Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2490255
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:734591 original size:99 final size:99
Alignment explanation
Indices: 734420--735093 Score: 924
Period size: 99 Copynumber: 6.7 Consensus size: 99
734410 AAGGGGCTTT
* * *
734420 CCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGATAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
*
734485 CTTCACAGCGAAGGGGCGATTGACTGTCAACTTC
66 CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
*
734519 CCAATTTCAGAGCCAATTTTAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
* *
734584 CTTCACAGTGAAGGGGCGACTGACTTTCAACTTC
66 CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
*
734618 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGATAGCACAAGCTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
* * *
734683 CTTCATAGCGAAGGGGCGGCTGACTGTTAACTTC
66 CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
734717 CCAATTTCAGAGCCAATTTCAACTTCACAGT-GAAGGATATTGGACTCAAGACAGCACAAGCTCA
1 CCAATTTCAGAGCCAATTTCAACTTCACA-TCGAAGGATATTGGACTCAAGACAGCACAAGCTCA
*
734781 ACTTCACAGCGAAGGGGCGGCTGACTGTCAACTTC
65 ACTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
* * * * *
734816 CCAATTTCAGAGCCAATTTCAACTTCATAACTAAGGATATTGGACCCAAGACAACACAAAGCTCA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCAC-AAGCTCA
* * **
734881 ACTTCAC-GACGAAGGGGCTACTGATTGTCAAC-AA
65 ACTTCACAG-CGAAGGGGCGACTGACTGTCAACTTC
* * * *
734915 ACAACTTTCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGAATCAAGACAGCACAAGCTCA
1 CCAA-TTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCA
* *
734980 ACTTCACTA-TGAAGGGGCGGCTGACTGTCAACAAACAATTCC
65 ACTTCAC-AGCGAAGGGGCGACTGACTGT---C-AAC--TT-C
* * * * *
735022 CCAATTTCAGATCCAATTTCAACTTCACATCAAAGGATATTGGACTCGAGACAACACAAGTTCAA
1 CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
735087 CTTCACA
66 CTTCACA
735094 ATAAAGGGAC
Statistics
Matches: 511, Mismatches: 49, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
99 362 0.71
100 82 0.16
102 1 0.00
103 3 0.01
105 1 0.00
106 59 0.12
107 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (99 bp):
CCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAGCACAAGCTCAA
CTTCACAGCGAAGGGGCGACTGACTGTCAACTTC
Found at i:735611 original size:21 final size:21
Alignment explanation
Indices: 735574--735653 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
735564 AATTTAGTCA
735574 AAACAAAGTTTTGTCTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTG
*
735596 AAACAAATTTTATCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
* *
735617 AGAC--A-GTT-TC-C-CTTG
1 AAACAAATTTTGTCTCTCTTG
735632 AAACAAATTTTGTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
735653 A
1 A
735654 GACAGTTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 3 0.06
18 4 0.09
19 3 0.06
20 1 0.02
21 21 0.45
22 7 0.15
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (21 bp):
AAACAAATTTTGTCTCTCTTG
Found at i:735633 original size:36 final size:36
Alignment explanation
Indices: 735592--735672 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
735582 TTTTGTCTCT
735592 CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
*
735628 CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCC
1 CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
735664 CTTGAAACA
1 CTTGAAACA
735673 CTAATCTTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.37
Consensus pattern (36 bp):
CTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCC
Found at i:735723 original size:67 final size:64
Alignment explanation
Indices: 735622--735767 Score: 184
Period size: 67 Copynumber: 2.2 Consensus size: 64
735612 TCTTGAGACA
* ** * * * **
735622 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACACTAATCTTTGAATT
1 GTTTCTCTTGAAACAAATTTTACCTCCCTTGAGACAGTTTCCCTTGAAA-A-AAACCTTTGAAAA
735687 T
64 T
*
735688 GTTTCTCTTGAAACATAATTTTACCTCCCTTGAGACAGTTTCTCTTGAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACA-AATTTTACCTCCCTTGAGACAGTTTCCCTTGAAAAAAACCTTTGAAAAT
735753 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
735768 CAAAACCTTC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
65 25 0.36
66 15 0.21
67 30 0.43
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.39
Consensus pattern (64 bp):
GTTTCTCTTGAAACAAATTTTACCTCCCTTGAGACAGTTTCCCTTGAAAAAAACCTTTGAAAAT
Found at i:735920 original size:84 final size:84
Alignment explanation
Indices: 735768--735954 Score: 259
Period size: 84 Copynumber: 2.2 Consensus size: 84
735758 TCTTGAAACA
*
735768 CAAA-ACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
*
735832 AGAAGGGCTATTTGCCAAC
66 AGAAGGGCTATATGCCAAC
* * * * * * *
735851 CAAAGGCCTTCGAGTTCGACTACGCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
*
735916 AGAAGGGCTATATGCCAGC
66 AGAAGGGCTATATGCCAAC
*
735935 CAAAGACCTGACGAGTTCGA
1 CAAAGACCT-TCGAGTTCGA
735955 TTTCATTCAG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
83 4 0.04
84 77 0.86
85 9 0.10
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (84 bp):
CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAACATAGCTCAAGGCA
AGAAGGGCTATATGCCAAC
Found at i:746062 original size:89 final size:90
Alignment explanation
Indices: 745925--746104 Score: 337
Period size: 90 Copynumber: 2.0 Consensus size: 90
745915 AAAATAAGAG
745925 TATTAGTTTCGATGTCCAATCAAGGAATTTTTACATTTTCTCTAAATCAGATT-GATGATTGATT
1 TATTAGTTTCGATGTCCAATCAAGGAATTTTTACATTTTCTCTAAATCAGATTGGATGATTGATT
745989 CCATAATTTTTTTTAAAGATCTGAT
66 CCATAATTTTTTTTAAAGATCTGAT
746014 TATTAGTTTCGATGTCCAATCAAGGAA-TTTTACATTTTCTCTAGAATCAGATTGGATGATTGAT
1 TATTAGTTTCGATGTCCAATCAAGGAATTTTTACATTTTCTCTA-AATCAGATTGGATGATTGAT
746078 TCCATAATTTTTTTTAAAGATCTGAT
65 TCCATAATTTTTTTTAAAGATCTGAT
746104 T
1 T
746105 CAACAGAACT
Statistics
Matches: 89, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
88 16 0.18
89 36 0.40
90 37 0.42
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.44
Consensus pattern (90 bp):
TATTAGTTTCGATGTCCAATCAAGGAATTTTTACATTTTCTCTAAATCAGATTGGATGATTGATT
CCATAATTTTTTTTAAAGATCTGAT
Found at i:746701 original size:82 final size:81
Alignment explanation
Indices: 746477--746742 Score: 223
Period size: 82 Copynumber: 3.3 Consensus size: 81
746467 CGCCGCAATT
* * * * ** * *
746477 GGTTCATCCATAGTGACTTTTTTCAACAAACGTAGTGACAAAGTAATACTTTAGC-GGTGTTTAT
1 GGTTCATCAATAGTGGCATTTTTCAACAAACGCAGCAACAAAGTAGTACTTTAGCGGGTTTTTAT
*
746541 ACAAACGCCATAATAG
66 ACAAACACCATAATAG
* * * * ** * *
746557 AGTTCATCAATTGTGGCATTTTTCGACAAATGCAGCAATGAAGTAGTACTTTAGTGATGTTTTTA
1 GGTTCATCAATAGTGGCATTTTTCAACAAACGCAGCAACAAAGTAGTACTTTAGCG-GGTTTTTA
* * *
746622 TACAAATATCGTAATAG
65 TACAAACACCATAATAG
* * *
746639 GGTTCATCTATAGTGGCATTTTTCAACAAACACAACAACAAAGTAGTACTTTAGCGGCGTTTTTT
1 GGTTCATCAATAGTGGCATTTTTCAACAAACGCAGCAACAAAGTAGTACTTTAGCGG-G-TTTTT
* * **
746704 ATACGAACGCTGTAATAG
64 ATACAAACACCATAATAG
*
746722 GG-TCATTC-ATAGTGCCATTTT
1 GGTTCA-TCAATAGTGGCATTTT
746743 CAAGAACGAG
Statistics
Matches: 144, Mismatches: 37, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
80 41 0.28
82 81 0.56
83 22 0.15
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (81 bp):
GGTTCATCAATAGTGGCATTTTTCAACAAACGCAGCAACAAAGTAGTACTTTAGCGGGTTTTTAT
ACAAACACCATAATAG
Found at i:748039 original size:16 final size:16
Alignment explanation
Indices: 748013--748052 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
748003 ATCGTTGATT
748013 TTGACCCGACCCGACCG
1 TTGA-CCGACCCGACCG
748030 TTGACCGACCCGACCG
1 TTGACCGACCCGACCG
748046 TTGACCG
1 TTGACCG
748053 TTGACCGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (16 bp):
TTGACCGACCCGACCG
Found at i:748103 original size:29 final size:29
Alignment explanation
Indices: 748059--748137 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 29
748049 ACCGTTGACC
*
748059 GGTGATATTCTAGGAATTAATTCA-ATTTT
1 GGTGATATTCTGGGAATTAATTCAGA-TTT
748088 GGTGATATTCTGGGAA-TAATT-AGATTT
1 GGTGATATTCTGGGAATTAATTCAGATTT
* *
748115 GGTGATATTTTGGGAATTTATTC
1 GGTGATATTCTGGGAATTAATTC
748138 GGGAAAAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 19 0.43
28 10 0.23
29 15 0.34
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (29 bp):
GGTGATATTCTGGGAATTAATTCAGATTT
Found at i:748308 original size:16 final size:16
Alignment explanation
Indices: 748287--748320 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
748277 AAACAGCCGT
748287 TAATCTTTTCCAAGAA
1 TAATCTTTTCCAAGAA
748303 TAATCTTTTCCAAGAA
1 TAATCTTTTCCAAGAA
748319 TA
1 TA
748321 CCTTTCCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (16 bp):
TAATCTTTTCCAAGAA
Found at i:748936 original size:24 final size:24
Alignment explanation
Indices: 748910--748987 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 24
748900 TATCTGATTT
*
748910 TTGACCTGGATTCTGATATGATAT
1 TTGACCTGGATTCTGATATGATAC
* * *
748934 TTGACCTGAATTTTTATATGATAC
1 TTGACCTGGATTCTGATATGATAC
* * *
748958 TTGACATGGACTCTGATTTG-TAC
1 TTGACCTGGATTCTGATATGATAC
748981 TTGACCT
1 TTGACCT
748988 TAATTATGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 9 0.21
24 34 0.79
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
TTGACCTGGATTCTGATATGATAC
Found at i:755308 original size:24 final size:24
Alignment explanation
Indices: 755276--755331 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
755266 CTATTCTTTC
755276 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
755300 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
755324 GCTTCAAT
1 GCTTCAAT
755332 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:755613 original size:30 final size:31
Alignment explanation
Indices: 755578--755661 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
755568 TTTTAGCCGG
755578 TTTTCCCAGTTTTCAGCCGGTTCA-CCCCGA
1 TTTTCCCAGTTTTCAGCCGGTTCACCCCCGA
*
755608 TTTTCCCAGTTTTCAGCCGGTTCACCCCCGG
1 TTTTCCCAGTTTTCAGCCGGTTCACCCCCGA
* *
755639 TTTTCTCGGTTTTCAGCCGGTTC
1 TTTTCCCAGTTTTCAGCCGGTTC
755662 TTCCAGTTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 24 0.48
31 26 0.52
ACGTcount: A:0.10, C:0.35, G:0.19, T:0.37
Consensus pattern (31 bp):
TTTTCCCAGTTTTCAGCCGGTTCACCCCCGA
Found at i:755643 original size:31 final size:30
Alignment explanation
Indices: 755574--755661 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
755564 CGGTTTTTAG
755574 CCGGTTTTCCCAGTTTTCAGCCGGTTCACC
