29157702 GGGGGAATCA
Statistics
Matches: 129, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
75 61 0.47
76 11 0.09
77 57 0.44
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (76 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTTTCA
CATTCAAAATA
Found at i:29157710 original size:27 final size:27
Alignment explanation
Indices: 29157676--29157753 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
29157666 CCAATGATTC
29157676 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
29157703 GGGGAATCAGCACTTAACAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
29157730 GGGGAATCAACACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
29157754 CTTCACATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:29160444 original size:33 final size:33
Alignment explanation
Indices: 29160389--29160462 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
29160379 TGACTTTATT
* * **
29160389 TGTGTTTATTGTCCTAGTAGACTATCTT-TGTTC
1 TGTGTTTATAGTCCCACCAGACTAT-TTCTGTTC
29160422 TGTGTTTATAGTCCCACCAGACTATTTCTGTTC
1 TGTGTTTATAGTCCCACCAGACTATTTCTGTTC
*
29160455 TATGTTTA
1 TGTGTTTA
29160463 CTGTAACACC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (33 bp):
TGTGTTTATAGTCCCACCAGACTATTTCTGTTC
Found at i:29161950 original size:30 final size:30
Alignment explanation
Indices: 29161907--29162132 Score: 230
Period size: 30 Copynumber: 7.6 Consensus size: 30
29161897 TTACCACCAT
*
29161907 TTTTCATAGTTTGATAGTCGAAGCTATCCC
1 TTTTCATAATTTGATAGTCGAAGCTATCCC
* * *
29161937 TTTCCATATTTTGATAG-CTGAAGCCATCCC
1 TTTTCATAATTTGATAGTC-GAAGCTATCCC
*
29161967 TTTTCATAATTTGATAGTCGAAGCTATTCC
1 TTTTCATAATTTGATAGTCGAAGCTATCCC
* * *
29161997 TTTTCATAATTCGATAG-CTAAAGCCATCCC
1 TTTTCATAATTTGATAGTC-GAAGCTATCCC
*
29162027 TTTTCATGATTTGATAGTCG-AG-TCATCCC
1 TTTTCATAATTTGATAGTCGAAGCT-ATCCC
* * *
29162056 TTTTCATAATTCGATGGTC-ATCA-CCATCCC
1 TTTTCATAATTTGATAGTCGA--AGCTATCCC
*
29162086 TTTTCATAATTTGATAGCCGAAGCTATCCC
1 TTTTCATAATTTGATAGTCGAAGCTATCCC
* *
29162116 TTTCCATATTTTGATAG
1 TTTTCATAATTTGATAG
29162133 CCAAAGCCAC
Statistics
Matches: 160, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
29 26 0.16
30 130 0.81
31 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (30 bp):
TTTTCATAATTTGATAGTCGAAGCTATCCC
Found at i:29162087 original size:59 final size:60
Alignment explanation
Indices: 29161907--29162141 Score: 289
Period size: 60 Copynumber: 3.9 Consensus size: 60
29161897 TTACCACCAT
* * * * *
29161907 TTTTCATAGTTTGATAGTCGAAGCTATCCCTTTCCATATTTTGATAGCTGAAGCCATCCC
1 TTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGCTAAAGCCATCCC
*
29161967 TTTTCATAATTTGATAGTCGAAGCTATTCCTTTTCATAATTCGATAGCTAAAGCCATCCC
1 TTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGCTAAAGCCATCCC
* * *
29162027 TTTTCATGATTTGATAGTCG-AG-TCATCCCTTTTCATAATTCGAT-GGTCATCA-CCATCCC
1 TTTTCATAATTTGATAGTCGAAGCT-ATCCCTTTTCATAATTCGATAGCT-A-AAGCCATCCC
* * * * *
29162086 TTTTCATAATTTGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGCCAAAGCCA
1 TTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGCTAAAGCCA
29162142 CTGCTTTTCA
Statistics
Matches: 150, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
58 3 0.02
59 48 0.32
60 97 0.65
61 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (60 bp):
TTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATAATTCGATAGCTAAAGCCATCCC
Found at i:29162094 original size:89 final size:90
Alignment explanation
Indices: 29161907--29162133 Score: 257
Period size: 89 Copynumber: 2.5 Consensus size: 90
29161897 TTACCACCAT
* * * *
29161907 TTTTCATAGTTTGATAGTCGAAGCTATCCCTTTCCATATTTTGATAGCTGAAGCCATCCCTTTTC
1 TTTTCATAATTCGATAGCCAAAGCTATCCCTTTCCATATTTTGATAGCTGAAGCCATCCCTTTTC
* * *
29161972 ATAATTTGATAGTCGAAGCTATTCC
66 ATAATTCGATAGTCGAAGCCATCCC
* * * *
29161997 TTTTCATAATTCGATAGCTAAAGCCATCCCTTTTCATGA-TTTGATAG-TCG-AGTCATCCCTTT
1 TTTTCATAATTCGATAGCCAAAGCTATCCCTTTCCAT-ATTTTGATAGCT-GAAGCCATCCCTTT
*
29162059 TCATAATTCGATGGTC-ATCA-CCATCCC
64 TCATAATTCGATAGTCGA--AGCCATCCC
* *
29162086 TTTTCATAATTTGATAGCCGAAGCTATCCCTTTCCATATTTTGATAGC
1 TTTTCATAATTCGATAGCCAAAGCTATCCCTTTCCATATTTTGATAGC
29162134 CAAAGCCACT
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
88 2 0.02
89 71 0.62
90 40 0.35
91 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (90 bp):
TTTTCATAATTCGATAGCCAAAGCTATCCCTTTCCATATTTTGATAGCTGAAGCCATCCCTTTTC
ATAATTCGATAGTCGAAGCCATCCC
Found at i:29166153 original size:51 final size:52
Alignment explanation
Indices: 29166058--29166168 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 52
29166048 ATTGAAATGG
*
29166058 TGAAAATGGAGAAATGAGAAATATTTGAAAATGATGATGGTTTTCTCAAAAA
1 TGAAAATGGAGAAATGAGAAATATTTGAAAATGATGATGATTTTCTCAAAAA
* * *
29166110 TGAAATTGGAGAAAT-AG-AATCATTTGGAAATGAATG-TGATTTTCTCCAAAA
1 TGAAAATGGAGAAATGAGAAAT-ATTTGAAAATG-ATGATGATTTTCTCAAAAA
29166161 TGAAAATG
1 TGAAAATG
29166169 ACCTAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
50 3 0.06
51 32 0.62
52 17 0.33
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (52 bp):
TGAAAATGGAGAAATGAGAAATATTTGAAAATGATGATGATTTTCTCAAAAA
Found at i:29168085 original size:7 final size:7
Alignment explanation
Indices: 29168073--29168102 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
29168063 TGATACAAGG
29168073 AAGAAGA
1 AAGAAGA
29168080 AAGAAGA
1 AAGAAGA
*
29168087 GAGAAGA
1 AAGAAGA
29168094 AAGAAGA
1 AAGAAGA
29168101 AA
1 AA
29168103 AATTGAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:29170990 original size:22 final size:22
Alignment explanation
Indices: 29170965--29171011 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
29170955 AGCGAACAAG
29170965 TAAGAATCCCAAACTCTGGGTA
1 TAAGAATCCCAAACTCTGGGTA
29170987 TAAGAATCCCAAACTCTGGGTA
1 TAAGAATCCCAAACTCTGGGTA
29171009 TAA
1 TAA
29171012 TATTAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (22 bp):
TAAGAATCCCAAACTCTGGGTA
Found at i:29177329 original size:42 final size:42
Alignment explanation
Indices: 29177282--29177363 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
29177272 AATATTTTAT
*
29177282 TTTATCTTTTAGTAGTTTATTAGAATAAGTGAATTAATTTCC
1 TTTATCTTTTAGTAGTTTATTAGAATAAGGGAATTAATTTCC
*
29177324 TTTATCTTTTAGTAGTTTATTAGAATAAGGGAATTTATTT
1 TTTATCTTTTAGTAGTTTATTAGAATAAGGGAATTAATTT
29177364 TCCCAATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTATCTTTTAGTAGTTTATTAGAATAAGGGAATTAATTTCC
Found at i:29183500 original size:22 final size:22
Alignment explanation
Indices: 29183474--29183518 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
29183464 ATTATATGTA
29183474 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
29183496 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
29183518 T
1 T
29183519 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:29191798 original size:25 final size:25
Alignment explanation
Indices: 29191738--29191798 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
29191728 TTCCTAAATT
*
29191738 TTAATTTAATTATCTAATTTTTAAA
1 TTAATTAAATTATCTAATTTTTAAA
* * *
29191763 TTTATTGAATTAT-TAATATTTTATA
1 TTAATTAAATTATCTAAT-TTTTAAA
29191788 TTAATTAAATT
1 TTAATTAAATT
29191799 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTAAA
Found at i:29197379 original size:26 final size:26
Alignment explanation
Indices: 29197347--29197399 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29197337 TTGTTAGAAG
29197347 ATAAATTTGGTGCATCACATGTAAGA
1 ATAAATTTGGTGCATCACATGTAAGA
29197373 ATAAATTTGGTGCATCACATGTAAGA
1 ATAAATTTGGTGCATCACATGTAAGA
29197399 A
1 A
29197400 GTACTTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (26 bp):
ATAAATTTGGTGCATCACATGTAAGA
Found at i:29198160 original size:21 final size:21
Alignment explanation
Indices: 29198122--29198161 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29198112 CACGTACAGT
**
29198122 GGTATCACGATATTCACTTTG
1 GGTATCACGATACCCACTTTG
*
29198143 GGTATCGCGATACCCACTT
1 GGTATCACGATACCCACTT
29198162 GCCCAAGGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (21 bp):
GGTATCACGATACCCACTTTG
Found at i:29212884 original size:47 final size:47
Alignment explanation
Indices: 29212821--29212914 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
29212811 TGGAATTGGT
*
29212821 CAATTGATCCACGATGACCCATATTGAATCCTTCTTAGTGGGTGTTA
1 CAATTGATCCACGATGACCCATATTGAATCCTTCTTAGTAGGTGTTA
* *
29212868 CAATTGATCCATGATGACCCATATTGAATCCTTGTTAGTAGGTGTTA
1 CAATTGATCCACGATGACCCATATTGAATCCTTCTTAGTAGGTGTTA
29212915 AAGGCAACCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (47 bp):
CAATTGATCCACGATGACCCATATTGAATCCTTCTTAGTAGGTGTTA
Found at i:29215609 original size:25 final size:25
Alignment explanation
Indices: 29215557--29215611 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
29215547 TCTGTATAGT
* *
29215557 CTATCTATAGTAGTCTCAGTATATA
1 CTATCTATAGTAGTCTCAGGATAAA
* *
29215582 CTATCTATAGTAGTTTTAGGATAAA
1 CTATCTATAGTAGTCTCAGGATAAA
29215607 CTATC
1 CTATC
29215612 AATGACAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (25 bp):
CTATCTATAGTAGTCTCAGGATAAA
Found at i:29220602 original size:29 final size:31
Alignment explanation
Indices: 29220544--29220602 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
29220534 TTTCAAATTG
* * *
29220544 TATATATCATTTGTACCATATTGTTTATTTA
1 TATATATCATTTATACCATATTATTGATTTA
29220575 TATATAT-ATTTATA-CATATTATTGATTT
1 TATATATCATTTATACCATATTATTGATTT
29220603 TAATTCTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 12 0.48
30 6 0.24
31 7 0.28
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (31 bp):
TATATATCATTTATACCATATTATTGATTTA
Found at i:29222265 original size:96 final size:96
Alignment explanation
Indices: 29222101--29222286 Score: 223
Period size: 96 Copynumber: 1.9 Consensus size: 96
29222091 ATGTCATTTG
* * * * *
29222101 GGTTACAATGTTTCGGGTGTTGGTCTTGAATGTCCTACTGGTGGCTGAGTTCTAGCATGTGTTGC
1 GGTTACAATGTTTCGGGTGCTAGTCTGGAATGTCCTACTGATGGCTGAGGTCTAGCATGTGTTGC
* *
29222166 GGATACTTGACAGCTTGTGTGAGCAAACCTA
66 GGATACTAGACAGATTGTGTGAGCAAACCTA
* * * *
29222197 GGTTACCATGTTTTGGGTGCTAGTCTGGAATGTCCTACTGATGGCTGAGGTC-CG-ATATTAGTT
1 GGTTACAATGTTTCGGGTGCTAGTCTGGAATGTCCTACTGATGGCTGAGGTCTAGCAT-GT-GTT
