Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 43 of 444
Found at i:10561690 original size:24 final size:24
Alignment explanation
Indices: 10561634--10561728 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
10561624 GGAGGAAGTG
*
10561634 AAAAAGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
10561657 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
10561681 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
10561705 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
10561729 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
23 22 0.35
24 30 0.48
25 11 0.17
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:10561986 original size:38 final size:38
Alignment explanation
Indices: 10561920--10562119 Score: 290
Period size: 38 Copynumber: 5.4 Consensus size: 38
10561910 CGTTTACAGT
*
10561920 AAAGGCTTCGG-CCAGTATTATGAGATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
10561957 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
10561988 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
10562026 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
10562064 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
10562102 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
10562120 GCATGATTGA
Statistics
Matches: 148, Mismatches: 6, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
31 28 0.19
33 1 0.01
36 1 0.01
37 11 0.07
38 94 0.64
39 13 0.09
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:10575126 original size:16 final size:17
Alignment explanation
Indices: 10575095--10575127 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10575085 TTCATAAGTA
10575095 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
10575112 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
10575128 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:10575473 original size:46 final size:46
Alignment explanation
Indices: 10575408--10575771 Score: 401
Period size: 46 Copynumber: 8.0 Consensus size: 46
10575398 TTATCTTTGA
* * * * * **
10575408 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * ***
10575454 CAGGTTGCCATGGCATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* ** * ** **
10575500 TACATTGCCATGGTATTTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
****
10575545 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * * *
10575591 CACGCTGCCATGGTA-CTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
10575636 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-A
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
10575681 CAATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 C-ATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
*
10575728 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
10575772 TTCAGAAAGC
Statistics
Matches: 272, Mismatches: 42, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
45 74 0.27
46 197 0.72
47 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:10575569 original size:91 final size:92
Alignment explanation
Indices: 10575413--10575771 Score: 407
Period size: 91 Copynumber: 3.9 Consensus size: 92
10575403 TTTGACATGA
* * * * ** * * *
10575413 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCAGGTTGCCATGGCATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
* * *
10575478 CATGGTCTTGTTCATTTCATGTTACAT
66 CATGGTCTTATTCATTTCATGTAACGT
* ** ***
10575505 TGCCATGGTATTTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
** * *
10575569 CATGGTCTTATTTTTTTCATGTCACGC
66 CATGGTCTTATTCATTTCATGTAACGT
* *
10575596 TGCCATGGTA-CTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
** ** *
10575660 CATGGTCTTACACATTTCATACAATGT
66 CATGGTCTTATTCATTTCATGTAACGT
* *
10575687 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
**
10575752 CATGGTCTTACACATTTCAT
66 CATGGTCTTATTCATTTCAT
10575772 TTCAGAAAGC
Statistics
Matches: 228, Mismatches: 37, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
90 19 0.08
91 110 0.48
92 99 0.43
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATGTAACGT
Found at i:10575656 original size:182 final size:183
Alignment explanation
Indices: 10575424--10575761 Score: 462
Period size: 182 Copynumber: 1.9 Consensus size: 183
10575414 GCCATAGTGT
* * * * **
10575424 CTTTCAACTATGGTCTTACTCATTTTTTGTCAGGTTGCCATGGCATCTTTCAACCATGGTCTTGT
1 CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGCATCTTTCAACCATGGTCTTAC
* *** * ** * *
10575489 TCATTTCATGTTACATTGCCATGGTATTTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGC
66 ACATTTCATACAACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGC
10575553 CATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGTCACGCTGCCATGGTA
131 CATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGTCACGCTGCCATGGTA
** *
10575606 CTTTCAACCATGGTCTTACACATTTTATATCCTGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGCATCTTTCAACCATGGTCTTAC
** * *
10575671 ACATTTCATACAATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCATGTTGC
66 ACATTTCATACAACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGC
*
10575736 CATGGTGTCTTTCAACCATGGTCTTA
131 CATGGTATCTTTCAACCATGGTCTTA
10575762 CACATTTCAT
Statistics
Matches: 132, Mismatches: 23, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
182 95 0.72
183 37 0.28
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (183 bp):
CTTTCAACCATGGTCTTACACATTTTATATCAGGTTGCCATGGCATCTTTCAACCATGGTCTTAC
ACATTTCATACAACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACATCATGTTGC
CATGGTATCTTTCAACCATGGTCTTATTTTTTTCATGTCACGCTGCCATGGTA
Found at i:10577454 original size:21 final size:19
Alignment explanation
Indices: 10577411--10577454 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
10577401 CTTTAATTTT
* *
10577411 CCCTTTTTCTCTTTCTTTG
1 CCCTTTTTCTCTTTCCTTC
10577430 CCCTTTTTCTTTCTTTCCTTC
1 CCCTTTTTC--TCTTTCCTTC
10577451 CCCT
1 CCCT
10577455 GCTTTCTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (19 bp):
CCCTTTTTCTCTTTCCTTC
Found at i:10581302 original size:2 final size:2
Alignment explanation
Indices: 10581295--10581333 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10581285 CTTGTTCTTA
10581295 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10581334 CTTCAATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10583800 original size:34 final size:33
Alignment explanation
Indices: 10583762--10583827 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
10583752 GTGGCCTGCC
* *
10583762 CGTGTGGGCCCACACGACCCAAATTTGCTTTGGT
1 CGTGT-GGACCACACGACCCAAATTTGCCTTGGT
* *
10583796 CGTGTGGATCACACGGCCCAAATTTGCCTTGG
1 CGTGTGGACCACACGACCCAAATTTGCCTTGG
10583828 CTGTATGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.26
Consensus pattern (33 bp):
CGTGTGGACCACACGACCCAAATTTGCCTTGGT
Found at i:10583816 original size:33 final size:33
Alignment explanation
Indices: 10583772--10583846 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
10583762 CGTGTGGGCC
* * *
10583772 CACACGACCCAAATTTGCTTTGG-TCGTGTGGAT
1 CACACGGCCCAAATTTGCCTTGGCT-GTATGGAT
10583805 CACACGGCCCAAATTTGCCTTGGCTGTATGGAT
1 CACACGGCCCAAATTTGCCTTGGCTGTATGGAT
*
10583838 TACACGGCC
1 CACACGGCC
10583847 TAACCCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
33 36 0.97
34 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (33 bp):
CACACGGCCCAAATTTGCCTTGGCTGTATGGAT
Found at i:10597463 original size:17 final size:16
Alignment explanation
Indices: 10597443--10597490 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
10597433 TAAACACCTA
*
10597443 TTATTTATTTTTACTTT
1 TTATTTATTTTTA-TCT
10597460 TTATTTTATTTTTATCT
1 TTA-TTTATTTTTATCT
10597477 TTATTTATATTTTA
1 TTATTTAT-TTTTA
10597491 AAATTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.18
17 13 0.46
18 10 0.36
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTTATTTTTATCT
Found at i:10597469 original size:18 final size:17
Alignment explanation
Indices: 10597446--10597489 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
10597436 ACACCTATTA
*
10597446 TTTATTTTTACTTTTTAT
1 TTTATTTTTA-TCTTTAT
10597464 TTTATTTTTATCTTTAT
1 TTTATTTTTATCTTTAT
10597481 TTATATTTT
1 TT-TATTTT
10597490 AAAATTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATCTTTAT
Found at i:10609823 original size:21 final size:23
Alignment explanation
Indices: 10609794--10609840 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
10609784 CTCTCTCTAT
10609794 TTTCTCTCTATCTCTCTTT-CAA
1 TTTCTCTCTATCTCTCTTTACAA
*
10609816 TTTC-CTCTATTTCTCTTTACAA
1 TTTCTCTCTATCTCTCTTTACAA
10609838 TTT
1 TTT
10609841 TTCCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTCTCTCTATCTCTCTTTACAA
Found at i:10613981 original size:17 final size:17
Alignment explanation
Indices: 10613959--10613992 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10613949 CGTGAGCAAA
10613959 GTAATTAACTTATGATG
1 GTAATTAACTTATGATG
10613976 GTAATTAACTTATGATG
1 GTAATTAACTTATGATG
10613993 TCTTTCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
GTAATTAACTTATGATG
Found at i:10624693 original size:22 final size:22
Alignment explanation
Indices: 10624665--10624709 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10624655 TAATTCTCGC
* * *
10624665 ACAAGTTTGATGTTTTACTGCT
1 ACAAGTTTAAGGTTTTACCGCT
10624687 ACAAGTTTAAGGTTTTACCGCT
1 ACAAGTTTAAGGTTTTACCGCT
10624709 A
1 A
10624710 TGTAACTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (22 bp):
ACAAGTTTAAGGTTTTACCGCT
Found at i:10627523 original size:24 final size:24
Alignment explanation
Indices: 10627465--10627540 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 24
10627455 TTTAAAAAGT
10627465 TATTTTTATTATTTTAATTTTTCAATT-
1 TATTTTTA-TATTTT-A-TTTT-AATTA
* *
10627492 CATCTTTATATTTTATTTTAATTA
1 TATTTTTATATTTTATTTTAATTA
* *
10627516 TATTTTTAAATATTAATTTT-ATTA
1 TATTTTTATAT-TTTATTTTAATTA
10627540 T
1 T
10627541 TAGTTAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
23 4 0.10
24 17 0.41
25 8 0.20
26 6 0.15
27 6 0.15
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (24 bp):
TATTTTTATATTTTATTTTAATTA
Found at i:10631674 original size:43 final size:43
Alignment explanation
Indices: 10631614--10631752 Score: 208
Period size: 43 Copynumber: 3.2 Consensus size: 43
10631604 AGGATTTTCG
* * *
10631614 ATATGTGATTACGTGTAAGACCA-GATCTAGGACGTTGGCACCG
1 ATATGTGATTACGTGTAAGACCACG-TCTGGGACGTTGGCATCA
* *
10631657 ATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCATCA
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCA
*
10631700 ATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCATCA
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCA
10631743 ATATGTGATT
1 ATATGTGATT
10631753 CTGATATGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 86 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:10631794 original size:56 final size:56
Alignment explanation
Indices: 10631733--10631890 Score: 210