1 CCGGTTTTCCCAGTTTTCAGCCGGTTCACC
*
755604 CCGATTTTCCCAGTTTTCAGCCGGTTCACCC
1 CCGGTTTTCCCAGTTTTCAGCCGGTTCA-CC
* *
755635 CCGGTTTTCTCGGTTTTCAGCCGGTTC
1 CCGGTTTTCCCAGTTTTCAGCCGGTTC
755662 TTCCAGTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 27 0.51
31 26 0.49
ACGTcount: A:0.09, C:0.35, G:0.20, T:0.35
Consensus pattern (30 bp):
CCGGTTTTCCCAGTTTTCAGCCGGTTCACC
Found at i:756404 original size:17 final size:17
Alignment explanation
Indices: 756382--756439 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 17
756372 ACCGGTTTTA
*
756382 ACCCGACCTGACCGTTG
1 ACCCGACCCGACCGTTG
756399 ACCCGACCCGACCGACTGTTG
1 ACCCGACCCGA-C--C-GTTG
756420 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
756437 ACC
1 ACC
756440 GCTGACTGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 17 0.47
18 2 0.06
20 2 0.06
21 15 0.42
ACGTcount: A:0.19, C:0.45, G:0.22, T:0.14
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:756421 original size:21 final size:21
Alignment explanation
Indices: 756382--756433 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
756372 ACCGGTTTTA
756382 ACCCGACCTGACCGTTGACCCG
1 ACCCGACC-GACCGTTGACCCG
*
756404 ACCCGACCGACTGTTGACCCG
1 ACCCGACCGACCGTTGACCCG
756425 ACCCGACCG
1 ACCCGACCG
756434 TTGACCGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.19, C:0.46, G:0.23, T:0.12
Consensus pattern (21 bp):
ACCCGACCGACCGTTGACCCG
Found at i:756493 original size:29 final size:30
Alignment explanation
Indices: 756446--756528 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
756436 GACCGCTGAC
* *
756446 TGGTGATATTCTGGTAATTAATTCGA-TTT
1 TGGTGATATTTTGGGAATTAATTCGATTTT
756475 TGGTGATATTTTGGGAATTAATTCGATTTT
1 TGGTGATATTTTGGGAATTAATTCGATTTT
*
756505 TGGTGATATTTTGGGAATTTATTC
1 TGGTGATATTTTGGGAATTAATTC
756529 TAAAAAGGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 24 0.48
30 26 0.52
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (30 bp):
TGGTGATATTTTGGGAATTAATTCGATTTT
Found at i:756548 original size:29 final size:30
Alignment explanation
Indices: 756506--756660 Score: 171
Period size: 29 Copynumber: 5.3 Consensus size: 30
756496 TTCGATTTTT
*
756506 GGTGATATTTTGGGAATTT-ATTCTAAAAA
1 GGTGCTATTTTGGGAATTTAATTCTAAAAA
756535 GGTGCTATTTTGGGAATTTAATTC-AGAAAA
1 GGTGCTATTTTGGGAATTTAATTCTA-AAAA
*
756565 GGTGCTATTTTGGGAATTTAATT-TGAAAA
1 GGTGCTATTTTGGGAATTTAATTCTAAAAA
* *
756594 -GTGCTGTTTTGGGAATTTAATTC-GAAAA
1 GGTGCTATTTTGGGAATTTAATTCTAAAAA
* * *
756622 TGTGCTATTTTGGTAA-TT-ATTTTAAAAA
1 GGTGCTATTTTGGGAATTTAATTCTAAAAA
*
756650 GGGTACTATTT
1 -GGTGCTATTT
756661 CTGTAAAATG
Statistics
Matches: 110, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
27 3 0.03
28 32 0.29
29 44 0.40
30 31 0.28
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTTAATTCTAAAAA
Found at i:756548 original size:59 final size:58
Alignment explanation
Indices: 756506--756660 Score: 190
Period size: 58 Copynumber: 2.7 Consensus size: 58
756496 TTCGATTTTT
756506 GGTGATATTTTGGGAATTT-ATTCTAAAAAGGTGCTATTTTGGGAATTTAATTCAGAAAA
1 GGTGATATTTTGGGAATTTAATT-TAAAAAGGTGCTATTTTGGGAATTTAATTC-GAAAA
* * *
756565 GGTGCTATTTTGGGAATTTAATTTGAAAA-GTGCTGTTTTGGGAATTTAATTCGAAAA
1 GGTGATATTTTGGGAATTTAATTTAAAAAGGTGCTATTTTGGGAATTTAATTCGAAAA
* * * * *
756622 TGTGCTATTTTGGTAA-TTATTTTAAAAAGGGTACTATTT
1 GGTGATATTTTGGGAATTTAATTTAAAAA-GGTGCTATTT
756661 CTGTAAAATG
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
56 10 0.12
57 19 0.23
58 29 0.35
59 23 0.27
60 3 0.04
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (58 bp):
GGTGATATTTTGGGAATTTAATTTAAAAAGGTGCTATTTTGGGAATTTAATTCGAAAA
Found at i:756567 original size:30 final size:30
Alignment explanation
Indices: 756506--756639 Score: 179
Period size: 29 Copynumber: 4.6 Consensus size: 30
756496 TTCGATTTTT
*
756506 GGTGATATTTTGGGAATTT-ATTCTA-AAAA
1 GGTGCTATTTTGGGAATTTAATTC-AGAAAA
756535 GGTGCTATTTTGGGAATTTAATTCAGAAAA
1 GGTGCTATTTTGGGAATTTAATTCAGAAAA
*
756565 GGTGCTATTTTGGGAATTTAATT-TGAAAA
1 GGTGCTATTTTGGGAATTTAATTCAGAAAA
*
756594 -GTGCTGTTTTGGGAATTTAATTC-GAAAA
1 GGTGCTATTTTGGGAATTTAATTCAGAAAA
* *
756622 TGTGCTATTTTGGTAATT
1 GGTGCTATTTTGGGAATT
756640 ATTTTAAAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
28 26 0.27
29 39 0.41
30 31 0.32
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTTAATTCAGAAAA
Found at i:757385 original size:24 final size:24
Alignment explanation
Indices: 757359--757436 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 24
757349 TATCTGATTT
*
757359 TTGACCTGGATTCTGATATGATAT
1 TTGACCTGGATTCTGATATGATAC
* * *
757383 TTGACCTGAATTTTTATATGATAC
1 TTGACCTGGATTCTGATATGATAC
* * *
757407 TTGACATGGACTCTGATTTG-TAC
1 TTGACCTGGATTCTGATATGATAC
757430 TTGACCT
1 TTGACCT
757437 TAATTATGTT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 9 0.21
24 34 0.79
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (24 bp):
TTGACCTGGATTCTGATATGATAC
Found at i:757954 original size:17 final size:19
Alignment explanation
Indices: 757927--757965 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
757917 ATATTTGTAT
757927 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
757945 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
757964 TA
1 TA
757966 AATTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:760081 original size:44 final size:42
Alignment explanation
Indices: 760004--760127 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
759994 GTTTTGTATT
* * *
760004 AAAAATGCCAATAAAAAAATAGAATTAGTGGCGTTTGGGGCAC
1 AAAAATGCCACTAAAAAAAGAGAATTAGCGGCGTTTGGGGC-C
* * *
760047 AAAAACGCCACTAAAAACAAGAGAATTAGCGGCGTTTGTGTCC
1 AAAAATGCCACTAAAAA-AAGAGAATTAGCGGCGTTTGGGGCC
* * * *
760090 AAAAATGTCACTAAAGATAGGATAATTAGCGGCGTTTG
1 AAAAATGCCACTAAA-AAAAGAGAATTAGCGGCGTTTG
760128 TGAACAAAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 47 0.69
44 21 0.31
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (42 bp):
AAAAATGCCACTAAAAAAAGAGAATTAGCGGCGTTTGGGGCC
Found at i:760093 original size:43 final size:42
Alignment explanation
Indices: 759987--760142 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 42
759977 TCAAAATATC
** * * *
759987 TAGCGGCGTTT-TGTATTAAAAATGCCAATAAAAAAATAGAAT
1 TAGCGGCGTTTGTGT-CCAAAAACGCCACTAAAAAAAGAGAAT
* * *
760029 TAGTGGCGTTTGGGGCACAAAAACGCCACTAAAAACAAGAGAAT
1 TAGCGGCGTTTGTGTC-CAAAAACGCCACTAAAAA-AAGAGAAT
* * * * *
760073 TAGCGGCGTTTGTGTCCAAAAATGTCACTAAAGATAGGATAAT
1 TAGCGGCGTTTGTGTCCAAAAACGCCACTAAA-AAAAGAGAAT
**
760116 TAGCGGCGTTTGTGAAC-AAAACGCCAC
1 TAGCGGCGTTTGTGTCCAAAAACGCCAC
760143 AATAAATCAC
Statistics
Matches: 90, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
42 18 0.20
43 51 0.57
44 21 0.23
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (42 bp):
TAGCGGCGTTTGTGTCCAAAAACGCCACTAAAAAAAGAGAAT
Found at i:761144 original size:14 final size:14
Alignment explanation
Indices: 761125--761174 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
761115 CAAAACTAAG
761125 TAACAATATACATA
1 TAACAATATACATA
*
761139 TAACAAAATA-ACTAA
1 TAACAATATACA-T-A
761154 GTAACAATATACATA
1 -TAACAATATACATA
761169 TAACAA
1 TAACAA
761175 AATAATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 1 0.03
14 16 0.53
15 2 0.07
16 10 0.33
17 1 0.03
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (14 bp):
TAACAATATACATA
Found at i:761153 original size:30 final size:30
Alignment explanation
Indices: 761118--761179 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
761108 CAAAAACCAA
761118 AACTAAGTAACAATATACATATAACAAAAT
1 AACTAAGTAACAATATACATATAACAAAAT
761148 AACTAAGTAACAATATACATATAACAAAAT
1 AACTAAGTAACAATATACATATAACAAAAT
761178 AA
1 AA
761180 TAACATACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (30 bp):
AACTAAGTAACAATATACATATAACAAAAT
Found at i:761178 original size:16 final size:16
Alignment explanation
Indices: 761129--761178 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
761119 ACTAAGTAAC
761129 AATATACATATAACAA
1 AATATACATATAACAA
761145 AATA-AC-TAAGTAAC--
1 AATATACAT-A-TAACAA
761159 AATATACATATAACAA
1 AATATACATATAACAA
761175 AATA
1 AATA
761179 ATAACATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (16 bp):
AATATACATATAACAA
Found at i:765415 original size:15 final size:15
Alignment explanation
Indices: 765397--765433 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
765387 ATTAGAAAGG
765397 TAAAAAAA-GTTTTTT
1 TAAAAAAATG-TTTTT
765412 TAAAAAAATGTTTTT
1 TAAAAAAATGTTTTT
765427 TAAAAAA
1 TAAAAAA
765434 TAAAAAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
TAAAAAAATGTTTTT
Found at i:768133 original size:3 final size:3
Alignment explanation
Indices: 768125--768149 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
768115 ATATTAATTA
768125 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
768150 TTTATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:768537 original size:117 final size:112
Alignment explanation
Indices: 768323--768615 Score: 386
Period size: 117 Copynumber: 2.6 Consensus size: 112
768313 AAGCGTTGGA
768323 TTGAACAAGTTCTTCTCATTATGAACTTCTTCT-CTCTTGTTGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTC-T-TTGGATGAGTTCTTCTCATTATGAA
768387 CTCTTCACTGAAAATATTGATCCACCTCCTTCTGTGAT-GAAATCGAACCAAGG
64 CTCTTCACTGAAAATATTGATCCACCTCCTTCTGTGATCG-AATCG-A--AA-G
768440 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTCTTTGGATGAGTTCTTCTCATTATGAAC
* * * * *
768505 TCTTCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGATTTGAAAG
65 TCTTCACTGAAAATATTGATCCACCTCCTTCTGTGATCGAATCGAAAG
* *
768553 --GAACAAGTTCTTCTCATTATGAAC-T-TTC-CC-CTTTAGGACGAATTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTTT-GGATGAGTTCTTCTCATTATGAAC
768612 TCTT
65 TCTT
768616 AATTAGAAAT
Statistics
Matches: 165, Mismatches: 7, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
106 4 0.02
107 28 0.17
109 3 0.02
110 1 0.01
111 24 0.15
113 1 0.01
114 2 0.01
116 1 0.01
117 95 0.58
118 3 0.02
119 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (112 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTCTTTGGATGAGTTCTTCTCATTATGAACT
CTTCACTGAAAATATTGATCCACCTCCTTCTGTGATCGAATCGAAAG
Found at i:769053 original size:334 final size:334
Alignment explanation
Indices: 768439--769094 Score: 1001
Period size: 334 Copynumber: 2.0 Consensus size: 334
768429 TCGAACCAAG
* * *
