Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 112 of 145
Found at i:37584164 original size:19 final size:18
Alignment explanation
Indices: 37584140--37584183 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
37584130 ATTTTTAATT
*
37584140 TTTTTTGGATATTTATGTA
1 TTTTTTAGATATTTATG-A
* *
37584159 TTTTTTATATTTTTATGA
1 TTTTTTAGATATTTATGA
37584177 TTTTTTA
1 TTTTTTA
37584184 AAGAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.70
Consensus pattern (18 bp):
TTTTTTAGATATTTATGA
Found at i:37584811 original size:31 final size:30
Alignment explanation
Indices: 37584768--37584875 Score: 110
Period size: 31 Copynumber: 3.5 Consensus size: 30
37584758 ATAATTAATC
* *
37584768 ACATTAATATTAAATTAACAAAATATTATCT
1 ACATAAATATTAAATTAA-AAAATAATATCT
* **
37584799 AGATAAATATTAAATT-AAATTTAATATCTT
1 ACATAAATATTAAATTAAAAAATAATATC-T
* * *
37584829 ATATTAATAATAAATTAATAAAATAATATCT
1 ACATAAATATTAAATTAA-AAAATAATATCT
37584860 ACATAAATATTAAATT
1 ACATAAATATTAAATT
37584876 TAAGTTTAAT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 8 0.13
30 15 0.25
31 29 0.48
32 9 0.15
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.40
Consensus pattern (30 bp):
ACATAAATATTAAATTAAAAAATAATATCT
Found at i:37584866 original size:61 final size:62
Alignment explanation
Indices: 37584770--37584887 Score: 184
Period size: 61 Copynumber: 1.9 Consensus size: 62
37584760 AATTAATCAC
* * *
37584770 ATTAATATTAAATTAACAAAATATTATCTAGATAAATATTAAA-TTAAATTTAATATCTTAT
1 ATTAATAATAAATTAACAAAATAATATCTACATAAATATTAAATTTAAATTTAATATCTTAT
* *
37584831 ATTAATAATAAATTAATAAAATAATATCTACATAAATATTAAATTTAAGTTTAATAT
1 ATTAATAATAAATTAACAAAATAATATCTACATAAATATTAAATTTAAATTTAATAT
37584888 TAAATTCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
61 39 0.76
62 12 0.24
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (62 bp):
ATTAATAATAAATTAACAAAATAATATCTACATAAATATTAAATTTAAATTTAATATCTTAT
Found at i:37605628 original size:13 final size:14
Alignment explanation
Indices: 37605605--37605634 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37605595 ACTAAGAATA
37605605 TAAATATAAATACT
1 TAAATATAAATACT
37605619 TAAA-ATAAATACT
1 TAAATATAAATACT
37605632 TAA
1 TAA
37605635 GAAAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATATAAATACT
Found at i:37616847 original size:43 final size:43
Alignment explanation
Indices: 37616779--37616863 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
37616769 CAGCATCCAG
* *
37616779 AAAGATCCTGACTCCATCAAGAAAATTTTAGTGATGTATTTCA
1 AAAGATCCCGACTCCAGCAAGAAAATTTTAGTGATGTATTTCA
* *
37616822 AAAGATCCCGACTCCAGCAATAAAATTTTGGTGATGTATTTC
1 AAAGATCCCGACTCCAGCAAGAAAATTTTAGTGATGTATTTC
37616864 TTCCTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (43 bp):
AAAGATCCCGACTCCAGCAAGAAAATTTTAGTGATGTATTTCA
Found at i:37620929 original size:15 final size:15
Alignment explanation
Indices: 37620909--37620952 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
37620899 TTTAGGGGTT
* *
37620909 TGTTCTGTTCTGTTC
1 TGTTCTGTTATGTTA
37620924 TGTTCTGTTATGTTA
1 TGTTCTGTTATGTTA
*
37620939 TGTTATGTTATGTT
1 TGTTCTGTTATGTT
37620953 TTTTTGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.61
Consensus pattern (15 bp):
TGTTCTGTTATGTTA
Found at i:37620962 original size:5 final size:5
Alignment explanation
Indices: 37620909--37620952 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
37620899 TTTAGGGGTT
* * * *
37620909 TGTTC TGTTC TGTTC TGTTC TGTTA TGTTA TGTTA TGTTA TGTT
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTT
37620953 TTTTTGTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.61
Consensus pattern (5 bp):
TGTTA
Found at i:37622561 original size:21 final size:21
Alignment explanation
Indices: 37622537--37622579 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37622527 TAAGTTAATT
37622537 TACTC-GTAATTTTTCTATTTA
1 TACTCTGTAATTTTTC-ATTTA
* *
37622558 TACTCTTTTATTTTTCATTTA
1 TACTCTGTAATTTTTCATTTA
37622579 T
1 T
37622580 TTTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (21 bp):
TACTCTGTAATTTTTCATTTA
Found at i:37623677 original size:43 final size:43
Alignment explanation
Indices: 37623611--37623713 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
37623601 AAAACTTTGG
37623611 ATCATAACTTACATTAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACA-TAACTTACATAATACATAAATATATATCAT
*
37623655 ATCATAACTTGCATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
37623698 ATCATAACTTACATAA
1 ATCATAACTTACATAA
37623714 ATATATACAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
43 45 0.79
44 12 0.21
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.35
Consensus pattern (43 bp):
ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
Found at i:37639706 original size:24 final size:24
Alignment explanation
Indices: 37639691--37639742 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
37639681 AATCAATGTC
*
37639691 AAATATATTATGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
*
37639715 AAATATATTATACTAATAAATATT
1 AAATATATTATACTAATAAATACT
37639739 AAAT
1 AAAT
37639743 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:37639866 original size:29 final size:29
Alignment explanation
Indices: 37639833--37639891 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
37639823 TCCACATTGA
* *
37639833 CACAAATTCTCAACGAACAAGTTCTTCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
37639862 CACAAACTCTCAACGAACAAGTTCTCCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
37639891 C
1 C
37639892 TCTTTCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.36, G:0.07, T:0.20
Consensus pattern (29 bp):
CACAAACTCTCAACGAACAAGTTCTCCAC
Found at i:37640576 original size:17 final size:17
Alignment explanation
Indices: 37640554--37640589 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
37640544 TTATTTCAAG
37640554 AAAGGATTAAATTGTAA
1 AAAGGATTAAATTGTAA
37640571 AAAGGATTAAATTGTAA
1 AAAGGATTAAATTGTAA
37640588 AA
1 AA
37640590 GTGACAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.28
Consensus pattern (17 bp):
AAAGGATTAAATTGTAA
Found at i:37642644 original size:56 final size:59
Alignment explanation
Indices: 37642538--37642683 Score: 174
Period size: 56 Copynumber: 2.5 Consensus size: 59
37642528 AATTGACAGT
*
37642538 AAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGAAATAGCCCTCCCGAAGAATATGTGTG
1 AAAAAGATCTAGCCCGGACGGGTGATCC-AT-CTGAAATAGCCCTCCCGAAGAATATGTG-G
*
37642600 AAAAAGATCTAG-CCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGAAATAGCCCTCCCGAAGAATATGTGG
* * * *
37642655 AAAATGGATTTAGCCCAGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
37642684 GAATTAGGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
55 5 0.07
56 32 0.43
57 11 0.15
58 2 0.03
60 1 0.01
61 13 0.17
62 11 0.15
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGAAATAGCCCTCCCGAAGAATATGTGG
Found at i:37642855 original size:67 final size:66
Alignment explanation
Indices: 37642748--37642881 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 66
37642738 GTAATTGTCA
37642748 TTGCAGGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCT
1 TTGCAGGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCT
37642813 C
66 C
* *
37642814 TTGCAGGGGGTTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTGCA-GGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
37642879 TC
65 TC
37642881 T
1 T
37642882 GAATTGAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 5 0.08
67 60 0.92
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (66 bp):
TTGCAGGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCT
C
Found at i:37647564 original size:24 final size:24
Alignment explanation
Indices: 37647549--37647600 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
37647539 AATCAATGTC
*
37647549 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
37647573 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
37647597 AAAT
1 AAAT
37647601 CTATCTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:37649520 original size:17 final size:16
Alignment explanation
Indices: 37649490--37649521 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
37649480 ATCTGTTGTT
37649490 TTAATTTTTTATATTA
1 TTAATTTTTTATATTA
37649506 TTAATTTTATTATATT
1 TTAATTTT-TTATATT
37649522 GTATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTAATTTTTTATATTA
Found at i:37649618 original size:25 final size:25
Alignment explanation
Indices: 37649578--37649627 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37649568 TAATTTATTA
37649578 ATATATTTTCACTTATATT-TTTTTT
1 ATATATTTTCACTTAT-TTATTTTTT
* *
37649603 ATATATTTTTATTTATTTATTTTTT
1 ATATATTTTCACTTATTTATTTTTT
37649628 GATACCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (25 bp):
ATATATTTTCACTTATTTATTTTTT
Found at i:37661750 original size:44 final size:42
Alignment explanation
Indices: 37661700--37661982 Score: 164
Period size: 41 Copynumber: 6.7 Consensus size: 42
37661690 ACTTCAGTCT
*
37661700 TATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT--AGAAAATAATCC
* * * *
37661744 TATCTCCCTGAAGTTGCAATGGAGCGGATTA-AAATTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAAATA-ATCC
** * ** * * *** * *
37661786 TATCTCTTTAAAGTTGCAGAAGAGCAGA-TCGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAAATAATCC
37661827 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT--AGAAAATAATCC
* * *