* *
29222260 GCGGATGCTAGATAGATTGTGTGAGCA
64 GCGGATACTAGACAGATTGTGTGAGCA
29222287 GTATCATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 2 0.03
95 2 0.03
96 71 0.95
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (96 bp):
GGTTACAATGTTTCGGGTGCTAGTCTGGAATGTCCTACTGATGGCTGAGGTCTAGCATGTGTTGC
GGATACTAGACAGATTGTGTGAGCAAACCTA
Found at i:29227987 original size:20 final size:20
Alignment explanation
Indices: 29227954--29228012 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
29227944 AGCTCCACTC
* * *
29227954 AGCTCAAATCAGCTCACTTG
1 AGCTCAATTTAGCTTACTTG
* * *
29227974 AGCTTATTTTAGCTTGCTTG
1 AGCTCAATTTAGCTTACTTG
29227994 AGCTCAATTTAGCTTACTT
1 AGCTCAATTTAGCTTACTT
29228013 TTAGCTCGTC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTG
Found at i:29233296 original size:15 final size:15
Alignment explanation
Indices: 29233276--29233306 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29233266 CCCCAGTCAT
29233276 AGATACAGAAATATC
1 AGATACAGAAATATC
*
29233291 AGATACAGTAATATC
1 AGATACAGAAATATC
29233306 A
1 A
29233307 TGCATAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.23
Consensus pattern (15 bp):
AGATACAGAAATATC
Found at i:29250435 original size:75 final size:75
Alignment explanation
Indices: 29250352--29250498 Score: 251
Period size: 75 Copynumber: 2.0 Consensus size: 75
29250342 ATGGAAATTA
*
29250352 ATATTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTTCA-TTTCTCTTCTCTATTAATAAG
1 ATATTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTTC-CTTCTCTATTAATAAG
29250416 GGAATAATCCT
65 GGAATAATCCT
* *
29250427 ATATTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTTCCTTCTTTTTTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTTCCTTCTCTATTAATAAGG
29250492 GAATAAT
66 GAATAAT
29250499 ATTGGTTTTC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
75 64 0.94
76 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTTCCTTCTCTATTAATAAGG
GAATAATCCT
Found at i:29262377 original size:138 final size:138
Alignment explanation
Indices: 29262224--29262507 Score: 453
Period size: 138 Copynumber: 2.1 Consensus size: 138
29262214 GAGAACATAG
** * *
29262224 ATATAATTAATATATGAATTTGA-TTCTTACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 ATATAATTAATATATGAATTT-ACTTAATACAAAATATTAATTGTATAAATTTTACCAAATTTAT
* *
29262288 TAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTGTT
65 TAACATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
29262353 TTAGAAAGA
130 TTAGAAAGA
* *
29262362 ATATAATTAATATATGAATTTACTTAATGCAAAATATTAATTTTATAAATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTACTTAATACAAAATATTAATTGTATAAATTTTACCAAATTTATT
* *
29262427 AACCTAAACAGTTATATTAATTAATTTCGGTTAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AACATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
*
29262492 TGGAAAGA
131 TAGAAAGA
29262500 ATATAATT
1 ATATAATT
29262508 CATTTTTCTA
Statistics
Matches: 134, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
137 1 0.01
138 133 0.99
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTACTTAATACAAAATATTAATTGTATAAATTTTACCAAATTTATT
AACATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TAGAAAGA
Found at i:29263313 original size:67 final size:67
Alignment explanation
Indices: 29263221--29263352 Score: 246
Period size: 67 Copynumber: 2.0 Consensus size: 67
29263211 GTAACTTTTT
29263221 TCATCATGGTTCGTAAACTATTTTTGGTCCACATTAATTCCAAAACTTAACAATTTTCCCAATTT
1 TCATCATGGTTCGTAAACTATTTTTGGTCCACATTAATTCCAAAACTTAACAATTTTCCCAATTT
29263286 AG
66 AG
* *
29263288 TCATCATGGTTCGTAAACTATTTTTGGTCCACATTAATTTCAAAACTTAACAATTTTCTCAATTT
1 TCATCATGGTTCGTAAACTATTTTTGGTCCACATTAATTCCAAAACTTAACAATTTTCCCAATTT
29263353 GGTCCACGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (67 bp):
TCATCATGGTTCGTAAACTATTTTTGGTCCACATTAATTCCAAAACTTAACAATTTTCCCAATTT
AG
Found at i:29265193 original size:16 final size:16
Alignment explanation
Indices: 29265161--29265190 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29265151 TATTTTGAGA
29265161 TTAAAAATTATATAAT
1 TTAAAAATTATATAAT
29265177 TTAAAAA-TATATAA
1 TTAAAAATTATATAA
29265191 ATTAGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAAATTATATAAT
Found at i:29266944 original size:21 final size:21
Alignment explanation
Indices: 29266918--29266959 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
29266908 TTAAAATGTG
29266918 TATATAAATACATACATATAAAT
1 TATA-AAATACATA-ATATAAAT
*
29266941 TATAAAATAGATAATATAA
1 TATAAAATACATAATATAA
29266960 TCATGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
TATAAAATACATAATATAAAT
Found at i:29268821 original size:175 final size:174
Alignment explanation
Indices: 29268623--29269828 Score: 1889
Period size: 174 Copynumber: 6.9 Consensus size: 174
29268613 CAGTATACTA
* * * * * *
29268623 CACTGCAACCTCAGTGAGATAAGACTTGATGCGAT-TCACTCTACTGCAACTTCAGAGAGATAAG
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCT-ACTCTACTGTAACTTCAGAGAGATAAG
* * * * *
29268687 AT-CTATTACTTTAATCCGCTCCAATATAATCTCAGGGAGATAGGATTACCAGCTTCAATCTGCT
65 ATCCT-TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCT
* *
29268751 CCGCTGTAATCTCAGGGAGATAAGATCTAAAATCTTTCGGTCTGCTC
129 CCGCTGTAATCTCAGGGAGATAAGATCTGAAATC-TTCGGTCTGTTC
* * * *
29268798 CACTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTGCTGTAACTTCAGAGATATAAGA
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
29268863 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
66 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
* *
29268928 GATGTAATCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTGTTC
131 GCTGTAATCTCAGGGAGATAAGATCTGAAA-TCTTCGGTCTGTTC
* *
29268973 CACTGTAATCTCAGGGAAATAAGACTTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
** *
29269038 TCCTTGGTTTTAATCAGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
66 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
* * *
29269103 GCTGTAATCTCAGGGAGATAAGATCTAAAACCTTTGGTCTGTTC
131 GCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGTTC
* * * *
29269147 CACTGTAATCTTAGGGAAATAAGACCTGGTGTGATCTACTCTACTATAACTTCAGAGAGATAAGA
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
*
29269212 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTCTCTTCAATCTGCTCC
66 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
29269277 GCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGTTC
131 GCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGTTC
* * *
29269321 CACTGTAATCTCAGGGAAATAATACCTGACGCGATCTATTCTACTGTAACTTCAGAGAGATAAGA
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
*
29269386 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCATCTTCAATCTGCTCC
66 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
29269451 GCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGTTC
131 GCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGTTC
* * *
29269495 CACTGTAATCTCAGGGAAATAATACCTGACGCGATCTACTCTACTGTAACTTTAGAGAGATAAGA
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
*
29269560 TCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
66 TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
* *
29269625 ACTGTAATCTCAGGGAGATAAGATCCGATGCAATCTTCGGTCTGTTC
131 GCTGTAATCTCAGGGAGATAAGAT-C--TGAAATCTTCGGTCTGTTC
* *
29269672 CACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGA
1 CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
* *
29269737 T-CTTTCATTTTAATCCACTCCACTGTAATCT-AGGGAGATAGGATTACTAACTTCAATCTGCTC
66 TCCTTT-ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTC
*
29269800 CTCTGTAATCTCAGGGAGATAAGATCTGA
130 CGCTGTAATCTCAGGGAGATAAGATCTGA
29269829 CATGATCTAC
Statistics
Matches: 959, Mismatches: 65, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
173 2 0.00
174 489 0.51
175 300 0.31
176 63 0.07
177 105 0.11
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (174 bp):
CACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA
TCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCC
GCTGTAATCTCAGGGAGATAAGATCTGAAATCTTCGGTCTGTTC
Found at i:29269541 original size:130 final size:129
Alignment explanation
Indices: 29269407--29269645 Score: 286
Period size: 130 Copynumber: 1.8 Consensus size: 129
29269397 AATCCGCTCC
* * * * *
29269407 ACTGTAA-TCTCAGGGAGATAGGATTA-CCATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 ACTGTAACT-TCAGAGAGATAAGATCATCCAT-TTCAATCCGCTCCACTGTAATCTCAGGGAGAT
** *
29269470 AAGATCTGA-AATCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAATACCTGACGCGATCTAC
64 AAGAT-T-ACAATCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAATACCTGACGCGATCTAC
29269534 TCT
127 TCT
* ** * *
29269537 ACTGTAACTTTAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAG
1 ACTGTAACTTCAGAGAGATAAGATCATCCATTTCAATCCGCTCCACTGTAATCTCAGGGAGATAA
* *
29269602 GATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
66 GATTACAATCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAA
29269646 GATCCGATGC
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 34 0.37
130 53 0.58
131 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
ACTGTAACTTCAGAGAGATAAGATCATCCATTTCAATCCGCTCCACTGTAATCTCAGGGAGATAA
GATTACAATCTTCAATCTGCTCCACTGTAATCTCAGGGAAATAATACCTGACGCGATCTACTCT
Found at i:29269680 original size:48 final size:44
Alignment explanation
Indices: 29268699--29269998 Score: 493
Period size: 44 Copynumber: 29.8 Consensus size: 44
29268689 CTATTACTTT
* * * * * *
29268699 AATCCGCTCCAATATAATCTCAGGGAGATAGGATTACCAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
* *
29268743 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATCTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TACAATC-TTC
** * * *
29268789 GGTCTGCTCCACTGTAATCTCAGGGAGATAAG---AC-CTGATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAAT-CTTC
* ** * * ** *
29268830 AATCTACTCTGCTGTAA-CTTCAGAGATATAAGATCCT-TTAT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACAATCTTC
* * *
29268874 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
*
29268918 AATCTGCTCCGA-TGTAATCTCAAGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCC-ACTGTAATCTCAGGGAGATAAGAT-T-ACAA-TCTTC