768439 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAAATTATTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAA
* *
768504 CTCTTCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGATTTGAAAGGAACAAGTTCTTCTCA
66 CTCTCCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGACTTGAAAGGAACAAGTTCTTCTCA
*
768569 TTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATGAACTCTTAATTAGAAATGTCAATCC
131 TTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATGAACTATTAATTAGAAATGTCAATCC
* * * *
768634 CTCAAGCGAGGTGTTACTGATTCAAAATGCCGTGAATCAAGTGATAGGTTAAACAAACTCTTCTC
196 CTCAAGCGAGGTGTCACTGATTCAAAACGCCATGAATCAAGTGATAGGTCAAACAAACTCTTCTC
*
768699 ATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAACAC
261 ATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAACAC
768764 TAATGCGAA
326 TAATGCGAA
* * *
768773 GTTGGACAAGTTTTTCTCATTATGAAATTATTC-TCTCTCGTTGGATGAGTTCTTCTTATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAAATTATTCTTC-CTCGTTGGATGAGTTCTTCTCATTATGA
* * * *
768837 ACTCTCCATTGGAAATTTTGATCCATCTCTTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTC
65 ACTCTCCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGACTTGAAAGGAACAAGTTCTTCTC
* * * * **
768902 ATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTATT-CTCTGGAAATGTTGAT
130 ATTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATGAACTATTAAT-TAGAAATGTCAAT
* * * * **
768966 CCCTCAAGCGAGGTGTCACTGATTCGAAACGCCATGAATCGAGTGATAGGTCGAATAGGCTCTTC
194 CCCTCAAGCGAGGTGTCACTGATTCAAAACGCCATGAATCAAGTGATAGGTCAAACAAACTCTTC
*
769031 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTTCATTGGAAA
259 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAA
769095 TGTTGATCAA
Statistics
Matches: 289, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
333 3 0.01
334 286 0.99
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (334 bp):
GTTGAACAAGTTCTTCTCATTATGAAATTATTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAA
CTCTCCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGACTTGAAAGGAACAAGTTCTTCTCA
TTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATGAACTATTAATTAGAAATGTCAATCC
CTCAAGCGAGGTGTCACTGATTCAAAACGCCATGAATCAAGTGATAGGTCAAACAAACTCTTCTC
ATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAACAC
TAATGCGAA
Found at i:769996 original size:13 final size:13
Alignment explanation
Indices: 769962--770055 Score: 88
Period size: 13 Copynumber: 7.1 Consensus size: 13
769952 TCTCAAACCC
*
769962 TCATTTTTCTCTCT
1 TCATTTTT-TCTTT
769976 TCATTTTTTCATTT
1 TCATTTTTTC-TTT
769990 CTC-TTTTTT-TTT
1 -TCATTTTTTCTTT
770002 TC-TCTTTTT-TTT
1 TCAT-TTTTTCTTT
770014 TCATTTTTTCTTT
1 TCATTTTTTCTTT
770027 TCATTTTTTCATTTT
1 TCATTTTTTC--TTT
*
770042 TCATTTGTTCTTT
1 TCATTTTTTCTTT
770055 T
1 T
770056 TTTTTCTTCA
Statistics
Matches: 71, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
11 3 0.04
12 18 0.25
13 20 0.28
14 16 0.23
15 14 0.20
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.74
Consensus pattern (13 bp):
TCATTTTTTCTTT
Found at i:770009 original size:12 final size:12
Alignment explanation
Indices: 769987--770028 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
769977 CATTTTTTCA
769987 TTTCTCTTTTTTT
1 TTTCTC-TTTTTT
770000 TTTCTCTTTTTT
1 TTTCTCTTTTTT
770012 TTTCAT-TTTTTCT
1 TTTC-TCTTTTT-T
770025 TTTC
1 TTTC
770029 ATTTTTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTCTTTTTT
Found at i:770022 original size:21 final size:21
Alignment explanation
Indices: 769996--770042 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
769986 ATTTCTCTTT
769996 TTTTTTTCTCTTT-TTTTTTCA
1 TTTTTTTCT-TTTATTTTTTCA
770017 -TTTTTTCTTTTCATTTTTTCA
1 TTTTTTTCTTTT-ATTTTTTCA
770038 TTTTT
1 TTTTT
770043 CATTTGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.13
20 8 0.35
21 8 0.35
22 4 0.17
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTTTCTTTTATTTTTTCA
Found at i:783776 original size:117 final size:117
Alignment explanation
Indices: 783616--783834 Score: 370
Period size: 117 Copynumber: 1.9 Consensus size: 117
783606 AAGCGTTGGA
783616 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATGAAC
783681 TCTTCACTGAAAATATTGATCCACCTCCTTCTGTGATGAAATCGAACCAAGG
66 TCTTCACTGAAAATATTGATCCACCTCCTTCTGTGATGAAATCGAACCAAGG
*
783733 TTGAACAAGTTCTTCTCATTATGAATTTCTTCT-TCCTCT-TTGGATGAGTTCTTCTCATTATGA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCT-CT-TGTTGGATGAGTTCTTCTCATTATGA
* * *
783796 ACTCTTCACTGAAAATGTTGATCCATCTCTTTCTGTGAT
64 ACTCTTCACTGAAAATATTGATCCACCTCCTTCTGTGAT
783835 CGATTTGAAA
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
116 1 0.01
117 94 0.98
118 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (117 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATGAAC
TCTTCACTGAAAATATTGATCCACCTCCTTCTGTGATGAAATCGAACCAAGG
Found at i:784346 original size:334 final size:334
Alignment explanation
Indices: 783732--784387 Score: 992
Period size: 334 Copynumber: 2.0 Consensus size: 334
783722 TCGAACCAAG
* * *
783732 GTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTTGGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAAATTATTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAA
* *
783797 CTCTTCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGATTTGAAAGGAACAAGTTCTTCTCA
66 CTCTCCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGACTTGAAAGGAACAAGTTCTTCTCA
*
783862 TTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATAAACTCTTAATTAGAAATGTCAATCC
131 TTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATAAACTATTAATTAGAAATGTCAATCC
* * * *
783927 CTCAAGCGAGGTGTTACTGATTCAAAATGCCGTGAATCAAGTGATAGGTTAAACAAACTCTTCTC
196 CTCAAGCGAGGTGTCACTGATTCAAAACGCCATGAATCAAGTGATAGGTCAAACAAACTCTTCTC
*
783992 ATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAACAC
261 ATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAACAC
784057 TAATGCGAA
326 TAATGCGAA
* * *
784066 GTTGGACAAGTTTTTCTCATTATGAAATTATTC-TCTCTCGTTGGATGAGTTCTTCTTATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAAATTATTCTTC-CTCGTTGGATGAGTTCTTCTCATTATGA
* * * *
784130 ACTCTCCATTGGAAATTTTGATCCATCTCTTTCTGTGATGGACTTGAAAGGAACAAGTTCTTCTC
65 ACTCTCCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGACTTGAAAGGAACAAGTTCTTCTC
* * * * * **
784195 ATTATGAACTTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTATT-CTCTGGAAATGTTGAT
130 ATTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATAAACTATTAAT-TAGAAATGTCAAT
* * * * **
784259 CCCTCAAGCGAGGTGTCACTGATTCGAAACGCCATGAATCGAGTGATAGGTCGAATAGGCTCTTC
194 CCCTCAAGCGAGGTGTCACTGATTCAAAACGCCATGAATCAAGTGATAGGTCAAACAAACTCTTC
*
784324 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTTCATTGGAAA
259 TCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAA
784388 TGTTGATCAA
Statistics
Matches: 288, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
333 3 0.01
334 285 0.99
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (334 bp):
GTTGAACAAGTTCTTCTCATTATGAAATTATTCTTCCTCGTTGGATGAGTTCTTCTCATTATGAA
CTCTCCACTGAAAATGTTGATCCATCTCTTTCTGTGATCGACTTGAAAGGAACAAGTTCTTCTCA
TTATGAACTTTCCCCTTTAGGACGAATTCTTCTCATTATAAACTATTAATTAGAAATGTCAATCC
CTCAAGCGAGGTGTCACTGATTCAAAACGCCATGAATCAAGTGATAGGTCAAACAAACTCTTCTC
ATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATAAACTCTCCATTGGAAACAC
TAATGCGAA
Found at i:785330 original size:47 final size:48
Alignment explanation
Indices: 785258--785354 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 48
785248 TCTCAAACCC
*
785258 TCATTTTTCTCTCTTCATTTTTTCATTTCTC-TTTTTTATTCTTTTTTT
1 TCATTTTTCTCTCTTCATTTTTTCATTTCTCATTTGTTATT-TTTTTTT
* * *
785306 TCATTTTT-TCTTTTCATTTTTTCATTTTTCATTTGTTCTTTTTTTTT
1 TCATTTTTCTCTCTTCATTTTTTCATTTCTCATTTGTTATTTTTTTTT
785353 TC
1 TC
785355 TTCAAGCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 29 0.66
48 15 0.34
ACGTcount: A:0.08, C:0.16, G:0.01, T:0.74
Consensus pattern (48 bp):
TCATTTTTCTCTCTTCATTTTTTCATTTCTCATTTGTTATTTTTTTTT
Found at i:785347 original size:13 final size:13
Alignment explanation
Indices: 785277--785356 Score: 71
Period size: 13 Copynumber: 6.2 Consensus size: 13
785267 TCTCTTCATT
785277 TTTTCATTTCTCTT-
1 TTTTCATTT-T-TTC
785291 TTTT-ATTCTTTT-
1 TTTTCATT-TTTTC
785303 TTTTCATTTTTTC
1 TTTTCATTTTTTC
785316 TTTTCATTTTTTC
1 TTTTCATTTTTTC
*
785329 ATTTTTCATTTGTTC
1 --TTTTCATTTTTTC
785344 TTTT--TTTTTTC
1 TTTTCATTTTTTC
785355 TT
1 TT
785357 CAAGCATAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
11 8 0.14
12 10 0.17
13 24 0.41
14 5 0.08
15 12 0.20
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTTCATTTTTTC
Found at i:786760 original size:17 final size:17
Alignment explanation
Indices: 786738--786809 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
786728 CCTAAACGAA
786738 AAAGAAA-AAGAATAAAT
1 AAAGAAACAA-AATAAAT
*
786755 AAAGAATA-AAAATAAAG
1 AAAGAA-ACAAAATAAAT
*
786772 AAATAAACAAAATAAAT
1 AAAGAAACAAAATAAAT
* *
786789 AAATAAATAAAAATAAAT
1 AAAGAAA-CAAAATAAAT
786807 AAA
1 AAA
786810 AATAATGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
16 1 0.02
17 32 0.67
18 15 0.31
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAGAAACAAAATAAAT
Found at i:786769 original size:13 final size:14
Alignment explanation
Indices: 786751--786826 Score: 66
Period size: 14 Copynumber: 5.2 Consensus size: 14
786741 GAAAAAGAAT
786751 AAATAAAG-AATAA
1 AAATAAAGAAATAA
786764 AAATAAAGAAATAAACA
1 AAATAAAGAAAT--A-A
*
786781 AAATAAATAAATAA
1 AAATAAAGAAATAA
*
786795 ATAA-AAATAAATAA
1 A-AATAAAGAAATAA
*
786809 AAATAATGTAAATAA
1 AAATAAAG-AAATAA
786824 AAA
1 AAA
786827 CTATATAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 10 0.19
14 18 0.34
15 12 0.23
16 1 0.02
17 12 0.23
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (14 bp):
AAATAAAGAAATAA
Found at i:786824 original size:4 final size:4
Alignment explanation
Indices: 786748--786809 Score: 56
Period size: 4 Copynumber: 15.5 Consensus size: 4
786738 AAAGAAAAAG
* * * *
786748 AATA AATA AAGA ATAAA AATA AAGA AATA AACAA AATA AATA AATA AAT-
1 AATA AATA AATA A-ATA AATA AATA AATA AA-TA AATA AATA AATA AATA
786797 AA-A AATA AATA AA
1 AATA AATA AATA AA
786810 AATAATGTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
3 4 0.09
4 37 0.79
5 6 0.13
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:786839 original size:25 final size:25
Alignment explanation