37661871 TATCTCTCTAAAGTTGCAGTGGAGC-GAATT--AAAATCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAGAAAAT-A-ATCC
* * ** * * ** * **
37661913 TATCTCTCTGAAGTTACAGAAGAGCAGA-TCGCATCTAGTTT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAAATAATCC
*
37661954 TATCTCCCTGAAGTTACAGTGGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAT
37661983 CAAGATGATA
Statistics
Matches: 182, Mismatches: 45, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
40 5 0.03
41 61 0.34
42 54 0.30
43 4 0.02
44 58 0.32
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAGAAAATAATCC
Found at i:37662017 original size:127 final size:127
Alignment explanation
Indices: 37661694--37661982 Score: 461
Period size: 127 Copynumber: 2.3 Consensus size: 127
37661684 GGTGAAACTT
* * *
37661694 CAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAAATAATCCTATCTCCCTGAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAATAATCCTATCTCTCTGAAGTT
* * * * *
37661759 GCAATGGAGCGGATTAAAATTAGATCTTATCTCTTTAAAGTTGCAGAAGAGCAGATCGCATC
66 GCAGTGGAGCGAATTAAAATCAGATCTTATCTCTCTAAAGTTACAGAAGAGCAGATCGCATC
*
37661821 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAATAATCCTATCTCTCTAAAGTT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAATAATCCTATCTCTCTGAAGTT
*
37661886 GCAGTGGAGCGAATTAAAATCAGATCTTATCTCTCTGAAGTTACAGAAGAGCAGATCGCATC
66 GCAGTGGAGCGAATTAAAATCAGATCTTATCTCTCTAAAGTTACAGAAGAGCAGATCGCATC
* * *
37661948 TAGTTTTATCTCCCTGAAGTTACAGTGGAGCAGAT
1 CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
37661983 CAAGATGATA
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 149 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (127 bp):
CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAAAATAATCCTATCTCTCTGAAGTT
GCAGTGGAGCGAATTAAAATCAGATCTTATCTCTCTAAAGTTACAGAAGAGCAGATCGCATC
Found at i:37663371 original size:20 final size:21
Alignment explanation
Indices: 37663336--37663374 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37663326 TTTTTTTATA
*
37663336 TTATTAATTTTATTATATTAG
1 TTATTAATTATATTATATTAG
37663357 TTATT-ATTATATTATATT
1 TTATTAATTATATTATATT
37663375 CATTATACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTATTAATTATATTATATTAG
Found at i:37663379 original size:24 final size:24
Alignment explanation
Indices: 37663334--37663379 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
37663324 GTTTTTTTTA
* *
37663334 TATTATTAATTTTATTATATTAGT
1 TATTATTAATTATATTACATTAGT
37663358 TATTATTATATTATATT-CATTA
1 TATTATTA-ATTATATTACATTA
37663380 TACTTACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTATTAATTATATTACATTAGT
Found at i:37663380 original size:20 final size:19
Alignment explanation
Indices: 37663331--37663393 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
37663321 TTAGTTTTTT
*
37663331 TTATATTATTA--ATTTTA
1 TTATATTATTATTATTATA
37663348 TTATATTAGTTATTATTATA
1 TTATATTA-TTATTATTATA
*
37663368 TTATATTCATTA-TACTTACA
1 TTATATT-ATTATTA-TTATA
37663388 TTATAT
1 TTATAT
37663394 GCGCGTATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 8 0.21
18 3 0.08
19 2 0.05
20 25 0.64
21 1 0.03
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (19 bp):
TTATATTATTATTATTATA
Found at i:37669046 original size:15 final size:15
Alignment explanation
Indices: 37669026--37669080 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
37669016 TAAAAGTATA
37669026 TATTTAATATATTAT
1 TATTTAATATATTAT
37669041 TATTT-A-ATA-TA-
1 TATTTAATATATTAT
37669052 TATTTAATATATTAT
1 TATTTAATATATTAT
37669067 TATTTAAATATATT
1 TATTT-AATATATT
37669081 TAATATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 5 0.14
12 3 0.09
13 6 0.17
14 3 0.09
15 10 0.29
16 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTAATATATTAT
Found at i:37669051 original size:26 final size:26
Alignment explanation
Indices: 37669022--37669086 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
37669012 AATATAAAAG
37669022 TATATATTTAATATATTATTATTTAA
1 TATATATTTAATATATTATTATTTAA
37669048 TATATATTTAATATATTATTATTTAA
1 TATATATTTAATATATTATTATTTAA
37669074 -ATATATTTAATAT
1 TATATATTTAATAT
37669087 TTTTTGGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
25 13 0.33
26 26 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATATATTTAATATATTATTATTTAA
Found at i:37669055 original size:11 final size:11
Alignment explanation
Indices: 37669022--37669086 Score: 51
Period size: 15 Copynumber: 5.3 Consensus size: 11
37669012 AATATAAAAG
37669022 TATATATTTAATA
1 TATATATTT-A-A
37669035 TATTATTATTTAA
1 TA-TA-TATTTAA
37669048 TATATATTTAATA
1 TATATATTT-A-A
37669061 TATTATTATTTAA
1 TA-TA-TATTTAA
37669074 -ATATATTTAA
1 TATATATTTAA
37669084 TAT
1 TAT
37669087 TTTTTGGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
10 7 0.16
11 9 0.20
12 4 0.09
13 9 0.20
14 6 0.13
15 10 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATTTAA
Found at i:37671706 original size:4 final size:4
Alignment explanation
Indices: 37671697--37671724 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
37671687 AATGGAAACG
37671697 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
37671725 GAAAATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:37674206 original size:18 final size:16
Alignment explanation
Indices: 37674177--37674210 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
37674167 TCAAAGTAAA
37674177 TATTATTTATTAAATT
1 TATTATTTATTAAATT
37674193 TATTATATTAATTAAATT
1 TATTAT-TT-ATTAAATT
37674211 AATTTCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTATTAAATT
Found at i:37676244 original size:17 final size:19
Alignment explanation
Indices: 37676213--37676249 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
37676203 GTATATTAGT
37676213 AAATTAATAAAAAA-TAAA
1 AAATTAATAAAAAATTAAA
*
37676231 AAATT-ATAATAAATTAAA
1 AAATTAATAAAAAATTAAA
37676249 A
1 A
37676250 GGTAAAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATTAATAAAAAATTAAA
Found at i:37677272 original size:45 final size:45
Alignment explanation
Indices: 37677166--37677280 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 45
37677156 TAGCTTGAAT
* * * * *
37677166 GAAACGGATAAGACCATAGTTGAAAGACATTATGACATTATACCG
1 GAAACGAATAAAACCATAGTTGAAAGAAATTATGACATCATACCA
** * *
37677211 GAATTGAATAAGACCATAGTTGAAAGAAATTATGACATCATACTA
1 GAAACGAATAAAACCATAGTTGAAAGAAATTATGACATCATACCA
* *
37677256 GAAACGAGTAAAACCATAGCTGAAA
1 GAAACGAATAAAACCATAGTTGAAA
37677281 AACGTTATGG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (45 bp):
GAAACGAATAAAACCATAGTTGAAAGAAATTATGACATCATACCA
Found at i:37677289 original size:45 final size:45
Alignment explanation
Indices: 37677219--37677549 Score: 280
Period size: 45 Copynumber: 7.4 Consensus size: 45
37677209 CGGAATTGAA
* * * *
37677219 TAAGACCATAGTTGAAAGAA-ATTATGACATCA-TACTAGAAACGAG
1 TAAGACCATAGCTGAAA-AACGTTATGACATCACGA-TTGAAACGAG
* * ** *
37677264 TAAAACCATAGCTGAAAAACGTTATGGCATCACGATTTTAACAAG
1 TAAGACCATAGCTGAAAAACGTTATGACATCACGATTGAAACGAG
* * * **
37677309 TAAGACCATAGATGAAAGACGTTATGGCATCACGATTTTAACGAG
1 TAAGACCATAGCTGAAAAACGTTATGACATCACGATTGAAACGAG
* * *
37677354 TAAGACCATAGCTGAAATACGTTATGACATCACGAGTT-TAATGAG
1 TAAGACCATAGCTGAAAAACGTTATGACATCACGA-TTGAAACGAG
* **
37677399 TAAGACCATAGCT-AAAAGACATTATGACATCACGATTCTAACGAG
1 TAAGACCATAGCTGAAAA-ACGTTATGACATCACGATTGAAACGAG
* * * **
37677444 TAAGACCATAGTTGAAAGACGCTAT-AGCATCACGATTCTAACGAG
1 TAAGACCATAGCTGAAAAACGTTATGA-CATCACGATTGAAACGAG
* * * *
37677489 TAAGACCATAGCTGAAAGACGCTATGGCATCACGATCT--AACAAG
1 TAAGACCATAGCTGAAAAACGTTATGACATCACGAT-TGAAACGAG
**
37677533 TAAGAATATAGCTGAAA
1 TAAGACCATAGCTGAAA
37677550 GATGCTATGG
Statistics
Matches: 248, Mismatches: 29, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
44 28 0.11
45 213 0.86
46 7 0.03
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAAACGTTATGACATCACGATTGAAACGAG
Found at i:37677319 original size:90 final size:90
Alignment explanation
Indices: 37677219--37677564 Score: 390
Period size: 90 Copynumber: 3.9 Consensus size: 90
37677209 CGGAATTGAA
* * * *** *
37677219 TAAGACCATAGTTGAAAGAAATTATGACATCA-TACTAGAAACGAGTAAAACCATAGCTGAAAAA
1 TAAGACCATAGCTGAAAGACATTATGACATCACGA-TTCTAACGAGTAAGACCATAGCTGAAAAA
*
37677283 CGTTATGGCATCACGATTTTAACAAG
65 CGTTATGGCATCACGATTTTAACGAG
* * * * *
37677309 TAAGACCATAGATGAAAGACGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTGAAATAC
1 TAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACGAGTAAGACCATAGCTGAAAAAC
* * *
37677374 GTTATGACATCACGAGTTTAATGAG
66 GTTATGGCATCACGATTTTAACGAG
* * *
37677399 TAAGACCATAGCTAAAAGACATTATGACATCACGATTCTAACGAGTAAGACCATAGTTGAAAGAC
1 TAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACGAGTAAGACCATAGCTGAAAAAC
* * *
37677464 GCTATAGCATCACGATTCTAACGAG
66 GTTATGGCATCACGATTTTAACGAG
** * * ** * *
37677489 TAAGACCATAGCTGAAAGACGCTATGGCATCACGA-TCTAACAAGTAAGAATATAGCTGAAAGAT
1 TAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACGAGTAAGACCATAGCTGAAAAAC
*
37677553 GCTATGGCATCA
66 GTTATGGCATCA
37677565 TGAATCAGAC
Statistics
Matches: 218, Mismatches: 37, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
89 35 0.16
90 182 0.83
91 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (90 bp):
TAAGACCATAGCTGAAAGACATTATGACATCACGATTCTAACGAGTAAGACCATAGCTGAAAAAC
GTTATGGCATCACGATTTTAACGAG
Found at i:37677424 original size:135 final size:135
Alignment explanation
Indices: 37677261--37677523 Score: 402
Period size: 135 Copynumber: 1.9 Consensus size: 135
37677251 TACTAGAAAC
* * *