** * * ** *
29268964 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGACTT----GGTGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTACAATCTTC
* * * * ** * *
29269005 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-CCTTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTACAAT--CTTC
* * *
29269049 AATCAGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
* * * *
29269093 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAAACCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-TACAATCTTC
** * * * * *
29269138 GGTCTGTTCCACTGTAATCTTAGGGAAATAAG---AC-CTGGTGT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAAT-CT-TC
* * * * * ** *
29269179 GATCTACTCTACTATAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACAATCTTC
* * **
29269223 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTCTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
*
29269267 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACAATCTTC
** * * * *
29269312 GGTCTGTTCCACTGTAATCTCAGGGAAAT-A-A-TAC-CTGAC-GC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAAT--CTTC
* ** * * ** *
29269353 GATCTATTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACAATCTTC
* * *
29269397 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
*
29269441 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACAATCTTC
** * * * *
29269486 GGTCTGTTCCACTGTAATCTCAGGGAAAT-A-A-TAC-CTGAC-GC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAAT--CTTC
* * * * * * ** *
29269527 GATCTACTCTACTGTAA-CTTTAGAGAGATAAGATCATTTAT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTA-CAATCTTC
* * *
29269571 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
*
29269615 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCGATGCAATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT----TACAATCTTC
** * * * * *
29269663 GGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CCTGA-C-GC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAC-AATCTTC
* * ** * * *
29269704 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCTTTC-AT-TTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGA--TTACAATCTTC
** *
29269748 AATCCACTCCACTGTAATCT-AGGGAGATAGGATTACTAA-CTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAC-AATCTTC
*
29269791 AATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAC-A---T-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACAATCTTC
* * * * * * ** *
29269832 GATCTACTCTACTATAATTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT--TACAATCTTC
* * * *
29269876 AATCTGCTCCACTGCAATCTCAAGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
*
29269920 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACAA-TCTTC
* * * *
29269966 AGTTTGTTCCACTGTAATCTCAGGGAAATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
29269999 CCTGACGCGA
Statistics
Matches: 925, Mismatches: 230, Indels: 200
0.68 0.17 0.15
Matches are distributed among these distances:
39 1 0.00
40 10 0.01
41 179 0.19
42 15 0.02
43 51 0.06
44 409 0.44
45 112 0.12
46 110 0.12
47 1 0.00
48 37 0.04
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTC
Found at i:29269957 original size:129 final size:129
Alignment explanation
Indices: 29269615--29269957 Score: 456
Period size: 128 Copynumber: 2.6 Consensus size: 129
29269605 TACTATCTTC
* * * * *
29269615 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCGATGCAATCTTCGGTCTGTTCCACTGTAA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT----TACTATCTTCGATCTGCTCCACTGTAA
* * * * *
29269680 TCTCAGGGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTCAT
62 TCTCAGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCTTTCAT
29269745 TTT
127 TTT
** * * *
29269748 AATCCACTCCACTGTAATCT-AGGGAGATAGGATTACTAACTTCAATCTGCTCCTCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCACTGTAATCTC
* *
29269812 AGGGAGATAAGATCTGACATGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTT-ATTTT
66 AGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGAT-CTTTCATTTT
* *
29269876 AATCTGCTCCACTGCAATCTCAAGGAGATAGGATTACTATCTTCGATCTGCTCCACTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCACTGTAATCTC
29269941 AGGGAGATAAGATCTGA
66 AGGGAGATAAGATCTGA
29269958 AATTCTTCAG
Statistics
Matches: 184, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
128 93 0.51
129 61 0.33
132 12 0.07
133 18 0.10
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (129 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCGATCTGCTCCACTGTAATCTC
AGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCTTTCATTTT
Found at i:29270168 original size:87 final size:87
Alignment explanation
Indices: 29270045--29270390 Score: 388
Period size: 87 Copynumber: 4.0 Consensus size: 87
29270035 TAAGATCCTT
* * * * * * * * * * *
29270045 TCTTCAATCAGCTTCATTGCAACCAATAGAGGCAAGGCTTTGTTTTCGATCTACTTTGTTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
29270110 CGCAGGAAGGCAAGATCTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
*
29270132 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGTTTTGTTTTCAATCTGCTTCGCTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
* * *
29270197 CGCAAGAATGCTAGATCTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
29270219 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
*
29270284 CGCAGGAAGGCCAGATCTGCTA
66 CGCAGGAAGGCAAGATCTGCTA
* * ** ** * * * * * * *
29270306 TCTTTAACCAGTTCCACCGCAACCGATGAAGACAAAGC-TTGTATCTTCGATCTGTTTCACTATC
1 TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGT-T-TTCAATCTGCTTCGCTGTT
* *
29270370 AAGGCAGGACGGCAAGATCTG
64 AACGCAGGAAGGCAAGATCTG
29270391 TTGTCTTTGA
Statistics
Matches: 222, Mismatches: 35, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
86 4 0.02
87 186 0.84
88 32 0.14
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (87 bp):
TCTTCAATCAACTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCAATCTGCTTCGCTGTTAA
CGCAGGAAGGCAAGATCTGCTA
Found at i:29271645 original size:7 final size:7
Alignment explanation
Indices: 29271633--29271685 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
29271623 TTAGCCTCTC
29271633 CATTTTT
1 CATTTTT
29271640 CA-TTTT
1 CATTTTT
29271646 CA-TTTT
1 CATTTTT
29271652 CATTTTT
1 CATTTTT
29271659 CATTTTT
1 CATTTTT
*
29271666 CA-TTCT
1 CATTTTT
29271672 CATTTTT
1 CATTTTT
29271679 CATTTTT
1 CATTTTT
29271686 TTTGACTCAG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 17 0.40
7 25 0.60
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:29271647 original size:6 final size:6
Alignment explanation
Indices: 29271636--29271684 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
29271626 GCCTCTCCAT
*
29271636 TTTTCA TTTTCA TTTTCA TTTTTCA TTTTTCA TTCTCA TTTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA -TTTTCA -TTTTCA TTTTCA -TTTTCA TTTT
29271685 TTTTGACTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 21 0.54
7 18 0.46
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:29271651 original size:13 final size:13
Alignment explanation
Indices: 29271633--29271684 Score: 79
Period size: 13 Copynumber: 4.0 Consensus size: 13
29271623 TTAGCCTCTC
29271633 CATTTTTCATTTT
1 CATTTTTCATTTT
29271646 CA-TTTTCATTTTT
1 CATTTTTCA-TTTT
*
29271659 CATTTTTCATTCT
1 CATTTTTCATTTT
29271672 CATTTTTCATTTT
1 CATTTTTCATTTT
29271685 TTTTGACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 6 0.17
13 23 0.66
14 6 0.17
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.67
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:29271665 original size:20 final size:20
Alignment explanation
Indices: 29271633--29271685 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
29271623 TTAGCCTCTC
*
29271633 CATTTTTCA-TTTTCATTTT
1 CATTTTTCATTTTTCATTCT
29271652 CATTTTTCATTTTTCATTCT
1 CATTTTTCATTTTTCATTCT
29271672 CATTTTTCATTTTT
1 CATTTTTCATTTTT
29271686 TTTGACTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 9 0.28
20 23 0.72
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTTTTCATTCT
Found at i:29272576 original size:6 final size:6
Alignment explanation
Indices: 29272567--29272606 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
29272557 TTTTTGATTT
* * *
29272567 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
29272607 TCTTTCCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:29276284 original size:21 final size:21
Alignment explanation
Indices: 29276258--29276299 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
29276248 TTAAAATGTG
29276258 TATATAAATACATACATATAAAT
1 TATA-AAATACATA-ATATAAAT
*
29276281 TATAAAATAGATAATATAA
1 TATAAAATACATAATATAA
29276300 TCATGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (21 bp):
TATAAAATACATAATATAAAT
Found at i:29278058 original size:42 final size:44
Alignment explanation
Indices: 29278012--29278096 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 44
29278002 CTAGTGTCAT
*
29278012 ATCATCATATTCTAACAACATTATAAAAA-AA-ATTAAAATGTG
1 ATCATCATATTCTAACAACATTATAAAAAGAATATCAAAATGTG
**
29278054 ATCATCATATTCTAACGGCATTATAAAAAGAATATCAAAATGT
1 ATCATCATATTCTAACAACATTATAAAAAGAATATCAAAATGT
29278097 ATTATGGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 27 0.71
43 2 0.05
44 9 0.24
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (44 bp):
ATCATCATATTCTAACAACATTATAAAAAGAATATCAAAATGTG
Found at i:29279916 original size:40 final size:41
Alignment explanation
Indices: 29279865--29279963 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
29279855 TTTGAATACT
* *
29279865 TGAAAAGGTTGAAAAGGA-AATAT-CTAAAAAGGATATTGAA
1 TGAAAAGGTTGAAAAGGACAATATCCAAAAAAGGATA-TCAA
* *
29279905 TGAAAATGTTGAAAAGGACATTATCCAAAAAAGGATATCAA
1 TGAAAAGGTTGAAAAGGACAATATCCAAAAAAGGATATCAA
*
29279946 TGAAAAGGTCGAAAAGGA
1 TGAAAAGGTTGAAAAGGA
29279964 TAGCAATGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 17 0.33
41 23 0.45
42 11 0.22
ACGTcount: A:0.52, C:0.06, G:0.22, T:0.20
Consensus pattern (41 bp):
TGAAAAGGTTGAAAAGGACAATATCCAAAAAAGGATATCAA
Found at i:29287908 original size:14 final size:16
Alignment explanation
Indices: 29287873--29287910 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