Indices: 786759--786826 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 25
786749 ATAAATAAAG
* *
786759 AATAAAAATAAAG-AAATAAACA-A
1 AATAAAAATAATGTAAATAAAAATA
*
786782 AAT--AAATAA-ATAAATAAAAATA
1 AATAAAAATAATGTAAATAAAAATA
786804 AATAAAAATAATGTAAATAAAAA
1 AATAAAAATAATGTAAATAAAAA
786827 CTATATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 14 0.38
22 4 0.11
23 3 0.08
24 6 0.16
25 10 0.27
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.19
Consensus pattern (25 bp):
AATAAAAATAATGTAAATAAAAATA
Found at i:786906 original size:37 final size:37
Alignment explanation
Indices: 786864--787169 Score: 320
Period size: 37 Copynumber: 8.5 Consensus size: 37
786854 TATTTTTTTT
786864 AAACTA-ATATTATATATATTTTCGAAAAATGTTTTCA
1 AAACTATATATTATATATATTTTC-AAAAATGTTTTCA
**** *
786901 AAACTATATATTATATATATTTTCAAAAAAAAATTCT
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
* ** * *
786938 AAACTATATATTATACATA-TTAAAAAAACGTTTTCC
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
786974 AAACTATATA-T-TATATA---T-----A--TTTTCA
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
786999 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
1 AAACTATATATTATATATATTTTCAAAAATGTTTTCA
787036 AAACTATATATTATATATATATATTCAAAAATGTTTTCA
1 AAACTATATATTATATATAT-T-TTCAAAAATGTTTTCA
* *
787075 AAAC--TATATTATATATATATTCAAAAAAATGTTCTCA
1 AAACTATATATTATATATATTTTC--AAAAATGTTTTCA
*
787112 AAATTATATATTATATATATTTTCAAAAAATGTTTTCA
1 AAACTATATATTATATATATTTTC-AAAAATGTTTTCA
*
787150 AAACTATATTTTATATATAT
1 AAACTATATATTATATATAT
787170 ATATATATAT
Statistics
Matches: 227, Mismatches: 23, Indels: 37
0.79 0.08 0.13
Matches are distributed among these distances:
25 15 0.07
26 1 0.00
27 7 0.03
30 1 0.00
34 5 0.02
35 5 0.02
36 20 0.09
37 87 0.38
38 49 0.22
39 37 0.16
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (37 bp):
AAACTATATATTATATATATTTTCAAAAATGTTTTCA
Found at i:787004 original size:98 final size:98
Alignment explanation
Indices: 786895--787100 Score: 281
Period size: 98 Copynumber: 2.1 Consensus size: 98
786885 TCGAAAAATG
*
786895 TTTTCAAAACTATATATTATATATATTTTCAAAAAAAAATTCTAAACTATATATTATACATAT-T
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAAAAATTCAAAACTATATATTATACATATAT
*
786959 A-AAAAAACGTTTTCCAAACTATATATTATATATA
66 ATAAAAAACGTTTTCAAAAC--TATATTATATATA
**** *
786993 TTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATATATAT
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAAAAATTCAAAACTATATATTATACATATAT
* *
787058 ATTCAAAAATGTTTTCAAAACTATATTATATATA
66 A-TAAAAAACGTTTTCAAAACTATATTATATATA
*
787092 TATTCAAAA
1 TTTTCAAAA
787101 AAATGTTCTC
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
98 57 0.60
99 23 0.24
101 15 0.16
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (98 bp):
TTTTCAAAACTATATATTATATATATTTTCAAAAAAAAATTCAAAACTATATATTATACATATAT
ATAAAAAACGTTTTCAAAACTATATTATATATA
Found at i:787013 original size:23 final size:25
Alignment explanation
Indices: 786968--787026 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
786958 TAAAAAAACG
*
786968 TTTTCCAAACTATATATTATATATA
1 TTTTCAAAACTATATATTATATATA
786993 TTTTCAAAACTATATATTATATATA
1 TTTTCAAAACTATATATTATATATA
787018 TTTTCAAAA
1 TTTTCAAAA
787027 ATGTTTTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTTCAAAACTATATATTATATATA
Found at i:787168 original size:2 final size:2
Alignment explanation
Indices: 787161--787189 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
787151 AACTATATTT
787161 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
787190 TCAAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:787233 original size:174 final size:173
Alignment explanation
Indices: 786864--787220 Score: 435
Period size: 172 Copynumber: 2.1 Consensus size: 173
786854 TATTTTTTTT
*
786864 AAACTA-ATATTATATATAT-T-TTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCA
1 AAACTATATATTATATATATATATTCGAAAAATGTTTTCAAAAC-ATATATTATATATATATTCA
*
786926 AAAAAAAATTCTAAACTATATATTATACATATTAAAAAAACGTTTTCCAAACTATATATTATATA
65 AAAAAAAATTCTAAACTATATATTATACATATTAAAAAAACGTTTTCAAAACTATATATTATATA
* *** * *
786991 TATTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCA
130 TATTAT-AAAACTATATATTATATATATTCAAAAAAATATTCTCA
787036 AAACTATATATTATATATATATATTC-AAAAATGTTTTCAAAAC-TATATTATATATATATTCAA
1 AAACTATATATTATATATATATATTCGAAAAATGTTTTCAAAACATATATTATATATATATTCAA
** * * * * *
787099 AAAAATGTTCTCAAAATTATATATTATATATATTTTCAAAAAATGTTTTCAAAACTATATTTTAT
66 AAAAAAATTCT--AAACTATATATTATACATA--TTAAAAAAACGTTTTCAAAACTATATATTAT
*
787164 ATATA-TAT-ATA-TATATA-TATATATATTCAAAAAAATATTCTCA
127 ATATATTATAAAACTATATATTATATATATTCAAAAAAATATTCTCA
* *
787207 AAATTTTATATTAT
1 AAACTATATATTAT
787221 GTATGTTATA
Statistics
Matches: 160, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
171 33 0.21
172 40 0.25
173 15 0.09
174 35 0.22
175 5 0.03
176 32 0.20
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (173 bp):
AAACTATATATTATATATATATATTCGAAAAATGTTTTCAAAACATATATTATATATATATTCAA
AAAAAAATTCTAAACTATATATTATACATATTAAAAAAACGTTTTCAAAACTATATATTATATAT
ATTATAAAACTATATATTATATATATTCAAAAAAATATTCTCA
Found at i:793664 original size:12 final size:12
Alignment explanation
Indices: 793619--793664 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
793609 AAAATATGGT
793619 ATGAACAGTACC
1 ATGAACAGTACC
*
793631 GTGAACAGTA--
1 ATGAACAGTACC
* *
793641 ATAAATAGTACC
1 ATGAACAGTACC
793653 ATGAACAGTACC
1 ATGAACAGTACC
793665 CTACTACAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
10 7 0.27
12 19 0.73
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:795043 original size:82 final size:82
Alignment explanation
Indices: 794952--795122 Score: 342
Period size: 82 Copynumber: 2.1 Consensus size: 82
794942 TACACTTTTT
794952 ATATCACATAAACTCATATCTTCTTATCACATAGCTTCTTATTATATCATTCACCTCATATAACT
1 ATATCACATAAACTCATATCTTCTTATCACATAGCTTCTTATTATATCATTCACCTCATATAACT
795017 TATTGTCACATAATCCC
66 TATTGTCACATAATCCC
795034 ATATCACATAAACTCATATCTTCTTATCACATAGCTTCTTATTATATCATTCACCTCATATAACT
1 ATATCACATAAACTCATATCTTCTTATCACATAGCTTCTTATTATATCATTCACCTCATATAACT
795099 TATTGTCACATAATCCC
66 TATTGTCACATAATCCC
795116 ATATCAC
1 ATATCAC
795123 CTATACTATA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 89 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (82 bp):
ATATCACATAAACTCATATCTTCTTATCACATAGCTTCTTATTATATCATTCACCTCATATAACT
TATTGTCACATAATCCC
Found at i:797974 original size:15 final size:15
Alignment explanation
Indices: 797956--797984 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
797946 AAAAATGTTT
797956 TTTTTAAAAAAAATG
1 TTTTTAAAAAAAATG
797971 TTTTTAAAAAAAAT
1 TTTTTAAAAAAAAT
797985 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
TTTTTAAAAAAAATG
Found at i:797982 original size:18 final size:18
Alignment explanation
Indices: 797944--797983 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
797934 TTAGAAAAGT
***
797944 AAAAAAATGTTTTTTTTA
1 AAAAAAATGTTTTTAAAA
797962 AAAAAAATGTTTTTAAAA
1 AAAAAAATGTTTTTAAAA
797980 AAAA
1 AAAA
797984 TAAAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAAAAATGTTTTTAAAA
Found at i:799173 original size:24 final size:24
Alignment explanation
Indices: 799146--799219 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 24
799136 ATAAAAGAAT
799146 AAAAATAAAAATAATGAAAT-AAA
1 AAAAATAAAAATAATGAAATAAAA
* *
799169 CAAAAT--AAATAATTAAATAAAA
1 AAAAATAAAAATAATGAAATAAAA
*
799191 AATGAAATAAATATAATGTAAATAAAA
1 AA--AAATAAAAATAATG-AAATAAAA
799218 AA
1 AA
799220 CTATATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
21 11 0.28
22 4 0.10
23 5 0.12
24 4 0.10
26 6 0.15
27 10 0.25
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAAATAAAAATAATGAAATAAAA
Found at i:799188 original size:12 final size:12
Alignment explanation
Indices: 799154--799203 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
799144 ATAAAAATAA
799154 AAATAATGAAAT
1 AAATAATGAAAT
*
799166 AAA-CA--AAAT
1 AAATAATGAAAT
*
799175 AAATAATTAAAT
1 AAATAATGAAAT
*
799187 AAAAAATGAAAT
1 AAATAATGAAAT
799199 AAATA
1 AAATA
799204 TAATGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.23
10 1 0.03
11 1 0.03
12 21 0.70
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (12 bp):
AAATAATGAAAT
Found at i:799229 original size:26 final size:25
Alignment explanation
Indices: 799171--799232 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 25
799161 GAAATAAACA
799171 AAATAA-ATAATTAAATAAAAAATG
1 AAATAATATAATTAAATAAAAAATG
799195 AAATAAATATAATGTAAATAAAAAACT-
1 AAAT-AATATAAT-TAAATAAAAAA-TG
*
799222 ATATAATATAA
1 AAATAATATAA
799233 AATATGTCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.12
25 2 0.06
26 12 0.36
27 14 0.42
28 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (25 bp):
AAATAATATAATTAAATAAAAAATG
Found at i:799313 original size:38 final size:38
Alignment explanation
Indices: 799258--799550 Score: 331
Period size: 38 Copynumber: 7.6 Consensus size: 38
799248 ATTTTTTAAA
* *
799258 AAAACTA-ATATTGTATATATTTTCGAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
799295 AAAACTATATATTATATATATTTTC-AAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* * *
799332 TAAACTATATATTATATATATTTTCAAAAAAAACGTTTTT
1 AAAACTATATATTATATATATTTTC--AAAAAATGTTTTC
* *
799372 AAAACTATATTATATATATATATATT-GAAAAATGTTTTC
1 AAAACTATA-TAT-TATATATATTTTCAAAAAATGTTTTC
* * *
799411 AAAATTATATATTATATATATTTTTTTCAAAAAAAATATTCTC
1 AAAACTATATATTATATATA---TTTTC--AAAAAATGTTTTC
* *
799454 AAAATTATATATTATATATATTTTCGAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
* * * * *
799492 AAAATTATTTATTATATATTTTTTCAAAAAATATTTTT
1 AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
799530 AAAACTATATATTATATATAT
1 AAAACTATATATTATATATAT
799551 ATTTTTTTTA
Statistics
Matches: 219, Mismatches: 25, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
37 51 0.23
38 80 0.37
39 18 0.08
40 26 0.12
41 3 0.01
42 11 0.05
43 30 0.14
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (38 bp):
AAAACTATATATTATATATATTTTCAAAAAATGTTTTC
Found at i:799443 original size:79 final size:78
Alignment explanation
Indices: 799277--799553 Score: 332
Period size: 79 Copynumber: 3.5 Consensus size: 78
799267 ATTGTATATA
* * * * * *
799277 TTTTCGAAAAATGTTTTCAAAACTATATATTATATATATTTTCAAAAATGTTTTCTAAACTATAT
1 TTTTCAAAAAATATTTTCAAAACTATATATTATATATATATTGAAAAATGTTTTCAAAATTATAT