37677261 GAGTAAAACCATAGCTGAAAAACGTTATGGCATCACGATTTTAACAAGTAAGACCATAGATGAAA
1 GAGTAAAACCATAGCTGAAAAACATTATGACATCACGATTCTAACAAGTAAGACCATAGATGAAA
* * * * *
37677326 GACGTTATGGCATCACGATTTTAACGAGTAAGACCATAGCTGAAATACGTTATGACATCACGAGT
66 GACGCTATAGCATCACGATTCTAACGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGAGT
37677391 TTAAT
131 TTAAT
* * *
37677396 GAGTAAGACCATAGCT-AAAAGACATTATGACATCACGATTCTAACGAGTAAGACCATAGTTGAA
1 GAGTAAAACCATAGCTGAAAA-ACATTATGACATCACGATTCTAACAAGTAAGACCATAGATGAA
*
37677460 AGACGCTATAGCATCACGATTCTAACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGA
65 AGACGCTATAGCATCACGATTCTAACGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGA
37677524 TCTAACAAGT
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
134 4 0.03
135 111 0.97
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (135 bp):
GAGTAAAACCATAGCTGAAAAACATTATGACATCACGATTCTAACAAGTAAGACCATAGATGAAA
GACGCTATAGCATCACGATTCTAACGAGTAAGACCATAGCTGAAAGACGCTATGACATCACGAGT
TTAAT
Found at i:37686612 original size:43 final size:43
Alignment explanation
Indices: 37686550--37686644 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
37686540 AACACATAGA
*
37686550 ATACCCAAAAGAGATAGTCGTAAATTGCTCAACTGTAACTATT
1 ATACCCAAAAGAGAGAGTCGTAAATTGCTCAACTGTAACTATT
37686593 ATACCCAAAAGAGAGAGTCGTAAATTGCTCAACTGTAACTATT
1 ATACCCAAAAGAGAGAGTCGTAAATTGCTCAACTGTAACTATT
*
37686636 ATACTCAAA
1 ATACCCAAA
37686645 CATCTATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (43 bp):
ATACCCAAAAGAGAGAGTCGTAAATTGCTCAACTGTAACTATT
Found at i:37691534 original size:49 final size:51
Alignment explanation
Indices: 37691369--37691546 Score: 245
Period size: 52 Copynumber: 3.5 Consensus size: 51
37691359 CAGATACCCG
* * * *
37691369 GTGGCCTGCACATAGTACCACCCTTG-AAGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
37691420 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* * *
37691472 GTGGCCTTCACATAGTACCACACTTGTGATC-AAGTTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
*
37691521 GTGGCCGTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
37691547 AGTCGCTAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 34 0.29
51 41 0.35
52 42 0.36
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:37696360 original size:21 final size:21
Alignment explanation
Indices: 37696322--37696361 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
37696312 GCTTCTTGGC
* *
37696322 AAGTGGATATTGCGATACCCA
1 AAGTGGATATCGCAATACCCA
*
37696343 AAGTGGTTATCGCAATACC
1 AAGTGGATATCGCAATACC
37696362 ACTGAAGGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (21 bp):
AAGTGGATATCGCAATACCCA
Found at i:37708660 original size:11 final size:11
Alignment explanation
Indices: 37708644--37708669 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
37708634 TTCGAAATTC
37708644 AATTAATTAAT
1 AATTAATTAAT
37708655 AATTAATTAAT
1 AATTAATTAAT
37708666 AATT
1 AATT
37708670 TGAAAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTAATTAAT
Found at i:37719090 original size:6 final size:6
Alignment explanation
Indices: 37719075--37719110 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
37719065 CAATGGTATA
* *
37719075 TATATC TATATG TATATC TACATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC
37719111 CAGTGTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (6 bp):
TATATC
Found at i:37722799 original size:153 final size:153
Alignment explanation
Indices: 37722521--37722829 Score: 600
Period size: 153 Copynumber: 2.0 Consensus size: 153
37722511 ATTGTGTGAA
*
37722521 CCTTAACTGTTGCCAGATCTCTTTTGTGTGCAAACACTCTTGAAAAACATGTTCAATTGTTTCCA
1 CCTTAACTGTTGCCAGATCTCTTTTGTGTGCAAACACTCTTGAAAAACATGTTCAACTGTTTCCA
*
37722586 CACCATTGTGACAGCGGTGACAGTTCGCAGAGTTCATCAACCTCCTGTAGCATAGGTTTGCATAA
66 CACCATTGTAACAGCGGTGACAGTTCGCAGAGTTCATCAACCTCCTGTAGCATAGGTTTGCATAA
37722651 GTAGGCACATAGTTGTTCATAAT
131 GTAGGCACATAGTTGTTCATAAT
37722674 CCTTAACTGTTGCCAGATCTCTTTTGTGTGCAAACACTCTTGAAAAACATGTTCAACTGTTTCCA
1 CCTTAACTGTTGCCAGATCTCTTTTGTGTGCAAACACTCTTGAAAAACATGTTCAACTGTTTCCA
37722739 CACCATTGTAACAGCGGTGACAGTTCGCAGAGTTCATCAACCTCCTGTAGCATAGGTTTGCATAA
66 CACCATTGTAACAGCGGTGACAGTTCGCAGAGTTCATCAACCTCCTGTAGCATAGGTTTGCATAA
37722804 GTAGGCACATAGTTGTTCATAAT
131 GTAGGCACATAGTTGTTCATAAT
37722827 CCT
1 CCT
37722830 CCATGTTGTA
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (153 bp):
CCTTAACTGTTGCCAGATCTCTTTTGTGTGCAAACACTCTTGAAAAACATGTTCAACTGTTTCCA
CACCATTGTAACAGCGGTGACAGTTCGCAGAGTTCATCAACCTCCTGTAGCATAGGTTTGCATAA
GTAGGCACATAGTTGTTCATAAT
Found at i:37730562 original size:9 final size:10
Alignment explanation
Indices: 37730542--37730570 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
37730532 ATTGCATGTT
37730542 TGAATAGAAA
1 TGAATAGAAA
37730552 TGAAT-GAAA
1 TGAATAGAAA
37730561 TGAATAGAAA
1 TGAATAGAAA
37730571 AAGAGAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:37730672 original size:6 final size:6
Alignment explanation
Indices: 37730657--37730709 Score: 70
Period size: 6 Copynumber: 8.7 Consensus size: 6
37730647 AAGTTTCCAC
* * *
37730657 AAATGG AAATGA AAATGG AAATGG AAATGA AAATGA AAATGA AAATGGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA AAAT-GA
37730706 AAAT
1 AAAT
37730710 TGCAATCCTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
6 37 0.86
7 6 0.14
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (6 bp):
AAATGA
Found at i:37730680 original size:18 final size:18
Alignment explanation
Indices: 37730657--37730709 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
37730647 AAGTTTCCAC
*
37730657 AAATGGAAATGAAAATGG
1 AAATGGAAATGAAAATGA
37730675 AAATGGAAATGAAAATGA
1 AAATGGAAATGAAAATGA
*
37730693 AAATGAAAATGGAAAAT
1 AAATGGAAAT-GAAAAT
37730710 TGCAATCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAATGGAAATGAAAATGA
Found at i:37736323 original size:57 final size:58
Alignment explanation
Indices: 37736254--37736367 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 58
37736244 TTTCCAAGTC
* *
37736254 ATTTTCATTTTGGAGAAAACCACATTCA-TTTCTAAATGATTC-CATATCTCTATTTTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTTC-AAATGATTCTCATATCTCCATTTTT
* * * *
37736311 ATTTTCGTTTTGGAGAAAACCATAATCATTTTCAAATGTTTCTCATTTCTCCATTTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCTCATATCTCCATTTT
37736368 CACCATTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
57 33 0.67
58 16 0.33
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACAATCATTTTCAAATGATTCTCATATCTCCATTTTT
Found at i:37737568 original size:6 final size:6
Alignment explanation
Indices: 37737538--37737589 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
37737528 GGTTGCAAAA
* * * * *
37737538 GTGACAT GTGAAA GTGAAA GTGAAT GTGAAT GTGTAT GTGTAT GTGTAT
1 GTGA-AT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT GTGAAT
37737587 GTG
1 GTG
37737590 TAAATAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
6 38 0.90
7 4 0.10
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.35
Consensus pattern (6 bp):
GTGAAT
Found at i:37737590 original size:6 final size:6
Alignment explanation
Indices: 37737561--37737591 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
37737551 GTGAAAGTGA
*
37737561 ATGTGA ATGTGT ATGTGT ATGTGT ATGTGT A
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT A
37737592 AATAAAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (6 bp):
ATGTGT
Found at i:37741389 original size:22 final size:22
Alignment explanation
Indices: 37741348--37741390 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
37741338 TATCTAAATA
*
37741348 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAATAGCAGCAAT
37741370 ATAATAACAAAAT-GACAGCAA
1 ATAATAACAAAATAG-CAGCAA
37741391 AACAATGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAATAACAAAATAGCAGCAAT
Found at i:37744366 original size:6 final size:6
Alignment explanation
Indices: 37744350--37744393 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
37744340 ACGGTGGTGC
* * * *
37744350 TGGAGG GGGAGG TGGAGG TGGAGG AGGAGG CGGAGG AGGAGG TG
1 TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TGGAGG TG
37744394 CCTCTGGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.20, C:0.02, G:0.68, T:0.09
Consensus pattern (6 bp):
TGGAGG
Found at i:37744973 original size:6 final size:6
Alignment explanation
Indices: 37744964--37744995 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
37744954 TGGTGGTGGG
*
37744964 GGAGGA GGAGGT GGAGGT GGAGGT GGAGGT GG
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG
37744996 GGCTAATGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.69, T:0.12
Consensus pattern (6 bp):
GGAGGT
Found at i:37745161 original size:3 final size:3
Alignment explanation
Indices: 37745153--37745196 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
37745143 AGAGGTGGGA
* * * *
37745153 GGT GGT GGT GGC GGT GGT GGT GGA GGT GGA GGT GGG GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
37745197 AAGCTCTAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.05, C:0.02, G:0.70, T:0.23
Consensus pattern (3 bp):
GGT
Found at i:37745168 original size:6 final size:6
Alignment explanation
Indices: 37745144--37745193 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
37745134 TGCAGGCATA
* * * *
37745144 GAGGTGG GAGGTG GTGGTG GCGGTG GTGGTG GAGGTG GAGGTG GGGGTG
1 GAGGT-G GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG GAGGTG
37745193 G
1 G
