Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 331 of 344
Found at i:107601957 original size:16 final size:17
Alignment explanation
Indices: 107601932--107601963 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
107601922 AAATTAATAT
107601932 TTATATAAATTTAGCAC
1 TTATATAAATTTAGCAC
107601949 TTATA-AAATTTAGCA
1 TTATATAAATTTAGCA
107601964 ATAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
TTATATAAATTTAGCAC
Found at i:107601972 original size:14 final size:16
Alignment explanation
Indices: 107601933--107601974 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
107601923 AATTAATATT
*
107601933 TATATAAATTTAGCACT
1 TATA-AAATTTAGCACA
107601950 TATAAAATTTAGCA-A
1 TATAAAATTTAGCACA
107601965 TA-AAAATTTA
1 TATAAAATTTA
107601975 ATATTACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 10 0.42
17 4 0.17
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (16 bp):
TATAAAATTTAGCACA
Found at i:107608841 original size:18 final size:18
Alignment explanation
Indices: 107608818--107608910 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
107608808 CCCAACTACT
*
107608818 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
107608836 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
107608854 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
107608872 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
107608890 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
107608908 GTA
1 GTA
107608911 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:107608870 original size:36 final size:36
Alignment explanation
Indices: 107608818--107608910 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
107608808 CCCAACTACT
*
107608818 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
107608854 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
107608890 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
107608911 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:107611427 original size:12 final size:12
Alignment explanation
Indices: 107611412--107611454 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
107611402 ATAAATTTTA
107611412 AAAAAAATACAT
1 AAAAAAATACAT
*
107611424 AAAAAAAGACACT
1 AAAAAAATACA-T
*
107611437 AAAAATATACAT
1 AAAAAAATACAT
107611449 AAAAAA
1 AAAAAA
107611455 GACACTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAAAATACAT
Found at i:107611452 original size:24 final size:25
Alignment explanation
Indices: 107611412--107611466 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
107611402 ATAAATTTTA
*
107611412 AAAAAAATACATAAAAAAAGACACT
1 AAAAATATACATAAAAAAAGACACT
107611437 AAAAATATACAT-AAAAAAGACACT
1 AAAAATATACATAAAAAAAGACACT
107611461 AAAAAT
1 AAAAAT
107611467 TGGGAGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.71, C:0.11, G:0.04, T:0.15
Consensus pattern (25 bp):
AAAAATATACATAAAAAAAGACACT
Found at i:107611463 original size:12 final size:12
Alignment explanation
Indices: 107611425--107611465 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
107611415 AAAATACATA
107611425 AAAAAAGACACT
1 AAAAAAGACACT
*
107611437 AAAAATATACA-T
1 AAAAA-AGACACT
107611449 AAAAAAGACACT
1 AAAAAAGACACT
107611461 AAAAA
1 AAAAA
107611466 TTGGGAGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 4 0.16
12 17 0.68
13 4 0.16
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (12 bp):
AAAAAAGACACT
Found at i:107616376 original size:9 final size:9
Alignment explanation
Indices: 107616364--107616388 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
107616354 TGGAGGAATT
107616364 AGAGGTTGA
1 AGAGGTTGA
107616373 AGAGGTTGA
1 AGAGGTTGA
107616382 AGAGGTT
1 AGAGGTT
107616389 CTGACCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (9 bp):
AGAGGTTGA
Found at i:107621249 original size:22 final size:22
Alignment explanation
Indices: 107621221--107621265 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
107621211 ATACATCAAC
107621221 ATTCTCAAGGCTTAACAAAATT
1 ATTCTCAAGGCTTAACAAAATT
107621243 ATTCTCAAGGCTTAACAAAATT
1 ATTCTCAAGGCTTAACAAAATT
107621265 A
1 A
107621266 AGAGTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (22 bp):
ATTCTCAAGGCTTAACAAAATT
Found at i:107623581 original size:15 final size:15
Alignment explanation
Indices: 107623561--107623605 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
107623551 TGACTAAATT
*
107623561 ATAATGATAGTAATA
1 ATAATGATAATAATA
*
107623576 ATAATGATAATGATA
1 ATAATGATAATAATA
*
107623591 ATAATGAGAATAATA
1 ATAATGATAATAATA
107623606 TATGTAGTGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (15 bp):
ATAATGATAATAATA
Found at i:107623891 original size:4 final size:4
Alignment explanation
Indices: 107623882--107623906 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
107623872 TATAAGCAAT
107623882 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
107623907 GGATTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:107626830 original size:28 final size:29
Alignment explanation
Indices: 107626798--107626853 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
107626788 TTATTATTCC
* *
107626798 GAATATAAAAATAGATGA-TAATAAAAAT
1 GAATAGAAAAATAGATAATTAATAAAAAT
* *
107626826 GAATAGAATAATAGTTAATTAATAAAAA
1 GAATAGAAAAATAGATAATTAATAAAAA
107626854 AATAACATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (29 bp):
GAATAGAAAAATAGATAATTAATAAAAAT
Found at i:107631588 original size:127 final size:127
Alignment explanation
Indices: 107631283--107631588 Score: 362
Period size: 127 Copynumber: 2.4 Consensus size: 127
107631273 AAACCGACAT
* * *
107631283 CCAGCACGGTAGGGCACGTTTCATCGAATTTCCAAACATTGAACATTGCCTCGCTCTAGCATTTA
1 CCAGCACGATAGGGCACGATTCATCGAATTTCCAAACATTGAACATTGCCTTGCTCTAGCATTTA
* * *
107631348 GAAAATATGAATGAAATTCTAAAGGAATATCCAACTATTTTGAGCAAACCGGAAATCGAAAC
66 GAAAACATGAATGAAATTCTAAAGGAATATCCAACTATTTTAAACAAACCGGAAATCGAAAC
* * ** * * * *
107631410 CCAACACGATTGGGCACGATTCCCCAAATTTCCAAGCGTTGAATATTGCCTTG-TCTTAGCATTT
1 CCAGCACGATAGGGCACGATTCATCGAATTTCCAAACATTGAACATTGCCTTGCTC-TAGCATTT
* * * * * * *
107631474 TGAAGACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTAAACAAACGGGAAATCGAAAC
65 AGAAAACATGAATGAAATTCTAAAGGAATATCCAACTATTTTAAACAAACCGGAAATCGAAAC
* * * **
107631537 CCGGCACGATAGGACACGATTCTTCGAATTTCCAAACATCAAACATTGCCTT
1 CCAGCACGATAGGGCACGATTCATCGAATTTCCAAACATTGAACATTGCCTT
107631589 TGGTTTGGGG
Statistics
Matches: 145, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
126 2 0.01
127 143 0.99
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (127 bp):
CCAGCACGATAGGGCACGATTCATCGAATTTCCAAACATTGAACATTGCCTTGCTCTAGCATTTA
GAAAACATGAATGAAATTCTAAAGGAATATCCAACTATTTTAAACAAACCGGAAATCGAAAC
Found at i:107633482 original size:26 final size:26
Alignment explanation
Indices: 107633453--107633562 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
107633443 TGGTACAAAT
107633453 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
107633479 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
107633505 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
107633531 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
107633557 TGATAA
1 TGATAA
107633563 GAATTTAATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:107636386 original size:130 final size:131
Alignment explanation
Indices: 107636153--107636532 Score: 582
Period size: 131 Copynumber: 2.9 Consensus size: 131
107636143 CATTTGTTCA
* *
107636153 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCAGAAGCGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
*
107636218 TGGGTTGCAATTTTGTGTTTGCTCAAAATAATCAAATATCGC-TCGAAATTTCACTCACGTCTTC
66 TGGGTTGCAATTTTGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCACTCACGTCTTC
107636282 T
131 T
*
107636283 AAAATTCTTTAAAACGAAGACGATATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
* ** * *
107636348 TGGGATGCAATTTCACGTTTACTCAAAATAATCGAATATCGCTTCGAAATTTCACTCACGTCTTC
66 TGGGTTGCAATTTTGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCACTCACGTCTTC
107636413 T
131 T
* * * ** * *
107636414 AAAATTCTTCAAAATGAAGACGAGGTTCGATAATTAGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
* * *
107636479 TGGGTTGCAATTTTGCGTTTGCTCAAAATAATCAAGTATCCCTTCAAAATTTCA
66 TGGGTTGCAATTTTGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCA
107636533 TTCATATCTT
Statistics
Matches: 224, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
130 98 0.44
131 126 0.56
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTTGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCACTCACGTCTTC
T
Found at i:107648422 original size:44 final size:44
Alignment explanation
Indices: 107648373--107649074 Score: 866
Period size: 44 Copynumber: 16.0 Consensus size: 44
107648363 TTGGCGAATC
* ** *
107648373 TAGCAGATTTGGCGTCTTTGTATTATCAGAGGGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* *
107648417 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAAATCTAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * *
107648461 TAGCAGATTTGGCATCTCTATATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* *
107648505 TAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * ** *
107648549 TAGTAGATTTGGCGTCTCTGTACTATCAGAGGGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * * * *
107648593 TAACAGATTTAGTGTCTCTGTATTGTCAGAGGGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* ** *