799342 ATTATATATA---
66 ATTATATATATTT
* *
799352 TTTTCAAAAAAAACGTTTTTAAAACTATATTATATATATATATATTGAAAAATGTTTTCAAAATT
1 TTTTCAAAAAATA--TTTTCAAAACTATA-TAT-TATATATATATTGAAAAATGTTTTCAAAATT
799417 ATATATTATATATATTT
62 ATATATTATATATATTT
* * *
799434 TTTTCAAAAAAAATATTCTCAAAATTATATATTATATATATTTTCGAAAAATGTTTTCAAAATTA
1 TTTTC--AAAAAATATTTTCAAAACTATATATTATATATATATT-GAAAAATGTTTTCAAAATTA
*
799499 TTTA-T-TATATA-TT
63 TATATTATATATATTT
*
799512 TTTTCAAAAAATATTTTTAAAACTATATATTATATATATATT
1 TTTTCAAAAAATATTTTCAAAACTATATATTATATATATATT
799554 TTTTTTAAAA
Statistics
Matches: 174, Mismatches: 18, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
75 10 0.06
76 33 0.19
77 13 0.07
78 10 0.06
79 47 0.27
80 12 0.07
81 26 0.15
82 16 0.09
84 7 0.04
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (78 bp):
TTTTCAAAAAATATTTTCAAAACTATATATTATATATATATTGAAAAATGTTTTCAAAATTATAT
ATTATATATATTT
Found at i:799584 original size:38 final size:38
Alignment explanation
Indices: 799265--799585 Score: 268
Period size: 38 Copynumber: 8.1 Consensus size: 38
799255 AAAAAAACTA
* * * * *
799265 ATATTGTATATATTTTCGAAAAATGTTTTCAAAACTAT
1 ATATTATATATTTTTTCAAAAAATATTTTCAAAATTAT
* * * *
799303 ATATTATATATATTTTC-AAAAATGTTTTCTAAACTAT
1 ATATTATATATTTTTTCAAAAAATATTTTCAAAATTAT
* * * *
799340 ATATTATATATATTTTCAAAAAAAACGTTTTTAAAACTAT
1 ATATTATATATTTTTTCAAAAAATA--TTTTCAAAATTAT
* * * *
799380 ATTATATATATATATATT-GAAAAATGTTTTCAAAATTAT
1 A-TAT-TATATATTTTTTCAAAAAATATTTTCAAAATTAT
*
799419 ATATTATATATATTTTTTTCAAAAAAAATATTCTCAAAATTAT
1 ATA-T-TATATA-TTTTTTC--AAAAAATATTTTCAAAATTAT
* * *
799462 ATATTATATATATTTTCGAAAAATGTTTTCAAAATTAT
1 ATATTATATATTTTTTCAAAAAATATTTTCAAAATTAT
* *
799500 TTATTATATATTTTTTCAAAAAATATTTTTAAAACTATAT
1 ATATTATATATTTTTTCAAAAAATATTTTCAAAA-T-TAT
* * *
799540 ATTATATATATATTTTTTTTAAAAAATATTCTCAAAATCAT
1 A-TAT-TATATA-TTTTTTCAAAAAATATTTTCAAAATTAT
799581 ATATT
1 ATATT
799586 TATGTACGTT
Statistics
Matches: 237, Mismatches: 31, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
37 36 0.15
38 70 0.30
39 22 0.09
40 28 0.12
41 20 0.08
42 19 0.08
43 42 0.18
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (38 bp):
ATATTATATATTTTTTCAAAAAATATTTTCAAAATTAT
Found at i:802241 original size:73 final size:73
Alignment explanation
Indices: 802122--802262 Score: 273
Period size: 73 Copynumber: 1.9 Consensus size: 73
802112 TTAAGGACAA
802122 GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
1 GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
802187 TGTAACGG
66 TGTAACGG
*
802195 GCTTCTCCTGAAAGTTCAAATTATTTTTTTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
1 GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
802260 TGT
66 TGT
802263 TGCATATCAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (73 bp):
GCTTCTCCTGAAAGTTCAAATTATTTTTGTATTGTTAAGAACAATACGAGCAAACACCTATCGAA
TGTAACGG
Found at i:813582 original size:15 final size:15
Alignment explanation
Indices: 813564--813687 Score: 81
Period size: 15 Copynumber: 8.3 Consensus size: 15
813554 TTATTATCCC
813564 TTTCAACATTACCCA
1 TTTCAACATTACCCA
* *
813579 TTTCAGCATTATCCA
1 TTTCAACATTACCCA
* ** *
813594 TTTCTACACCA-ACA
1 TTTCAACATTACCCA
*
813608 CTTTCAACATTGTCCC-
1 -TTTCAACATT-ACCCA
*
813624 TTTCAACACTACCCA
1 TTTCAACATTACCCA
* **
813639 TTTCAGCATTGTCCA
1 TTTCAACATTACCCA
* *
813654 TTTCTACACTACCCA
1 TTTCAACATTACCCA
* *
813669 TTTCAGCATTATCCA
1 TTTCAACATTACCCA
813684 TTTC
1 TTTC
813688 TACACCAACA
Statistics
Matches: 78, Mismatches: 27, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
14 5 0.06
15 72 0.92
17 1 0.01
ACGTcount: A:0.27, C:0.33, G:0.04, T:0.36
Consensus pattern (15 bp):
TTTCAACATTACCCA
Found at i:813733 original size:90 final size:90
Alignment explanation
Indices: 813564--813828 Score: 320
Period size: 90 Copynumber: 2.9 Consensus size: 90
813554 TTATTATCCC
* * * * * *
813564 TTTCAACATTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAACATTGTCCCTTTCA
1 TTTCAACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCACTATCCATTTCT
*
813629 ACACTACC-CATTTCAGCATTGTCCA
66 ACACCACCAC-TTTCAGCATTGTCCA
*
813654 TTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCACTATCCATTTCT
1 TTTCAACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCACTATCCATTTCT
* *
813719 ACACCACCACTTTCAGCATTTTCCC
66 ACACCACCACTTTCAGCATTGTCCA
* * * * * * *
813744 CTTCAACACTACCTATTTCAGCATTGTCCCTTTCTACAATCC-CCA-TTTCAGCAGTATCAATTT
1 TTTCAACACTACCCATTTCAGCATTATCCATTTCTAC-A-CCAACACTTTCAGCACTATCCATTT
*
813807 CTACACCACCACTTTCAACATT
64 CTACACCACCACTTTCAGCATT
813829 ATCTACTTCT
Statistics
Matches: 153, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
90 147 0.96
91 4 0.03
92 2 0.01
ACGTcount: A:0.27, C:0.35, G:0.04, T:0.34
Consensus pattern (90 bp):
TTTCAACACTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAGCACTATCCATTTCT
ACACCACCACTTTCAGCATTGTCCA
Found at i:813769 original size:120 final size:120
Alignment explanation
Indices: 813579--813853 Score: 406
Period size: 120 Copynumber: 2.3 Consensus size: 120
813569 ACATTACCCA
* *
813579 TTTCAGCATTATCCATTTCTACACCAACACTTTCAACATTGTCCCTTTCAACACTACCCATTTCA
1 TTTCAGCATTATCCATTTCTACACCACCACTTTCAACATTGTCCCCTTCAACACTACCCATTTCA
* * *
813644 GCATTGTCCATTTCTACACTACCCATTTCAGCATTATCCATTTCTACACCAACAC
66 GCATTGTCCATTTCTACAATACCCATTTCAGCAGTATCAATTTCTACACCAACAC
* * * *
813699 TTTCAGCACTATCCATTTCTACACCACCACTTTCAGCATTTTCCCCTTCAACACTACCTATTTCA
1 TTTCAGCATTATCCATTTCTACACCACCACTTTCAACATTGTCCCCTTCAACACTACCCATTTCA
* * *
813764 GCATTGTCCCTTTCTACAATCCCCATTTCAGCAGTATCAATTTCTACACCACCAC
66 GCATTGTCCATTTCTACAATACCCATTTCAGCAGTATCAATTTCTACACCAACAC
* * * *
813819 TTTCAACATTATCTACTTCTATACCACCACTTTCA
1 TTTCAGCATTATCCATTTCTACACCACCACTTTCA
813854 TAACAACCAC
Statistics
Matches: 138, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 138 1.00
ACGTcount: A:0.27, C:0.35, G:0.04, T:0.35
Consensus pattern (120 bp):
TTTCAGCATTATCCATTTCTACACCACCACTTTCAACATTGTCCCCTTCAACACTACCCATTTCA
GCATTGTCCATTTCTACAATACCCATTTCAGCAGTATCAATTTCTACACCAACAC
Found at i:813793 original size:60 final size:60
Alignment explanation
Indices: 813556--813853 Score: 291
Period size: 60 Copynumber: 5.0 Consensus size: 60
813546 TGTCTTTCTT
* * *
813556 ATTATCCCTTTCAACATTACCCATTTCAGCATTATCCATTTCTACACCAACACTTTCAAC
1 ATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACCACCACTTTCAGC
* * *
813616 ATTGTCCCTTTCAACACTACCCATTTCAGCATTGTCCATTTCTACACTACC-CATTTCAGC
1 ATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACCACCAC-TTTCAGC
* * * * *
813676 ATTATCCATTTCTACACCA-ACACTTTCAGCACTATCCATTTCTACACCACCACTTTCAGC
1 ATTATCCCTTTCAACACTACCCA-TTTCAGCATTATCCATTTCTACACCACCACTTTCAGC
* * * * *
813736 ATTTTCCCCTTCAACACTACCTATTTCAGCATTGTCCCTTTCTACAATCC-CCA-TTTCAGC
1 ATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTAC-A-CCACCACTTTCAGC
* ** * * * * * *
813796 AGTATCAATTTCTACACCA-CCACTTTCAACATTATCTACTTCTATACCACCACTTTCA
1 ATTATCCCTTTCAACACTACCCA-TTTCAGCATTATCCATTTCTACACCACCACTTTCA
813854 TAACAACCAC
Statistics
Matches: 191, Mismatches: 38, Indels: 18
0.77 0.15 0.07
Matches are distributed among these distances:
58 2 0.01
59 9 0.05
60 172 0.90
61 6 0.03
62 2 0.01
ACGTcount: A:0.27, C:0.35, G:0.04, T:0.35
Consensus pattern (60 bp):
ATTATCCCTTTCAACACTACCCATTTCAGCATTATCCATTTCTACACCACCACTTTCAGC
Found at i:813839 original size:30 final size:30
Alignment explanation
Indices: 813579--813853 Score: 263
Period size: 30 Copynumber: 9.2 Consensus size: 30
813569 ACATTACCCA
*
813579 TTTCAGCATTATCCATTTCTACACCAACAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
* * * * *
813609 TTTCAACATTGTCCCTTTCAACACTACC-C
1 TTTCAGCATTATCCATTTCTACACCACCAC
* *
813638 ATTTCAGCATTGTCCATTTCTACACTACC-C
1 -TTTCAGCATTATCCATTTCTACACCACCAC
*
813668 ATTTCAGCATTATCCATTTCTACACCAACAC
1 -TTTCAGCATTATCCATTTCTACACCACCAC
*
813699 TTTCAGCACTATCCATTTCTACACCACCAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
* ** * *
813729 TTTCAGCATTTTCCCCTTCAACACTACCTA-
1 TTTCAGCATTATCCATTTCTACACCACC-AC
* *
813759 TTTCAGCATTGTCCCTTTCTACAATCC-CCA-
1 TTTCAGCATTATCCATTTCTAC-A-CCACCAC
* *
813789 TTTCAGCAGTATCAATTTCTACACCACCAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
* * * *
813819 TTTCAACATTATCTACTTCTATACCACCAC
1 TTTCAGCATTATCCATTTCTACACCACCAC
813849 TTTCA
1 TTTCA
813854 TAACAACCAC
Statistics
Matches: 205, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.01
29 5 0.02
30 192 0.94
31 5 0.02
32 1 0.00
ACGTcount: A:0.27, C:0.35, G:0.04, T:0.35
Consensus pattern (30 bp):
TTTCAGCATTATCCATTTCTACACCACCAC
Found at i:825461 original size:20 final size:19
Alignment explanation
Indices: 825433--825487 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
825423 CAATCATCTT
*
825433 AATGTCTATCGCAACGCAGA
1 AATGACTATCGCAACGC-GA
*
825453 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
825472 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
825488 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:825502 original size:33 final size:33
Alignment explanation
Indices: 825460--825551 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
825450 AGAAATGACT
825460 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
825493 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
825526 ATCACAAAGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
825552 TGCGAATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.18, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:825516 original size:19 final size:19
Alignment explanation
Indices: 825440--825557 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
825430 CTTAATGTCT
* **
825440 ATCGCAACGCAGAAATGACT
1 ATCGCAATGC-GAAATGAAA
825460 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
825479 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
825493 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
825512 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
* *
825526 ATCACAAAGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
825545 ATCGCAATGCGAA
1 ATCGCAATGCGAA
825558 TTTAATTTCG
Statistics
Matches: 76, Mismatches: 12, Indels: 21
0.70 0.11 0.19
Matches are distributed among these distances:
14 18 0.24
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 37 0.49
20 9 0.12
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:825568 original size:19 final size:19