Period size: 56 Copynumber: 2.8 Consensus size: 56
10631723 CGTCTGGGAT
*
10631733 GTTGGCATCAATATGTGATTCTGATATGTGTGTGTGAGTAAGACCAAGTTTAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTGTGAGTAAGACCAAGTTTAATAC
* ** * *
10631789 TTTGGCATCGATATGTGATTCCAATATGTGTGTGCGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTGTGAGTAAGACCAAGTTTAATAC
* * * *
10631845 GTTGGCATCGATAGGTGATT-TCGATATGTGTTTATAAGTAAGACCA
1 GTTGGCATCGATATGTGATTCT-GATATGTGTGTGTGAGTAAGACCA
10631891 TTCTGGGATA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 87 1.00
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.35
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCTGATATGTGTGTGTGAGTAAGACCAAGTTTAATAC
Found at i:10631912 original size:42 final size:43
Alignment explanation
Indices: 10631865--10631950 Score: 104
Period size: 42 Copynumber: 2.0 Consensus size: 43
10631855 ATAGGTGATT
** *
10631865 TCGATATGTGTTTATAAGTAAGA-C-CATTCTGGGATAGTGGCA
1 TCGATATGTAATTACAAGTAAGATCACA-TCTGGGATAGTGGCA
* *
10631907 TCGATATGTAATTACATGTAAGATCACATCTGGGATATTGGCA
1 TCGATATGTAATTACAAGTAAGATCACATCTGGGATAGTGGCA
10631950 T
1 T
10631951 TGTACGATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 19 0.51
43 16 0.43
44 2 0.05
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (43 bp):
TCGATATGTAATTACAAGTAAGATCACATCTGGGATAGTGGCA
Found at i:10635390 original size:64 final size:66
Alignment explanation
Indices: 10635190--10635423 Score: 341
Period size: 64 Copynumber: 3.6 Consensus size: 66
10635180 CAAGTTTATC
* *
10635190 TAAATAATT-AAAGTTTATACAAGAATGAAAATTCAATGGAAAAACAGAAACATAATGCAAATAT
1 TAAATAATTGAAA-TTCATACAAGAATGAAAATTCAATAG-AAAACAGAAACATAATGCAAATAT
10635254 ATG
64 ATG
* ** *
10635257 TAAAAAATTGAAATTGTTACAAGAAT-AAAATTCAATAGAAAATAGAAACATAATGCAAATATAT
1 TAAATAATTGAAATTCATACAAGAATGAAAATTCAATAGAAAACAGAAACATAATGCAAATATAT
10635321 G
66 G
*
10635322 TAAATAATTGAAATTCATACAAGAATGAAAATTCAATAGAAAA-AG-AACATAATGAAAATATAT
1 TAAATAATTGAAATTCATACAAGAATGAAAATTCAATAGAAAACAGAAACATAATGCAAATATAT
10635385 G
66 G
* *
10635386 TAAATAATTGAAGTTCATACAAAAATGAAAATTCAATA
1 TAAATAATTGAAATTCATACAAGAATGAAAATTCAATA
10635424 CATAAATCAA
Statistics
Matches: 154, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
64 54 0.35
65 51 0.33
66 27 0.18
67 19 0.12
68 3 0.02
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.26
Consensus pattern (66 bp):
TAAATAATTGAAATTCATACAAGAATGAAAATTCAATAGAAAACAGAAACATAATGCAAATATAT
G
Found at i:10640804 original size:34 final size:35
Alignment explanation
Indices: 10640756--10640822 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
10640746 ATTTTGTGTG
*
10640756 ACTGCATATCTGTTACTTAGATGGGCCAAGGCCCC
1 ACTGCATATCTGTTACTGAGATGGGCCAAGGCCCC
* * *
10640791 ACTGCTTAT-TGTTACTGAGTTGGGCTAAGGCC
1 ACTGCATATCTGTTACTGAGATGGGCCAAGGCC
10640823 AGACAGTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 20 0.71
35 8 0.29
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (35 bp):
ACTGCATATCTGTTACTGAGATGGGCCAAGGCCCC
Found at i:10647140 original size:34 final size:35
Alignment explanation
Indices: 10647093--10647159 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10647083 ATTTTGTGTG
10647093 ACTGCATATCTGTTACTGAGATGGGCCAAGGCCCC
1 ACTGCATATCTGTTACTGAGATGGGCCAAGGCCCC
* * *
10647128 ACTGCTTA-CTGTTACTGAGTTGGGCTAAGGCC
1 ACTGCATATCTGTTACTGAGATGGGCCAAGGCC
10647160 AGACTGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (35 bp):
ACTGCATATCTGTTACTGAGATGGGCCAAGGCCCC
Found at i:10648145 original size:2 final size:2
Alignment explanation
Indices: 10648128--10648179 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
10648118 GCAACTGTAA
* *
10648128 AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10648170 AT AT AT AT AT
1 AT AT AT AT AT
10648180 CAAATTAGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10650930 original size:2 final size:2
Alignment explanation
Indices: 10650923--10650952 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10650913 CGCCTTCAAC
10650923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10650953 CTTACATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10652059 original size:31 final size:31
Alignment explanation
Indices: 10652024--10652086 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
10652014 TTACATTTTG
*
10652024 GTCACTAAACTATTTGAAAA-TTTTCATTTAA
1 GTCACTAAACTA-TTCAAAAGTTTTCATTTAA
*
10652055 GTCACTAAACTATTCAAAAGTTTTTATTTAA
1 GTCACTAAACTATTCAAAAGTTTTCATTTAA
10652086 G
1 G
10652087 CCACCGGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (31 bp):
GTCACTAAACTATTCAAAAGTTTTCATTTAA
Found at i:10653734 original size:55 final size:55
Alignment explanation
Indices: 10653650--10653765 Score: 223
Period size: 55 Copynumber: 2.1 Consensus size: 55
10653640 AACAATCTAC
10653650 CAAAGTTTTGAATATGTTCGCAAGTATTTTCGAAATAATCTTATACATAACATTG
1 CAAAGTTTTGAATATGTTCGCAAGTATTTTCGAAATAATCTTATACATAACATTG
*
10653705 CAAAGTTTTGAATATGTTTGCAAGTATTTTCGAAATAATCTTATACATAACATTG
1 CAAAGTTTTGAATATGTTCGCAAGTATTTTCGAAATAATCTTATACATAACATTG
10653760 CAAAGT
1 CAAAGT
10653766 CTAATAGCTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (55 bp):
CAAAGTTTTGAATATGTTCGCAAGTATTTTCGAAATAATCTTATACATAACATTG
Found at i:10655058 original size:13 final size:13
Alignment explanation
Indices: 10655034--10655076 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
10655024 TTCTTGTAAA
*
10655034 CATTTCACATAAC
1 CATTTCATATAAC
**
10655047 CATTTTGTATAAC
1 CATTTCATATAAC
*