107648637 TAGCAGATTTGACGTCTCTGTATTGGTGGAAAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * *
107648681 TAGCAGATTTGGCGTCTCTGTATTGGCGGAAAACAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * *
107648725 TAGCAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCAAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * * *
107648769 TAGCAGATTTGCCATATCTGTATTGGCGGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* *
107648813 TAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * *
107648857 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAACAGATCAAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* *
107648901 TAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * * * ** * *
107648945 TGGCAGATTTGACGTCTCTATGTTATCGGAGGGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * * *
107648989 TAGCAGATTTGGCATCTCTGTGTCGACAGAGAGCAGATCGAAGA
1 TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
* * * *
107649033 T-GACAGATTTGACATCTCTGTATTAGCAGAGAGAAGATCGAA
1 TAG-CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
107649075 AATAACAAAT
Statistics
Matches: 578, Mismatches: 79, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
43 1 0.00
44 577 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (44 bp):
TAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
Found at i:107651908 original size:130 final size:131
Alignment explanation
Indices: 107651675--107652054 Score: 582
Period size: 131 Copynumber: 2.9 Consensus size: 131
107651665 CATTTGTTCA
* *
107651675 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCAGAAGCGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
* *
107651740 TGGGTTGCAATTTTGTGTTTGCTCAAAATAATCAAATATCGC-TCGAAATTTCACTCACGTCTTC
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCACTCACGTCTTC
107651804 T
131 T
*
107651805 AAAATTCTTTAAAACGAAGACGATATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
* * * *
107651870 TGGGATGCAATTTCACGTTTACTCAAAATAATCGAATATCGCTTCGAAATTTCACTCACGTCTTC
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCACTCACGTCTTC
107651935 T
131 T
* * * ** * *
107651936 AAAATTCTTCAAAATGAAGACGAGGTTCGATAATTAGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
* * *
107652001 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAGTATCCCTTCAAAATTTCA
66 TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCA
107652055 TTCATATCTT
Statistics
Matches: 225, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
130 98 0.44
131 127 0.56
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (131 bp):
AAAATTCTTTAAAACGAAGACGAGATTCGATGTTTGGCGATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTCGCGTTTGCTCAAAATAATCAAATATCGCTTCGAAATTTCACTCACGTCTTC
T
Found at i:107652921 original size:15 final size:15
Alignment explanation
Indices: 107652901--107652943 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
107652891 CTATACAATT
107652901 TTCAAATTAATCTCA
1 TTCAAATTAATCTCA
* *
107652916 TTCAAATACAATTTCA
1 TTCAAAT-TAATCTCA
*
107652932 TTCAATTTAATC
1 TTCAAATTAATC
107652944 CAACAACATA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (15 bp):
TTCAAATTAATCTCA
Found at i:107655581 original size:64 final size:63
Alignment explanation
Indices: 107655445--107655588 Score: 225
Period size: 64 Copynumber: 2.3 Consensus size: 63
107655435 TCAATCTTAT
* * * * *
107655445 TTTGGAAAATTGAAAATGAAATTAACCACAACTAGGCAAAAATCTAATTAGTTGGGCCCATAT
1 TTTGGAAAATTGAGAATGAAATTAACCACAACTAGGCAAAAATCAAATTAGCTGGGCCCACAA
*
107655508 TTTGGAAAATTGAGAATGAAATTAATCACAACTAGAGCAAAAATCAAATTAGCTGGGCCCACAA
1 TTTGGAAAATTGAGAATGAAATTAACCACAACTAG-GCAAAAATCAAATTAGCTGGGCCCACAA
107655572 TTTGGAAAATTGAGAAT
1 TTTGGAAAATTGAGAAT
107655589 CATAGTTGTG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
63 33 0.45
64 41 0.55
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (63 bp):
TTTGGAAAATTGAGAATGAAATTAACCACAACTAGGCAAAAATCAAATTAGCTGGGCCCACAA
Found at i:107659038 original size:23 final size:24
Alignment explanation
Indices: 107658994--107659060 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
107658984 TTTAGCCTAT
* *
107658994 TTACATTAAATTTTCAAAACCC-AC
1 TTACATTAAA-CTCCAAAACCCAAC
107659018 TTACATTAAACTCCAAAACCCAAC
1 TTACATTAAACTCCAAAACCCAAC
*
107659042 --ACATTAAACACCCAAAACC
1 TTACATTAAAC-TCCAAAACC
107659061 TAATAGCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
22 9 0.24
23 17 0.45
24 12 0.32
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (24 bp):
TTACATTAAACTCCAAAACCCAAC
Found at i:107660602 original size:117 final size:117
Alignment explanation
Indices: 107660242--107660614 Score: 363
Period size: 117 Copynumber: 3.2 Consensus size: 117
107660232 GTATCGTTAT
* * * *
107660242 TATTATTATTATATATTAGTGCATATTTGTTATATACGTACATGTATATGTATATATATAGTAG-
1 TATTATTATTATATATTAGTGTATATTTTTTATATACGTATATGTATA--TATATTTATAGTAGC
* * *
107660306 TGTTTTTCATTATTTTATTTTAATATTTTATTATATTTGCTTTTT-TTTTTCATCGC
64 TCTTTTTTATTATTTTATTTTAATATTTTATTATATTTGCTTTTTGTATTT--T-GC
* * *
107660362 AATATTATTA-TATATATTA--GTATATTTTTT-TCATACATATATGCATATATATATATAGTAG
1 --TATTATTATTATATATTAGTGTATATTTTTTAT-ATACGTATATGTATATATATTTATAGTA-
* *
107660423 TGCTCTTTTTTATTACTTTATTTTAATATTTTATTATATTTGCTTTCTTGCA--TTGC
62 -GCTCTTTTTTATTATTTTATTTTAATATTTTATTATATTTGCTTT-TTGTATTTTGC
* * * *
107660479 AATATTATTATATATATATTAGTGTATATTTTTTATGTGCGTATATGTATATCTATTTTTA-TAG
1 --TATTATTAT-TATATATTAGTGTATATTTTTTATATACGTATATGTATATATATTTATAGTAG
***
107660543 CT-TTTTTTATTATTTTATTTTAATATTTTTATTATGCGTGCTTTTTGTATTTTGC
63 CTCTTTTTTATTATTTTATTTTAATA-TTTTATTATATTTGCTTTTTGTATTTTGC
107660598 TATTATTATTAT-TATTA
1 TATTATTATTATATATTA
107660615 TTATTATACA
Statistics
Matches: 215, Mismatches: 22, Indels: 35
0.79 0.08 0.13
Matches are distributed among these distances:
115 5 0.02
116 3 0.01
117 60 0.28
118 20 0.09
119 35 0.16
120 43 0.20
121 40 0.19
122 9 0.04
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (117 bp):
TATTATTATTATATATTAGTGTATATTTTTTATATACGTATATGTATATATATTTATAGTAGCTC
TTTTTTATTATTTTATTTTAATATTTTATTATATTTGCTTTTTGTATTTTGC
Found at i:107660820 original size:3 final size:3
Alignment explanation
Indices: 107660814--107660875 Score: 53
Period size: 3 Copynumber: 22.3 Consensus size: 3
107660804 TTTAATTAAT
* * *
107660814 TTA TTA TTT TTA TTA -TA TT- TTA TTA TTC TT- TT- TTA TT- TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
107660857 TTA TTA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
107660876 CATTGTTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 10 0.21
3 38 0.79
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:107660820 original size:19 final size:20
Alignment explanation
Indices: 107660796--107660858 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 20
107660786 ATATATATAG
107660796 TATTATTTTTTAATTA-A-TT
1 TATTATTTTTT-ATTATATTT
107660815 TATTA-TTTTTATTATATTT
1 TATTATTTTTTATTATATTT
*
107660834 TATTATTCTTT-TT-TATTT
1 TATTATTTTTTATTATATTT
*
107660852 TAATATT
1 TATTATT
107660859 ATTACTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.10
18 17 0.44
19 14 0.36
20 4 0.10
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTATTTTTTATTATATTT
Found at i:107660831 original size:40 final size:43
Alignment explanation
Indices: 107660785--107660872 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 43
107660775 TGTACATGTA
* *
107660785 TATATATATAGTATTATTTTTTA-ATTAAT-TTATTATTTTTAT
1 TATAT-TATAGTATTATTTTTTATATTAATATTATTACTATTAT
* * * *
107660827 TATATTTTATTATTCTTTTTTATTTTAATATTATTACTATTAT
1 TATATTATAGTATTATTTTTTATATTAATATTATTACTATTAT
107660870 TAT
1 TAT
107660873 TATCATTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 14 0.37
42 10 0.26
43 14 0.37
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (43 bp):
TATATTATAGTATTATTTTTTATATTAATATTATTACTATTAT
Found at i:107661354 original size:3 final size:3
Alignment explanation
Indices: 107661346--107661373 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
107661336 ACTTTGGATT
107661346 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
107661374 CTTGTATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:107666839 original size:30 final size:29
Alignment explanation
Indices: 107666791--107666847 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
107666781 CCCAAACACA
107666791 AAACCCAAATACCTCAGACCCGTTACAGC
1 AAACCCAAATACCTCAGACCCGTTACAGC
*
107666820 AAACCCAAAATAGCC-CAGACCTGTTACA
1 AAACCC-AAATA-CCTCAGACCCGTTACA
107666848 CCCTACCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 17 0.68
31 2 0.08
ACGTcount: A:0.40, C:0.35, G:0.11, T:0.14
Consensus pattern (29 bp):
AAACCCAAATACCTCAGACCCGTTACAGC
Found at i:107668100 original size:12 final size:12
Alignment explanation
Indices: 107668085--107668117 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
107668075 TATTTTTAAT
107668085 TTATTATATATA
1 TTATTATATATA
107668097 TTATT-TATTATA
1 TTATTATA-TATA
107668109 TTATTATAT
1 TTATTATAT
107668118 TTTCAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.11
12 15 0.79
13 2 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATATATA
Found at i:107668104 original size:16 final size:15
Alignment explanation
Indices: 107668083--107668115 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
107668073 CTTATTTTTA
107668083 ATTTATTATATATATT
1 ATTTATTATAT-TATT
107668099 ATTTATTATATTATT
1 ATTTATTATATTATT
107668114 AT
1 AT