Alignment explanation
Indices: 825552--825615 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
825542 AAAATCGCAA
*
825552 TGCGAATTTAATTTCGCGT
1 TGCGATTTTAATTTCGCGT
*
825571 TGCGATTTTAGTTTCGCGT
1 TGCGATTTTAATTTCGCGT
*
825590 TGCGATTTTCATTTCGCGT
1 TGCGATTTTAATTTCGCGT
825609 TGCGATT
1 TGCGATT
825616 CTCTCGTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.45
Consensus pattern (19 bp):
TGCGATTTTAATTTCGCGT
Found at i:825647 original size:19 final size:19
Alignment explanation
Indices: 825552--825638 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
825542 AAAATCGCAA
* *
825552 TGCGAATTTAATTTCGCGT
1 TGCGATTTTCATTTCGCGT
825571 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCA-TTTCGCGT
825590 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
825609 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
825623 TGCGATTTTCATTTCG
1 TGCGATTTTCATTTCG
825639 TATTGCGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
14 10 0.17
16 3 0.05
17 3 0.05
18 1 0.02
19 40 0.69
20 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:825774 original size:14 final size:14
Alignment explanation
Indices: 825755--825791 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
825745 CATCAATTAA
825755 ACAAATCAACTTTT
1 ACAAATCAACTTTT
* *
825769 ACAAATTATCTTTT
1 ACAAATCAACTTTT
825783 ACAAATCAA
1 ACAAATCAA
825792 TTAAACAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:827701 original size:19 final size:19
Alignment explanation
Indices: 827661--827787 Score: 111
Period size: 19 Copynumber: 6.8 Consensus size: 19
827651 TCTGGAACTT
*
827661 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
827682 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
827701 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
* *
827721 AAAATCACAACGCGAAACG
1 AAAATCGCAACGCGAAATG
827740 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* * *
827754 AGAATCGCAATGCGAAATT
1 AAAATCGCAACGCGAAATG
827773 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
827788 TTATAGTTTC
Statistics
Matches: 86, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 42 0.49
20 17 0.20
21 11 0.13
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:827732 original size:39 final size:39
Alignment explanation
Indices: 827661--827758 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
827651 TCTGGAACTT
* * ** * *
827661 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAG-AGAATGAAAATCACAACGCGAAACG
827701 AAAATCGCAACGAGAGAATGAAAATCACAACGCGAAACG
1 AAAATCGCAACGAGAGAATGAAAATCACAACGCGAAACG
827740 AAAATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
827759 CGCAATGCGA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 39 0.75
40 13 0.25
ACGTcount: A:0.49, C:0.19, G:0.20, T:0.11
Consensus pattern (39 bp):
AAAATCGCAACGAGAGAATGAAAATCACAACGCGAAACG
Found at i:827777 original size:33 final size:36
Alignment explanation
Indices: 827685--827784 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 36
827675 AAAAATGACT
827685 ATCGCAACGCGAAATGAAAATCGCAACGAGAGAATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAAC--GAGAATG-AA
* *
827724 ATCACAACGCGAAACGAAAATCGCAACGAG-A-G-A
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAATGAA
* *
827757 ATCGCAATGCGAAATTAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
827785 CGATTATAGT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
33 25 0.45
35 1 0.02
36 1 0.02
37 3 0.05
39 25 0.45
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (36 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAATGAA
Found at i:827818 original size:20 final size:20
Alignment explanation
Indices: 827793--827830 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
827783 CGCGATTATA
*
827793 GTTTCGCGTTGTGATTTTTG
1 GTTTCGCGTTGCGATTTTTG
827813 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
827831 GTCGTTGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.13, G:0.29, T:0.53
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTG
Found at i:827856 original size:33 final size:33
Alignment explanation
Indices: 827814--827897 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
827804 TGATTTTTGG
*
827814 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCTCGTTGCGATTTTCA
* **
827847 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTTG
1 TTTCGCGTTGCGATTTTCTCGTTGCGATTTTCA
827880 TTTCGCGTTGCGATTTTC
1 TTTCGCGTTGCGATTTTC
827898 ATTCTCTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.07, C:0.20, G:0.24, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTCTCGTTGCGATTTTCA
Found at i:827857 original size:19 final size:19
Alignment explanation
Indices: 827833--827921 Score: 89
Period size: 19 Copynumber: 4.9 Consensus size: 19
827823 GCGATTTTGT
827833 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
827852 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
**
827866 CGTTGCGATTTTTGTTTCG
1 CGTTGCGATTTTCATTTCG
*
827885 CGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
*
827905 TGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
827922 AAACCAAAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.44
20 17 0.30
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.51
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:828122 original size:94 final size:94
Alignment explanation
Indices: 828013--828388 Score: 638
Period size: 94 Copynumber: 4.1 Consensus size: 94
828003 ATGGATTGCA
* *
828013 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
828077 TTAGCAGAATTGGCAGCAAACGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
828106 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
828171 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
828200 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
828265 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
828294 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
828354 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
828384 TTACT
1 TTACT
828389 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
90 41 0.15
93 23 0.08
94 210 0.77
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:830146 original size:14 final size:14
Alignment explanation
Indices: 830127--830183 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
830117 TTTCATTTCG
830127 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
830141 CGTTGCAATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
830160 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
830174 CGTTGCGATT
1 CGTTGCGATT
830184 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:830157 original size:33 final size:33
Alignment explanation
Indices: 830115--830191 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
830105 CGCGAATGCG
830115 ATTTTCATTTCGCGTTGCGATTCTCTCGTTGCA
1 ATTTTCATTTCGCGTTGCGATTCTCTCGTTGCA
*
830148 ATTTTCATTTCGCGTTGCGATTCTCTCGTTGCG
1 ATTTTCATTTCGCGTTGCGATTCTCTCGTTGCA
830181 ATTTTCATTTC
1 ATTTTCATTTC
830192 TCTCGTTGCG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.12, C:0.23, G:0.17, T:0.48
Consensus pattern (33 bp):
ATTTTCATTTCGCGTTGCGATTCTCTCGTTGCA
Found at i:830194 original size:21 final size:20
Alignment explanation
Indices: 830175--830246 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
830165 CGATTCTCTC
830175 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
830195 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
830216 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
830236 GTTGCGATTTT
1 GTTGCGATTTT
830247 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:830814 original size:20 final size:20
Alignment explanation
Indices: 830789--830861 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
830779 CGATAGTCAG
830789 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
830809 AATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
830829 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
830849 ATTCGCATTGCGA
1 ATTCGCATTGCGA
830862 ATTAGGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:830882 original size:21 final size:21
Alignment explanation
Indices: 830858--830903 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
830848 TATTCGCATT
830858 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * * *
830879 GCGAATTTGGGAAATTGCAAT
1 GCGAATTAGGAAAATCGCAAC
830900 GCGA
1 GCGA
830904 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:833093 original size:42 final size:42
Alignment explanation
Indices: 833035--833116 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
833025 CATATTCGCA
*
833035 TTGCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAATTTG
*
833077 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 TTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAATT
833117 CGTAATGACT
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:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAATTTG
Found at i:833118 original size:23 final size:23
Alignment explanation
Indices: 833050--833118 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 23
833040 ATAGTCGAAG
*
833050 TTCGCATTGCGATTTATTCCAAA
1 TTCGCGTTGCGATTTATTCCAAA
* * *
833073 TT--TGTTGCGA--TAGTCCAAG
1 TTCGCGTTGCGATTTATTCCAAA
833092 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGATTTATTCCAAA
833115 TTCG
1 TTCG
833119 TAATGACTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 9 0.26
21 13 0.37
23 13 0.37
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (23 bp):
TTCGCGTTGCGATTTATTCCAAA
Found at i:833740 original size:6 final size:6
Alignment explanation
Indices: 833724--833752 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
833714 TCCCGTCTCG
833724 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
833753 ACGTGTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:833874 original size:21 final size:21
Alignment explanation
Indices: 833850--833896 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
833840 TGGACTATCA
833850 CAACGAATTTGAAATAAATCG
1 CAACGAATTTGAAATAAATCG
*
833871 CAACGAATTTGGAATAAATCG
1 CAACGAATTTGAAATAAATCG
833892 CAACG
1 CAACG
833897 CGAACTTCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (21 bp):
CAACGAATTTGAAATAAATCG
Found at i:833912 original size:21 final size:21
Alignment explanation
Indices: 833888--834022 Score: 145