37745194 TGGAAGCTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.08, C:0.02, G:0.70, T:0.20
Consensus pattern (6 bp):
GAGGTG
Found at i:37745170 original size:12 final size:12
Alignment explanation
Indices: 37745150--37745196 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
37745140 CATAGAGGTG
37745150 GGAGGTGGTGGT
1 GGAGGTGGTGGT
*
37745162 GGCGGTGGTGGT
1 GGAGGTGGTGGT
*
37745174 GGAGGTGGAGGT
1 GGAGGTGGTGGT
*
37745186 GGGGGTGGTGG
1 GGAGGTGGTGG
37745197 AAGCTCTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.06, C:0.02, G:0.70, T:0.21
Consensus pattern (12 bp):
GGAGGTGGTGGT
Found at i:37745334 original size:18 final size:18
Alignment explanation
Indices: 37745313--37745348 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37745303 GGTGGTTCGA
* *
37745313 GTGGAGGTGGAGGCGGAG
1 GTGGAAGTGGAGGAGGAG
37745331 GTGGAAGTGGAGGAGGAG
1 GTGGAAGTGGAGGAGGAG
37745349 AAGGGGTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.64, T:0.11
Consensus pattern (18 bp):
GTGGAAGTGGAGGAGGAG
Found at i:37759641 original size:41 final size:41
Alignment explanation
Indices: 37758852--37759628 Score: 1457
Period size: 41 Copynumber: 19.0 Consensus size: 41
37758842 TTATAGTTTA
* * * * *
37758852 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-G
* *
37758893 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37758934 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37758975 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759016 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759057 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759098 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759139 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759180 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759221 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759262 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759303 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759344 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759385 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759426 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759467 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759508 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
37759549 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
* *
37759590 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTAGAGTC
1 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTC
37759629 TGAATAATTT
Statistics
Matches: 728, Mismatches: 7, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
41 726 1.00
42 2 0.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
Found at i:37791791 original size:22 final size:21
Alignment explanation
Indices: 37791757--37791819 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
37791747 AAGGACATCA
*
37791757 TATTGAAATATATATAATAAAT
1 TATTGAAAAATATAT-ATAAAT
* *
37791779 TATTTAAAAATATATTTAAAT
1 TATTGAAAAATATATATAAAT
* *
37791800 TAAATGATAAAATATTTATA
1 T-ATTGA-AAAATATATATA
37791820 TTTATGTTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 6 0.19
22 16 0.50
23 10 0.31
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
TATTGAAAAATATATATAAAT
Found at i:37792321 original size:17 final size:17
Alignment explanation
Indices: 37792299--37792337 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
37792289 TATAATCAAT
37792299 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
37792316 TTTAAAATTTTAATATA
1 TTTAAAATTTTAATATA
*
37792333 CTTAA
1 TTTAA
37792338 TATATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAAAATTTTAATATA
Found at i:37792672 original size:14 final size:15
Alignment explanation
Indices: 37792642--37792673 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37792632 TCTCCAAATT
37792642 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
37792657 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
37792671 TTT
1 TTT
37792674 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:37792798 original size:14 final size:15
Alignment explanation
Indices: 37792768--37792799 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37792758 TCTCCAAATT
37792768 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
37792783 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
37792797 TTT
1 TTT
37792800 TTATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:37792800 original size:126 final size:126
Alignment explanation
Indices: 37792575--37792812 Score: 449
Period size: 126 Copynumber: 1.9 Consensus size: 126
37792565 AATGAAAAAT
*
37792575 AGGACTCGAAATTCCCATTTCAGAAATCAAAACTCGTTTCTCCAAAGTTTCAAAGTTTCTCCAAA
1 AGGACTCGAAATACCCATTTCAGAAATCAAAACTCGTTTCTCCAAAGTTTCAAAGTTTCTCCAAA
37792640 TTTTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAGTTACGATTAC
66 TTTTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAGTTACGATTAC
*
37792701 AGGACTCTAAATACCCATTTCAGAAATCAAAACTCGTTTCTCCAAAGTTTCAAAGTTTCTCCAAA
1 AGGACTCGAAATACCCATTTCAGAAATCAAAACTCGTTTCTCCAAAGTTTCAAAGTTTCTCCAAA
*
37792766 TTTTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTATAAATTT
66 TTTTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTT
37792813 TAAATTACAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (126 bp):
AGGACTCGAAATACCCATTTCAGAAATCAAAACTCGTTTCTCCAAAGTTTCAAAGTTTCTCCAAA
TTTTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAGTTACGATTAC
Found at i:37793747 original size:13 final size:13
Alignment explanation
Indices: 37793729--37793753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37793719 ATTATTAATA
37793729 TTATTTTGTGTGT
1 TTATTTTGTGTGT
37793742 TTATTTTGTGTG
1 TTATTTTGTGTG
37793754 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:37795902 original size:41 final size:41
Alignment explanation
Indices: 37795811--37795923 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 41
37795801 NNNNNNNNNN
* * *
37795811 ACTATACGTCTAGCAGGCTAAGTGCCGGTGAACTGAATCAG
1 ACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAA
* * *
37795852 GCTACAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATTAA
1 ACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAA
* *
37795893 ACTATAAGCCTATCAGG-TGAAGTGCCAGTGA
1 ACTATAAGCCTAGCAGGCT-AAGTGCCGGTGA
37795924 TTCTGTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 60 0.98
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (41 bp):
ACTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAA
Found at i:37802416 original size:3 final size:3
Alignment explanation
Indices: 37802376--37802438 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
37802366 TTTAGCAATT
* * * *
37802376 TTA TTA TT- TTG TTCA TTA TT- TTA ATG TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37802420 TTA TTA TTAA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA
37802439 GTTTTATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:37802786 original size:33 final size:33
Alignment explanation
Indices: 37802744--37802821 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
37802734 NNNNNNNNAC
*
37802744 GTATTCTTTATACTTTGAAAATATATTTTGTTT
1 GTATTCTTTATACTTTCAAAATATATTTTGTTT
37802777 GTATTCTTTATACTTTCAAAATATATTTTGTTT
1 GTATTCTTTATACTTTCAAAATATATTTTGTTT
* *
37802810 ATATTCATTATA
1 GTATTCTTTATA
37802822 TTTTATGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (33 bp):
GTATTCTTTATACTTTCAAAATATATTTTGTTT
Found at i:37802837 original size:16 final size:16
Alignment explanation
Indices: 37802807--37802840 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
37802797 ATATATTTTG
37802807 TTTATATTCATTATAT
1 TTTATATTCATTATAT
37802823 TTTATGATTCATATATAT
1 TTTAT-ATTCAT-TATAT
37802841 ACCTACTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTATATTCATTATAT
Found at i:37806086 original size:35 final size:34
Alignment explanation
Indices: 37806031--37806106 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
37806021 TTCTTTGACG
37806031 AAATATT-CCTACAAGAAAAGACG-AGTGAACAGT
1 AAATATTCCCTACAAGAAAAGACGCA-TGAACAGT
* * *
37806064 AAATATTCCCTTACAAGGAAAGATGCATGAATAGT
1 AAATATTCCC-TACAAGAAAAGACGCATGAACAGT
37806099 AAATATTC
1 AAATATTC
37806107 TCTGTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 7 0.19
34 2 0.05
35 27 0.73
36 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (34 bp):
AAATATTCCCTACAAGAAAAGACGCATGAACAGT
Found at i:37806339 original size:19 final size:19
Alignment explanation
Indices: 37806298--37806346 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
37806288 TCAAAACTCA
*
37806298 TTTCTCCAAAGTTTCAAAG
1 TTTCTCCAAAATTTCAAAG
*
37806317 TTTCTCCAAAATTT-TAAG
1 TTTCTCCAAAATTTCAAAG
37806335 TTT-T-CAAAATTT
1 TTTCTCCAAAATTT
37806347 AAGTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.29
17 1 0.04
18 6 0.21
19 13 0.46
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (19 bp):
TTTCTCCAAAATTTCAAAG
Found at i:37806363 original size:16 final size:16
Alignment explanation
Indices: 37806323--37806361 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
37806313 AAAGTTTCTC
37806323 CAAAATTTTAAGTTTT
1 CAAAATTTTAAGTTTT
37806339 CAAAA-TTTAAGTTTT
1 CAAAATTTTAAGTTTT
37806354 -AAAATTTT
1 CAAAATTTT
37806362 TATTACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 13 0.59
16 5 0.23
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (16 bp):
CAAAATTTTAAGTTTT
Found at i:37806485 original size:14 final size:15
Alignment explanation
Indices: 37806455--37806486 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