10655060 CAATTCATATAAC
1 CATTTCATATAAC
10655073 CATT
1 CATT
10655077 CATCATCTGG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:10655293 original size:93 final size:93
Alignment explanation
Indices: 10655160--10655385 Score: 348
Period size: 93 Copynumber: 2.4 Consensus size: 93
10655150 TTATCTTCGA
* * * * * *
10655160 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCATGTTGCCATGGTATCT
* *
10655224 TTCAACCATGGTCTTACTCATTTTCATGT
66 TTCAACCATGGTCTTACACA-TTTCATAT
*
10655253 CATGTTGCCATGGTATCTTTCAACCATGGTTTTACACA-TTTCATATCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCATGTTGCCATGGTATCT
10655317 TTCAACCATGGTCTTACACATTTCATAT
66 TTCAACCATGGTCTTACACATTTCATAT
10655345 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
10655386 CATTTCAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
92 48 0.40
93 73 0.60
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (93 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCATGTTGCCATGGTATCT
TTCAACCATGGTCTTACACATTTCATAT
Found at i:10655386 original size:46 final size:46
Alignment explanation
Indices: 10655160--10655388 Score: 352
Period size: 46 Copynumber: 5.0 Consensus size: 46
10655150 TTATCTTCGA
* * * * * *
10655160 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* *
10655206 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
*
10655253 CATGTTGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
10655299 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
10655345 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
10655389 TTCAAAAAGC
Statistics
Matches: 174, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 135 0.78
47 39 0.22
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:10659232 original size:2 final size:2
Alignment explanation
Indices: 10659225--10659249 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10659215 GAACTCTTAG
10659225 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
10659250 TTTTCTTTAT
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:10660912 original size:39 final size:39
Alignment explanation
Indices: 10660868--10660995 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
10660858 TATGAGATTG
10660868 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
10660907 AAAATATCCGGACATGAGATCCGTAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * * **
10660946 AATATATCAGGACTTGAGGTCCGCGGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
10660985 AAAATATCCGG
1 AAAATATCCGG
10660996 GTTAAAGACC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:10680485 original size:93 final size:93
Alignment explanation
Indices: 10680367--10680568 Score: 291
Period size: 93 Copynumber: 2.2 Consensus size: 93
10680357 AATGATTCTA
* *
10680367 GTTGGGGGAAAAAGGGATCAGCAGATGCAAGTCAGGACTCTAA-CTGGGGTAAGAAAAATTGGGG
1 GTTGGGGCAAAAAAGGATCAGCAGATGCAAGTCAGGACTC-AAGCTGGGGTAAGAAAAATTGGGG
*
10680431 CACTGGAAATGATGCTGGCCAAGACTGTG
65 CACTGGAAATGATGCTGGCCAAGACTCTG
* * *
10680460 GTTGGGGCAAAAAAGGATC-GACAGATGCAAGTCAGGATTCAAGCTGGGGTAAGAAGAGTTGGGG
1 GTTGGGGCAAAAAAGGATCAG-CAGATGCAAGTCAGGACTCAAGCTGGGGTAAGAAAAATTGGGG
* * *
10680524 TACTGGCAATGATTCTGGCCAAGACTCTG
65 CACTGGAAATGATGCTGGCCAAGACTCTG
10680553 GTTGGGGCAAAAAAGG
1 GTTGGGGCAAAAAAGG
10680569 TGGTTGGAAC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
92 3 0.03
93 95 0.97
ACGTcount: A:0.32, C:0.14, G:0.36, T:0.19
Consensus pattern (93 bp):
GTTGGGGCAAAAAAGGATCAGCAGATGCAAGTCAGGACTCAAGCTGGGGTAAGAAAAATTGGGGC
ACTGGAAATGATGCTGGCCAAGACTCTG
Found at i:10680922 original size:30 final size:30
Alignment explanation
Indices: 10680888--10680985 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 30
10680878 TTTTGGTGGC
10680888 AGAGGTGGTGATGGTGGAGGCTACGGAGGT
1 AGAGGTGGTGATGGTGGAGGCTACGGAGGT
*
10680918 AGAGGCGGTGATGGTGGAGGCTACGGAGGT
1 AGAGGTGGTGATGGTGGAGGCTACGGAGGT
* ** * * **
10680948 AGAGTTGGTGACAGAGGTGGCTATAGAGGT
1 AGAGGTGGTGATGGTGGAGGCTACGGAGGT
10680978 AGAGGTGG
1 AGAGGTGG
10680986 AAGAGGGGGT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.22, C:0.07, G:0.51, T:0.19
Consensus pattern (30 bp):
AGAGGTGGTGATGGTGGAGGCTACGGAGGT
Found at i:10681350 original size:111 final size:111
Alignment explanation
Indices: 10681219--10681434 Score: 324
Period size: 111 Copynumber: 1.9 Consensus size: 111
10681209 AACCAGGGCT
* ** * * **
10681219 GGAATGGTGGAGCAAGTGGAGGTGGAGGTAGGAGTTGGAATCAATCTGGTGCTGATCAAGGAGGC
1 GGAATGGTGGAACAAGTGGAGGTGGAGCCAAGACTTGGAATCAATCCAGTGCTGATCAAGGAGGC
* *
10681284 CAATCCTCTAGTTGGAGTCAGGCTGGTGGCTGGAGCAAAGAGGGGG
66 CAATCCTCTAGTTGGAGCCAGGCTGGTGGCTGGAACAAAGAGGGGG
*
10681330 GGAATGGTGGAACAAGTGGAGGTGGAGCCAAGACTTGGATTCAATCCAGTGCTGATCAAGGAGGC
1 GGAATGGTGGAACAAGTGGAGGTGGAGCCAAGACTTGGAATCAATCCAGTGCTGATCAAGGAGGC
* *
10681395 CAATCCTCTAGTTGGAGCCAGTCTGGTGGGTGGAACAAAG
66 CAATCCTCTAGTTGGAGCCAGGCTGGTGGCTGGAACAAAG
10681435 GCTCTAGCTC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 93 1.00
ACGTcount: A:0.26, C:0.15, G:0.39, T:0.20
Consensus pattern (111 bp):
GGAATGGTGGAACAAGTGGAGGTGGAGCCAAGACTTGGAATCAATCCAGTGCTGATCAAGGAGGC
CAATCCTCTAGTTGGAGCCAGGCTGGTGGCTGGAACAAAGAGGGGG
Found at i:10683804 original size:15 final size:16
Alignment explanation
Indices: 10683784--10683813 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10683774 TTTAACGAAT
10683784 AATT-AAAACAAATGA
1 AATTAAAAACAAATGA
10683799 AATTAAAAACAAATG
1 AATTAAAAACAAATG
10683814 CGGTGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (16 bp):