Period size: 21 Copynumber: 6.6 Consensus size: 21
833878 TTTGGAATAA
833888 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
833909 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
833928 ATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* **
833949 ATCGCAA--CGAA-TTTGAAAA
1 ATCGCAACGCGAACTTCG-ACT
833968 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
833989 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
834010 ATCGCAATGCGAA
1 ATCGCAACGCGAA
834023 TATGTAAATC
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
18 3 0.03
19 27 0.29
21 60 0.65
22 3 0.03
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:833941 original size:40 final size:40
Alignment explanation
Indices: 833867--833997 Score: 226
Period size: 40 Copynumber: 3.2 Consensus size: 40
833857 TTTGAAATAA
833867 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACT
*
833909 ATCGCAACGAATTTGGAAAATCGCAACACGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
*
833949 ATCGCAACGAATTTGAAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
833989 ATCGCAACG
1 ATCGCAACG
833998 CGAACTTCGA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 69 0.80
41 1 0.01
42 16 0.19
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (40 bp):
ATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:834843 original size:23 final size:21
Alignment explanation
Indices: 834795--834844 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
834785 TTTAAAATAT
834795 TTATTTATTTTTTAAATCATA
1 TTATTTATTTTTTAAATCATA
*
834816 ATATTTATTTATTTGAAAT-AGTA
1 TTATTTATTT-TTT-AAATCA-TA
834839 TTATTT
1 TTATTT
834845 TTAAATGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 9 0.38
22 4 0.17
23 11 0.46
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTTATTTTTTAAATCATA
Found at i:844182 original size:186 final size:190
Alignment explanation
Indices: 843868--844249 Score: 718
Period size: 186 Copynumber: 2.0 Consensus size: 190
843858 TTCATAAAAA
843868 GAAGTGAAGTATCATGAATAAAAGGCAAGCAACTGCGAGACAGAAAATAAATTACCAAATTCGAA
1 GAAGTGAAGTATCATGAATAAAAGGCAAGCAACTGCGAGACAGAAAATAAATTACCAAATTCGAA
843933 ATATAGAAATGTCAATTGCAATTAAAATAAAATAAAATAAAAAATTACCGTTGCCTTTGCTCATT
66 ATATAGAAATGTCAATTGCAATTAAAATAAAATAAAATAAAAAATTACCGTTGCCTTTGCTCATT
843998 AGCAGACTCTCTAAAATCAATGTCACGCTGCCTCTGCTGCAACAATGAA-ATATACAATT
131 AGCAGACTCTCTAAAATCAATGTCACGCTGCCTCTGCTGCAACAATGAATATATACAATT
844057 GAAGTGAAGTATCATGAATAAAAGGCAAGCAACTGCGAGACAGAAAAT-AATTACCAAATTCG-A
1 GAAGTGAAGTATCATGAATAAAAGGCAAGCAACTGCGAGACAGAAAATAAATTACCAAATTCGAA
844120 ATATAGAAATGTC-ATTGCAATTAAAATAAAATAAAATAAAAAATTACCGTTGCCTTTGCTCATT
66 ATATAGAAATGTCAATTGCAATTAAAATAAAATAAAATAAAAAATTACCGTTGCCTTTGCTCATT
*
844184 AGCAGACTCTCTAAAATCAATGTCACGCTGCCTCTGCTGCAACAATGAATATATACCATT
131 AGCAGACTCTCTAAAATCAATGTCACGCTGCCTCTGCTGCAACAATGAATATATACAATT
844244 GCAAGT
1 G-AAGT
844250 CCTCGCGACC
Statistics
Matches: 190, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
186 100 0.53
187 24 0.13
188 18 0.09
189 48 0.25
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (190 bp):
GAAGTGAAGTATCATGAATAAAAGGCAAGCAACTGCGAGACAGAAAATAAATTACCAAATTCGAA
ATATAGAAATGTCAATTGCAATTAAAATAAAATAAAATAAAAAATTACCGTTGCCTTTGCTCATT
AGCAGACTCTCTAAAATCAATGTCACGCTGCCTCTGCTGCAACAATGAATATATACAATT
Found at i:845308 original size:19 final size:19
Alignment explanation
Indices: 845281--845325 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
845271 ATTATTGAGT
*
845281 CAATGCTTAAAAGCAACGA
1 CAATACTTAAAAGCAACGA
845300 CAATACTTAAAAGCAACGA
1 CAATACTTAAAAGCAACGA
845319 CAATACT
1 CAATACT
845326 AGTTTACATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.49, C:0.22, G:0.11, T:0.18
Consensus pattern (19 bp):
CAATACTTAAAAGCAACGA
Found at i:848177 original size:29 final size:29
Alignment explanation
Indices: 848141--848212 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
848131 TATTACAATA
*
848141 ATATCTATTTATATTATTTTTTCAATTAT
1 ATATCTATTTATATTATTTTTTAAATTAT
848170 ATATCTATTTATATTATTTTTTAAATTAT
1 ATATCTATTTATATTATTTTTTAAATTAT
*
848199 ATCTCTATTT-TATT
1 ATATCTATTTATATT
848213 GAATATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (29 bp):
ATATCTATTTATATTATTTTTTAAATTAT
Found at i:850743 original size:16 final size:16
Alignment explanation
Indices: 850722--850753 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
850712 GTGATGTGAT
850722 GTATCACCATAAGGTA
1 GTATCACCATAAGGTA
850738 GTATCACCATAAGGTA
1 GTATCACCATAAGGTA
850754 ATAACACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (16 bp):
GTATCACCATAAGGTA
Found at i:852378 original size:16 final size:16
Alignment explanation
Indices: 852357--852395 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
852347 AGTATTACCC
852357 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
852373 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
852389 GACCTGT
1 GACCTGT
852396 AAATGATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.38
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:852665 original size:14 final size:14
Alignment explanation
Indices: 852643--852689 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
852633 TGCAAAGGAA
*
852643 AATTAATATAGTTT
1 AATTTATATAGTTT
852657 AATTTATATA----
1 AATTTATATAGTTT
852667 AA-TTATATAGTTT
1 AATTTATATAGTTT
852680 AATTTATATA
1 AATTTATATA
852690 AAGAAAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:852676 original size:23 final size:24
Alignment explanation
Indices: 852642--852691 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
852632 ATGCAAAGGA
852642 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
852666 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
852689 AAA
1 AAA
852692 GAAAAACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:852790 original size:2 final size:2
Alignment explanation
Indices: 852783--852807 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
852773 TATGTTTAAT
852783 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
852808 TATTCAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:853178 original size:7 final size:7
Alignment explanation
Indices: 853168--853219 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
853158 ATAGTTTATA
*
853168 TAAACCT
1 TAAACCC
853175 TAAACCC
1 TAAACCC
853182 TAAACCC
1 TAAACCC
*
853189 TAAACCA
1 TAAACCC
***
853196 TAAATAA
1 TAAACCC
853203 TAAACCC
1 TAAACCC
853210 TAAACCC
1 TAAACCC
853217 TAA
1 TAA
853220 TGTATGTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:853249 original size:20 final size:19
Alignment explanation
Indices: 853210--853277 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
853200 TAATAAACCC
* *
853210 TAAACCCTA-ATGTATGTA
1 TAAACCATATATGTATATA
*
853228 TAAACCATGTATGGTATATA
1 TAAACCATATAT-GTATATA
* *
853248 TAAACTATATATATATATA
1 TAAACCATATATGTATATA
*
853267 TAAACTATATA
1 TAAACCATATA
853278 AAGTAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 7 0.17
19 19 0.45
20 16 0.38
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (19 bp):
TAAACCATATATGTATATA
Found at i:853391 original size:2 final size:2
Alignment explanation
Indices: 853384--853475 Score: 57
Period size: 2 Copynumber: 46.0 Consensus size: 2
853374 TAATGCATAC
* * *
853384 AT AT AT AT ACT AT AT -T A- AT AT AA AT -T AT A- AC AT AT AA AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
853423 AT AGT TT AT AT AGT TT AT AC AT AT AT AGT TT AT AT AT AT AT AT
1 AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
853466 AT AT AT AT AT
1 AT AT AT AT AT
853476 TAATATAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
1 4 0.06
2 60 0.87
3 5 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:853412 original size:15 final size:15
Alignment explanation
Indices: 853394--853504 Score: 52
Period size: 15 Copynumber: 7.3 Consensus size: 15
853384 ATATATATAC
853394 TATATTAATATAAAT
1 TATATTAATATAAAT
853409 TATA--ACATATAAA-
1 TATATTA-ATATAAAT
* **
853422 TATAGTTTATATAGTT
1 TATA-TTAATATAAAT
* **
853438 TATA-CATATATAGTT
1 TATATTA-ATATAAAT
*
853453 TATATATATATATATAT
1 TATAT-TA-ATATAAAT
853470 ATATATTAATATAAAT
1 -TATATTAATATAAAT
* *
853486 AATATT-TTATAAAT
1 TATATTAATATAAAT
853500 TATAT
1 TATAT
853505 ACTTTTTATA
Statistics
Matches: 75, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
13 5 0.07
14 18 0.24
15 26 0.35
16 11 0.15
17 10 0.13
18 5 0.07
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:853435 original size:9 final size:8
Alignment explanation
Indices: 853421--853522 Score: 50
Period size: 9 Copynumber: 12.5 Consensus size: 8
853411 TAACATATAA
853421 ATATAGTTT
1 ATATA-TTT
853430 ATATAGTTT
1 ATATA-TTT
*
853439 ATACA--T
1 ATATATTT
853445 ATATAGTTT
1 ATATA-TTT
*
853454 ATATATAT
1 ATATATTT
*
853462 ATATATAT
1 ATATATTT
*
853470 ATATATTA
1 ATATATTT
**
853478 ATATAAAT
1 ATATATTT
853486 A-ATATTT
1 ATATATTT
*
853493 -TATAAATT
1 ATAT-ATTT
853501 ATATACTTT
1 ATATA-TTT
*
853510 TTATAGTTT
1 ATATA-TTT
853519 ATAT
1 ATAT
853523 GCTTTTTATA
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
6 5 0.07
7 6 0.08
8 26 0.37
9 34 0.48
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (8 bp):
ATATATTT
Found at i:853458 original size:17 final size:15
Alignment explanation
Indices: 853429--853464 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
853419 AAATATAGTT
853429 TATATAGTTTATACA
1 TATATAGTTTATACA
*
853444 TATATAGTTTATATA
1 TATATAGTTTATACA
853459 TATATA
1 TATATA
853465 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:853482 original size:8 final size:10
Alignment explanation
Indices: 853384--853475 Score: 57
Period size: 11 Copynumber: 9.2 Consensus size: 10
853374 TAATGCATAC
853384 ATATATATACT
1 ATATATATA-T
853395 ATAT-TA-AT
1 ATATATATAT
*
853403 ATAAAT-TAT
1 ATATATATAT
* *
853412 A-ACATATAA
1 ATATATATAT
*
853421 ATATAGTTTAT
1 ATATA-TATAT
* *
853432 ATAGTTTATAC
1 ATA-TATATAT
*
853443 ATATATAGTTT
1 ATATATA-TAT
853454 ATATATATAT
1 ATATATATAT
853464 ATATATATAT
1 ATATATATAT
853474 AT
1 AT
853476 TAATATAAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 15
0.69 0.15 0.17
Matches are distributed among these distances:
8 7 0.11
9 8 0.13
10 21 0.34
11 24 0.39
12 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (10 bp):
ATATATATAT
Found at i:853513 original size:18 final size:18
Alignment explanation