37806445 TCTCCAAATT
37806455 TTTAAGTTTTCAAAA
1 TTTAAGTTTTCAAAA
37806470 TTTAAGTTTT-AAAA
1 TTTAAGTTTTCAAAA
37806484 TTT
1 TTT
37806487 TTATTACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTCAAAA
Found at i:37806489 original size:126 final size:126
Alignment explanation
Indices: 37806264--37806511 Score: 469
Period size: 126 Copynumber: 2.0 Consensus size: 126
37806254 TGAAAAACAT
37806264 GACTCGAAATACCCATTTCAGAAATCAAAACTCATTTCTCCAAAGTTTCAAAGTTTCTCCAAAAT
1 GACTCGAAATACCCATTTCAGAAATCAAAACTCATTTCTCCAAAGTTTCAAAGTTTCTCCAAAAT
37806329 TTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAATTACGATTACAG
66 TTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAATTACGATTACAG
* * *
37806390 GACTCTAAATACCCATTTCAGAAATCAAAACTCGTTTCTCCAAAGTTTCAAAGTTTCTCCAAATT
1 GACTCGAAATACCCATTTCAGAAATCAAAACTCATTTCTCCAAAGTTTCAAAGTTTCTCCAAAAT
37806455 TTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAATTACGATT
66 TTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAATTACGATT
37806512 CTCATAATTT
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.39
Consensus pattern (126 bp):
GACTCGAAATACCCATTTCAGAAATCAAAACTCATTTCTCCAAAGTTTCAAAGTTTCTCCAAAAT
TTTAAGTTTTCAAAATTTAAGTTTTAAAATTTTTATTACAAATTTCAAATTACGATTACAG
Found at i:37811748 original size:18 final size:16
Alignment explanation
Indices: 37811725--37811783 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 16
37811715 AACATTTTCC
37811725 TTTAATTAATTTAGAAAA
1 TTTAATTAA-TTA-AAAA
37811743 TTTAATTAATT--AAA
1 TTTAATTAATTAAAAA
37811757 TTTAATTAATTAAAAA
1 TTTAATTAATTAAAAA
* *
37811773 ATCAATTAATT
1 TTTAATTAATT
37811784 TAGTTGGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
14 14 0.38
16 12 0.32
17 2 0.05
18 9 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTAATTAATTAAAAA
Found at i:37812524 original size:25 final size:25
Alignment explanation
Indices: 37812490--37812538 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
37812480 CTTGGATATG
37812490 TTAGTTTTAATTTTT-TATTTAAAAT
1 TTAGTTTTAATTTTTCT-TTTAAAAT
37812515 TTAGTTTTAATTTTTCTTTTAAAA
1 TTAGTTTTAATTTTTCTTTTAAAA
37812539 ATTATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
TTAGTTTTAATTTTTCTTTTAAAAT
Found at i:37813936 original size:44 final size:46
Alignment explanation
Indices: 37813848--37813940 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
37813838 GAGCTGTTGT
*
37813848 AATGGAATAGAACTGTAATCAGTAATTCAATTGTTTGGTTGAATGG
1 AATGGAATAGAACTATAATCAGTAATTCAATTGTTTGGTTGAATGG
* *
37813894 AATGGAATAGAACTATAAT-GGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTATAATCAGTAATTCAAT-TGTTTGGTTGAATGG
37813938 AAT
1 AAT
37813941 AATGTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 2 0.05
46 18 0.42
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAACTATAATCAGTAATTCAATTGTTTGGTTGAATGG
Found at i:37816848 original size:16 final size:16
Alignment explanation
Indices: 37816827--37816866 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
37816817 CGTTTGGTTC
37816827 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
37816843 GCTGTAACGGAATAGA
1 GCTGTAATGGAATAGA
*
37816859 GTTGTAAT
1 GCTGTAAT
37816867 TCAATTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:37818462 original size:18 final size:18
Alignment explanation
Indices: 37818425--37818478 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
37818415 ATTCACCTAA
*
37818425 ACCCAATCCAAACCCAATT
1 ACCCAA-CCCAACCCAATT
*
37818444 ACCCAACCCAACTCAATT
1 ACCCAACCCAACCCAATT
37818462 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
37818479 CATAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.41, C:0.46, G:0.00, T:0.13
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:37818529 original size:6 final size:6
Alignment explanation
Indices: 37818518--37818546 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37818508 AAAAAAAATT
37818518 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
37818547 GTCTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:37818592 original size:9 final size:9
Alignment explanation
Indices: 37818578--37818634 Score: 98
Period size: 9 Copynumber: 6.4 Consensus size: 9
37818568 GTAGTGATTC
37818578 AATTCGGTT
1 AATTCGGTT
37818587 AATTCGGTT
1 AATTCGGTT
*
37818596 AATTCGGGT
1 AATTCGGTT
37818605 AATTCGG-T
1 AATTCGGTT
37818613 AATTCGGTT
1 AATTCGGTT
37818622 AATTCGGTT
1 AATTCGGTT
37818631 AATT
1 AATT
37818635 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
8 8 0.17
9 38 0.83
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:37818619 original size:26 final size:27
Alignment explanation
Indices: 37818579--37818634 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
37818569 TAGTGATTCA
37818579 ATTCGGTTAATTC-GGTTAATTCGGGTA
1 ATTCGGTTAATTCGGGTTAATTC-GGTA
37818606 ATTCGG-TAATTC-GGTTAATTCGGTTA
1 ATTCGGTTAATTCGGGTTAATTCGG-TA
37818632 ATT
1 ATT
37818635 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 2 0.07
26 20 0.71
27 6 0.21
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (27 bp):
ATTCGGTTAATTCGGGTTAATTCGGTA
Found at i:37824987 original size:40 final size:40
Alignment explanation
Indices: 37824943--37825038 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
37824933 CAGACGAACG
* *
37824943 ATACCTACTGAATCTACTGAAACGTATGCGCTTTCGAGCC
1 ATACCTACTGAATCTACTGAAACGTATGCGCTCTCAAGCC
*
37824983 ATACCTACTGAATTTACTGAAACGTATGCGCTCTCAAGCC
1 ATACCTACTGAATCTACTGAAACGTATGCGCTCTCAAGCC
*
37825023 ATACCTACTAAATCTA
1 ATACCTACTGAATCTA
37825039 TTCAAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (40 bp):
ATACCTACTGAATCTACTGAAACGTATGCGCTCTCAAGCC
Found at i:37826368 original size:32 final size:32
Alignment explanation
Indices: 37826319--37826565 Score: 257
Period size: 32 Copynumber: 7.7 Consensus size: 32
37826309 TACAATAATG
* *
37826319 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * * * * *
37826351 TGATCGACACACAGCCATGAGTAACGGTAACA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * *
37826383 TGATCCGCACAAAGCCATCAGTAGCTGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * *
37826415 TGATCGGCACACATCCATCAGTAACAGTGAAA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
* * * *
37826447 TGATCGGCACACAGCCATCGGTAACGGTAATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGATA
37826479 TGATCGGCACAAAGCCATCAGTAACAGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACAGTGA-TA
*
37826511 TGATCGACACAAAGCCATCAGTAAC-GAT-ACTA
1 TGATCGGCACAAAGCCATCAGTAACAG-TGA-TA
* *
37826543 TGATTGGCACAAAGCCATTAGTA
1 TGATCGGCACAAAGCCATCAGTA
37826566 GCATCGCAGC
Statistics
Matches: 179, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
31 2 0.01
32 177 0.99
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGATA
Found at i:37826489 original size:96 final size:96
Alignment explanation
Indices: 37826319--37826535 Score: 303
Period size: 96 Copynumber: 2.3 Consensus size: 96
37826309 TACAATAATG
* * *
37826319 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATGAGTAACGGTAACAT
1 TGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGACACACAGCCATGAGTAACGGTAACAT
* *
37826384 GATCCGCACAAAGCCATCAGTAGCTGTGA-TA
66 GATCCGCACAAAGCCATCAGTAACAGT-ACTA
* * * *
37826415 TGATCGGCACACATCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCG-GTAACGGTAATA
1 TGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGACACACAGCCAT-GAGTAACGGTAACA
*
37826479 TGATCGGCACAAAGCCATCAGTAACAGTACTA
65 TGATCCGCACAAAGCCATCAGTAACAGTACTA
*
37826511 TGATCGACACAAAGCCATCAGTAAC
1 TGATCGGCACAAAGCCATCAGTAAC
37826536 GATACTATGA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 1 0.01
96 104 0.98
97 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (96 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGACACACAGCCATGAGTAACGGTAACAT
GATCCGCACAAAGCCATCAGTAACAGTACTA
Found at i:37826546 original size:96 final size:96
Alignment explanation
Indices: 37826326--37826565 Score: 299
Period size: 96 Copynumber: 2.5 Consensus size: 96
37826316 ATGTGATTGG
* *
37826326 CACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATGAGTAACGGTAACATGATCCGC
1 CACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATGAGTAACGGTAACATGATCCGC
* * *
37826391 ACAAAGCCATCAGTAGCTGTGATATGATCGG
66 ACAAAGCCATCAGTAACAGTGATATGATCGA
* * * * *
37826422 CACACATCCATCAGTAACAGTGAAATGATCGGCACACAGCCATCG-GTAACGGTAATATGATCGG
1 CACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCAT-GAGTAACGGTAACATGATCCG
37826486 CACAAAGCCATCAGTAACAGT-ACTATGATCGA
65 CACAAAGCCATCAGTAACAGTGA-TATGATCGA
* * *
37826518 CACAAAGCCATCAGTAAC-GAT-ACTATGATTGGCACAAAGCCATTAGTA
1 CACAAAGCCATCAGTAACAG-TGA-TATGATCGGCACACAGCCATGAGTA
37826566 GCATCGCAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
95 3 0.02
96 119 0.97
97 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATGAGTAACGGTAACATGATCCGC
ACAAAGCCATCAGTAACAGTGATATGATCGA
Found at i:37826600 original size:26 final size:26
Alignment explanation
Indices: 37826571--37826647 Score: 136
Period size: 26 Copynumber: 3.0 Consensus size: 26
37826561 TAGTAGCATC
37826571 GCAGCAAAGCTGCCAGCAACAGTATT
1 GCAGCAAAGCTGCCAGCAACAGTATT
37826597 GCAGCAAAGCTGCCAGCAACAGTATT
1 GCAGCAAAGCTGCCAGCAACAGTATT
* *
37826623 GCAGCAAAGCTGCCAGTAATAGTAT
1 GCAGCAAAGCTGCCAGCAACAGTAT
37826648 ATGTGGCCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGCAACAGTATT
Found at i:37826603 original size:14 final size:14
Alignment explanation