107668116 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTATATTATT
Found at i:107668150 original size:7 final size:7
Alignment explanation
Indices: 107668133--107668276 Score: 51
Period size: 7 Copynumber: 21.4 Consensus size: 7
107668123 AAATTTGTAA
107668133 ATTAT-T
1 ATTATAT
107668139 ATTATAT
1 ATTATAT
107668146 ATTATAT
1 ATTATAT
107668153 -TT-TA-
1 ATTATAT
107668157 ACTTATAT
1 A-TTATAT
107668165 ATCT-TAT
1 AT-TATAT
*
107668172 A-TATTT
1 ATTATAT
107668178 ATT-TAT
1 ATTATAT
*
107668184 ATTATAC
1 ATTATAT
107668191 ATTAT-T
1 ATTATAT
*
107668197 -TTA-AA
1 ATTATAT
*
107668202 ACTTACAT
1 A-TTATAT
*
107668210 -TTTTAT
1 ATTATAT
107668216 ATTATAT
1 ATTATAT
*
107668223 ATTATAA
1 ATTATAT
*
107668230 ATTATTT
1 ATTATAT
*
107668237 CATT-TTT
1 -ATTATAT
*
107668244 ATTATTT
1 ATTATAT
*
107668251 TTATATACT
1 AT-TATA-T
107668260 ATTATAT
1 ATTATAT
*
107668267 ATTATCT
1 ATTATAT
107668274 ATT
1 ATT
107668277 TTAAAATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
5 6 0.06
6 24 0.23
7 59 0.57
8 13 0.12
9 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:107672225 original size:15 final size:15
Alignment explanation
Indices: 107672196--107672238 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
107672186 CTTTTTGTAT
107672196 TCATGCATTTGCATC
1 TCATGCATTTGCATC
107672211 TCATAGCATTT-CATC
1 TCAT-GCATTTGCATC
*
107672226 ACAT-CATTTGCAT
1 TCATGCATTTGCAT
107672239 TCAAAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (15 bp):
TCATGCATTTGCATC
Found at i:107682016 original size:26 final size:26
Alignment explanation
Indices: 107681987--107682039 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
107681977 TCAAACATGC
*
107681987 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
107682013 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
107682039 A
1 A
107682040 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:107683560 original size:26 final size:26
Alignment explanation
Indices: 107683524--107683633 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
107683514 CATGAAATTC
*
107683524 TTATCATGAAACATTTACCTAACCGA
1 TTATCATGAAACATTTACCTAACCTA
*
107683550 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
107683576 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
107683602 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
107683628 TTATCA
1 TTATCA
107683634 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:107684699 original size:30 final size:29
Alignment explanation
Indices: 107684657--107684713 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
107684647 CCCAAACACA
*
107684657 AAACCCAAATACCTCAGACCCGTTACAGC
1 AAACCCAAATACCCCAGACCCGTTACAGC
*
107684686 AAACCCAAAATACCCCAGACCTGTTACA
1 AAACCC-AAATACCCCAGACCCGTTACA
107684714 CCCTACCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.40, C:0.37, G:0.09, T:0.14
Consensus pattern (29 bp):
AAACCCAAATACCCCAGACCCGTTACAGC
Found at i:107684722 original size:30 final size:30
Alignment explanation
Indices: 107684652--107684724 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
107684642 AAGAGCCCAA
* *
107684652 ACACAAAACCC-AAATACCTCAGACCCGTT
1 ACACCAAACCCAAAATACCCCAGACCCGTT
* *
107684681 ACAGCAAACCCAAAATACCCCAGACCTGTT
1 ACACCAAACCCAAAATACCCCAGACCCGTT
**
107684711 ACACCCTACCCAAA
1 ACACCAAACCCAAA
107684725 CCAGACCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.41, C:0.40, G:0.07, T:0.12
Consensus pattern (30 bp):
ACACCAAACCCAAAATACCCCAGACCCGTT
Found at i:107685955 original size:16 final size:15
Alignment explanation
Indices: 107685936--107685968 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
107685926 ACTTATTTTA
107685936 ATTTATTATATATATT
1 ATTTATTATAT-TATT
107685952 ATTTATTATATTATT
1 ATTTATTATATTATT
107685967 AT
1 AT
107685969 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTATATTATT
Found at i:107686003 original size:7 final size:7
Alignment explanation
Indices: 107685986--107686128 Score: 51
Period size: 7 Copynumber: 21.4 Consensus size: 7
107685976 AAATTTGTAA
107685986 ATTAT-T
1 ATTATAT
107685992 ATTATAT
1 ATTATAT
107685999 ATTATAT
1 ATTATAT
107686006 -TT-TA-
1 ATTATAT
107686010 ACTTATAT
1 A-TTATAT
107686018 ATCT-TAT
1 AT-TATAT
*
107686025 A-TATTT
1 ATTATAT
107686031 ATT-TAT
1 ATTATAT
*
107686037 ATTATAC
1 ATTATAT
107686044 ATTAT-T
1 ATTATAT
*
107686050 -TTA-AA
1 ATTATAT
*
107686055 ACTTACAT
1 A-TTATAT
*
107686063 -TTTTAT
1 ATTATAT
107686069 ATTATAT
1 ATTATAT
*
107686076 ATTATAA
1 ATTATAT
*
107686083 ATTATTT
1 ATTATAT
*
107686090 CATT-TTT
1 -ATTATAT
107686097 ATTAT-T
1 ATTATAT
*
107686103 TTATATACT
1 AT-TATA-T
107686112 ATTATAT
1 ATTATAT
*
107686119 ATTATCT
1 ATTATAT
107686126 ATT
1 ATT
107686129 TTAAAATTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 37
0.66 0.10 0.24
Matches are distributed among these distances:
5 6 0.06
6 26 0.25
7 59 0.57
8 10 0.10
9 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:107690045 original size:15 final size:15
Alignment explanation
Indices: 107690016--107690058 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
107690006 CTTTTTGTAT
107690016 TCATGCATTTGCATC
1 TCATGCATTTGCATC
107690031 TCATAGCATTT-CATC
1 TCAT-GCATTTGCATC
*
107690046 ACAT-CATTTGCAT
1 TCATGCATTTGCAT
107690059 TCAAAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (15 bp):
TCATGCATTTGCATC
Found at i:107699647 original size:26 final size:26
Alignment explanation
Indices: 107699618--107699670 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
107699608 TCAAACATGC
*
107699618 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
107699644 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
107699670 A
1 A
107699671 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:107701194 original size:26 final size:26
Alignment explanation
Indices: 107701158--107701267 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
107701148 CATGAAATTC
*
107701158 TTATCATGAAACATTTACCTAACCGA
1 TTATCATGAAACATTTACCTAACCTA
*
107701184 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
107701210 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
107701236 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
107701262 TTATCA
1 TTATCA
107701268 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:107702334 original size:30 final size:29
Alignment explanation
Indices: 107702292--107702348 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
107702282 CCCAAACACA
*
107702292 AAACCCAAATACCTCAGACCCGTTACAGC
1 AAACCCAAATACCCCAGACCCGTTACAGC
*
107702321 AAACCCAAAATACCCCAGACCTGTTACA
1 AAACCC-AAATACCCCAGACCCGTTACA
107702349 CCCTACCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.40, C:0.37, G:0.09, T:0.14
Consensus pattern (29 bp):
AAACCCAAATACCCCAGACCCGTTACAGC
Found at i:107702357 original size:30 final size:30
Alignment explanation
Indices: 107702287--107702359 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
107702277 AAGAGCCCAA
* *
107702287 ACACAAAACCC-AAATACCTCAGACCCGTT
1 ACACCAAACCCAAAATACCCCAGACCCGTT
* *
107702316 ACAGCAAACCCAAAATACCCCAGACCTGTT
1 ACACCAAACCCAAAATACCCCAGACCCGTT
**
107702346 ACACCCTACCCAAA
1 ACACCAAACCCAAA
107702360 CCAGACCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 9 0.25
30 27 0.75
ACGTcount: A:0.41, C:0.40, G:0.07, T:0.12
Consensus pattern (30 bp):
ACACCAAACCCAAAATACCCCAGACCCGTT
Found at i:107703609 original size:16 final size:15
Alignment explanation
Indices: 107703590--107703622 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
107703580 ACTTATTTTA
107703590 ATTTATTATATATATT
1 ATTTATTATAT-TATT
107703606 ATTTATTATATTATT
1 ATTTATTATATTATT
107703621 AT
1 AT
107703623 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTATTATATTATT
Found at i:107703657 original size:7 final size:7
Alignment explanation
Indices: 107703640--107703784 Score: 51
Period size: 7 Copynumber: 21.4 Consensus size: 7
107703630 AAATTTGTAA
107703640 ATTAT-T
1 ATTATAT
107703646 ATTATAT
1 ATTATAT
107703653 ATTATAT
1 ATTATAT
107703660 -TT-TA-
1 ATTATAT
107703664 ACTTATAT
1 A-TTATAT
107703672 ATCT-TAT
1 AT-TATAT
*
107703679 A-TATTT
1 ATTATAT
107703685 ATT-TAT
1 ATTATAT
*
107703691 ATTATAC
1 ATTATAT
107703698 ATTAT-T
1 ATTATAT
* *
107703704 -TTAAAA
1 ATTATAT
*
107703710 ACTTACAT
1 A-TTATAT
*
107703718 -TTTTAT
1 ATTATAT
107703724 ATTATAT
1 ATTATAT
*
107703731 ATTATAA
1 ATTATAT
*
107703738 ATTATTT
1 ATTATAT
*
107703745 CATT-TTT
1 -ATTATAT
*
107703752 ATTATTT
1 ATTATAT
*
107703759 TTATATACT
1 AT-TATA-T
107703768 ATTATAT
1 ATTATAT
*
107703775 ATTATCT
1 ATTATAT
107703782 ATT
1 ATT
107703785 TTAAAATTCA
Statistics
Matches: 104, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
5 6 0.06
6 24 0.23
7 56 0.54
8 16 0.15
9 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:107709590 original size:18 final size:19
Alignment explanation
Indices: 107709569--107709610 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
107709559 ACAATATGTG
107709569 TATATAA-ATGTAAAATAA
1 TATATAATATGTAAAATAA
* *
107709587 TATATAATTTTTAAAATAA
1 TATATAATATGTAAAATAA
107709606 TATAT
1 TATAT
107709611 GATAATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TATATAATATGTAAAATAA
Found at i:107713204 original size:24 final size:26
Alignment explanation
Indices: 107713177--107713224 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
107713167 TATGAATACG