AATTAAAAACAAATGA
Found at i:10684528 original size:59 final size:59
Alignment explanation
Indices: 10684456--10684572 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
10684446 CTTTTACAAG
*
10684456 ATTTTTAAGTGCTGCCATATCTTTTGCATATTGTTTAGCTTCAATCTTAGCACTAAGTA
1 ATTTTTAAGTGCTGCCATATCTTTTACATATTGTTTAGCTTCAATCTTAGCACTAAGTA
10684515 ATTTTTAAGTGCTGCCATATCTTTTACATATTGTTTAGCTTCAATCTTAGCACTAAGT
1 ATTTTTAAGTGCTGCCATATCTTTTACATATTGTTTAGCTTCAATCTTAGCACTAAGT
10684573 CCTGATCCAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (59 bp):
ATTTTTAAGTGCTGCCATATCTTTTACATATTGTTTAGCTTCAATCTTAGCACTAAGTA
Found at i:10687930 original size:10 final size:11
Alignment explanation
Indices: 10687903--10687927 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10687893 TTTTCCCTCA
10687903 TTTTCTTCCCT
1 TTTTCTTCCCT
10687914 TTTTCTTCCCT
1 TTTTCTTCCCT
10687925 TTT
1 TTT
10687928 CTTATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTCTTCCCT
Found at i:10691077 original size:6 final size:6
Alignment explanation
Indices: 10691066--10691091 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10691056 TTACAAACAT
10691066 ATTCAC ATTCAC ATTCAC ATTCAC AT
1 ATTCAC ATTCAC ATTCAC ATTCAC AT
10691092 GTTCTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (6 bp):
ATTCAC
Found at i:10692053 original size:28 final size:28
Alignment explanation
Indices: 10692022--10692084 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
10692012 TCCCATATTA
10692022 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
10692050 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
10692078 ATGGGGT
1 ATGGGGT
10692085 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:10695796 original size:24 final size:24
Alignment explanation
Indices: 10695769--10695820 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
10695759 TGAGTAGTTG
10695769 CACCGTATGCTAGACATATATTTT
1 CACCGTATGCTAGACATATATTTT
*
10695793 CACCGTCTGCTAGACATATATTTT
1 CACCGTATGCTAGACATATATTTT
10695817 CACC
1 CACC
10695821 ATTCATAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (24 bp):
CACCGTATGCTAGACATATATTTT
Found at i:10696166 original size:28 final size:28
Alignment explanation
Indices: 10696135--10696195 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
10696125 TCCCATATTA
10696135 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * * *
10696163 ATGGGGTATAGGGAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
10696191 ATGGG
1 ATGGG
10696196 ATTGATAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:10698763 original size:13 final size:13
Alignment explanation
Indices: 10698747--10698777 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10698737 AAATTTTCGT
10698747 AAAATTGATGTTG
1 AAAATTGATGTTG
10698760 AAAATTGATGTTG
1 AAAATTGATGTTG
*
10698773 CAAAT
1 AAAAT
10698778 GAGAATGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (13 bp):
AAAATTGATGTTG
Found at i:10702920 original size:18 final size:20
Alignment explanation
Indices: 10702897--10702933 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10702887 AGTTTTTCTG
10702897 AAAAT-ATTTTT-ATTTTTA
1 AAAATAATTTTTCATTTTTA
10702915 AAAATAATTTTTCATTTTT
1 AAAATAATTTTTCATTTTT
10702934 TATATTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
AAAATAATTTTTCATTTTTA
Found at i:10718358 original size:44 final size:44
Alignment explanation
Indices: 10718294--10718609 Score: 488
Period size: 44 Copynumber: 7.2 Consensus size: 44
10718284 AGGAACACCC
* * * * *
10718294 ATCTGTTATTTTCAATCTGCTCTCTGCCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* *
10718338 ATCTGCAATCTTCGATCTGCTCTCCGCCAATACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* *
10718382 ATCTGCTATATTTGATCTGCTCTCCGCCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
*
10718426 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* * *
10718470 ATCTGCTATCTTCGATCTGTTCTCCGTCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
* *
10718514 ATCTGCTAACTTCGATCTACTCTCCGCCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
*
10718558 ATCTACTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
10718602 ATCTGCTA
1 ATCTGCTA
10718610 GATTCGCCAA
Statistics
Matches: 247, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 247 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAA
Found at i:10721073 original size:38 final size:38
Alignment explanation
Indices: 10721028--10721103 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
10721018 TCTCCCATTC
10721028 TCCTTTGAGTTGATAATCACTAGCGCGGAATCCCCATA
1 TCCTTTGAGTTGATAATCACTAGCGCGGAATCCCCATA
10721066 TCCTTTGAGTTGATAATCACTAGCGCGGAATCCCCATA
1 TCCTTTGAGTTGATAATCACTAGCGCGGAATCCCCATA
10721104 CACCTCTAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (38 bp):
TCCTTTGAGTTGATAATCACTAGCGCGGAATCCCCATA
Found at i:10729900 original size:14 final size:14
Alignment explanation
Indices: 10729866--10729892 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10729856 CTCCCCTCTC
10729866 CCCCTCTCCTTTTT
1 CCCCTCTCCTTTTT
10729880 CCCCTCTCCTTTT
1 CCCCTCTCCTTTT
10729893 CTCTCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (14 bp):
CCCCTCTCCTTTTT
Found at i:10731654 original size:3 final size:3
Alignment explanation
Indices: 10731630--10731703 Score: 60
Period size: 3 Copynumber: 24.3 Consensus size: 3
10731620 AATATCCTTG
* * * *
10731630 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