Indices: 37826584--37826629 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
37826574 GCAAAGCTGC
37826584 CAGCAACAGTATTG
1 CAGCAACAGTATTG
*
37826598 CAGCAA-AG--CTG
1 CAGCAACAGTATTG
37826609 CCAGCAACAGTATTG
1 -CAGCAACAGTATTG
37826624 CAGCAA
1 CAGCAA
37826630 AGCTGCCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 2 0.08
12 6 0.23
13 4 0.15
14 12 0.46
15 2 0.08
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (14 bp):
CAGCAACAGTATTG
Found at i:37826665 original size:27 final size:27
Alignment explanation
Indices: 37826635--37826694 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
37826625 AGCAAAGCTG
*
37826635 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
37826662 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
37826689 CCAGTA
1 CCAGTA
37826695 CAATACTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:37826901 original size:27 final size:27
Alignment explanation
Indices: 37826843--37827274 Score: 329
Period size: 27 Copynumber: 16.1 Consensus size: 27
37826833 GGAAAAAATA
37826843 GTCA-TTTACCC-ACCA-GGGCATTACG
1 GTCATTTTACCCTA-CAGGGGCATTACG
* * *
37826868 GTTATTTTACCTTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
37826895 ATCATTTGACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
37826922 GTCATTTTATCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
37826949 GTCATTTTATCCTATAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
37826976 GTCATTTTACCCTACAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
37827003 GTCATTTTACCCTATAGAGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
** **
37827030 ACCATTTTACCCTACAGGGATATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
37827057 GTCATTTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * **
37827084 GTTATTTTACCCTACAAGGGTATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
37827111 GTCATTTTATCCTACAGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
37827138 GT-ATTCTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
37827164 GTTATTTTACCATA-TGGGAGCATTTCA
1 GTCATTTTACCCTACAGGG-GCATTACG
** * *
37827191 GTTTTTTTACCC-ATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGCATTACG
* * ** * *
37827218 ATTATTTTACCCTATGGGGGCATTTCA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
37827245 GTCATTTTATCCTACCGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
37827272 GTC
1 GTC
37827275 CAGATATTGA
Statistics
Matches: 332, Mismatches: 65, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
25 3 0.01
26 34 0.10
27 291 0.88
28 4 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:37830394 original size:9 final size:9
Alignment explanation
Indices: 37830380--37830439 Score: 84
Period size: 9 Copynumber: 6.4 Consensus size: 9
37830370 TTTGGTTAAA
*
37830380 AATTACTCG
1 AATTACCCG
37830389 AATTACCCG
1 AATTACCCG
37830398 AAAATTACCCG
1 --AATTACCCG
*
37830409 AATTACCTG
1 AATTACCCG
37830418 AATTACCCG
1 AATTACCCG
37830427 AATTACCCG
1 AATTACCCG
37830436 AATT
1 AATT
37830440 GTATCACTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 37 0.80
11 9 0.20
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (9 bp):
AATTACCCG
Found at i:37830469 original size:17 final size:17
Alignment explanation
Indices: 37830447--37830507 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
37830437 ATTGTATCAC
37830447 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
37830464 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
37830484 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
37830501 TACATAA
1 TACATAA
37830508 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:37830488 original size:37 final size:37
Alignment explanation
Indices: 37830442--37830512 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
37830432 CCCGAATTGT
37830442 ATCACTACATAATTAAAAACATTACATAAGTCTTTGA
1 ATCACTACATAATTAAAAACATTACATAAGTCTTTGA
37830479 ATCACTACATAATTAAAAACATTACATAAGTCTT
1 ATCACTACATAATTAAAAACATTACATAAGTCTT
37830513 GAAATTAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.32
Consensus pattern (37 bp):
ATCACTACATAATTAAAAACATTACATAAGTCTTTGA
Found at i:37830526 original size:37 final size:37
Alignment explanation
Indices: 37830445--37830529 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 37
37830435 GAATTGTATC
*
37830445 ACTACATAATTAAAAACATTACATAAGTCTTTGAATC
1 ACTACATAATTAAAAACATTACATAAGTCTTTGAATA
37830482 ACTACATAATTAAAAACATTACATAAGTC-TTGAAATTA
1 ACTACATAATTAAAAACATTACATAAGTCTTTG-AA-TA
37830520 AC-ACATAATT
1 ACTACATAATT
37830530 GAAATGTAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
36 3 0.07
37 39 0.87
38 3 0.07
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (37 bp):
ACTACATAATTAAAAACATTACATAAGTCTTTGAATA
Found at i:37832785 original size:235 final size:234
Alignment explanation
Indices: 37832374--37832839 Score: 803
Period size: 235 Copynumber: 2.0 Consensus size: 234
37832364 TTCATCTAAA
37832374 TACAATTGATAAACATCCCTAGTCATAGTAGTTCGTGAAGGAATATGAAACCTAGGACACGCCAC
1 TACAATTGATAAACATCCCTAGTCATAGTAGTTCGTGAAGGAATATGAAACCTAGGACACGCCAC
* *
37832439 AAACATAAAATTTTTAAAACCTTCACTTTCAACAAACTTGAAAGGTCATTTATCAATCACAATCA
66 AAACATAAAATTTTTAAAACCTTCACTTTCAACAAACTTGAAAGGTAATTCATCAATCACAATCA
37832504 TTTGTGCTAATTCTTTCCTACATGCTTCTCGATCAAATCTCCAAGTTGAAAGATTCCTTTCCCCC
131 TTTGTGCTAATTCTTTCCTACATGCTTCTCGATCAAATCTCCAAGTTGAAAGATTCCTTT-CCCC
* *
37832569 CCTTCAACTCCCTTTCTAGGTAAAACTAGTTGTCCTTTCC
195 CATTCAACTCCCTTTCTAGGTAAAACTAGTTGCCCTTTCC
*
37832609 TACAATTGATAAACAGT-CCTAGTCATAGTAGTTCGTGAAGGAATATGAAACCTAGGACATGCCA
1 TACAATTGATAAACA-TCCCTAGTCATAGTAGTTCGTGAAGGAATATGAAACCTAGGACACGCCA
* *
37832673 CAAACAT-AAGTTTCTTAAAACCTTCACTTTCAACAAACTTGAAAGGTAATTCATCAATCACAGT
65 CAAACATAAAATTT-TTAAAACCTTCACTTTCAACAAACTTGAAAGGTAATTCATCAATCACAAT
*
37832737 CATTTGTGCTAA-TCTTTTCCTACATGCTTCTTGATCAAATCTCCAAGTTGAAAGATTCCTTTCC
129 CATTTGTGCTAATTC-TTTCCTACATGCTTCTCGATCAAATCTCCAAGTTGAAAGATTCCTTTCC
37832801 CCCATTCAACTCCCTTTCTAGGTAAAACTAGTTGCCCTT
193 CCCATTCAACTCCCTTTCTAGGTAAAACTAGTTGCCCTT
37832840 GACTAGGGTC
Statistics
Matches: 220, Mismatches: 8, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
234 46 0.21
235 173 0.79
236 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (234 bp):
TACAATTGATAAACATCCCTAGTCATAGTAGTTCGTGAAGGAATATGAAACCTAGGACACGCCAC
AAACATAAAATTTTTAAAACCTTCACTTTCAACAAACTTGAAAGGTAATTCATCAATCACAATCA
TTTGTGCTAATTCTTTCCTACATGCTTCTCGATCAAATCTCCAAGTTGAAAGATTCCTTTCCCCC
ATTCAACTCCCTTTCTAGGTAAAACTAGTTGCCCTTTCC
Found at i:37842970 original size:25 final size:25
Alignment explanation
Indices: 37842942--37842996 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
37842932 AGCTCCTCTC
*
37842942 AGCTGAATAACGGTAAGCTCATACG
1 AGCTGAATAACGGTAAGCTCATAAG
* **
37842967 AGCTGAGTATTGGTAAGCTCATAAG
1 AGCTGAATAACGGTAAGCTCATAAG
37842992 AGCTG
1 AGCTG
37842997 GAATTGGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (25 bp):
AGCTGAATAACGGTAAGCTCATAAG
Found at i:37843308 original size:5 final size:5
Alignment explanation
Indices: 37843298--37843323 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37843288 TTTAATCTTT
37843298 ATTCA ATTCA ATTCA ATTCA ATTCA A
1 ATTCA ATTCA ATTCA ATTCA ATTCA A
37843324 AAATCATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTCA
Found at i:37845201 original size:28 final size:28
Alignment explanation
Indices: 37845161--37845216 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
37845151 GTGATTAGGG
* *
37845161 TTGCTCACACAAGTTGACATTTATGAAT
1 TTGCTCACACAAGGTGACATTTAGGAAT
37845189 TTGCTCACACAAGGTGACATTTAGGAAT
1 TTGCTCACACAAGGTGACATTTAGGAAT
37845217 GTTCTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (28 bp):
TTGCTCACACAAGGTGACATTTAGGAAT
Found at i:37846953 original size:8 final size:8
Alignment explanation
Indices: 37846940--37846965 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37846930 GGTCATGAAT
37846940 AATAAACA
1 AATAAACA
37846948 AATAAACA
1 AATAAACA
37846956 AATAAACA
1 AATAAACA
37846964 AA
1 AA
37846966 CAATAAACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAACA
Found at i:37849326 original size:31 final size:33
Alignment explanation
Indices: 37849290--37849354 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 33
37849280 GTCATTGTAT
37849290 ACATGAAAC-TTGAATTGTGATTT-A-TATATAC
1 ACATGAAACTTTG-ATTGTGATTTAATTATATAC
*
37849321 ACATGAAACTTTGATTTTGATTTAATTATATAC
1 ACATGAAACTTTGATTGTGATTTAATTATATAC
37849354 A
1 A
37849355 TTTAAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 18 0.60
32 4 0.13
33 8 0.27
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (33 bp):
ACATGAAACTTTGATTGTGATTTAATTATATAC
Found at i:37850926 original size:21 final size:21
Alignment explanation
Indices: 37850901--37850940 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
37850891 GGTCCCCTTG
37850901 TTTTTACATTT-TTTTAAATCA
1 TTTTT-CATTTCTTTTAAATCA
*
37850922 TTTTTTATTTCTTTTAAAT
1 TTTTTCATTTCTTTTAAAT
37850941 TTTGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTCATTTCTTTTAAATCA
Found at i:37858969 original size:90 final size:91
Alignment explanation
Indices: 37858781--37859008 Score: 291
Period size: 90 Copynumber: 2.5 Consensus size: 91
37858771 GAAGATTCTG
* *
37858781 GCGTGTTATCGGTTGGAAAACTCTTATGAGCAATCTAGCGTGTTATCAGGGGCGAATATTTAGCC
1 GCGTGTTATCGGTTGGAAAGCTCTTATGAGCAATTTAGCGTGTTATCAGGGGCGAATATTTAGCC
*
37858846 TATAAGCTTAACACTATGTGCATCTA
66 TACAAGCTTAACACTATGTGCATCTA
* * * *