107713177 TACAT-ATAATATA-ATAT-TAAAATA
1 TACATAAT-ATATACATATATAAAATA
107713201 TACATAATATATACATATATAAAA
1 TACATAATATATACATATATAAAA
107713225 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TACATAATATATACATATATAAAATA
Found at i:107713455 original size:23 final size:21
Alignment explanation
Indices: 107713424--107713470 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
107713414 GAAATACTCA
*
107713424 ATATATA-AT-ATTTAAAAAT
1 ATATATACATAATATAAAAAT
107713443 ATATATACATAATATAAAAAT
1 ATATATACATAATATAAAAAT
107713464 ATATATA
1 ATATATA
107713471 TAGCGTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 16 0.64
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATACATAATATAAAAAT
Found at i:107713471 original size:23 final size:24
Alignment explanation
Indices: 107713428--107713490 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
107713418 TACTCAATAT
107713428 ATAATATTTAAAA-ATATATATA-C
1 ATAATA-TTAAAATATATATATAGC
*
107713451 ATAATATAAAAATATATATATAGC
1 ATAATATTAAAATATATATATAGC
* *
107713475 GTAGTATTAAAATATA
1 ATAATATTAAAATATA
107713491 AACACAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.15
23 15 0.44
24 14 0.41
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (24 bp):
ATAATATTAAAATATATATATAGC
Found at i:107715596 original size:88 final size:87
Alignment explanation
Indices: 107715383--107715799 Score: 382
Period size: 88 Copynumber: 4.7 Consensus size: 87
107715373 TTACTCGGTG
** * * * * *
107715383 TGTGACCCTGA-GCTCAACTCATTTCTCGCAATATGAATTGACTTTTAAAAACTAGACATTAAAA
1 TGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-AGAAATTGAAA
*
107715447 ACAGAA-ATTGAAAA-ACAGCTCAGCA
64 ACA-AATTTTGAAAATAC--CTCAGCA
* **** * * * *
107715472 CGTGAGTAAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTTGCCAAA
1 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AAAA
*
107715537 CAGATTTTGAAAATACCTCAGCA
65 CAAATTTTGAAAATACCTCAGCA
* * * *
107715560 TGTGACCCGAGGCTCAACTCACCTCTTGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAA
1 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTGAAAA
107715625 -AACATTAATTGAAAATACCTCAGC-
65 CAA-ATT--TTGAAAATACCTCAGCA
*
107715649 -GTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAA
1 TGTGACC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTG-AA
** *
107715711 AACAAAAATTGAAAAGACCTCAGCA
63 AACAAATTTTGAAAATACCTCAGCA
** * *
107715736 TGTGAGTCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAAAAATTGAAA
1 TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAA
107715800 TTACCTCAAC
Statistics
Matches: 269, Mismatches: 43, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
86 15 0.06
87 16 0.06
88 143 0.53
89 77 0.29
90 18 0.07
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (87 bp):
TGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAC
AAATTTTGAAAATACCTCAGCA
Found at i:107715959 original size:89 final size:89
Alignment explanation
Indices: 107715791--107715960 Score: 270
Period size: 89 Copynumber: 1.9 Consensus size: 89
107715781 TGACAAACAA
* * *
107715791 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATCGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
107715856 TGAAGAGCAGAAATTGGAAAGCAG
66 TGAAGAACAGAAATTGGAAAGCAG
*
107715880 AAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATCGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
107715945 TGACA-AACATAAATTG
66 TGA-AGAACAGAAATTG
107715961 AAATTACCTC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 73 0.99
90 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (89 bp):
AAATCGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAGAACAGAAATTGGAAAGCAG
Found at i:107716013 original size:75 final size:72
Alignment explanation
Indices: 107715877--107716036 Score: 257
Period size: 75 Copynumber: 2.2 Consensus size: 72
107715867 AATTGGAAAG
*
107715877 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
107715942 TTTTGACAAA
63 TTTTGACAAA
* * *
107715952 CATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
107716017 TGACAAA
66 TGACAAA
107716024 CAGAAATTGAAAA
1 CAGAAATTGAAAA
107716037 ACAGAAATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
72 21 0.27
75 58 0.73
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TGACAAA
Found at i:107716038 original size:14 final size:14
Alignment explanation
Indices: 107716016--107716050 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
107716006 TGAGTTGATT
*
107716016 TTGACAAACAGAAA
1 TTGAAAAACAGAAA
107716030 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
107716044 TTGAAAA
1 TTGAAAA
107716051 GACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:107716128 original size:161 final size:161
Alignment explanation
Indices: 107715624--107716288 Score: 914
Period size: 164 Copynumber: 4.1 Consensus size: 161
107715614 TAAATTGAAA
* *
107715624 AAACATTAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACATAAATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * **
107715688 A-TTTTGACGAACAGAAATTGAAAAACAAAAATTGAAAAGACCTCAGCATGTG-AGTCGAGGCTC
65 ATTTTTGAAGAACAGAAATTGAAAAACAGAAATCGAAAAGACCTCAGC--GTGCCCT-GAGGCTC
*
107715751 AACTCACCTCTCGCGATATGAGTTGA-TTTTTGAC
127 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
* *
107715785 AAACAAAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
107715850 TTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAA
66 --TTTTTGAAGAACAGAAATTGAAAAACAGAAATCGAAAAGACCTCAGCGTGCCCTGAGGCTCAA
107715915 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
129 CTCACCTCTCGCAATATGAGTTGA-TTTTTTGAC
107715949 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* **
107716014 -TTTTGACA-AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTG-AGTCGAGGCTC
66 TTTTTGA-AGAACAGAAATTGAAAAACAGAAATCGAAAAGACCTCAGC--GTGCCCT-GAGGCTC
* *
107716076 AACTCATCTCTCGCGATATGAGTTGA-TTTTTGAC
127 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
* *
107716110 AAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * * *
107716175 TTTTTTTGAAGAGCAAAAATTGGAAAGCAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAA
66 --TTTTTGAAGAACAGAAATTGAAAAACAGAAATCGAAAAGACCTCAGCGTGCCCTGAGGCTCAA
107716240 CTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
129 CTCACCTCTCGCAATATGAGTTGA-TTTTTTGAC
107716274 AAACATAAATTGAAA
1 AAACATAAATTGAAA
107716289 AAAACTAAAA
Statistics
Matches: 447, Mismatches: 39, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
161 167 0.37
162 74 0.17
163 37 0.08
164 169 0.38
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (161 bp):
AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAGAACAGAAATTGAAAAACAGAAATCGAAAAGACCTCAGCGTGCCCTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTTGAC
Found at i:107716183 original size:75 final size:72
Alignment explanation
Indices: 107716030--107716178 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 72
107716020 CAAACAGAAA
* * ** * *
107716030 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTG-AGTCGAGGCTCAACTCATCTCTCGCGATA
1 TTGACAAACAGAAATTGAAAATACCTCAGC--GTGCCCT-GAGGCTCAACTCACCTCTCGCAATA
107716094 TGAGTTGATTT
63 TGAGTTGA-TT
* * *
107716105 TTGACAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
107716170 GTTGATT
66 GTTGATT
107716177 TT
1 TT
107716179 TTTGAAGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
72 4 0.06
73 34 0.52
74 1 0.02
75 26 0.40
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (72 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:107716221 original size:325 final size:325
Alignment explanation
Indices: 107715624--107716289 Score: 1235
Period size: 325 Copynumber: 2.0 Consensus size: 325
107715614 TAAATTGAAA
*
107715624 AAACATTAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
107715689 TTTTGACGAACAGAAATTGAAAAACAAAAATTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAAC
66 TTTTGACAAACAGAAATTGAAAAACAAAAATTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAAC
107715754 TCACCTCTCGCGATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGA
131 TCACCTCTCGCGATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGA
*
107715819 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAAAT
196 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAGCAGAAAT
107715884 CGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
261 CGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
*
107715949 AAACATAAATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACATAAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
107716013 ATTTTGACAAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAA
65 ATTTTGACAAACAGAAATTGAAAAACAAAAATTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAA
* * * *
107716078 CTCATCTCTCGCGATATGAGTTGATTTTTGACAAATAGAAATTGAAATTACCTCAGCGTGTCCTG
130 CTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTG
107716143 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAGCAGAAA
195 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAGCAGAAA
107716208 TCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
260 TCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
107716273 C
325 C
107716274 AAACATAAATTGAAAA
1 AAACATAAATTGAAAA
107716290 AAACTAAAAT
Statistics
Matches: 330, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
325 327 0.99
326 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (325 bp):
AAACATAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTGACAAACAGAAATTGAAAAACAAAAATTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAAC
TCACCTCTCGCGATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAACGTGTCCTGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAAAAATTGGAAAGCAGAAAT
CGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAC
Found at i:107716265 original size:89 final size:91
Alignment explanation
Indices: 107716113--107716359 Score: 367
Period size: 89 Copynumber: 2.7 Consensus size: 91
107716103 TTTTGACAAA
107716113 TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
107716178 TTTTGA-AGAGCAAAAATTG-GAAAGC
66 TTTTGACA-AACAAAAATTGAAAAAAC
* * *
107716203 -AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
107716267 TTTTGACAAACATAAATTGAAAAAAAC
66 TTTTGACAAACAAAAATTG-AAAAAAC
* *
107716294 TA-AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGATTTGATTT
1 TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
107716358 TT
66 TT
107716360 GAAAAATAGA
Statistics
Matches: 141, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
89 76 0.54
90 1 0.01
91 63 0.45
92 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (91 bp):
TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGACAAACAAAAATTGAAAAAAC
Found at i:107730597 original size:22 final size:18
Alignment explanation
Indices: 107730572--107730617 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
107730562 AGAGTTAACG
* *
107730572 AAAATATATGATAGTACAA
1 AAAAAATAT-ATAATACAA
107730591 CAAAAAATATATAATACAA
1 -AAAAAATATATAATACAA
107730610 AAAAAATA
1 AAAAAATA
107730618 CCATGACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (18 bp):
AAAAAATATATAATACAA
Found at i:107730614 original size:19 final size:20
Alignment explanation
Indices: 107730572--107730615 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
107730562 AGAGTTAACG
* * *
107730572 AAAATATATGATAGTACAAC
1 AAAAAATATGATAATACAAA
107730592 AAAAAATAT-ATAATACAAA
1 AAAAAATATGATAATACAAA
107730611 AAAAA
1 AAAAA
107730616 TACCATGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAAAATATGATAATACAAA
Found at i:107732668 original size:26 final size:26
Alignment explanation
Indices: 107732632--107732741 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
107732622 CATTAAATTC
107732632 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
107732658 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
107732684 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
107732710 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
107732736 TTATCA
1 TTATCA
107732742 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:107733490 original size:30 final size:29
Alignment explanation
Indices: 107733435--107733492 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
107733425 ATGTATTTTT
* *
107733435 CTTTAAATCTATTTATGATTGTATATTTC
1 CTTTAAATCAATTTATGATTATATATTTC
107733464 CTTTAAATCAATTATAT-ATATATATATTT
1 CTTTAAATCAATT-TATGAT-TATATATTT
107733493 AAAAATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.53
Consensus pattern (29 bp):
CTTTAAATCAATTTATGATTATATATTTC
Found at i:107734893 original size:127 final size:127
Alignment explanation
Indices: 107734601--107734895 Score: 349
Period size: 127 Copynumber: 2.3 Consensus size: 127
107734591 CCCCAAACCA
** * *
107734601 AAGGCAATGTTTGATGTTTGGAAATTCGAAGAATCGTGTCCTATCGTGCCGGGTTTCGATTTCCC
1 AAGGCAATGTTCAATGTTTGGAAATTCGAAGAATCGTGCCCAATCGTGCCGGGTTTCGATTTCCC
* * *
107734666 GTTTGTTTAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTTCAAAATGCTAAGAC
66 GTTTGCTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATCTTCAAAATGCTAAGAC
* * * * ** ** *
107734728 AAGGCAATATTCAACGCTTGGAAATTTGGGGAATCGTGCCCAATCGTGTTGGGTTTCGATTTCCG
1 AAGGCAATGTTCAATGTTTGGAAATTCGAAGAATCGTGCCCAATCGTGCCGGGTTTCGATTTCCC
* * * * * *
107734793 GTTTGCTCAAAATAGTTGGATATTCCTTTAGAATTTCATTCATATTTTCTAAATGCT-AGAGC
66 GTTTGCTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATCTTCAAAATGCTAAGA-C
* * *
107734855 GAGGCAATGTTCAATGTTTGGAAATTCGATGAAACGTGCCC
1 AAGGCAATGTTCAATGTTTGGAAATTCGAAGAATCGTGCCC
107734896 TACCGTGCTG
Statistics
Matches: 137, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
126 3 0.02
127 134 0.98
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (127 bp):
AAGGCAATGTTCAATGTTTGGAAATTCGAAGAATCGTGCCCAATCGTGCCGGGTTTCGATTTCCC
GTTTGCTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATCTTCAAAATGCTAAGAC
Found at i:107739369 original size:28 final size:29
Alignment explanation
Indices: 107739323--107739378 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
107739313 TAATGTTATT
* *
107739323 TTTTTATTAATTAACTATTATTCTATTCA
1 TTTTTATTAATCAACTATTATTATATTCA
* *
107739352 TTTTTATT-ATCATCTATTTTTATATTC
1 TTTTTATTAATCAACTATTATTATATTC
107739379 GGAATAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTTATTAATCAACTATTATTATATTCA
Found at i:107759012 original size:26 final size:26
Alignment explanation
Indices: 107758983--107759090 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
107758973 TGATACAAAT
107758983 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
107759009 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107759035 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107759061 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
107759087 TGAT
1 TGAT
107759091 TGGAATTTTA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:107762441 original size:3 final size:3
Alignment explanation
Indices: 107762433--107762459 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
107762423 ACATTAGAAG
107762433 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
107762460 ATTAAAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:107781424 original size:37 final size:37
Alignment explanation
Indices: 107781374--107781449 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
107781364 GAGGTATTTA
*
107781374 AATAAGGAATTGGATTGCATTTTACCCCCTATTCAAG
1 AATAAGAAATTGGATTGCATTTTACCCCCTATTCAAG
*
107781411 AATAAGAAATTGGATTGTATTTTACCCCCTATTCAAG
1 AATAAGAAATTGGATTGCATTTTACCCCCTATTCAAG
107781448 AA
1 AA
107781450 ATAGGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (37 bp):
AATAAGAAATTGGATTGCATTTTACCCCCTATTCAAG
Found at i:107782471 original size:2 final size:2
Alignment explanation
Indices: 107782466--107782498 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
107782456 ACACACTTAA
*
107782466 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107782499 AATGTGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:107785487 original size:29 final size:29
Alignment explanation
Indices: 107785416--107785490 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
107785406 ATGCATAATC
* *
107785416 ATTAATTTAATTCCATTTCATTTATAAGC
1 ATTAATTTAATTCTATTTCATTTATAAGA
*
107785445 ATTAATTTAATTCTATTTTATTTATAAGA
1 ATTAATTTAATTCTATTTCATTTATAAGA
107785474 ATTAATTTAATTCTATT
1 ATTAATTTAATTCTATT
107785491 ATTTCAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (29 bp):
ATTAATTTAATTCTATTTCATTTATAAGA
Found at i:107790261 original size:14 final size:14
Alignment explanation
Indices: 107790242--107790268 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107790232 TTGATTTCAA
107790242 TTTTTTGTTTTTGC
1 TTTTTTGTTTTTGC
107790256 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
107790269 TACTGAACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.81
Consensus pattern (14 bp):
TTTTTTGTTTTTGC
Found at i:107790707 original size:15 final size:15
Alignment explanation
Indices: 107790674--107790707 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
107790664 AATAAATTAT
* *
107790674 TTAAAAAATATAAAT
1 TTAAAAAATAAAAAA
107790689 TTAAAAAATAAAAAA
1 TTAAAAAATAAAAAA
107790704 TTAA
1 TTAA
107790708 TTCAACTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TTAAAAAATAAAAAA
Found at i:107799364 original size:18 final size:18
Alignment explanation
Indices: 107799341--107799433 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
107799331 CCCAACTACT
*
107799341 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
107799359 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
107799377 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
107799395 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
107799413 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
107799431 GTA
1 GTA
107799434 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:107799393 original size:36 final size:36
Alignment explanation
Indices: 107799341--107799433 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
107799331 CCCAACTACT
*
107799341 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
107799377 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
107799413 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
107799434 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:107807058 original size:16 final size:16
Alignment explanation
Indices: 107807037--107807075 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
107807027 GTTTGATTAA
*
107807037 CTGTAATAGAATAGAG
1 CTGTAATAAAATAGAG
107807053 CTGTAATAAAATAGAG
1 CTGTAATAAAATAGAG
*
107807069 TTGTAAT
1 CTGTAAT
107807076 TAGTAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (16 bp):
CTGTAATAAAATAGAG
Found at i:107807237 original size:7 final size:7
Alignment explanation