29287863 GCTTGATTAA
29287873 ATATATGTGTTACATG
1 ATATATGTGTTACATG
*
29287889 ATATATGT-TTGCATG
1 ATATATGTGTTACATG
29287904 A-ATATGT
1 ATATATGT
29287911 AAAGGCTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 7 0.33
16 8 0.38
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (16 bp):
ATATATGTGTTACATG
Found at i:29294584 original size:185 final size:185
Alignment explanation
Indices: 29294266--29294635 Score: 569
Period size: 185 Copynumber: 2.0 Consensus size: 185
29294256 ACTTTGGTAA
* * **
29294266 GTTGGCATTTGACAACATACATCGAACCTTCTCCATGATCATTCTGTTCATTCGTTCTGGAATGC
1 GTTGGCATTTGACAACATACATCGAACCTTCTCCATGATCATTCTGTACATTCGTTCTGCAACAC
*
29294331 CATTTTGCTGTGGAGTATGACGAACTATCAAGTGTCTCAAAATCCCTTCTGACTTACACAGATTA
66 CATTTTGCTGTGGAGTATGACGAACTATCAAGTGTCTCAAAATCCCTTCTAACTTACACAGATTA
* * *
29294396 TTAAACTCATTAGAATAGAACTCTAAGCAATTACCTGTGCGGAGGTATTTTATTT
131 TTAAACTCATCAGAACAGAACTCTAAGCAATTACCTATGCGGAGGTATTTTATTT
* *
29294451 GTTGGCATTTGACAACATACATTGAACCTTCTCCATGATCGTTCTGTACATTCGTTCTGCAACAC
1 GTTGGCATTTGACAACATACATCGAACCTTCTCCATGATCATTCTGTACATTCGTTCTGCAACAC
* * ** * *
29294516 CGTTTTGCTGTGGAGTATGACGAACTGTCAAGTGTCTCACGATCCCTTCTAACTTGCACAGTTTA
66 CATTTTGCTGTGGAGTATGACGAACTATCAAGTGTCTCAAAATCCCTTCTAACTTACACAGATTA
* **
29294581 TTAAACTCATCAGAACAGAACTCTAAGCCATTGTCTATGCGGAGGTATTTTATTT
131 TTAAACTCATCAGAACAGAACTCTAAGCAATTACCTATGCGGAGGTATTTTATTT
29294636 CTTTTCCCAT
Statistics
Matches: 166, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
185 166 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (185 bp):
GTTGGCATTTGACAACATACATCGAACCTTCTCCATGATCATTCTGTACATTCGTTCTGCAACAC
CATTTTGCTGTGGAGTATGACGAACTATCAAGTGTCTCAAAATCCCTTCTAACTTACACAGATTA
TTAAACTCATCAGAACAGAACTCTAAGCAATTACCTATGCGGAGGTATTTTATTT
Found at i:29297252 original size:18 final size:19
Alignment explanation
Indices: 29297231--29297273 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
29297221 AAATCTTGAA
* *
29297231 AATTTTATAAA-TATTTTG
1 AATTTTAAAAATTACTTTG
29297249 AATTTTAAAAATTACTTTG
1 AATTTTAAAAATTACTTTG
29297268 AATTTT
1 AATTTT
29297274 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
AATTTTAAAAATTACTTTG
Found at i:29298247 original size:11 final size:11
Alignment explanation
Indices: 29298228--29298258 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29298218 AAATTATTAG
*
29298228 AAATCATAAAA
1 AAATTATAAAA
29298239 AAATTATAAAA
1 AAATTATAAAA
29298250 AAATTATAA
1 AAATTATAA
29298259 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATTATAAAA
Found at i:29300407 original size:10 final size:9
Alignment explanation
Indices: 29300379--29300408 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
29300369 TTATTAATTT
29300379 AAAATTTTA
1 AAAATTTTA
29300388 AAAATTTTA
1 AAAATTTTA
29300397 AAAATTCTTA
1 AAAATT-TTA
29300407 AA
1 AA
29300409 TGGAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATTTTA
Found at i:29303223 original size:21 final size:21
Alignment explanation
Indices: 29303199--29303248 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
29303189 CCCAAGTAGA
*
29303199 GGGAGAAGGGATAATAGAAGG
1 GGGAGAAGGGACAATAGAAGG
29303220 GGGAGAAGGGACAATAGAAGG
1 GGGAGAAGGGACAATAGAAGG
29303241 GGGAGAAG
1 GGGAGAAG
29303249 AGAGAGATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.02, G:0.50, T:0.06
Consensus pattern (21 bp):
GGGAGAAGGGACAATAGAAGG
Found at i:29305184 original size:16 final size:17
Alignment explanation
Indices: 29305165--29305205 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
29305155 AGGAGATATC
29305165 AATTTAATTTAAAT-CA
1 AATTTAATTTAAATACA
*
29305181 AATTTTA-TTAAATACA
1 AATTTAATTTAAATACA
29305197 ATATTTAAT
1 A-ATTTAAT
29305206 AAATTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.30
16 9 0.45
17 5 0.25
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAATTTAAATACA
Found at i:29313124 original size:29 final size:28
Alignment explanation
Indices: 29313072--29313170 Score: 155
Period size: 28 Copynumber: 3.5 Consensus size: 28
29313062 AAAAATAAAA
* *
29313072 ATTTACAAAAATATTACAAATTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
29313100 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
29313128 ATTTACCAAAATATATA-AACTTTTTTTTT
1 ATTTACCAAAATAT-TACAAC-TTTTTTTT
29313157 ATTTACCAAAATAT
1 ATTTACCAAAATAT
29313171 ATCAAAAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
28 43 0.64
29 24 0.36
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:29313250 original size:27 final size:27
Alignment explanation
Indices: 29313212--29313295 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
29313202 CCTGATCACC
29313212 CCAATGCCATTGGCGGCACCAAAGGTG
1 CCAATGCCATTGGCGGCACCAAAGGTG
*
29313239 CCAATGCCATTGGCGGCACCAATGGTG
1 CCAATGCCATTGGCGGCACCAAAGGTG
*
29313266 CCAATGCCATTGGCGGCACC-AATGTG
1 CCAATGCCATTGGCGGCACCAAAGGTG
29313292 CCAA
1 CCAA
29313296 AGGACTAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 8 0.15
27 46 0.85
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (27 bp):
CCAATGCCATTGGCGGCACCAAAGGTG
Found at i:29313818 original size:19 final size:18
Alignment explanation
Indices: 29313794--29313854 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
29313784 TCTAATTAAG
29313794 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
29313813 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
* *
29313831 TAATAACTATATTTTAAAT
1 TAATAA-TCTATTTTAATT
29313850 TAATA
1 TAATA
29313855 GAAATATCAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:29313823 original size:18 final size:18
Alignment explanation
Indices: 29313802--29313854 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
29313792 AGTAATAATT
29313802 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
29313820 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
29313837 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
29313855 GAAATATCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:29314381 original size:27 final size:27
Alignment explanation
Indices: 29314345--29314428 Score: 152
Period size: 27 Copynumber: 3.1 Consensus size: 27
29314335 TTTTAGTCCT
29314345 TTGGCA-CATTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
29314371 TTGGCACCATTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
*
29314398 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
29314425 TTGG
1 TTGG
29314429 GGTGATCAGG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
26 6 0.11
27 50 0.89
ACGTcount: A:0.17, C:0.27, G:0.31, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATGGCA
Found at i:29314502 original size:29 final size:28
Alignment explanation
Indices: 29314474--29314553 Score: 112
Period size: 27 Copynumber: 2.9 Consensus size: 28
29314464 ATTTTTTTTA
29314474 GATATATTTTGGTAAATAAAAAAAGTTT
1 GATATATTTTGGTAAATAAAAAAAGTTT
29314502 -ATATATTTTGGTAAATAAAAAAAAAG-TT
1 GATATATTTTGGTAAAT--AAAAAAAGTTT
29314530 G-TAATATTTTGGTAAATAAAAAAA
1 GAT-ATATTTTGGTAAATAAAAAAA
29314554 AAGTTGTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
27 23 0.48
28 3 0.06
29 22 0.46
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.36
Consensus pattern (28 bp):
GATATATTTTGGTAAATAAAAAAAGTTT
Found at i:29314554 original size:29 final size:29
Alignment explanation
Indices: 29314477--29314575 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
29314467 TTTTTTAGAT
29314477 ATATTTTGGTAAAT--AAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
29314503 TATATTTTGGTAAATAAAAAAAAAGTTGTA
1 -ATATTTTGGTAAATAAAAAAAAAGTTGTA
29314533 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAAGTTGTA
*
29314562 ATGTTTTGGTAAAT
1 ATATTTTGGTAAAT
29314576 TTTTATTTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
27 14 0.21
29 52 0.76
30 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.38
Consensus pattern (29 bp):
ATATTTTGGTAAATAAAAAAAAAGTTGTA
Found at i:29318242 original size:13 final size:14
Alignment explanation
Indices: 29318218--29318256 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
29318208 AAGTAGATTT
29318218 GTAAATAAAAAATTC
1 GTAAA-AAAAAATTC
* *
29318233 GTCAAAAAAAATTT
1 GTAAAAAAAAATTC
29318247 GTAAAAAAAA
1 GTAAAAAAAA
29318257 TTGTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (14 bp):
GTAAAAAAAAATTC
Found at i:29318243 original size:14 final size:13
Alignment explanation
Indices: 29318224--29318262 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
29318214 ATTTGTAAAT
29318224 AAAAAATTCGTCAA
1 AAAAAATTCGT-AA
*
29318238 AAAAAATTTGTAA
1 AAAAAATTCGTAA
29318251 AAAAAATT-GTAA
1 AAAAAATTCGTAA
29318263 TTATTGTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.17
13 10 0.42
14 10 0.42
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (13 bp):
AAAAAATTCGTAA
Found at i:29334492 original size:6 final size:6
Alignment explanation
Indices: 29334481--29334509 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
29334471 CAATGGTATT
29334481 ATTATG ATTATG ATTATG ATTATG ATTAT
1 ATTATG ATTATG ATTATG ATTATG ATTAT
29334510 TTTCCTAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTATG
Found at i:29336149 original size:19 final size:19
Alignment explanation
Indices: 29336125--29336162 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
29336115 GACAAACAGT
29336125 TTCTTCTGGTATGAGACTA
1 TTCTTCTGGTATGAGACTA
29336144 TTCTTCTGGTATGAGACTA
1 TTCTTCTGGTATGAGACTA
29336163 ACACATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCTTCTGGTATGAGACTA
Found at i:29342613 original size:18 final size:18
Alignment explanation
Indices: 29342590--29342625 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
29342580 GAAATCACTA
29342590 TTTTTTT-TATTATGATTT
1 TTTTTTTGTATT-TGATTT
29342608 TTTTTTTGTATTTGATTT
1 TTTTTTTGTATTTGATTT
29342626 CTCCCACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTTTTTGTATTTGATTT
Found at i:29343264 original size:44 final size:44
Alignment explanation
Indices: 29343105--29343652 Score: 205
Period size: 44 Copynumber: 12.0 Consensus size: 44
29343095 GCTTCAATCT
* * * *
29343105 TTTGTAGCTTTAATCTGCTTCATTGCAACTTCAGGGAGATAAGA
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGG
* * * * * * * *
29343149 TTTGCTATCTTCAGTCTGCTCCACTACAAATTTAGGGAGATAAGA
1 TTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGG
* * * * * * *
29343194 CTTGCAACTTCAACCTGC-CTCACTGCAACTTCGGGGATATAAGG
1 TTTGTAGCTTTAATCTGCTC-CACTGCAACTTCAGGGAAATAAGG
*
29343238 TTTGTGGCTTTAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAA-ATAAG----G
* * * * *
29343286 TAGCTTGTAGCTTTAGTCTGTTCCATTGGAACTTCAGGGAAATAAGA
1 T---TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGG
* * *
29343333 TTTGTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG----G
* * ** * * *
29343381 CTACCTTATAGCTTTAGTCTATTCCACTGCAACCTCAAGGAGATAAGACTTG
1 -T---TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG----G
** * * * *
29343433 TTATGGTATATTTAATCTGAC-CTACTGTAACCTT-AGAGG-TAT-AGAA
1 TT-T-GTAGCTTTAATCTG-CTCCACTGCAA-CTTCAG-GGAAATAAG-G
** * * * *
29343479 TTCATCGTTTTAATCCGCTCCACTGCAACTTCCA-GGAGAT-AGG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTT-CAGGGAAATAAGG
* * * * *
29343522 ATTAGTAGCTTCAATCTGCTCCACTGTAACTTC-GGGAGATAAGA
1 -TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGG
* * * * * *
29343566 TTGGTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGG
* * * *
29343610 TTAGTAGCTTTAATATGCTCCACTGCAACTTCAGAGAGATAAG
1 TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAG
29343653 ATTGGTTTAT
Statistics
Matches: 381, Mismatches: 90, Indels: 66
0.71 0.17 0.12
Matches are distributed among these distances:
43 45 0.12
44 189 0.50
45 37 0.10
46 2 0.01
47 1 0.00
48 3 0.01
49 4 0.01
50 19 0.05
51 37 0.10
52 44 0.12
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGG
Found at i:29343323 original size:51 final size:51
Alignment explanation
Indices: 29343239--29343433 Score: 163
Period size: 52 Copynumber: 3.9 Consensus size: 51
29343229 GATATAAGGT
*
29343239 TTGTGGCTTTAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGTAGC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTGTAGC
* * * *
29343290 TTGTAGCTTTAGTCTGTTCCATTGGAACTTCAGGGAAATAAGA----T---
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGC
* * * *
29343334 TTGTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGCTACC
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG-TAGC
* * ** * * * *
29343386 TTATAGCTTTAGTCTATTCCACTGCAACCTCAAGGAGATAAGACTTGT
1 TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGT
29343434 TATGGTATAT
Statistics
Matches: 116, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
44 36 0.31
47 1 0.01
49 1 0.01
51 34 0.29
52 44 0.38
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGC
Found at i:29343343 original size:95 final size:96
Alignment explanation
Indices: 29343214--29343433 Score: 289
Period size: 95 Copynumber: 2.3 Consensus size: 96
29343204 CAACCTGCCT
* * * * *
29343214 CACTGCAACTTCGGGGATATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGAAGATA
1 CACTGCAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGAAGATA
* * *
29343279 AGATTTG-TAGCTTGTAGCTTTAGTCTGTTC
66 AGATTTGCTACCTTATAGCTTTAGTCTATTC
* * * *
29343309 CATTGGAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATA
1 CACTGCAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGAAGATA
29343374 AGATTTGCTACCTTATAGCTTTAGTCTATTC
66 AGATTTGCTACCTTATAGCTTTAGTCTATTC
* * * *
29343405 CACTGCAACCTCAAGGAGATAAGACTTGT
1 CACTGCAACTTCAGGGAAATAAGATTTGT
29343434 TATGGTATAT
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 63 0.59
96 43 0.41
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (96 bp):
CACTGCAACTTCAGGGAAATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGAAGATA
AGATTTGCTACCTTATAGCTTTAGTCTATTC
Found at i:29343685 original size:46 final size:43
Alignment explanation
Indices: 29343486--29343698 Score: 189
Period size: 44 Copynumber: 4.8 Consensus size: 43
29343476 GAATTCATCG
* *
29343486 TTTTAATCC-GCTCCACTGCAACTTCCAG-GAGATAGGATTAGTA
1 TTTTAA-CCTGCTCCACTGCAACTT-CAGAGAGATAAGATTGGTA
* * * * *
29343529 GCTTCAATCTGCTCCACTGTAACTTC-GGGAGATAAGATTGGTA
1 -TTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGTA
* * *
29343572 TCTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTAGTA
1 T-TTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGTA
* **
29343616 GCTTTAATATGCTCCACTGCAACTTCAGAGAGATAAGATTGGTTTA
1 -TTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTGG--TA
* * *
29343662 TTTGTAACCTGTTCCACTACAACTTCAAAGAGATAAG
1 TTT-TAACCTGCTCCACTGCAACTTCAGAGAGATAAG
29343699 GTTCGATATG
Statistics
Matches: 137, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.01
43 37 0.27
44 67 0.49
45 2 0.01
46 30 0.22
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
TTTTAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTGGTA
Found at i:29343695 original size:90 final size:87
Alignment explanation
Indices: 29343495--29343701 Score: 265
Period size: 87 Copynumber: 2.3 Consensus size: 87
29343485 GTTTTAATCC
* * * * *
29343495 GCTCCACTGCAACTTCCAGGAGAT-AGGATTAGTAGCTTCAATCTGCTCCACTGTAACTTCGGGA
1 GCTCCACTGCAACTTCAAAGAGATAAGG-TTAGTAGCTTCAATATGCTCCACTGCAACTTCGAGA
29343559 GATAAGATTGGTATCTTCAACCT
65 GATAAGATTGGTATCTTCAACCT
* *
29343582 GCTCCACTGCAACTTCAGAGAGATAAGGTTAGTAGCTTTAATATGCTCCACTGCAACTTCAGAGA
1 GCTCCACTGCAACTTCAAAGAGATAAGGTTAGTAGCTTCAATATGCTCCACTGCAACTTC-GAGA
*
29343647 GATAAGATTGGTTTAT-TTGTAACCT
65 GATAAGATTGG--TATCTT-CAACCT
* *
29343672 GTTCCACTACAACTTCAAAGAGATAAGGTT
1 GCTCCACTGCAACTTCAAAGAGATAAGGTT
29343702 CGATATGATC
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
87 50 0.48
88 17 0.16
89 2 0.02
90 35 0.34
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (87 bp):
GCTCCACTGCAACTTCAAAGAGATAAGGTTAGTAGCTTCAATATGCTCCACTGCAACTTCGAGAG
ATAAGATTGGTATCTTCAACCT
Found at i:29343931 original size:181 final size:182
Alignment explanation
Indices: 29343628--29344062 Score: 505
Period size: 181 Copynumber: 2.4 Consensus size: 182
29343618 TTTAATATGC
* * * * * ** * * **
29343628 TCCACTGCAACTTCAGAGAGATAAGA-TTGGTTTATTTGTAACCTGTTCCACTACAACTTCAAAG
1 TCCACTACAACTTCAGGGAGATAAGACTT-GTTAACTT-CAACCTACTCCACTGCAACTCCAGGG
* * *
29343692 AGATAAGGTTCGATATGATCTACTCTACTACAAATTTAGAAAGATAAAATTTGCAATTTATAGCT
64 AGATAAGGTTCGATATGATCTACTCTACTACAAATTCAGAAAGATAAAATCTGCAATTTATAGAT
** * *
29343757 TCAATCTGTTCCGCTGCAACTTCAGGGAAATAAAATTCACTATCTTCAGTCTGC
129 TCAATCCATTCCACTGCAACTTCAGGGAAATAAAATTCACTATCTTCAGTCTGA
** *
29343811 TCCACTGTAACTTTAGGGAGATAAGACTTG-TAACTTCAACCTACTCCACTGCAACTCCAGGGAG
1 TCCACTACAACTTCAGGGAGATAAGACTTGTTAACTTCAACCTACTCCACTGCAACTCCAGGGAG
* * * * * * * *
29343875 ATAAGGTTTGCTATGATTTGCTCTATTGCAAATTCAGAGAGATAAGATCTGCAATTTATAGATTC
66 ATAAGGTTCGATATGATCTACTCTACTACAAATTCAGAAAGATAAAATCTGCAATTTATAGATTC
* * *
29343940 AATCCATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTTGA
131 AATCCATTCCACTGCAACTTCAGGGAAATAAAATTCACTATCTTCAGTCTGA
* ** * *
29343992 TCCACTACAACTTCAGGGAGATAAGACTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAGATAAGACTTGTTAACTTCAACCTACTCCACTGCAACTCCAGGGAG
29344057 ATAAGG
66 ATAAGG
29344063 CTAATGGCTT
Statistics
Matches: 212, Mismatches: 38, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
181 147 0.69
182 39 0.18
183 24 0.11
184 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (182 bp):
TCCACTACAACTTCAGGGAGATAAGACTTGTTAACTTCAACCTACTCCACTGCAACTCCAGGGAG
ATAAGGTTCGATATGATCTACTCTACTACAAATTCAGAAAGATAAAATCTGCAATTTATAGATTC
AATCCATTCCACTGCAACTTCAGGGAAATAAAATTCACTATCTTCAGTCTGA
Found at i:29344016 original size:45 final size:45
Alignment explanation
Indices: 29343755--29344061 Score: 175
Period size: 45 Copynumber: 6.8 Consensus size: 45
29343745 CAATTTATAG
* * * * * *
29343755 CTTCAATCTGTTCCGCTGCAACTTCAGGGAAATAA-AATTCACTAT
1 CTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGACTT-GCTAT
* * * *
29343800 CTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTG-TAA
1 CTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGACTTGCTAT
** * **
29343844 CTTCAACCT-ACTCCACTGCAACTCCAGGGAGATAAGGTTTGCTA-
1 CTTCAGTCTGA-TCCACTGCAACTTCAGGGAGATAAGACTTGCTAT
* * * * * * * *
29343888 --TGA-TTTGCTCTATTGCAAATTCAGAGAGATAAGA-TCTGCAAT
1 CTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGACT-TGCTAT
* * *
29343930 -TTATAGATTCAATCCATTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTAT
1 CTT-CAG--TC--T-GA-TCCACTGCAACTTCAGGGAGATAAGACTT-GCTAT
* * *
29343981 CTTCAGTTTGATCCACTACAACTTCAGGGAGATAAGACTTGTTAT
1 CTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGACTTGCTAT
*
29344026 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAG
29344062 GCTAATGGCT
Statistics
Matches: 197, Mismatches: 47, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
40 1 0.01
41 25 0.13
42 2 0.01
43 1 0.01
44 35 0.18
45 92 0.47
46 6 0.03
47 2 0.01
49 2 0.01
50 1 0.01
51 28 0.14
52 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAGTCTGATCCACTGCAACTTCAGGGAGATAAGACTTGCTAT
Found at i:29345003 original size:23 final size:22
Alignment explanation
Indices: 29344977--29345027 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
29344967 TGGCCTCTCC
*
29344977 TTTTTCCTTTCCTTTTCTCTTTT
1 TTTTTCCTTTCCTTTTCT-TTTG
** *
29345000 TTTTTGTTTTTCTTTTCTTTTG
1 TTTTTCCTTTCCTTTTCTTTTG
29345022 TTTTTC
1 TTTTTC
29345028 GTTTTTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTCCTTTCCTTTTCTTTTG
Found at i:29345015 original size:16 final size:16
Alignment explanation
Indices: 29344989--29345035 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
29344979 TTTCCTTTCC
29344989 TTTTCTCTTTTTTTTTG
1 TTTT-TCTTTTTTTTTG
*
29345006 TTTTTCTTTTCTTTTG
1 TTTTTCTTTTTTTTTG
29345022 TTTTTCGTTTTTTT
1 TTTTTC-TTTTTTT
29345036 AAAAGTGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTG
Found at i:29345031 original size:23 final size:23
Alignment explanation
Indices: 29344988--29345033 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
29344978 TTTTCCTTTC
*
29344988 CTTTTCTCTTTTTTTTTGTTTTT
1 CTTTTCTCTTTTTTTTCGTTTTT
29345011 CTTTTCT-TTTGTTTTTCGTTTTT
1 CTTTTCTCTTT-TTTTTCGTTTTT
29345034 TTAAAAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (23 bp):
CTTTTCTCTTTTTTTTCGTTTTT
Found at i:29345709 original size:20 final size:20