10731677 TTG TGTA TTA GTA TATA TTT TTA TTA T
1 TTA T-TA TTA TTA T-TA TTA TTA TTA T
10731704 GTACGTGTGT
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
2 2 0.04
3 47 0.87
4 5 0.09
ACGTcount: A:0.30, C:0.01, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:10731711 original size:29 final size:31
Alignment explanation
Indices: 10731651--10731711 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 31
10731641 TTATTAGTAT
*
10731651 TATTAGTATTACTATTATTATTATTATTGTG
1 TATTAGTATTACTATTATTATTATTATCGTG
*
10731682 TATTAGTA-TA-TATTTTTATTATGTA-CGTG
1 TATTAGTATTACTATTATTATTAT-TATCGTG
10731711 T
1 T
10731712 GTACATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 15 0.56
30 4 0.15
31 8 0.30
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.57
Consensus pattern (31 bp):
TATTAGTATTACTATTATTATTATTATCGTG
Found at i:10731713 original size:31 final size:31
Alignment explanation
Indices: 10731639--10731714 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
10731629 GTTATTTTTA
*
10731639 TATTATTAGTAT-TATTAGTATTACTATTAT
1 TATTATTAGTGTGTATTAGTATTACTATTAT
* *
10731669 TATTATTATTGTGTATTAGTA-TA-TATTTT
1 TATTATTAGTGTGTATTAGTATTACTATTAT
10731698 TATTATGTACGTGTGTA
1 TATTAT-TA-GTGTGTA
10731715 CATATATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 11 0.28
30 14 0.36
31 14 0.36
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.57
Consensus pattern (31 bp):
TATTATTAGTGTGTATTAGTATTACTATTAT
Found at i:10731877 original size:19 final size:21
Alignment explanation
Indices: 10731853--10731896 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10731843 GTTATATATT
*
10731853 TATATA-TTTATA-ATACGTA
1 TATATACTTGATATATACGTA
*
10731872 TATATACTTGATATATATGTA
1 TATATACTTGATATATACGTA
10731893 TATA
1 TATA
10731897 CCTAGGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 10 0.48
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.48
Consensus pattern (21 bp):
TATATACTTGATATATACGTA
Found at i:10739601 original size:19 final size:20
Alignment explanation
Indices: 10739587--10739623 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10739577 ACTGGGAGGG
*
10739587 AGTAAA-AGTTTTGGGAGAA
1 AGTAAAGAGGTTTGGGAGAA
10739606 AGTAAAGAGGTTTGGGAG
1 AGTAAAGAGGTTTGGGAG
10739624 TTTGGAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (20 bp):
AGTAAAGAGGTTTGGGAGAA
Found at i:10739769 original size:18 final size:18
Alignment explanation
Indices: 10739743--10739780 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10739733 AAGATTTGAG
*
10739743 TTAACTCGAATAATTCGA
1 TTAACTCGAATAACTCGA
*
10739761 TTAATTCGAATAACTCGA
1 TTAACTCGAATAACTCGA
10739779 TT
1 TT
10739781 CGTTTAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TTAACTCGAATAACTCGA
Found at i:10749686 original size:10 final size:10
Alignment explanation
Indices: 10749671--10749709 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
10749661 AAAAATCTAC
10749671 TATTTTTTGT
1 TATTTTTTGT
* *
10749681 TATTTTAATGC
1 TATTTT-TTGT
10749692 TATTTTTTGT
1 TATTTTTTGT
10749702 TATTTTTT
1 TATTTTTT
10749710 CCTCCTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (10 bp):
TATTTTTTGT
Found at i:10751039 original size:26 final size:26
Alignment explanation
Indices: 10750999--10751060 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
10750989 CAGTTTAATC
10750999 AAATAATATAGAAAACAATTTAAAAT
1 AAATAATATAGAAAACAATTTAAAAT
** ** *
10751025 AAATAATATCTAAAATTATTTGAAAT
1 AAATAATATAGAAAACAATTTAAAAT
*
10751051 AAAAAATATA
1 AAATAATATA
10751061 AAATAGGTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (26 bp):
AAATAATATAGAAAACAATTTAAAAT
Found at i:10751300 original size:18 final size:18
Alignment explanation
Indices: 10751269--10751329 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
10751259 GAAATATAAT
*
10751269 CATAATAA-AATAATAGC
1 CATAATAATAATAATAGA
10751286 CATAATAATAATAATAGA
1 CATAATAATAATAATAGA
* *
10751304 AATAATAGTAATAATA-A
1 CATAATAATAATAATAGA
*
10751321 AATAATAAT
1 CATAATAAT
10751330 GGTATTAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 17 0.44
18 22 0.56
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
CATAATAATAATAATAGA
Found at i:10751345 original size:3 final size:3
Alignment explanation
Indices: 10751264--10751329 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
10751254 AAAAAGAAAT
* ***
10751264 ATA ATC ATA ATA A-A ATA ATA GCC ATA ATA ATA ATA ATA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
10751308 ATA GTA ATA ATA A-A ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
10751330 GGTATTAGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 5 0.10
3 43 0.88
4 1 0.02
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10753589 original size:21 final size:24
Alignment explanation
Indices: 10753549--10753600 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
10753539 ATGCAAACAG
10753549 ACAAGAAAACAACAGCAAATAGAA
1 ACAAGAAAACAACAGCAAATAGAA
10753573 ACAA-AAAACAAC-G-AAATAGCAA
1 ACAAGAAAACAACAGCAAATAG-AA
*
10753595 AAAAGA
1 ACAAGA
10753601 GGGCTGGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 6 0.24
23 9 0.36
24 4 0.16
ACGTcount: A:0.69, C:0.15, G:0.12, T:0.04
Consensus pattern (24 bp):
ACAAGAAAACAACAGCAAATAGAA
Found at i:10755853 original size:12 final size:12
Alignment explanation
Indices: 10755799--10755864 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
10755789 TATTAAATTA
* *
10755799 ATTATTTTTGAT
1 ATTATTATTAAT
*