Indices: 107807225--107807251 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
107807215 ATATATATTT
107807225 AATAATA
1 AATAATA
107807232 AATAATA
1 AATAATA
107807239 AATAATA
1 AATAATA
107807246 AATAAT
1 AATAAT
107807252 TTAATCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:107807283 original size:16 final size:15
Alignment explanation
Indices: 107807259--107807301 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
107807249 AATTTAATCA
*
107807259 TATTTAATATAAATAT
1 TATTAAATATAAAT-T
107807275 TATTAAATAT-AATT
1 TATTAAATATAAATT
*
107807289 TATTAAAAATAAA
1 TATTAAATATAAA
107807302 AATATATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 10 0.42
15 5 0.21
16 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATTAAATATAAATT
Found at i:107807349 original size:16 final size:16
Alignment explanation
Indices: 107807319--107807369 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
107807309 GATTTAATAA
*
107807319 TATTTTTA-ATAAAAT
1 TATTTTTATATTAAAT
107807334 TATTTTTATATTAAAT
1 TATTTTTATATTAAAT
* *
107807350 TA-TATTATATTAAAA
1 TATTTTTATATTAAAT
107807365 TATTT
1 TATTT
107807370 CAAATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 21 0.70
16 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTTATATTAAAT
Found at i:107807981 original size:92 final size:92
Alignment explanation
Indices: 107807867--107808052 Score: 372
Period size: 92 Copynumber: 2.0 Consensus size: 92
107807857 TAGATAGTTA
107807867 TTAAGTTTGTTTAGTAAGTTGTTAGTAGAATGGTGTATATAAGTCAACTATTATAAGCTCATTGA
1 TTAAGTTTGTTTAGTAAGTTGTTAGTAGAATGGTGTATATAAGTCAACTATTATAAGCTCATTGA
107807932 ATTGAATCAAGTAAGAATTTTTTTTAC
66 ATTGAATCAAGTAAGAATTTTTTTTAC
107807959 TTAAGTTTGTTTAGTAAGTTGTTAGTAGAATGGTGTATATAAGTCAACTATTATAAGCTCATTGA
1 TTAAGTTTGTTTAGTAAGTTGTTAGTAGAATGGTGTATATAAGTCAACTATTATAAGCTCATTGA
107808024 ATTGAATCAAGTAAGAATTTTTTTTAC
66 ATTGAATCAAGTAAGAATTTTTTTTAC
107808051 TT
1 TT
107808053 TTGAATCAAT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (92 bp):
TTAAGTTTGTTTAGTAAGTTGTTAGTAGAATGGTGTATATAAGTCAACTATTATAAGCTCATTGA
ATTGAATCAAGTAAGAATTTTTTTTAC
Found at i:107808099 original size:20 final size:20
Alignment explanation
Indices: 107808045--107808102 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 20
107808035 TAAGAATTTT
* *
107808045 TTTTACTTTTGAATCAATTG
1 TTTTACTTTTGAATAAATTC
107808065 TTCTTA-TTGAATTGAATAAATTC
1 TT-TTACTT---TTGAATAAATTC
107808088 TTTTACTTTTGAATA
1 TTTTACTTTTGAATA
107808103 GATTGTTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 3 0.10
23 14 0.45
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (20 bp):
TTTTACTTTTGAATAAATTC
Found at i:107808929 original size:21 final size:21
Alignment explanation
Indices: 107808903--107808953 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
107808893 CTCTTGAATA
107808903 GATTGTTTTCCTATTTCAATT
1 GATTGTTTTCCTATTTCAATT
** *
107808924 GATTGTTTTTTTATTTTAATT
1 GATTGTTTTCCTATTTCAATT
107808945 GATTGTTTT
1 GATTGTTTT
107808954 AATATCTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (21 bp):
GATTGTTTTCCTATTTCAATT
Found at i:107812798 original size:24 final size:24
Alignment explanation
Indices: 107812766--107812815 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
107812756 TCTCTCTTTG
107812766 TACTCAATTATAATGGGACTCGTA
1 TACTCAATTATAATGGGACTCGTA
107812790 TACTCAATTATAATGGGACTCGTA
1 TACTCAATTATAATGGGACTCGTA
107812814 TA
1 TA
107812816 TTGCTAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (24 bp):
TACTCAATTATAATGGGACTCGTA
Found at i:107816415 original size:21 final size:22
Alignment explanation
Indices: 107816386--107816432 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
107816376 CAGAAGGAGT
*
107816386 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
107816408 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
107816429 GAGT
1 GAGT
107816433 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:107819583 original size:23 final size:23
Alignment explanation
Indices: 107819539--107819583 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
107819529 ACCAATTGAA
*
107819539 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
107819562 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
107819584 CACCTACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:107824515 original size:16 final size:16
Alignment explanation
Indices: 107824496--107824541 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
107824486 GCTGTAATAG
107824496 AATAGAGGCGTAATGA
1 AATAGAGGCGTAATGA
* *
107824512 AATAGATGCGTAATGG
1 AATAGAGGCGTAATGA
107824528 AATAGAGGCGTAAT
1 AATAGAGGCGTAAT
107824542 AGGTAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (16 bp):
AATAGAGGCGTAATGA
Found at i:107824610 original size:44 final size:46
Alignment explanation
Indices: 107824521--107824611 Score: 150
Period size: 44 Copynumber: 2.0 Consensus size: 46
107824511 AAATAGATGC
*
107824521 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
*
107824567 GTAATGGAATAGAGGTGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
107824611 G
1 G
107824612 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.47
45 3 0.07
46 20 0.47
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.40
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:107824612 original size:39 final size:44
Alignment explanation
Indices: 107824521--107824627 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 44
107824511 AAATAGATGC
* *
107824521 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGGTAATTCTTGTGTTTGGTT--AT
107824567 GTAATGGAATAGAGGTGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGGTAATTCTTGTGTTTGGTTAT
107824607 G-AATGGAATAGAGGTGTAATA
1 GTAATGGAATAGAGGTGTAATA
107824628 ACATAAGGAA
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 19 0.33
40 2 0.03
43 1 0.02
44 13 0.22
45 3 0.05
46 20 0.34
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGTGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:107824780 original size:16 final size:15
Alignment explanation
Indices: 107824770--107824925 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 15
107824760 CATAATTGTT
107824770 ATAAAATATAATTTA
1 ATAAAATATAATTTA
107824785 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
107824802 ATAAAAT-T--TTTA
1 ATAAAATATAATTTA
107824814 AT-AAATAT--TCTT-
1 ATAAAATATAAT-TTA
* * *
107824826 ATATGAAT-TTA-CTA
1 ATA-AAATATAATTTA
107824840 ATAAAATCATAATATATGA
1 ATAAAAT-ATAAT-T-T-A
107824859 TACTAAAATATAATTTA
1 -A-TAAAATATAATTTA
107824876 A-AATAAT-T-A-TT-
1 ATAA-AATATAATTTA
*
107824887 ATTAAATATAATTTA
1 ATAAAATATAATTTA
107824902 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
107824919 ATAAAAT
1 ATAAAAT
107824926 TGTTAATAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 50
0.66 0.04 0.30
Matches are distributed among these distances:
11 8 0.07
12 14 0.13
13 9 0.08
14 12 0.11
15 13 0.12
16 12 0.11
17 25 0.23
18 2 0.02
19 2 0.02
20 6 0.06
21 6 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:107824815 original size:17 final size:17
Alignment explanation
Indices: 107824775--107824808 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
107824765 TTGTTATAAA
107824775 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
107824792 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
107824809 TTTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:107824932 original size:17 final size:17
Alignment explanation
Indices: 107824892--107824925 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
107824882 TTATTATTAA
107824892 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
107824909 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
107824926 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:107824961 original size:117 final size:117
Alignment explanation
Indices: 107824755--107825244 Score: 795
Period size: 117 Copynumber: 4.3 Consensus size: 117
107824745 TTAATCATAT
* * * *
107824755 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
*
107824820 ATTCTTATATGAATTTACTAATAAAATCATAATATATGATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
107824872 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
107824937 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
* * *
107824989 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
107825054 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
66 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
*
107825106 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA---TT-CT---
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAAA
107825164 TATTCTTATATGAATTTAC---TAAAATCATAATATATAATACTATAAAATATAA
65 TATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC--TAAAATATAA
107825216 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
107825245 TAATCTACTT
Statistics
Matches: 358, Mismatches: 12, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
108 21 0.06
109 26 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
117 257 0.72
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (117 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
Found at i:107825024 original size:15 final size:15
Alignment explanation
Indices: 107825004--107825042 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
107824994 CATAATTGTT
107825004 ATAAAATATAATTTA
1 ATAAAATATAATTTA