Alignment explanation
Indices: 29345684--29345723 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
29345674 ATGGATTCCA
29345684 TTGATTCTTTGTAAGGTAGG
1 TTGATTCTTTGTAAGGTAGG
29345704 TTGATTCTTTGTAAGGTAGG
1 TTGATTCTTTGTAAGGTAGG
29345724 ATCTGTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (20 bp):
TTGATTCTTTGTAAGGTAGG
Found at i:29349437 original size:16 final size:17
Alignment explanation
Indices: 29349413--29349446 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
29349403 TTACATTGTT
29349413 TATTATTTCTCT-TTGC
1 TATTATTTCTCTGTTGC
*
29349429 TATTGTTTCTCTGTTGC
1 TATTATTTCTCTGTTGC
29349446 T
1 T
29349447 GCTTTGCGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.09, C:0.18, G:0.12, T:0.62
Consensus pattern (17 bp):
TATTATTTCTCTGTTGC
Found at i:29355444 original size:14 final size:15
Alignment explanation
Indices: 29355420--29355457 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
29355410 AAAAAGGCAA
29355420 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
29355435 GAAG-AGGAAAAGA-
1 GAAGAAGGAAAAGAG
29355448 GAACGAAGGA
1 GAA-GAAGGA
29355458 GGTGAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.58, C:0.03, G:0.39, T:0.00
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:29356707 original size:20 final size:21
Alignment explanation
Indices: 29356676--29356714 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29356666 TTTATGGTTT
29356676 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTTGGGTAAAAA
*
29356697 TAAAT-ATTTTTGGTTAAA
1 TAAATAATTTTTGGGTAAA
29356715 TTGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTTGGGTAAAAA
Found at i:29376968 original size:18 final size:20
Alignment explanation
Indices: 29376928--29376975 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
29376918 AGAGAAGAAA
*
29376928 AGAGGAGAGGATTTTTGGAG
1 AGAGAAGAGGATTTTTGGAG
29376948 AGAGAAGAGGATTTTTGGAG
1 AGAGAAGAGGATTTTTGGAG
29376968 AGAGAAGA
1 AGAGAAGA
29376976 ATTGGAGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.21
Consensus pattern (20 bp):
AGAGAAGAGGATTTTTGGAG
Found at i:29379527 original size:10 final size:10
Alignment explanation
Indices: 29379512--29379538 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
29379502 GGCTAGATGG
29379512 GTTAGACCTA
1 GTTAGACCTA
29379522 GTTAGACCTA
1 GTTAGACCTA
29379532 GTTAGAC
1 GTTAGAC
29379539 TTAGACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (10 bp):
GTTAGACCTA
Found at i:29382836 original size:22 final size:22
Alignment explanation
Indices: 29382783--29382836 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
29382773 TACAGAAACG
*
29382783 GAAG-AAATAAGAAGGAAGGAA
1 GAAGAAAAAAAGAAGGAAGGAA
* *
29382804 GCAGAAGAAAAGAAGGAAGGAA
1 GAAGAAAAAAAGAAGGAAGGAA
29382826 -AAGAATAAAAA
1 GAAGAA-AAAAA
29382837 AATAAGGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.04
Consensus pattern (22 bp):
GAAGAAAAAAAGAAGGAAGGAA
Found at i:29386179 original size:6 final size:6
Alignment explanation
Indices: 29386165--29386211 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
29386155 AGAATGTAGT
*
29386165 TCTGTC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGG
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGG
29386212 TGCATGATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (6 bp):
TCTGGC
Found at i:29387864 original size:16 final size:15
Alignment explanation
Indices: 29387833--29387874 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
29387823 ACAAAATCAA
*
29387833 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
29387848 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
29387864 ATAAAAATTAA
1 ATAAAAGTTAA
29387875 ATGAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:29387954 original size:38 final size:39
Alignment explanation
Indices: 29387911--29387993 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 39
29387901 AAAAAGTCAG
29387911 TTATAATTAAACTTTTAATAAAATGATTTTTAA-TTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
*
29387949 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
29387988 TTATAA
1 TTATAA
29387994 ACTTTATATG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 32 0.74
39 11 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (39 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTTT
Found at i:29388177 original size:8 final size:8
Alignment explanation
Indices: 29388164--29388324 Score: 53
Period size: 8 Copynumber: 19.4 Consensus size: 8
29388154 CATACAAAAA
29388164 ATTACAAT
1 ATTACAAT
29388172 ATTACAAT
1 ATTACAAT
* * *
29388180 ATATCCCGAC
1 AT-T-ACAAT
29388190 ATTACAAT
1 ATTACAAT
*
29388198 ATTCATACAAA
1 A-T--TACAAT
29388209 ATTACAAT
1 ATTACAAT
29388217 ATTACAAT
1 ATTACAAT
29388225 ATT-C-AT
1 ATTACAAT
* * *
29388231 A-CAAAAA
1 ATTACAAT
*
29388238 ATTGCAAT
1 ATTACAAT
*
29388246 ATTCATACAAA
1 A-T--TACAAT
*
29388257 ATTAAAAT
1 ATTACAAT
29388265 ATTACAAT
1 ATTACAAT
29388273 ATT-C-AT
1 ATTACAAT
** * *
29388279 ACAAAAAA
1 ATTACAAT
29388287 ATTACAAT
1 ATTACAAT
*
29388295 ATTCATACAAA
1 A-T--TACAAT
29388306 ATTACAAT
1 ATTACAAT
29388314 ATTACAAT
1 ATTACAAT
29388322 ATT
1 ATT
29388325 CATACAAAAA
Statistics
Matches: 107, Mismatches: 30, Indels: 32
0.63 0.18 0.19
Matches are distributed among these distances:
6 6 0.06
7 4 0.04
8 68 0.64
9 5 0.05
10 7 0.07
11 17 0.16
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (8 bp):
ATTACAAT
Found at i:29388214 original size:19 final size:19
Alignment explanation
Indices: 29388211--29388567 Score: 212
Period size: 19 Copynumber: 19.5 Consensus size: 19
29388201 CATACAAAAT
*
29388211 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
29388230 TACAAAAAATTGCAATATTCA
1 TAC--AAAATTACAATATTCA
*
29388251 TACAAAATTAAAATA-T--
1 TACAAAATTACAATATTCA
*
29388267 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
29388282 -AAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
29388300 TACAAAATTACAATA-T--
1 TACAAAATTACAATATTCA
*
29388316 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
29388331 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* *
29388349 TACAAAACTATAATA-T--
1 TACAAAATTACAATATTCA
*
29388365 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
29388380 -AAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
29388398 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
29388417 TACAAAAAATTACAATATTCA
1 TAC--AAAATTACAATATTCA
* *
29388438 TAC-AAATTACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
29388456 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
29388479 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
29388499 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
*
29388518 TAAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
29388537 TACAAAAAAGTTAGAATATTCA
1 TAC--AAAA-TTACAATATTCA
29388559 TACAAAATT
1 TACAAAATT
29388568 CTAATCTAAA
Statistics
Matches: 263, Mismatches: 35, Indels: 80
0.70 0.09 0.21
Matches are distributed among these distances:
14 27 0.10
15 4 0.02
16 32 0.12
17 3 0.01
18 20 0.08
19 93 0.35
20 13 0.05
21 45 0.17
22 19 0.07
23 5 0.02
25 2 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:29388226 original size:27 final size:26
Alignment explanation
Indices: 29388190--29388414 Score: 259
Period size: 27 Copynumber: 9.1 Consensus size: 26
29388180 ATATCCCGAC
29388190 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
29388217 ATTACAATATTCATAC--AA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
29388238 ATTGCAATATTCATACAAAATTAAAAT
1 ATTACAATATTCATACAAAATT-AAAT
29388265 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
29388287 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
29388314 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
29388336 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
29388363 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
29388385 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
29388412 ATT
1 ATT
29388415 CATACAAAAA
Statistics
Matches: 173, Mismatches: 4, Indels: 42
0.79 0.02 0.19
Matches are distributed among these distances:
21 15 0.09
22 49 0.28
23 19 0.11
24 2 0.01
25 5 0.03
26 18 0.10
27 65 0.38
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:29388305 original size:49 final size:49
Alignment explanation
Indices: 29388137--29388414 Score: 413
Period size: 49 Copynumber: 5.7 Consensus size: 49
29388127 AATTAATTAT
*
29388137 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** *
29388185 -CCGACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
29388233 -AAAAAATTGCAATATTCATACAAAATTAAAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
29388281 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
29388330 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
29388379 AAAAAAATTACAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAATTACAATATT
29388415 CATACAAAAA
Statistics
Matches: 207, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
45 20 0.10
46 1 0.00
47 18 0.09
48 43 0.21
49 125 0.60
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:29388509 original size:120 final size:121
Alignment explanation
Indices: 29388363--29388582 Score: 347
Period size: 120 Copynumber: 1.8 Consensus size: 121
29388353 AAACTATAAT
*
29388363 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAATATTCATACAAAAAA-T
1 ATTACAATATTCATAC--AAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAGT
29388427 TACAATATTCATAC-AAATTACTAATCCAAAACTATAAATACAAATTTAATTATAAAATA
64 TACAATATTCATACAAAATT-CTAAT-CAAAACTATAAATACAAATTTAATTATAAAATA
*
29388486 ATTACAATATTCATAC-AACATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAGTTA
1 ATTACAATATTCATACAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAGTTA
* *
29388550 GAATATTCATACAAAATTCTAATCTAAACTATA
66 CAATATTCATACAAAATTCTAATCAAAACTATA
29388583 TACACTAAAT
Statistics
Matches: 91, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
120 51 0.56
121 19 0.21
122 5 0.05
123 16 0.18
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (121 bp):
ATTACAATATTCATACAAAAATTACAATATTCATAAAAAATTACAATATTCATACAAAAAAGTTA