37858872 GCATGTTATTGGTTGGAAAGCTCTTATAAGCAATTT-GACGTGTTGTC-GAGGG-GAATATTTAG
1 GCGTGTTATCGGTTGGAAAGCTCTTATGAGCAATTTAG-CGTGTTATCAG-GGGCGAATATTTAG
** * * *
37858934 CCTACGGGCTTAGCACTATGTGCATTTT
64 CCTACAAGCTTAACACTATGTGCATCTA
* *
37858962 GCGTGTTATCAGTTGGAAAGCTCTTATGAGCAATTTAGTGTGTTATC
1 GCGTGTTATCGGTTGGAAAGCTCTTATGAGCAATTTAGCGTGTTATC
37859009 GGATGGTCAC
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
90 73 0.63
91 43 0.37
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (91 bp):
GCGTGTTATCGGTTGGAAAGCTCTTATGAGCAATTTAGCGTGTTATCAGGGGCGAATATTTAGCC
TACAAGCTTAACACTATGTGCATCTA
Found at i:37874976 original size:43 final size:43
Alignment explanation
Indices: 37874912--37875033 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
37874902 ATACATATTG
* *
37874912 AAGCAATTGTACTGGCACACACAGTGCATCATCTGACAAGCCGA
1 AAGCAATTATACTGGCACACACAGTGCATCATCGGACAAGCC-A
* *
37874956 AA-CAATTATACTGACACACACAGTACATCATCGGACAAGCCA
1 AAGCAATTATACTGGCACACACAGTGCATCATCGGACAAGCCA
* *
37874998 AAGCAATTATATTGGCACACACGGTGCATCATCGGA
1 AAGCAATTATACTGGCACACACAGTGCATCATCGGA
37875034 TAAACCGAAG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.04
43 64 0.93
44 2 0.03
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (43 bp):
AAGCAATTATACTGGCACACACAGTGCATCATCGGACAAGCCA
Found at i:37884357 original size:5 final size:5
Alignment explanation
Indices: 37884337--37884375 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
37884327 GAAGATACCT
* *
37884337 TATAA TATGTA TATAA TATAA TATAA TATAA TATTA TAT
1 TATAA TAT-AA TATAA TATAA TATAA TATAA TATAA TAT
37884376 GTATATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (5 bp):
TATAA
Found at i:37884367 original size:15 final size:16
Alignment explanation
Indices: 37884337--37884382 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
37884327 GAAGATACCT
*
37884337 TATAATATGTATATAA
1 TATAATATGAATATAA
37884353 TATAATAT-AATATAA
1 TATAATATGAATATAA
* *
37884368 TATTATATGTATATA
1 TATAATATGAATATA
37884383 TAATGATCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (16 bp):
TATAATATGAATATAA
Found at i:37888609 original size:209 final size:198
Alignment explanation
Indices: 37888291--37888756 Score: 549
Period size: 209 Copynumber: 2.3 Consensus size: 198
37888281 ATGCATACCC
* * * *
37888291 GTGTGATAGGATTTTTAGTATTGATAATGTATTTGATTGAGTTGATGTCAAAAGTTAAACTATTT
1 GTGTGATAGGATTTTCAGTATTAATAATG-ATTTGATTGAGTTGGTGTCACAAGTTAAACTATTT
* *
37888356 TTCATTTTAATTTCATGCATATTGCACATATGGTGCTGTTATTATTATTATTACTAGTTTCAAAT
65 TTCATTTTAATTTCATACATATTGCACATAT-G-G-TG---TTATTATTA-T--TAGTTTCAAAC
* * *
37888421 CTTACGTCTCATTATTTATTTTATGTTATTTTTAAACATACATTTTTATTCAAAATTTATGGCTT
121 CTTACGTCTCATTATTTATTATATGTTA-TTTTAAACACACATTTTTATTCAAAATTTATAGCTT
**
37888486 CAACACGA-ATAGGT
185 CAACAC-ACATACAT
37888500 GTGTGATAGGATTTTCAGTATTAATAATGAATTTGATTGAGTTGGTGTCACAAGTTAAACTATTT
1 GTGTGATAGGATTTTCAGTATTAATAATG-ATTTGATTGAGTTGGTGTCACAAGTTAAACTATTT
* * * * * *
37888565 TTCATTTTAATTTCGTACGTATTGCATATGTGTTGTTATTATTATTAGTTTCAAACCTTACGTTT
65 TTCATTTTAATTTCATACATATTGCACATATGGTGTTATTATTATTAGTTTCAAACCTTACGTCT
* * * *
37888630 CATTATTTATTATATGTTATTTTAAACACATATTTTTATTCAAAATTTGTAGTTTCCACACACAT
130 CATTATTTATTATATGTTATTTTAAACACACATTTTTATTCAAAATTTATAGCTTCAACACACAT
37888695 ACAT
195 ACAT
* * * * *
37888699 GTGTGGTA-GAATTCCTAGTATTAATAATGTTGTTAATTGAGTTGGTGTCACAAGTTAA
1 GTGTGATAGGATTTTC-AGTATTAATAATGAT-TTGATTGAGTTGGTGTCACAAGTTAA
37888757 CTCGACATTA
Statistics
Matches: 227, Mismatches: 27, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
198 7 0.03
199 85 0.37
200 36 0.16
202 1 0.00
203 9 0.04
206 2 0.01
208 1 0.00
209 86 0.38
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (198 bp):
GTGTGATAGGATTTTCAGTATTAATAATGATTTGATTGAGTTGGTGTCACAAGTTAAACTATTTT
TCATTTTAATTTCATACATATTGCACATATGGTGTTATTATTATTAGTTTCAAACCTTACGTCTC
ATTATTTATTATATGTTATTTTAAACACACATTTTTATTCAAAATTTATAGCTTCAACACACATA
CAT
Found at i:37888752 original size:199 final size:203
Alignment explanation
Indices: 37888291--37888756 Score: 559
Period size: 199 Copynumber: 2.3 Consensus size: 203
37888281 ATGCATACCC
* * * * *
37888291 GTGTGATAGGATTTTTAGTATTGATAATGTATTTGATTGAGTTGATGTCAAAAGTTAAACTATTT
1 GTGTGATA-GAATTCTAGTATTAATAATGT-TTTGATTGAGTTGGTGTCACAAGTTAAACTATTT
* *
37888356 TTCATTTTAATTTCATGCATATTGCACATATGGTGCTGTTATTATTATTATTACTAGTTTCAAAT
64 TTCATTTTAATTTCATACATATTG-ACATA--GTGCTGTTATTATTATTATTA-TAGTTTCAAAC
* * *
37888421 CTTACGTCTCATTATTTATTTTATGTTATTTTTAAACATACATTTTTATTCAAAATTTATGGCTT
125 CTTACGTCTCATTATTTATTATATGTTATTTTTAAACACACATTTTTATTCAAAATTTATAGCTT
**
37888486 CAACACGAATAGGT
190 CAACACGAATACAT
* * *
37888500 GTGTGATAGGATTTTCAGTATTAATAATGAATTTGATTGAGTTGGTGTCACAAGTTAAACTATTT
1 GTGTGATAGAATTCT-AGTATTAATAATG-TTTTGATTGAGTTGGTGTCACAAGTTAAACTATTT
* * *
37888565 TTCATTTTAATTTCGTACGTATTG-CATA-TG-TGTTGTTATTATTA-T-TAGTTTCAAACCTTA
64 TTCATTTTAATTTCATACATATTGACATAGTGCTGTTATTATTATTATTATAGTTTCAAACCTTA
* * * * *
37888625 CGTTTCATTATTTATTATATGTTA-TTTTAAACACATATTTTTATTCAAAATTTGTAGTTTCCAC
129 CGTCTCATTATTTATTATATGTTATTTTTAAACACACATTTTTATTCAAAATTTATAGCTTCAAC
37888689 AC-ACATACAT
194 ACGA-ATACAT
* *
37888699 GTGTGGTAGAATTCCTAGTATTAATAATGTTGTTAATTGAGTTGGTGTCACAAGTTAA
1 GTGTGATAGAATT-CTAGTATTAATAATGTT-TTGATTGAGTTGGTGTCACAAGTTAA
37888757 CTCGACATTA
Statistics
Matches: 226, Mismatches: 26, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
198 2 0.01
199 89 0.39
200 37 0.16
202 1 0.00
203 13 0.06
204 2 0.01
207 4 0.02
208 5 0.02
209 73 0.32
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (203 bp):
GTGTGATAGAATTCTAGTATTAATAATGTTTTGATTGAGTTGGTGTCACAAGTTAAACTATTTTT
CATTTTAATTTCATACATATTGACATAGTGCTGTTATTATTATTATTATAGTTTCAAACCTTACG
TCTCATTATTTATTATATGTTATTTTTAAACACACATTTTTATTCAAAATTTATAGCTTCAACAC
GAATACAT
Found at i:37892540 original size:16 final size:16
Alignment explanation
Indices: 37892519--37892549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37892509 AATTAATTTA
*
37892519 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
37892535 AATTAAATAATTTTC
1 AATTAAATAATTTTC
37892550 TCAGTCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:37907195 original size:49 final size:49
Alignment explanation
Indices: 37907140--37907239 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
37907130 ACGTAACTCA
37907140 TAAAATAAAACATATTTAGAAAATGGTAATAACAAGAGTAACATAGTAT
1 TAAAATAAAACATATTTAGAAAATGGTAATAACAAGAGTAACATAGTAT
*
37907189 TAAAATAAAACATATTTAGCAAATGGTAATAACAAGAGTAACATAGTAT
1 TAAAATAAAACATATTTAGAAAATGGTAATAACAAGAGTAACATAGTAT
37907238 TA
1 TA
37907240 GCAAAAGAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (49 bp):
TAAAATAAAACATATTTAGAAAATGGTAATAACAAGAGTAACATAGTAT
Found at i:37908657 original size:16 final size:17
Alignment explanation
Indices: 37908635--37908672 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
37908625 AACTAAATAG
*
37908635 CTAAAATAAATAAACAA
1 CTAAAATAAACAAACAA
37908652 -TAAAATAAACAAACAA
1 CTAAAATAAACAAACAA
37908668 CTAAA
1 CTAAA
37908673 CAAATTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (17 bp):
CTAAAATAAACAAACAA
Found at i:37911872 original size:24 final size:24
Alignment explanation
Indices: 37911845--37911890 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
37911835 ATGACTATAT
*
37911845 ATAAAATTTTAATAA-ATAAAATAG
1 ATAAAATTATAA-AATATAAAATAG
37911869 ATAAAATTATAAAATATAAAAT
1 ATAAAATTATAAAATATAAAAT
37911891 TAAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAAAATTATAAAATATAAAATAG
Found at i:37911889 original size:15 final size:14
Alignment explanation
Indices: 37911869--37911898 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
37911859 AATAAAATAG
37911869 ATAAAATTATAAAAT
1 ATAAAATTA-AAAAT
37911884 ATAAAATTAAAAAT
1 ATAAAATTAAAAAT
37911898 A
1 A
37911899 ATATAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAAATTAAAAAT
Found at i:37912419 original size:14 final size:14
Alignment explanation
Indices: 37912400--37912429 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37912390 AACCGTTACA
37912400 GATTTTCAAATTAG
1 GATTTTCAAATTAG
37912414 GATTTTCAAATTAG
1 GATTTTCAAATTAG
37912428 GA
1 GA
37912430 GTAAACGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
GATTTTCAAATTAG
Found at i:37913234 original size:30 final size:30
Alignment explanation
Indices: 37913193--37913253 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
37913183 GGGGGTGGGA
*
37913193 TGGGAAGGGAGTAAAAGTTTTGGGGGGAAAG
1 TGGGAAGGGAGTAAAAGTATT-GGGGGAAAG
*
37913224 TGGG-AGGGAGTAAAAGTATTGTGGGAAAG
1 TGGGAAGGGAGTAAAAGTATTGGGGGAAAG
37913253 T
1 T
37913254 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 9 0.32
30 15 0.54
31 4 0.14
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.21
Consensus pattern (30 bp):
TGGGAAGGGAGTAAAAGTATTGGGGGAAAG
Found at i:37913631 original size:20 final size:20
Alignment explanation
Indices: 37913595--37913632 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37913585 TACATTTATT
*
37913595 TTTTATTTAATTTTTAATTA
1 TTTTATTTAATTATTAATTA
37913615 TTTTATTTTAA-TATTAAT
1 TTTTA-TTTAATTATTAAT
37913633 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTAATTATTAATTA
Found at i:37914177 original size:18 final size:19
Alignment explanation
Indices: 37914154--37914204 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
37914144 TAATGTAAAG
37914154 TAATATTATTTAAAAT-T-T
1 TAATA-TATTTAAAATATGT
*
37914172 TAATATAATTAAAATATGT
1 TAATATATTTAAAATATGT
37914191 TAATA-ATTTTAAAA
1 TAATATA-TTTAAAA