107825019 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
107825036 ATAAAAT
1 ATAAAAT
107825043 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:107825049 original size:17 final size:17
Alignment explanation
Indices: 107825009--107825042 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
107824999 TTGTTATAAA
107825009 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
107825026 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
107825043 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:107825114 original size:20 final size:21
Alignment explanation
Indices: 107825075--107825114 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
107825065 AATTTACTAA
*
107825075 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
107825096 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
107825115 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:107825127 original size:26 final size:28
Alignment explanation
Indices: 107825082--107825161 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
107825072 TAATAAAATC
107825082 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
107825112 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
107825139 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
107825162 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:107825194 original size:44 final size:41
Alignment explanation
Indices: 107824859--107825194 Score: 137
Period size: 43 Copynumber: 8.3 Consensus size: 41
107824849 TAATATATGA
107824859 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
107824900 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
107824942 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
* * *
107824976 TACTAAAATATAATTTAACATAATTGTTATAAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * *
107825017 TAATAAAATATATAATTTAATAA-AATTGTTAATAAATAT--TCT
1 TACT-AAA-ATATAATTTAA-AATAATTATTATTAAATATAAT-T
* * * *
107825059 TA-T---AT-GAATTTACTAATAA-AATCA-TAATATATAA--
1 TACTAAAATATAATTTA-AAATAATTATTATTAA-ATATAATT
107825093 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
107825134 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
107825180 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
107825195 ATATAATACT
Statistics
Matches: 219, Mismatches: 33, Indels: 83
0.65 0.10 0.25
Matches are distributed among these distances:
34 10 0.05
35 30 0.14
36 8 0.04
38 13 0.06
39 29 0.13
40 5 0.02
41 13 0.06
42 13 0.06
43 54 0.25
44 30 0.14
45 7 0.03
46 7 0.03
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:107825240 original size:32 final size:32
Alignment explanation
Indices: 107825204--107825267 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
107825194 TATATAATAC
*
107825204 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
107825236 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
107825268 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:107830166 original size:22 final size:22
Alignment explanation
Indices: 107830136--107830178 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
107830126 AATTTACCAA
107830136 ATTTCTATAGGATACTTGTCAT
1 ATTTCTATAGGATACTTGTCAT
*
107830158 ATTTTTATAGGATACTTGTCA
1 ATTTCTATAGGATACTTGTCA
107830179 ACCCTCTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (22 bp):
ATTTCTATAGGATACTTGTCAT
Found at i:107831745 original size:47 final size:47
Alignment explanation
Indices: 107831690--107831782 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
107831680 TGTCACTTAG
* *
107831690 ATGAAAAATTATAAATGATTTTATATTTCGATAATCCTATTATAAAT
1 ATGAAAAATTACAAATGATTTTATATTTCGAAAATCCTATTATAAAT
*
107831737 ATGAAAAATTACAAATGATTTTATATTTCGAAAATTCTATTATAAA
1 ATGAAAAATTACAAATGATTTTATATTTCGAAAATCCTATTATAAA
107831783 AAAGTAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (47 bp):
ATGAAAAATTACAAATGATTTTATATTTCGAAAATCCTATTATAAAT
Found at i:107837892 original size:66 final size:66
Alignment explanation
Indices: 107837786--107837918 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
107837776 GTCAATAAAG
107837786 TCTGTCAATTCATGCATCGGTCGTTAGAGTTTCACTTTCGAGCAGTCAAAAGAATTCTGAGGTAT
1 TCTGTCAATTCATGCATCGGTCGTTAGAGTTTCACTTTCGAGCAGTCAAAAGAATTCTGAGGTAT
107837851 C
66 C
*
107837852 TCTGTCAATTCATGCATCGGTCGTTGGAGTTTCACTTTCGAGCAGTCAAAAGAATTCTGAGGTAT
1 TCTGTCAATTCATGCATCGGTCGTTAGAGTTTCACTTTCGAGCAGTCAAAAGAATTCTGAGGTAT
107837917 C
66 C
107837918 T
1 T
107837919 TCAAGGGACG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (66 bp):
TCTGTCAATTCATGCATCGGTCGTTAGAGTTTCACTTTCGAGCAGTCAAAAGAATTCTGAGGTAT
C
Found at i:107840899 original size:53 final size:53
Alignment explanation
Indices: 107840818--107840963 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 53
107840808 CTTACACGGT
* * *
107840818 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCATATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
107840873 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
107840926 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
107840964 AAGGGGCGCA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 76 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:107857254 original size:39 final size:39
Alignment explanation
Indices: 107857197--107857318 Score: 190
Period size: 39 Copynumber: 3.1 Consensus size: 39
107857187 NNNNNNNNNN
* * * *
107857197 CCGGAGTCGGTAAACTTATTTCCTGTGCCAAGGCTTGGT
1 CCGGATTCGGTAAACTTATTTCCCGTTCCAGGGCTTGGT
*
107857236 CCGGATTCGGTAAGCTTATTTCCCGTTCCAGGGCTTGGT
1 CCGGATTCGGTAAACTTATTTCCCGTTCCAGGGCTTGGT
*
107857275 CCGGATTCAGTAAACTTATTTCCCGTTCCAGGGCTTGGT
1 CCGGATTCGGTAAACTTATTTCCCGTTCCAGGGCTTGGT
107857314 CCGGA
1 CCGGA
107857319 GTCCTTGATG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.31
Consensus pattern (39 bp):
CCGGATTCGGTAAACTTATTTCCCGTTCCAGGGCTTGGT
Found at i:107858569 original size:16 final size:17
Alignment explanation
Indices: 107858540--107858573 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
107858530 ATTATATAAT
107858540 TAAACTTTAATCATTAA
1 TAAACTTTAATCATTAA
*
107858557 TAAA-TTTAGTCATTAA
1 TAAACTTTAATCATTAA
107858573 T
1 T
107858574 GCTAACCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (17 bp):
TAAACTTTAATCATTAA
Found at i:107861592 original size:53 final size:53
Alignment explanation
Indices: 107861458--107861601 Score: 209
Period size: 53 Copynumber: 2.7 Consensus size: 53
107861448 CGCCCGTTTT
**
107861458 AGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTATA
1 AGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTATA
*
107861511 AGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTATA
1 AGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTATA
* *
107861564 AGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 AGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
107861602 ACCGTGTAAG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 75 0.90
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
AGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTATA
Found at i:107869080 original size:53 final size:53
Alignment explanation
Indices: 107868940--107869089 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
107868930 ATAAGTGCGC
* **
107868940 CCGTTTAAGACCATAG-TGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
107868992 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
107869045 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
107869090 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
52 16 0.18
53 65 0.74
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:107874404 original size:7 final size:7
Alignment explanation
Indices: 107874392--107874417 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
107874382 TTATATAGGT
107874392 AATACTA
1 AATACTA
107874399 AATACTA
1 AATACTA
107874406 AATACTA
1 AATACTA
107874413 AATAC
1 AATAC
107874418 GAAACGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:107875572 original size:21 final size:22
Alignment explanation
Indices: 107875534--107875581 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
107875524 ACACAAATTT
*
107875534 TTTGAAAAAAATTAGAGACAAC
1 TTTGAAAAAAATTAGAGACAAA
* *
107875556 TTTGATAAAAATT-GAGAGAAA
1 TTTGAAAAAAATTAGAGACAAA
107875577 TTTGA
1 TTTGA
107875582 GAGAATTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.29
Consensus pattern (22 bp):
TTTGAAAAAAATTAGAGACAAA
Found at i:107875810 original size:28 final size:29
Alignment explanation
Indices: 107875765--107875820 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
107875755 TTAGGGAAAA
* *
107875765 TGGTCCTTTTCCAAAATAA-TAAAAAAGT
1 TGGTCCATTTCCAAAATAACGAAAAAAGT
**
107875793 TGGTCCATTTCCGTAATAACGAAAAAAG
1 TGGTCCATTTCCAAAATAACGAAAAAAG
107875821 GACTTTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (29 bp):
TGGTCCATTTCCAAAATAACGAAAAAAGT
Found at i:107876412 original size:21 final size:22
Alignment explanation
Indices: 107876359--107876419 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
107876349 GGCTTATTTC
* *
107876359 ATAAATAAAAAATTAAAAATATA
1 ATAAATCAAATATT-AAAATATA
107876382 ATAAATCAAATCATTAAAATATA
1 ATAAATCAAAT-ATTAAAATATA
107876405 A-AAA-CAAATATTAAA
1 ATAAATCAAATATTAAA
107876420 CAAGAACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 3 0.09
23 18 0.51
24 3 0.09
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAATCAAATATTAAAATATA
Found at i:107876539 original size:26 final size:25
Alignment explanation
Indices: 107876470--107876541 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
107876460 CAATACACAA
**
107876470 ATTAAAAATATAATAAAAAGTGTTAT
1 ATTAAAAATA-AATAAAAAGTAATAT
*
107876496 ATTAAAATTGAAATAAAAAGTAAATAT
1 ATTAAAAAT-AAATAAAAAGT-AATAT
*
107876523 GATTAAAAATAAAAAAAAA
1 -ATTAAAAATAAATAAAAA
107876542 TTATTTAGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
26 18 0.47
27 12 0.32
28 8 0.21
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (25 bp):
ATTAAAAATAAATAAAAAGTAATAT
Found at i:107891338 original size:16 final size:17
Alignment explanation
Indices: 107891317--107891350 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
107891307 ATGGGTTAGC
107891317 ATTAATGACTAAA-TTT
1 ATTAATGACTAAAGTTT
*
107891333 ATTAATGATTAAAGTTT
1 ATTAATGACTAAAGTTT
107891350 A
1 A
107891351 ATTATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (17 bp):
ATTAATGACTAAAGTTT
Found at i:107892626 original size:39 final size:39
Alignment explanation
Indices: 107892572--107892732 Score: 225
Period size: 39 Copynumber: 4.1 Consensus size: 39
107892562 CATCAAGGAC
* *
107892572 TCCGGACCAAGCCCTGGAACGGGAAATAAGTTTACTGAA
1 TCCGGACCAAGCCCTGGAACAGGAAATAAGTTTACCGAA
* *
107892611 TCCGGACCAAGCCCTGGAACGGGAAATAAGCTTACCGAA
1 TCCGGACCAAGCCCTGGAACAGGAAATAAGTTTACCGAA
* * *
107892650 TCCGGACCAAGCCTTGGCACAGGAAATAAGTTTACCGAC
1 TCCGGACCAAGCCCTGGAACAGGAAATAAGTTTACCGAA
* *
107892689 TCCGGTCCAAGCCCTGGAACAGGAAATAGGTTTACC-AA
1 TCCGGACCAAGCCCTGGAACAGGAAATAAGTTTACCGAA
107892727 CTCCGG
1 -TCCGG
107892733 CTCGAGCCCT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
38 1 0.01
39 108 0.99
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (39 bp):
TCCGGACCAAGCCCTGGAACAGGAAATAAGTTTACCGAA
Found at i:107895440 original size:40 final size:40
Alignment explanation
Indices: 107895202--107895426 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
107895192 TCGAATGATG
* * * * *
107895202 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
107895242 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
107895282 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
107895321 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
107895361 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
107895402 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
107895427 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 118 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:107895449 original size:119 final size:119
Alignment explanation
Indices: 107895209--107895459 Score: 260
Period size: 119 Copynumber: 2.1 Consensus size: 119
107895199 ATGTCCGGGC
* *
107895209 TAAGTCCCAAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAG
** ** *
107895274 ATACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGT
66 ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
* * ** *
107895328 TAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCATTTGTGCG
* * * *
107895391 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-AGT
64 AGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
* *
107895447 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
107895460 TATGTGATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 75 0.69
120 31 0.28
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTTGTGCGAG
ATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATCCGAGT
Found at i:107903423 original size:39 final size:40
Alignment explanation
Indices: 107903315--107903539 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
107903305 TCGAATGATG
* * * *
107903315 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
107903355 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
107903395 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
107903434 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
107903474 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
107903515 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
107903540 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:107903561 original size:119 final size:119
Alignment explanation
Indices: 107903315--107903572 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
107903305 TCGAATGATG
* *
107903315 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
* **
107903380 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * ** *
107903434 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCAT
* * * * *
107903497 TTGTGCGAGTTACT-ATAACCGGGCTATGTTCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
107903554 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
107903573 TATGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:107908526 original size:26 final size:26
Alignment explanation
Indices: 107908495--107908602 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
107908485 TGAAATTCCC
*
107908495 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
107908521 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
107908547 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
107908573 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
107908599 ATCA
1 ATCA
107908603 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:107931445 original size:18 final size:18
Alignment explanation
Indices: 107931409--107931541 Score: 191
Period size: 18 Copynumber: 7.5 Consensus size: 18
107931399 AATCATATCT
*
107931409 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
107931428 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
107931446 TCTAAGATTGC-ATCATA
1 TCTAAGATTGCAATCATA
107931463 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
107931481 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
107931498 TCTAAGATTGCAATCATG
1 TCTAAGATTGCAATCATA
* *
107931516 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
107931533 TCTAAGATT
1 TCTAAGATT
107931542 ACATATCATC
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 46 0.44
18 47 0.45
19 11 0.11
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:107931466 original size:35 final size:35
Alignment explanation
Indices: 107931409--107931550 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
107931399 AATCATATCT
107931409 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
107931446 TCTAAGATTGCATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
107931481 TCTAAGATTGTATCATATCTAAGATTGCAATCATG
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
107931516 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
107931551 CGAAGATTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
35 84 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:107938530 original size:47 final size:46
Alignment explanation
Indices: 107938378--107938551 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 46
107938368 TGTAACCCGC
* * * *** *
107938378 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
*
107938424 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCACAT
* *
107938474 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATT-CACAT
107938518 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
107938552 GGATGCTCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 6 0.06
45 2 0.02
46 34 0.32
47 52 0.49
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
Found at i:107938546 original size:94 final size:93
Alignment explanation
Indices: 107938386--107938557 Score: 272
Period size: 94 Copynumber: 1.8 Consensus size: 93
107938376 GCCCATAAGT
* *** *
107938386 GAACTCGGACTCAACTCAACAAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
107938451 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
107938479 GAACTCGGACTCAACTCAACGAGTTCAGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
107938544 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
107938558 TCAACCATTC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 27 0.38
94 44 0.62
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:107938802 original size:23 final size:23
Alignment explanation
Indices: 107938775--107938822 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
107938765 TCCTATATTT
107938775 AACATCAATAACTTAAAAATAAC
1 AACATCAATAACTTAAAAATAAC
107938798 AACATCAATAACTTAAAAATAAC
1 AACATCAATAACTTAAAAATAAC
107938821 AA
1 AA
107938823 TTATGCTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (23 bp):
AACATCAATAACTTAAAAATAAC
Found at i:107939033 original size:30 final size:30
Alignment explanation
Indices: 107938999--107939058 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
107938989 CCTTAATACG
107938999 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
107939029 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
107939059 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:107947557 original size:37 final size:37
Alignment explanation
Indices: 107947500--107947604 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
107947490 TATGATCACT
*
107947500 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
107947535 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
107947572 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC
107947605 TAAAGCTATC
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 4 0.06
37 54 0.84
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Done.