10755811 A-TATTATTATT
1 ATTATTATTAAT
10755822 ATTA-TATT--T
1 ATTATTATTAAT
* *
10755831 ACTACTATTAAT
1 ATTATTATTAAT
*
10755843 ATTATTATTAAC
1 ATTATTATTAAT
10755855 ATTATTATTA
1 ATTATTATTA
10755865 TCATCGTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 4 0.09
10 4 0.09
11 12 0.28
12 23 0.53
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTATTATTAAT
Found at i:10755961 original size:48 final size:45
Alignment explanation
Indices: 10755909--10756000 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 45
10755899 ATATACTCTT
10755909 TATATATACTATTATTT-T-TAATATTATTATATATTTATTTTTTAACAA
1 TATATATA-TA-TATTTATGTAATATTATTA-ATA-TT-TTTTTTAACAA
*
10755957 TATATGTATATATTTATGTAATATTATTAATATTTTTTTTAACA
1 TATATATATATATTTATGTAATATTATTAATATTTTTTTTAACA
10756001 TTATTATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
45 10 0.24
46 7 0.17
47 6 0.15
48 18 0.44
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (45 bp):
TATATATATATATTTATGTAATATTATTAATATTTTTTTTAACAA
Found at i:10756005 original size:21 final size:21
Alignment explanation
Indices: 10755918--10756012 Score: 66
Period size: 21 Copynumber: 4.2 Consensus size: 21
10755908 TTATATATAC
* *
10755918 TATTATTTTTAATATTATTATA
1 TATTTTTTTTAACATTATTA-A
10755940 TATTTATTTTTTAACAATATATGT-A
1 TA-TT-TTTTTTAAC-AT-TAT-TAA
* * *
10755965 TATATTTATGTAATATTATTAA
1 TAT-TTTTTTTAACATTATTAA
*
10755987 TATTTTTTTTAACATTATTAT
1 TATTTTTTTTAACATTATTAA
10756008 TATTT
1 TATTT
10756013 CTTAGATGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
21 20 0.35
22 9 0.16
23 4 0.07
24 14 0.25
25 6 0.11
26 3 0.05
27 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTTTTTTTAACATTATTAA
Found at i:10756223 original size:58 final size:58
Alignment explanation
Indices: 10756111--10756222 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
10756101 TAACTATATC
* * *
10756111 ATATGTATATATTTTATATACATACTTTTAATATTATTATGTATTTATTTTTCTTCTA
1 ATATGTATATATATTATATAAATACTCTTAATATTATTATGTATTTATTTTTCTTCTA
*
10756169 ATATGTATATATATTATGTAAATA-TCTTAATATTA-TAT-TATTTATATTTT-TTCT
1 ATATGTATATATATTATATAAATACTCTTAATATTATTATGTATTTAT-TTTTCTTCT
10756223 TACATATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 11 0.22
56 7 0.14
57 10 0.20
58 21 0.43
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (58 bp):
ATATGTATATATATTATATAAATACTCTTAATATTATTATGTATTTATTTTTCTTCTA
Found at i:10756229 original size:28 final size:28
Alignment explanation
Indices: 10756138--10756249 Score: 88
Period size: 28 Copynumber: 4.0 Consensus size: 28
10756128 ATACATACTT
*
10756138 TTAATA-T-TATTATGTATTTATTTTTC
1 TTAATATTATATTATGTATATATTTTTC
* ** *
10756164 TTCTAATATGTATATATAT-TATGTAAATATC
1 -T-TAATAT-TATAT-TATGTATATATTTTTC
*
10756195 TTAATATTATATTATTTATAT-TTTTTC
1 TTAATATTATATTATGTATATATTTTTC
*
10756222 TTACATATTATCTTATGTATATATTTTT
1 TTA-ATATTATATTATGTATATATTTTT
10756250 AATAACTACA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
27 10 0.15
28 30 0.45
29 11 0.16
30 2 0.03
31 11 0.16
32 3 0.04
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (28 bp):
TTAATATTATATTATGTATATATTTTTC
Found at i:10756272 original size:26 final size:25
Alignment explanation
Indices: 10756234--10756347 Score: 90
Period size: 26 Copynumber: 4.6 Consensus size: 25
10756224 ACATATTATC
10756234 TTATGTATATATTTTTAATAACTACA
1 TTATGTATATATTTTTAAT-ACTACA
* * *
10756260 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAATACTACA
* * *
10756285 TTACGTATATAATTTTAATA-TCATTA
1 TTATGTATATATTTTTAATACT-A-CA
* * *
10756311 TTATGTATAAATTTTCAATA-TATA
1 TTATGTATATATTTTTAATACTACA
*
10756335 -TATGTGTATATTT
1 TTATGTATATATTT
10756348 ATGTAATAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
23 11 0.15
24 3 0.04
25 23 0.32
26 36 0.49
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (25 bp):
TTATGTATATATTTTTAATACTACA
Found at i:10756282 original size:25 final size:25
Alignment explanation
Indices: 10756234--10756302 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
10756224 ACATATTATC
10756234 TTATGTATATATTTTTAATAACTACA
1 TTATGTATATATTTTTAA-AACTACA
* * *
10756260 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATATTTTTAAAACTACA
* *
10756285 TTACGTATATAATTTTAA
1 TTATGTATATATTTTTAA
10756303 TATCATTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 20 0.54
26 17 0.46
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (25 bp):
TTATGTATATATTTTTAAAACTACA
Found at i:10756401 original size:11 final size:11
Alignment explanation
Indices: 10756385--10756424 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
10756375 TTATTTCTAA
10756385 TATGTATATAT
1 TATGTATATAT
10756396 TATGTATATAT
1 TATGTATATAT
*
10756407 T-T-TA-ATAC
1 TATGTATATAT
10756415 TATGTATATA
1 TATGTATATA
10756425 CTTTTTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.16
9 3 0.12
10 3 0.12
11 15 0.60
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (11 bp):
TATGTATATAT
Found at i:10756467 original size:25 final size:24
Alignment explanation
Indices: 10756439--10756518 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
10756429 TTATTCCTAT
10756439 TATTATGTAAATATTTTAAATACTA
1 TATTATGTAAATATTTTAAATA-TA
* **
10756464 TATTATGTATATATTTTTTATATA
1 TATTATGTAAATATTTTAAATATA
* *
10756488 TGTTATGTACATACTTTTTAAATATTA
1 TATTATGTAAATA--TTTTAAATA-TA
10756515 TATT
1 TATT
10756519 TTTATATATT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 13 0.30
25 19 0.43
26 7 0.16
27 5 0.11