Indices: 853490--853532 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
853480 ATAAATAATA
853490 TTTTATAAATTATATACT
1 TTTTATAAATTATATACT
** *
853508 TTTTATAGTTTATATGCT
1 TTTTATAAATTATATACT
853526 TTTTATA
1 TTTTATA
853533 GTTTATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTATAAATTATATACT
Found at i:853533 original size:18 final size:18
Alignment explanation
Indices: 853499--853539 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
853489 ATTTTATAAA
853499 TTATATACTTTTTATAGT
1 TTATATACTTTTTATAGT
*
853517 TTATATGCTTTTTATAGT
1 TTATATACTTTTTATAGT
853535 TTATA
1 TTATA
853540 CATATATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (18 bp):
TTATATACTTTTTATAGT
Found at i:853575 original size:13 final size:13
Alignment explanation
Indices: 853429--853740 Score: 120
Period size: 13 Copynumber: 22.5 Consensus size: 13
853419 AAATATAGTT
853429 TATATAGTTTATACA
1 TATATAGTTTAT--A
853444 TATATAGTTTATA
1 TATATAGTTTATA
*
853457 TATATA-TATATA
1 TATATAGTTTATA
853469 TATATA-TTAATATA
1 TATATAGTT--TATA
* *
853483 AATAATATTTTATAAA
1 TAT-ATAGTTTAT--A
*
853499 TTATATACTTTTTATA
1 -TATATA--GTTTATA
* *
853515 GTTTATATGCTT-T-
1 -TATATA-GTTTATA
853528 T-TATAGTTTATACA
1 TATATAGTTTAT--A
853542 TATATAGTTTATA
1 TATATAGTTTATA
*
853555 TACATAGTTTATA
1 TATATAGTTTATA
* *
853568 TATGTAGTTCACATA
1 TATATAGTT--TATA
* *
853583 AATATAATTTATA
1 TATATAGTTTATA
853596 TATATAGCTTATAATAA
1 TATATAG-TT-T-AT-A
853613 TTATATAGTTTATA
1 -TATATAGTTTATA
**
853627 -ATATA-AATATA
1 TATATAGTTTATA
* *
853638 GTTTATAATTTATA
1 -TATATAGTTTATA
*
853652 TACATAGTTTATA
1 TATATAGTTTATA
*
853665 -ATATAGTTCACATA
1 TATATAGTT--TATA
* *
853679 AATATAATTTATA
1 TATATAGTTTATA
853692 TATATAGTTTATAA
1 TATATAGTTTAT-A
853706 TATAAATAAGTTTATA
1 TAT--AT-AGTTTATA
*
853722 TATA-ATTTTATA
1 TATATAGTTTATA
853734 TTATATA
1 -TATATA
853741 TATATTATAT
Statistics
Matches: 230, Mismatches: 34, Indels: 67
0.69 0.10 0.20
Matches are distributed among these distances:
10 3 0.01
11 9 0.04
12 32 0.14
13 66 0.29
14 27 0.12
15 47 0.20
16 21 0.09
17 12 0.05
18 13 0.06
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:853610 original size:20 final size:20
Alignment explanation
Indices: 853585--853706 Score: 112
Period size: 20 Copynumber: 6.3 Consensus size: 20
853575 TTCACATAAA
*
853585 TATAATTTATATATATAGCT
1 TATAATTTATATATATAGTT
*
853605 TATAA-TAAT-TATATAGTT
1 TATAATTTATATATATAGTT
*
853623 TATAA--TATAAATATAGTT
1 TATAATTTATATATATAGTT
*
853641 TATAATTTATATACATAGTT
1 TATAATTTATATATATAGTT
* * **
853661 TATAATATAGT-TCACATA-AA
1 TATAATTTA-TAT-ATATAGTT
853681 TATAATTTATATATATAGTT
1 TATAATTTATATATATAGTT
853701 TATAAT
1 TATAAT
853707 ATAAATAAGT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
17 2 0.02
18 26 0.32
19 8 0.10
20 40 0.49
21 6 0.07
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (20 bp):
TATAATTTATATATATAGTT
Found at i:853636 original size:18 final size:18
Alignment explanation
Indices: 853592--853725 Score: 105
Period size: 18 Copynumber: 7.2 Consensus size: 18
853582 AAATATAATT
*
853592 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
853610 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
853628 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
853646 TTTATATACATAGTTTATAA
1 --TATATATATAGTTTATAA
* **
853666 TATAGTTCACATA-AATATAA
1 TATA--T-ATATAGTTTATAA
853686 TTTATATATATAGTTTATAA
1 --TATATATATAGTTTATAA
*
853706 TATAAATA-AGTTTAT-A
1 TATATATATAGTTTATAA
853722 TATA
1 TATA
853726 ATTTTATATT
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.05
17 8 0.08
18 41 0.43
19 5 0.05
20 28 0.29
21 5 0.05
22 4 0.04
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:853734 original size:40 final size:40
Alignment explanation
Indices: 853614--853734 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
853604 TTATAATAAT
*
853614 TATATAGTTTATAATATAAATATAGTTTATA-AT--TTATA
1 TATATAGTTTATAATATAAATA-AGTTTATATATAATTTTA
* ** * ** *
853652 TACATAGTTTATAATATAGTTCA-CATAAATATAATTTATA
1 TATATAGTTTATAATATAAATAAGTTTATATATAATTT-TA
853692 TATATAGTTTATAATATAAATAAGTTTATATATAATTTTA
1 TATATAGTTTATAATATAAATAAGTTTATATATAATTTTA
853732 TAT
1 TAT
853735 TATATATATA
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
36 3 0.05
37 3 0.05
38 18 0.29
39 2 0.03
40 26 0.41
41 11 0.17
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (40 bp):
TATATAGTTTATAATATAAATAAGTTTATATATAATTTTA
Found at i:853740 original size:31 final size:31
Alignment explanation
Indices: 853580--853744 Score: 101
Period size: 29 Copynumber: 5.3 Consensus size: 31
853570 TGTAGTTCAC
*
853580 ATAAATATAATTTATATATATAGCTTATAAT
1 ATAAATATAATTTATATATATAGTTTATAAT
* *
853611 A-ATTATATAGTTTATAATATAAATATAGTTTATAATTT
1 ATA-AATATA-ATT-T-ATAT--ATATAGTTTATAA--T
* * * * *
853649 ATATACATAGTTTATA-ATATAG--T-TCAC
1 ATAAATATAATTTATATATATAGTTTATAAT
853676 ATAAATATAATTTATATATATAGTTTATAAT
1 ATAAATATAATTTATATATATAGTTTATAAT
* * *
853707 ATAAATA-AGTTTATATATA-ATTTTATATT
1 ATAAATATAATTTATATATATAGTTTATAAT
*
853736 ATATATATA
1 ATAAATATA
853745 TTATATTTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
27 13 0.12
28 6 0.06
29 16 0.15
30 15 0.14
31 15 0.14
32 8 0.08
33 1 0.01
34 4 0.04
35 3 0.03
36 13 0.12
37 2 0.02
38 7 0.07
39 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (31 bp):
ATAAATATAATTTATATATATAGTTTATAAT
Found at i:855609 original size:21 final size:21
Alignment explanation
Indices: 855563--855612 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
855553 ATGATGAGCT
*
855563 AGTTACAAATGTAATTACATG
1 AGTTACAAATGTAATTACACG
855584 AGTTACAGAA-GTAATTACTACG
1 AGTTACA-AATGTAATTAC-ACG
855606 -GTTACAA
1 AGTTACAA
855613 TCTGCTGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 21 0.81
22 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AGTTACAAATGTAATTACACG
Found at i:859484 original size:31 final size:31
Alignment explanation
Indices: 859448--859509 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
859438 GTGAACAAGC
*
859448 TTAGTAGATATACCTATAACCCAATTGGTGG
1 TTAGTAGATATACCTACAACCCAATTGGTGG
859479 TTAGTAGATATACCTACAACCCAATTGGTGG
1 TTAGTAGATATACCTACAACCCAATTGGTGG
859510 ACATTACGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (31 bp):
TTAGTAGATATACCTACAACCCAATTGGTGG
Found at i:905479 original size:15 final size:15
Alignment explanation
Indices: 905459--905487 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
905449 ATCCGATCCG
905459 ATCCAAATAACATAA
1 ATCCAAATAACATAA
905474 ATCCAAATAACATA
1 ATCCAAATAACATA
905488 TACTCGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
ATCCAAATAACATAA
Found at i:906301 original size:21 final size:21
Alignment explanation
Indices: 906277--906323 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
906267 ACCAAACCAC
* *
906277 CCAGGGTGATGCCTAGTCGCA
1 CCAGGGTGATACCTAGCCGCA
* *
906298 CCAGGTTGCTACCTAGCCGCA
1 CCAGGGTGATACCTAGCCGCA
906319 CCAGG
1 CCAGG
906324 ATGCTACCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.34, G:0.30, T:0.17
Consensus pattern (21 bp):
CCAGGGTGATACCTAGCCGCA
Found at i:906328 original size:21 final size:21
Alignment explanation
Indices: 906288--906331 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
906278 CAGGGTGATG
* *
906288 CCTAGTCGCACCAGGTTGCTA
1 CCTAGCCGCACCAGGATGCTA
906309 CCTAGCCGCACCAGGATGCTA
1 CCTAGCCGCACCAGGATGCTA
906330 CC
1 CC
906332 CCGCCACACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.18
Consensus pattern (21 bp):
CCTAGCCGCACCAGGATGCTA
Found at i:906341 original size:21 final size:21
Alignment explanation
Indices: 906296--906343 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
906286 TGCCTAGTCG
* * *
906296 CACCAGGTTGCTACCTAGCCG
1 CACCAGGATGCTACCCAGCCA
*
906317 CACCAGGATGCTACCCCGCCA
1 CACCAGGATGCTACCCAGCCA
906338 CACCAG
1 CACCAG
906344 CGTGCTGCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.44, G:0.21, T:0.12
Consensus pattern (21 bp):
CACCAGGATGCTACCCAGCCA
Found at i:907555 original size:44 final size:44
Alignment explanation
Indices: 907505--907592 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
907495 AAATTATTAT
907505 CCTTCTATTTATTCAAATTTATTTAAATAAGTGTCAATTTAAAA
1 CCTTCTATTTATTCAAATTTATTTAAATAAGTGTCAATTTAAAA
907549 CCTTCTATTTATTCAAATTTATTTAAATAAGTGTCAATTTAAAA
1 CCTTCTATTTATTCAAATTTATTTAAATAAGTGTCAATTTAAAA
907593 AAAACAACTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (44 bp):
CCTTCTATTTATTCAAATTTATTTAAATAAGTGTCAATTTAAAA
Found at i:910995 original size:18 final size:18
Alignment explanation
Indices: 910968--911060 Score: 87
Period size: 18 Copynumber: 4.9 Consensus size: 18
910958 ACTGAATATT
910968 TATCCCGAAGGACCACTA
1 TATCCCGAAGGACCACTA
*
910986 TATCCTGAAGGACCACTGA
1 TATCCCGAAGGACCACT-A
* * *
911005 TTGTTCCGAAGAACCACTA
1 -TATCCCGAAGGACCACTA
* *
911024 TGTCCCGAAGGACCACTGTT
1 TATCCCGAAGGACCAC--TA
*
911044 TGTCCCGAAGGACCACT
1 TATCCCGAAGGACCACT
911061 GATAATCCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
18 31 0.49
19 2 0.03
20 30 0.48
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (18 bp):
TATCCCGAAGGACCACTA
Found at i:911014 original size:38 final size:38
Alignment explanation
Indices: 910970--911069 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 38
910960 TGAATATTTA
*
910970 TCCCGAAGGACCACTATATCCTGAAGGACCACTGATTG
1 TCCCGAAGGACCACTATATCCCGAAGGACCACTGATTG
* * * *
911008 TTCCGAAGAACCACTATGTCCCGAAGGACCACTGTTTG
1 TCCCGAAGGACCACTATATCCCGAAGGACCACTGATTG
911046 TCCCGAAGGACCACTGATAATCCC
1 TCCCGAAGGACCACT-AT-ATCCC
911070 TCGACTCATG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 46 0.88
39 2 0.04
40 4 0.08
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (38 bp):
TCCCGAAGGACCACTATATCCCGAAGGACCACTGATTG
Found at i:911020 original size:20 final size:20
Alignment explanation
Indices: 910970--911063 Score: 115
Period size: 20 Copynumber: 4.9 Consensus size: 20
910960 TGAATATTTA
*
910970 TCCCGAAGGACCACT-A-TA
1 TCCCGAAGGACCACTGATTG
*
910988 TCCTGAAGGACCACTGATTG
1 TCCCGAAGGACCACTGATTG
* *
911008 TTCCGAAGAACCACT-A-TG
1 TCCCGAAGGACCACTGATTG
*
911026 TCCCGAAGGACCACTGTTTG
1 TCCCGAAGGACCACTGATTG
911046 TCCCGAAGGACCACTGAT
1 TCCCGAAGGACCACTGAT
911064 AATCCCTCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
18 29 0.46
19 2 0.03
20 32 0.51
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (20 bp):
TCCCGAAGGACCACTGATTG
Done.