37914205 ATTAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 9 0.32
18 7 0.25
19 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATATATTTAAAATATGT
Found at i:37914211 original size:26 final size:27
Alignment explanation
Indices: 37914163--37914214 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
37914153 GTAATATTAT
37914163 TTAAAATTTTAATATAATTAAAATATG
1 TTAAAATTTTAATATAATTAAAATATG
37914190 TTAATAATTTTAA-A-AATTAAAATAT
1 TTAA-AATTTTAATATAATTAAAATAT
37914215 TACAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 11 0.46
27 5 0.21
28 8 0.33
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
TTAAAATTTTAATATAATTAAAATATG
Found at i:37914221 original size:26 final size:28
Alignment explanation
Indices: 37914167--37914223 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
37914157 TATTATTTAA
*
37914167 AATTTTAATATAATTAAAATATGTTAAT
1 AATTTTAATATAATTAAAATATGTCAAT
37914195 AATTTTAA-A-AATTAAAATAT-TACAAT
1 AATTTTAATATAATTAAAATATGT-CAAT
37914221 AAT
1 AAT
37914224 AAAAAACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 1 0.04
26 17 0.63
27 1 0.04
28 8 0.30
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (28 bp):
AATTTTAATATAATTAAAATATGTCAAT
Found at i:37917183 original size:15 final size:15
Alignment explanation
Indices: 37917160--37917194 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37917150 TTATATTAAA
*
37917160 TTTTGATTTGATAAT
1 TTTTAATTTGATAAT
37917175 TTTTAATTTGATAAT
1 TTTTAATTTGATAAT
*
37917190 CTTTA
1 TTTTA
37917195 CAGAGTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (15 bp):
TTTTAATTTGATAAT
Found at i:37918565 original size:25 final size:25
Alignment explanation
Indices: 37918525--37918583 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
37918515 TAGCTATTTG
* * * *
37918525 AGGCATGTATGCTTAATTCTAGTGA
1 AGGCATGAATGCTTAATGCTAATCA
*
37918550 AGGCATGAATGGTTAATGCTAATCA
1 AGGCATGAATGCTTAATGCTAATCA
37918575 A-GCATGAAT
1 AGGCATGAAT
37918584 TGGTAAGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (25 bp):
AGGCATGAATGCTTAATGCTAATCA
Found at i:37924545 original size:22 final size:20
Alignment explanation
Indices: 37924505--37924545 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
37924495 CCACGGCCTA
*
37924505 AGCACACGAGTGTGTGATAT
1 AGCACACGAGTGTGGGATAT
37924525 AGCACACGAGCATGTGGGATA
1 AGCACACGAG--TGTGGGATA
37924546 GCCACATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.20
Consensus pattern (20 bp):
AGCACACGAGTGTGGGATAT
Found at i:37925970 original size:70 final size:71
Alignment explanation
Indices: 37925878--37926040 Score: 172
Period size: 71 Copynumber: 2.3 Consensus size: 71
37925868 TTAGGCAATT
* * * * *
37925878 AAAAAAGGTAAAATTCCTTTTGGCGC-C-CAAAGTTTTTAACATCATT-AAATTGTTCTTGTATC
1 AAAAAATGTAAAATTACATTTGGC-CACTCAAAGTTTTTAACAT-ATTAAAATAGTCCTTGTATC
37925940 ATTACTTA
64 ATTACTTA
* * *
37925948 AAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTAAAATAGTCCTTGTATCAT
1 AAAAAATGTAAAATTACATTTGGCCACTCAAAGTTTTTAACATATTAAAATAGTCCTTGTATCAT
*
37926013 TATTTA
66 TACTTA
* *
37926019 AAAATAATAT-AAATTATATTTG
1 AAAA-AATGTAAAATTACATTTG
37926041 ACCCTTCCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
69 1 0.01
70 23 0.29
71 50 0.64
72 4 0.05
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (71 bp):
AAAAAATGTAAAATTACATTTGGCCACTCAAAGTTTTTAACATATTAAAATAGTCCTTGTATCAT
TACTTA
Found at i:37926009 original size:71 final size:71
Alignment explanation
Indices: 37925905--37926040 Score: 177
Period size: 71 Copynumber: 1.9 Consensus size: 71
37925895 TTTTGGCGCC
* * *
37925905 CAAAGTTTTTAACATCATTAAATTGTTCTTGTATCATTACTTAAAAA-AATGTAAAATTAGATTT
1 CAAAGTTTTTAACATCATTAAATAGTCCTTGTATCATTACTTAAAAATAATAT-AAATTAGATTT
37925969 GGCCACT
65 GGCCACT
* * * *
37925976 CAAAGTTTTTAATAT-TTTAAAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTT
1 CAAAGTTTTTAACATCATT-AAATAGTCCTTGTATCATTACTTAAAAATAATATAAATTAGATTT
37926040 G
65 G
37926041 ACCCTTCCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 2 0.04
71 50 0.89
72 4 0.07
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.43
Consensus pattern (71 bp):
CAAAGTTTTTAACATCATTAAATAGTCCTTGTATCATTACTTAAAAATAATATAAATTAGATTTG
GCCACT
Found at i:37926420 original size:70 final size:71
Alignment explanation
Indices: 37926339--37926501 Score: 172
Period size: 71 Copynumber: 2.3 Consensus size: 71
37926329 TTAGGCAATT
* * * * *
37926339 AAAAAAGGTAAAATTCCTTTTGGCGC-C-CAAAGTTTTTAACATCATT-AAATTGTTCTTGTATC
1 AAAAAATGTAAAATTACATTTGGC-CACTCAAAGTTTTTAACAT-ATTAAAATAGTCCTTGTATC
37926401 ATTACTTA
64 ATTACTTA
* * *
37926409 AAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTAAAATAGTCCTTGTATCAT
1 AAAAAATGTAAAATTACATTTGGCCACTCAAAGTTTTTAACATATTAAAATAGTCCTTGTATCAT
*
37926474 TATTTA
66 TACTTA
* *
37926480 AAAATAATAT-AAATTATATTTG
1 AAAA-AATGTAAAATTACATTTG
37926502 ACCCTTCCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
69 1 0.01
70 23 0.29
71 50 0.64
72 4 0.05
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (71 bp):
AAAAAATGTAAAATTACATTTGGCCACTCAAAGTTTTTAACATATTAAAATAGTCCTTGTATCAT
TACTTA
Found at i:37926470 original size:71 final size:71
Alignment explanation
Indices: 37926366--37926501 Score: 177
Period size: 71 Copynumber: 1.9 Consensus size: 71
37926356 TTTTGGCGCC
* * *
37926366 CAAAGTTTTTAACATCATTAAATTGTTCTTGTATCATTACTTAAAAA-AATGTAAAATTAGATTT
1 CAAAGTTTTTAACATCATTAAATAGTCCTTGTATCATTACTTAAAAATAATAT-AAATTAGATTT
37926430 GGCCACT
65 GGCCACT
* * * *
37926437 CAAAGTTTTTAATAT-TTTAAAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTT
1 CAAAGTTTTTAACATCATT-AAATAGTCCTTGTATCATTACTTAAAAATAATATAAATTAGATTT
37926501 G
65 G
37926502 ACCCTTCCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 2 0.04
71 50 0.89
72 4 0.07
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.43
Consensus pattern (71 bp):
CAAAGTTTTTAACATCATTAAATAGTCCTTGTATCATTACTTAAAAATAATATAAATTAGATTTG
GCCACT
Found at i:37926633 original size:461 final size:462
Alignment explanation
Indices: 37925865--37926788 Score: 1841
Period size: 461 Copynumber: 2.0 Consensus size: 462
37925855 TATTGTCAGT
37925865 TGTTTAGGCAATTAAAAAAGGTAAAATTCCTTTTGGCGCCCAAAGTTTTTAACATCATTAAATTG
1 TGTTTAGGCAATTAAAAAAGGTAAAATTCCTTTTGGCGCCCAAAGTTTTTAACATCATTAAATTG
37925930 TTCTTGTATCATTACTTAAAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTA
66 TTCTTGTATCATTACTTAAAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTA
37925995 AAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTTGACCCTTCCAAAAGTTTTAA
131 AAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTTGACCCTTCCAAAAGTTTTAA
37926060 ACTTAATCTTAATAAAATTTTAATTTAATCCAATCTATTTGGTAGCATTTTTAGTATACACCATT
196 ACTTAATCTTAATAAAATTTTAATTTAATCCAATCTATTTGGTAGCATTTTTAGTATACACCATT
37926125 TATTACTTTGAGCTTAATTTTTTTTTACATTTTTATTAATCAAATGAGTATATTTACATTAGTTA
261 TATTACTTTGAGCTTAATTTTTTTTTACATTTTTATTAATCAAATGAGTATATTTACATTAGTTA
37926190 TTTTGTTGGTAATACTTTTTCATCCCATGCTCATAATGAAGAAAAAAAACTTAAACTATGATTAT
326 TTTTGTTGGTAATACTTTTTCATCCCATGCTCATAATGAAGAAAAAAAACTTAAACTATGATTAT
37926255 TCTTAATACAAATTGGATATTACTTATTTTACTTCTCTAAATTAATATAATTTTATGTTTT-TAT
391 TCTTAATACAAATTGGATATTACTTATTTTACTTCTCTAAATTAATATAATTTTATGTTTTATAT
37926319 TATAATA
456 TATAATA
37926326 TGTTTAGGCAATTAAAAAAGGTAAAATTCCTTTTGGCGCCCAAAGTTTTTAACATCATTAAATTG
1 TGTTTAGGCAATTAAAAAAGGTAAAATTCCTTTTGGCGCCCAAAGTTTTTAACATCATTAAATTG
37926391 TTCTTGTATCATTACTTAAAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTA
66 TTCTTGTATCATTACTTAAAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTA
37926456 AAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTTGACCCTTCCAAAAGTTTTAA
131 AAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTTGACCCTTCCAAAAGTTTTAA
37926521 ACTTAATCTTAATAAAATTTTAATTTAATCCAATCTATTTGGTAGCATTTTTAGTATACACCATT
196 ACTTAATCTTAATAAAATTTTAATTTAATCCAATCTATTTGGTAGCATTTTTAGTATACACCATT
37926586 TATTACTTTGAGCTTAATTTTTTTTTACATTTTTATTAATCAAATGAGTATATTTACATTAGTTA
261 TATTACTTTGAGCTTAATTTTTTTTTACATTTTTATTAATCAAATGAGTATATTTACATTAGTTA
37926651 TTTTGTTGGTAATACTTTTTCATCCCATGCTCATAATGAAGAAAAAAAACTTAAACTATGATTAT
326 TTTTGTTGGTAATACTTTTTCATCCCATGCTCATAATGAAGAAAAAAAACTTAAACTATGATTAT
37926716 TCTTAATACAAATTGGATATTACTTATTTTACTTCTCTAAATTAATATAATTTTATGTTTTATAT
391 TCTTAATACAAATTGGATATTACTTATTTTACTTCTCTAAATTAATATAATTTTATGTTTTATAT
37926781 TATAATA
456 TATAATA
37926788 T
1 T
37926789 TAAATAATTT
Statistics
Matches: 462, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
461 451 0.98
462 11 0.02
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.44
Consensus pattern (462 bp):
TGTTTAGGCAATTAAAAAAGGTAAAATTCCTTTTGGCGCCCAAAGTTTTTAACATCATTAAATTG
TTCTTGTATCATTACTTAAAAAAATGTAAAATTAGATTTGGCCACTCAAAGTTTTTAATATTTTA
AAATAGTCCTTGTATCATTATTTAAAAATAATATAAATTATATTTGACCCTTCCAAAAGTTTTAA
ACTTAATCTTAATAAAATTTTAATTTAATCCAATCTATTTGGTAGCATTTTTAGTATACACCATT
TATTACTTTGAGCTTAATTTTTTTTTACATTTTTATTAATCAAATGAGTATATTTACATTAGTTA
TTTTGTTGGTAATACTTTTTCATCCCATGCTCATAATGAAGAAAAAAAACTTAAACTATGATTAT
TCTTAATACAAATTGGATATTACTTATTTTACTTCTCTAAATTAATATAATTTTATGTTTTATAT
TATAATA
Found at i:37933389 original size:15 final size:16
Alignment explanation
Indices: 37933369--37933399 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
37933359 AACAACAAAG
37933369 AAAATTTT-AGGGATA
1 AAAATTTTAAGGGATA
37933384 AAAATTTTAAGGGATA
1 AAAATTTTAAGGGATA
37933400 GACATTCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (16 bp):
AAAATTTTAAGGGATA
Done.