CAATATTCATACAAAATTCTAATCAAAACTATAAATACAAATTTAATTATAAAATA
Found at i:29388554 original size:22 final size:21
Alignment explanation
Indices: 29388401--29388565 Score: 134
Period size: 21 Copynumber: 8.1 Consensus size: 21
29388391 ATATTCATAC
29388401 AAAATTACAATATTCATACAA
1 AAAATTACAATATTCATACAA
29388422 AAAATTACAATATTCATAC--
1 AAAATTACAATATTCATACAA
* * * *
29388441 -AAATTACTA-ATCCAAAACTA
1 AAAATTACAATATTC-ATACAA
* * *
29388461 TAAA-TACAA-ATTTAATTATAA
1 AAAATTACAATA-TTCA-TACAA
29388482 AATAATTACAATATTCATAC--
1 AA-AATTACAATATTCATACAA
*
29388502 AACATTACAATATTCAT--AA
1 AAAATTACAATATTCATACAA
29388521 AAAATTACAATATTCATACAA
1 AAAATTACAATATTCATACAA
*
29388542 AAAAGTTAGAATATTCATACAA
1 AAAA-TTACAATATTCATACAA
29388564 AA
1 AA
29388566 TTCTAATCTA
Statistics
Matches: 115, Mismatches: 15, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.03
18 11 0.10
19 30 0.26
20 8 0.07
21 32 0.28
22 22 0.19
23 8 0.07
24 1 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.30
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:29388651 original size:12 final size:12
Alignment explanation
Indices: 29388634--29388659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29388624 AAAAATTTAC
29388634 AATATCTTCTAA
1 AATATCTTCTAA
29388646 AATATCTTCTAA
1 AATATCTTCTAA
29388658 AA
1 AA
29388660 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:29388977 original size:27 final size:27
Alignment explanation
Indices: 29388902--29388966 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
29388892 AGAAGGCCAC
*
29388902 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCTCTATCAGGCACCTT
29388929 CATTGGCGCCTCTCTATCAGGCACCTT
1 CATTGGCGCCTCTCTATCAGGCACCTT
29388956 CATTGGCGCCT
1 CATTGGCGCCT
29388967 ACCTTATAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.14, C:0.35, G:0.22, T:0.29
Consensus pattern (27 bp):
CATTGGCGCCTCTCTATCAGGCACCTT
Found at i:29391292 original size:31 final size:30
Alignment explanation
Indices: 29391257--29391319 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 30
29391247 TGGTAATTGG
*
29391257 ATTATCAGAATCTATGATTACTTAGCACATT
1 ATTATCAGAATCTATGACTACTTAGCAC-TT
29391288 ATTATCAGAATCTATGACTACTTAGCACTT
1 ATTATCAGAATCTATGACTACTTAGCACTT
29391318 AT
1 AT
29391320 CAATTATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (30 bp):
ATTATCAGAATCTATGACTACTTAGCACTT
Found at i:29393842 original size:50 final size:50
Alignment explanation
Indices: 29393781--29393887 Score: 144
Period size: 50 Copynumber: 2.1 Consensus size: 50
29393771 ACATGAGAGT
* * *
29393781 TCTCATATCGGTGCCCATGCCATGTCTAAGACACGGTCTTACG-GGAGACC
1 TCTCATATCGGTGCCAACGCCATGTCCAAGACACGGTCTTACGTGG-GACC
* * *
29393831 TCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTGCCAACGCCATGTCCAAGACACGGTCTTACGTGGGACC
29393881 TCTCATA
1 TCTCATA
29393888 ACCTCAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
50 47 0.96
51 2 0.04
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TCTCATATCGGTGCCAACGCCATGTCCAAGACACGGTCTTACGTGGGACC
Found at i:29401104 original size:20 final size:20
Alignment explanation
Indices: 29401079--29401116 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29401069 ATAGTGATAA
*
29401079 TTTATTTACTTAGAATTAAT
1 TTTATTTACTAAGAATTAAT
*
29401099 TTTATTTTCTAAGAATTA
1 TTTATTTACTAAGAATTA
29401117 CAGTCTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTATTTACTAAGAATTAAT
Found at i:29406451 original size:20 final size:20
Alignment explanation
Indices: 29406426--29406465 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
29406416 CACCGAATTG
29406426 GTAGCATAAGTTTCCCGAGT
1 GTAGCATAAGTTTCCCGAGT
29406446 GTAGCATAAGTTTCCCGAGT
1 GTAGCATAAGTTTCCCGAGT
29406466 TGCAGCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (20 bp):
GTAGCATAAGTTTCCCGAGT
Found at i:29416244 original size:50 final size:50
Alignment explanation
Indices: 29416139--29416245 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
29416129 TCATTGAGAT
* * * *
29416139 TATGAGAGGTCCCATCTAAGACGATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGGTCCCACCTAAGACCATGTCTGAGACATGGCGATGGCACCGA
* *
29416189 GATGAGAGGTCCC-CCGTAAGACCATGTCTGAGACATGGC-ATGGACACCTA
1 TATGAGAGGTCCCACC-TAAGACCATGTCTGAGACATGGCGATGG-CACCGA
29416239 TATGAGA
1 TATGAGA
29416246 ACTCTCATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 4 0.08
50 44 0.92
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCACCTAAGACCATGTCTGAGACATGGCGATGGCACCGA
Found at i:29418778 original size:20 final size:18
Alignment explanation
Indices: 29418736--29418778 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
29418726 TTGTGGGAAC
* *
29418736 AAAAGCATTGTGAGGGTT
1 AAAAGCATTGCGAGGGAT
29418754 AAAAGCATTGCGAGTGTGAT
1 AAAAGCATTGCGAG-G-GAT
29418774 AAAAG
1 AAAAG
29418779 TATAGAATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 1 0.05
20 7 0.33
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AAAAGCATTGCGAGGGAT
Found at i:29421434 original size:33 final size:33
Alignment explanation
Indices: 29421365--29421435 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
29421355 CCACAGAGAT
* * * *
29421365 AAGTCCACTATGACAGTAAACATAGAACAGAGA
1 AAGTCCACTAGGACAGTAAACAGAAAACAGACA
* *
29421398 AAGTCCACTAGGATAGTAAACAGAAAATAGACA
1 AAGTCCACTAGGACAGTAAACAGAAAACAGACA
29421431 AAGTC
1 AAGTC
29421436 TGTCAGGACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.15
Consensus pattern (33 bp):
AAGTCCACTAGGACAGTAAACAGAAAACAGACA
Found at i:29424625 original size:20 final size:20
Alignment explanation
Indices: 29424600--29424656 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
29424590 TATACGGATT
29424600 TGCACTTCGGTGCCTCTATA
1 TGCACTTCGGTGCCTCTATA
* *
29424620 TGCACTTCGGTGCCTCGATT
1 TGCACTTCGGTGCCTCTATA
* *
29424640 TGTACTTCAGTGCCTCT
1 TGCACTTCGGTGCCTCT
29424657 GTTAGCATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.37
Consensus pattern (20 bp):
TGCACTTCGGTGCCTCTATA
Found at i:29429718 original size:23 final size:22
Alignment explanation
Indices: 29429691--29429741 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
29429681 TCATGAAAGT
29429691 ATGAATGCT-TATATGTTATGTA
1 ATGAATGCTAT-TATGTTATGTA
*
29429713 CATGAAAGCTATTATGTTATGTA
1 -ATGAATGCTATTATGTTATGTA
29429736 ATGAAT
1 ATGAAT
29429742 TAGCTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 19 0.76
24 1 0.04
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (22 bp):
ATGAATGCTATTATGTTATGTA
Found at i:29438470 original size:33 final size:33
Alignment explanation
Indices: 29438424--29438647 Score: 127
Period size: 33 Copynumber: 6.4 Consensus size: 33
29438414 CATATAAAAG
**
29438424 GGTTGCTGTGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
29438457 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T----GGT
*
29438500 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
29438533 GGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-AT-T--CAT-T---GGT
*
29438575 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
** *
29438602 GGTTGCTGTGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
29438635 GGTTTCTAAGTGC
1 GGTTGCTAAGTGC
29438648 GAAATCCACC
Statistics
Matches: 146, Mismatches: 20, Indels: 50
0.68 0.09 0.23
Matches are distributed among these distances:
27 19 0.13
28 2 0.01
31 2 0.01
32 2 0.01
33 50 0.34
34 5 0.03
35 3 0.02
36 1 0.01
37 3 0.02
38 6 0.04
39 4 0.03
41 3 0.02
42 24 0.16
43 22 0.15
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:29438513 original size:76 final size:75
Alignment explanation
Indices: 29438423--29438596 Score: 285
Period size: 76 Copynumber: 2.3 Consensus size: 75
29438413 GCATATAAAA
** * * *
29438423 GGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
29438488 AATGTGAAAGG
66 AATGTG-AAGG
*
29438499 GGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
29438564 AATGTGAAGG
66 AATGTGAAGG
29438574 GGGTTGCTAAGTGCTGATTCCCC
1 GGGTTGCTAAGTGCTGATTCCCC
29438597 CAAGGGGTTG
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 27 0.29
76 65 0.71
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (75 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTGA
AATGTGAAGG
Found at i:29443835 original size:17 final size:17
Alignment explanation
Indices: 29443813--29443848 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
29443803 CGAGACCCTA
29443813 GCCGTGTGCCTCACATG
1 GCCGTGTGCCTCACATG
29443830 GCCGTGTGCCTCACATG
1 GCCGTGTGCCTCACATG
29443847 GC
1 GC
29443849 TGAAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.36, G:0.31, T:0.22
Consensus pattern (17 bp):
GCCGTGTGCCTCACATG
Found at i:29443870 original size:30 final size:30
Alignment explanation
Indices: 29443824--29443887 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
29443814 CCGTGTGCCT
* * *
29443824 CACATGGCCGTGTGCCTCACATGGCTGAA-A
1 CACACGGCCATGTGCCTCACACGGCT-AAGA
29443854 CACACGGCCATGTGCCTCACACGGCTAAGA
1 CACACGGCCATGTGCCTCACACGGCTAAGA
29443884 CACA
1 CACA
29443888 TTCCCGTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.27, C:0.34, G:0.23, T:0.16
Consensus pattern (30 bp):
CACACGGCCATGTGCCTCACACGGCTAAGA
Found at i:29444128 original size:54 final size:54
Alignment explanation
Indices: 29444012--29444128 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
29444002 TGTGTCAGGC
* *
29444012 CGTGTAACTTTCAAAATATACCCACACGCCTGTGTGTCAGACCGTGTGCTAGGT
1 CGTGTAACTTTCAAAACATACCCACACGCCTGTGTGTCAGACCATGTGCTAGGT
* *
29444066 CCTATAACTTTCAAAACA-ACCCAACACG-CTCGTGTGTCA-AGCCATGTGCTAGGT
1 CGTGTAACTTTCAAAACATACCC-ACACGCCT-GTGTGTCAGA-CCATGTGCTAGGT
29444120 CGTGTAACT
1 CGTGTAACT
29444129 AGCTGACTTG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
53 7 0.13
54 47 0.87
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
CGTGTAACTTTCAAAACATACCCACACGCCTGTGTGTCAGACCATGTGCTAGGT
Found at i:29451154 original size:33 final size:33
Alignment explanation
Indices: 29451099--29451256 Score: 86
Period size: 33 Copynumber: 4.7 Consensus size: 33
29451089 AGATCCCGCA
* ***
29451099 TAAGACCATAACTGGGTTATGGCACTATGAACG
1 TAAGACCATAGCTGGACCATGGCACTATGAACG
* * * * * *
29451132 TAAGACCATGGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGCTGGACCATGGCACT-ATGA-ACG
* * * *
29451167 TAAGACCATAGCT-GAGCTATGGCATTCTG-ATG
1 TAAGACCATAGCTGGA-CCATGGCACTATGAACG
* ***
29451199 ATAAGACCATAACTGGGTTATGGCACTATGAACG
1 -TAAGACCATAGCTGGACCATGGCACTATGAACG
* *
29451233 TAAGACCATGGTTGGACCATGGCA
1 TAAGACCATAGCTGGACCATGGCA
29451257 GTGTTTATAT
Statistics
Matches: 91, Mismatches: 28, Indels: 12
0.69 0.21 0.09
Matches are distributed among these distances:
32 3 0.03
33 59 0.65
34 8 0.09
35 21 0.23
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGACCATGGCACTATGAACG
Found at i:29451273 original size:101 final size:102
Alignment explanation
Indices: 29451098--29451293 Score: 367
Period size: 101 Copynumber: 1.9 Consensus size: 102
29451088 GAGATCCCGC
29451098 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
1 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
*
29451163 TATGTAAGACCATAGCTGAGCTA-TGGCATTCTGATG
66 TATGTAAGACCATAACTGAGCTATTGGCATTCTGATG
29451199 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
1 ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
*
29451264 TATGTAAGACCATAACTGGGCTATTGGCAT
66 TATGTAAGACCATAACTGAGCTATTGGCAT
29451294 CGATTTGAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
101 86 0.93
102 6 0.07
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (102 bp):
ATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTTA
TATGTAAGACCATAACTGAGCTATTGGCATTCTGATG
Found at i:29451327 original size:43 final size:44
Alignment explanation
Indices: 29451265--29451363 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 44
29451255 CAGTGTTTAT
*
29451265 ATGTAAGACCATAACTGGGCTATTGGCATCGATTTGAGATTT-C
1 ATGTAAGACCATAACTGGGCTATTGGCATCGATATGAGATTTCC
* *
29451308 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTTCC
1 ATGTAAGACCATAACTGGGCTATTGGCATCGATATGAGATTTCC
29451352 ATGTAAGACCAT
1 ATGTAAGACCAT
29451364 GTCTGGGACA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 39 0.76
44 12 0.24
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (44 bp):
ATGTAAGACCATAACTGGGCTATTGGCATCGATATGAGATTTCC
Found at i:29456875 original size:19 final size:18
Alignment explanation
Indices: 29456838--29456909 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
29456828 CTAGGCTCGC
29456838 TTTTAATTTGTTTGTTTT
1 TTTTAATTTGTTTGTTTT
*
29456856 TTTTAATTTCGTTT-TATT
1 TTTTAATTT-GTTTGTTTT
* * * *
29456874 TTTTATTTTGGTTCTTGT
1 TTTTAATTTGTTTGTTTT
29456892 TTTTAATTTTGTTTGTTT
1 TTTTAA-TTTGTTTGTTT
29456910 CTTCACTCTC
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.07
18 27 0.64
19 12 0.29
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.75
Consensus pattern (18 bp):
TTTTAATTTGTTTGTTTT
Found at i:29458849 original size:22 final size:23
Alignment explanation
Indices: 29458804--29458849 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
29458794 TGAAAAATGA
**
29458804 ACTTTTAAATAGGTTTTTTTTTT
1 ACTTTTAAATAGGTTTTTAATTT
*
29458827 ACTTTTTAA-AGGTTTTTAATTT
1 ACTTTTAAATAGGTTTTTAATTT
29458849 A
1 A
29458850 TAATTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (23 bp):
ACTTTTAAATAGGTTTTTAATTT
Found at i:29460620 original size:19 final size:20
Alignment explanation
Indices: 29460577--29460621 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
29460567 ATTTAAATTA
*
29460577 TAATTTTTTATTTTAGATGC
1 TAATTTTTTATTATAGATGC
* *
29460597 GAATTTTTTATTATATATG-
1 TAATTTTTTATTATAGATGC
29460616 TAATTT
1 TAATTT
29460622 ACCCTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (20 bp):
TAATTTTTTATTATAGATGC
Found at i:29463953 original size:18 final size:19
Alignment explanation
Indices: 29463914--29463953 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
29463904 CTTAAAAGTC
*
29463914 TTTAATACTCTAATTATTA
1 TTTAATACTATAATTATTA
*
29463933 TTTATTACTATAATT-TTA
1 TTTAATACTATAATTATTA
29463951 TTT
1 TTT
29463954 TGATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAATACTATAATTATTA
Found at i:29468405 original size:69 final size:69
Alignment explanation
Indices: 29468284--29468507 Score: 205
Period size: 69 Copynumber: 3.2 Consensus size: 69
29468274 AATTTATATG
* * * * * * * *
29468284 CGAATCTTGGTTTTACAACTTGGAGCTTTGCTCTTGCTAACTGTGCTGGAGGTCACAGTTCTTTG
1 CGAACCTTGGTTTTACAACTAGGAGATTTGCTCTCGCTAACTATGCTAGAGGTCACAGCTCTTCG
*
29468349 CTTA
66 CCTA
* * * * *
29468353 CGAACTTTGGTTTTACAACTAGGAGTTTTGCTCTCGCTAACTATGGTAGAGGTCTCGGCTCTTCG
1 CGAACCTTGGTTTTACAACTAGGAGATTTGCTCTCGCTAACTATGCTAGAGGTCACAGCTCTTCG
29468418 CCTA
66 CCTA
** * * * * * * ** *
29468422 CGAACCTTAATTTTATAGCTGGGAGATTCGCTCTCGCTAATTATGTTAGAGGTCGTAACTCTTCG
1 CGAACCTTGGTTTTACAACTAGGAGATTTGCTCTCGCTAACTATGCTAGAGGTCACAGCTCTTCG
29468487 CCTA
66 CCTA
**
29468491 CGAACCTTAATTTTACA
1 CGAACCTTGGTTTTACA
29468508 GACAATAATT
Statistics
Matches: 127, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 127 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (69 bp):
CGAACCTTGGTTTTACAACTAGGAGATTTGCTCTCGCTAACTATGCTAGAGGTCACAGCTCTTCG
CCTA
Found at i:29472780 original size:19 final size:19
Alignment explanation
Indices: 29472756--29472793 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
29472746 ATTATGAACC
*
29472756 TCCATGTTTATGAACTTAG
1 TCCATGTTTATAAACTTAG
29472775 TCCATGTTTATAAACTTAG
1 TCCATGTTTATAAACTTAG
29472794 CGAGCTCGTC
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:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (19 bp):
TCCATGTTTATAAACTTAG
Found at i:29476938 original size:6 final size:6
Alignment explanation
Indices: 29476927--29476980 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
29476917 TATTTTAATC
29476927 AATATT AATATT AATATT AATATT AATATT AATATT AAT-TT AAT-TT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
29476973 AAT-TT AAT
1 AATATT AAT
29476981 TTTTTTAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.31
6 33 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AATATT
Found at i:29477789 original size:21 final size:21
Alignment explanation
Indices: 29477739--29477791 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
29477729 AATAAAATTA
29477739 AAATAATAAAAAAGTACAAAT
1 AAATAATAAAAAAGTACAAAT
* * * *
29477760 GATTCATAAAAAAGTTA-ATAT
1 AAATAATAAAAAAG-TACAAAT
29477781 AAATAATAAAA
1 AAATAATAAAA
29477792 TTTAAGTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.25
Consensus pattern (21 bp):
AAATAATAAAAAAGTACAAAT
Found at i:29478068 original size:6 final size:6
Alignment explanation
Indices: 29478057--29478108 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
29478047 TTTTAATCTA
* * * *
29478057 AACCCG AACCCG AACCCG AACCCG AACCCG AACTCT AACCCA AACCCA
1 AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG AACCCG
29478105 AACC
1 AACC
29478109 TTCAACCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.38, C:0.48, G:0.10, T:0.04
Consensus pattern (6 bp):
AACCCG
Found at i:29478131 original size:14 final size:14
Alignment explanation
Indices: 29478112--29478142 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29478102 CCAAACCTTC
*
29478112 AACCTTGAATCCCA
1 AACCTTGAACCCCA
29478126 AACCTTGAACCCCA
1 AACCTTGAACCCCA
29478140 AAC
1 AAC
29478143 TCAAACCCAA
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:0.39, C:0.39, G:0.06, T:0.16
Consensus pattern (14 bp):
AACCTTGAACCCCA
Found at i:29484706 original size:16 final size:16
Alignment explanation
Indices: 29484676--29484722 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
29484666 TCAAATGAAA
29484676 ATATATTATATTTAAC
1 ATATATTATATTTAAC
*
29484692 ATATGATTATA-TTAAG
1 ATAT-ATTATATTTAAC
*
29484708 ATATAATATAATTTA
1 ATATATTAT-ATTTA
29484723 TAATTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 4 0.15
16 13 0.50
17 9 0.35
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (16 bp):
ATATATTATATTTAAC
Found at i:29484978 original size:19 final size:18
Alignment explanation
Indices: 29484947--29484983 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
29484937 TAGGAGCAAG
*
29484947 ATTTTTTATTAAATAAAA
1 ATTTTTTACTAAATAAAA
29484965 ATTTATTTACTAAATAAAA
1 ATTT-TTTACTAAATAAAA
29484984 CTTAAGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTTTACTAAATAAAA
Found at i:29485047 original size:5 final size:5
Alignment explanation
Indices: 29485037--29485075 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
29485027 AAATATAATT
29485037 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
29485076 AATATATTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:29486104 original size:20 final size:20
Alignment explanation
Indices: 29486079--29486121 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
29486069 GGGAGTAGTT
* *
29486079 TTTCAATTGATTTAAAAATG
1 TTTCAATTGAGTTAAAAAAG
29486099 TTTCAATTGAGTTAAAAAAG
1 TTTCAATTGAGTTAAAAAAG
29486119 TTT
1 TTT
29486122 AAACTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTCAATTGAGTTAAAAAAG
Found at i:29486420 original size:27 final size:26
Alignment explanation
Indices: 29486383--29486454 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
29486373 TAAAGTTCAA
* * *
29486383 TTTGAATCAAAGAGTTGATGTTATGAT
1 TTTGAAACAAAGACTTGAT-TTATAAT
*
29486410 TTTGAAACAAAAACTTGGATTTATAAT
1 TTTGAAACAAAGACTT-GATTTATAAT
29486437 TTTGAAACAAAGACTTGA
1 TTTGAAACAAAGACTTGA
29486455 GTGTGAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.05
27 34 0.87
28 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (26 bp):
TTTGAAACAAAGACTTGATTTATAAT
Found at i:29489056 original size:6 final size:6
Alignment explanation
Indices: 29489045--29489069 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29489035 TGCAAATGGA
29489045 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
29489070 TGGAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:29490632 original size:11 final size:12
Alignment explanation
Indices: 29490616--29490655 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
29490606 ATTTTAAAAA
29490616 TTAAAAAAT-TT
1 TTAAAAAATATT
*
29490627 TTAAAAAGTATT
1 TTAAAAAATATT
29490639 TT-AAAAATATT
1 TTAAAAAATATT
29490650 TTAAAA
1 TTAAAA
29490656 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (12 bp):
TTAAAAAATATT
Done.