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (24 bp):
TATTATGTAAATATTTTAAATATA
Found at i:10756505 original size:24 final size:24
Alignment explanation
Indices: 10756466--10756512 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10756456 AAATACTATA
* * *
10756466 TTATGTATATATTTTTTATATATG
1 TTATGTACATACTTTTTAAATATG
10756490 TTATGTACATACTTTTTAAATAT
1 TTATGTACATACTTTTTAAATAT
10756513 TATATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.57
Consensus pattern (24 bp):
TTATGTACATACTTTTTAAATATG
Found at i:10756638 original size:2 final size:2
Alignment explanation
Indices: 10756631--10756657 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10756621 CATTATTATT
10756631 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 T
10756658 GTAAGTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10756834 original size:25 final size:24
Alignment explanation
Indices: 10756806--10756918 Score: 92
Period size: 25 Copynumber: 4.7 Consensus size: 24
10756796 ACATATTATC
10756806 TTATGTATATATTTTAATAACTATA
1 TTATGTATATATTTT-ATAACTATA
*
10756831 TTATGTATGTATTTT-TAACGCTATA
1 TTATGTATATATTTTATAA--CTATA
10756856 TTATGTATATATTTT-T-A--ATA
1 TTATGTATATATTTTATAACTATA
* **
10756876 CTATGTATATACTTTTCATTCCTATTA
1 TTATGTATATA-TTTT-ATAACTA-TA
*
10756903 TTACGTATATATTTTA
1 TTATGTATATATTTTA
10756919 ATATATATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
20 13 0.18
21 4 0.05
23 4 0.05
24 1 0.01
25 35 0.48
26 5 0.07
27 11 0.15
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.54
Consensus pattern (24 bp):
TTATGTATATATTTTATAACTATA
Found at i:10759290 original size:127 final size:126
Alignment explanation
Indices: 10759057--10759359 Score: 417
Period size: 127 Copynumber: 2.4 Consensus size: 126
10759047 GCAATGTTTG
* *
10759057 ATGTTTGGAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTTGATTTCCCGTTTGTTCAAAAT
1 ATGTTT-GAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGCTCAAAAT
* *
10759122 AATCGAATATTCCTTTAGAATTTCATTCGCGTTTTCCAAATGCTAAAACAAGACAATATTCA
65 AATCGAATATTCCTTTAGAATTTCATTCGCATCTTCCAAATGCTAAAACAAGACAATATTCA
** * *
10759184 ATGTTTAGAAATTCGGGGAATCGTGCCCAATCGTGCTGGGTTTCGATTTCCGGTTTGCTCAAAAT
1 ATGTTT-GAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGCTCAAAAT
* * * * * * * * *
10759249 AGTTGAATATTCCTTTAGAATTTCATTTGTATCTTCTAAATGCTAAAGCGAGGCAATGTTCA
65 AATCGAATATTCCTTTAGAATTTCATTCGCATCTTCCAAATGCTAAAACAAGACAATATTCA
*
10759311 ATGTTTGAAAATTCGAAGAATCGTGCCCTACCGTGCTGGGTTTCGATTT
1 ATGTTTG-AAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTT
10759360 TTTCGTTGGA
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
126 1 0.01
127 152 0.99
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (126 bp):
ATGTTTGAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGCTCAAAATA
ATCGAATATTCCTTTAGAATTTCATTCGCATCTTCCAAATGCTAAAACAAGACAATATTCA
Found at i:10759399 original size:127 final size:125
Alignment explanation
Indices: 10759044--10759380 Score: 372
Period size: 127 Copynumber: 2.6 Consensus size: 125
10759034 CCCCAAATCA
** * * *
10759044 AAGGCAATGTTTGATGTTTGGAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTTGATTTCCC
1 AAGGCAATGTTCAATGTTTGAAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTCC
* * * * *
10759109 GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCATTCGCGTTTTCCAAATGCTAAAAC
66 G-TTG-GCTAAATAATTGAATATTCCTTTAGAATTTCATTCGCATCTTCCAAATGCTAAAAC
* * ** *
10759171 AAGACAATATTCAATGTTT-AGAAATTCGGGGAATCGTGCCCAATCGTGCTGGGTTTCGA-TTTC
1 AAGGCAATGTTCAATGTTTGA-AAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTC
* * * * * *
10759234 CGGTTTGCTCAAAATAGTTGAATATTCCTTTAGAATTTCATTTGTATCTTCTAAATGCTAAAGC
65 C-GTTGGCT--AAATAATTGAATATTCCTTTAGAATTTCATTCGCATCTTCCAAATGCTAAAAC
* * *
10759298 GAGGCAATGTTCAATGTTTGAAAATTCGAAGAATCGTGCCCTACCGTGCTGGGTTTCGATTTTTT
1 AAGGCAATGTTCAATGTTTGAAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGA-TTTTC
10759363 CGTTGGACTAAATAATTG
65 CGTTGG-CTAAATAATTG
10759381 GGCATCCTTT
Statistics
Matches: 171, Mismatches: 31, Indels: 16
0.78 0.14 0.07
Matches are distributed among these distances:
125 1 0.01
126 6 0.04
127 153 0.89
128 5 0.03
129 6 0.04
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (125 bp):
AAGGCAATGTTCAATGTTTGAAAATTCGAAGAATCGTGCCCTATCGTGCTGGGTTTCGATTTTCC
GTTGGCTAAATAATTGAATATTCCTTTAGAATTTCATTCGCATCTTCCAAATGCTAAAAC
Found at i:10760102 original size:7 final size:7
Alignment explanation
Indices: 10760090--10760120 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
10760080 ATATATATAT
10760090 AAATTAA
1 AAATTAA
10760097 AAATTAA
1 AAATTAA
10760104 AAATTAA
1 AAATTAA
10760111 AAATTAA
1 AAATTAA
10760118 AAA
1 AAA
10760121 AAGAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATTAA
Found at i:10761609 original size:2 final size:2
Alignment explanation
Indices: 10761602--10761632 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10761592 ACGTAGATAA
10761602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10761633 AAAACAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10772008 original size:42 final size:42
Alignment explanation
Indices: 10771961--10772046 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
10771951 GCCATTACGT
10771961 CCCCCAACAAATCCCTCCAATAATATGTATGTATGTTAAGTA
1 CCCCCAACAAATCCCTCCAATAATATGTATGTATGTTAAGTA
10772003 CCCCCAACAAATCCCTCCAATAATATGTATGTATGTTAAGTA
1 CCCCCAACAAATCCCTCCAATAATATGTATGTATGTTAAGTA
10772045 CC
1 CC
10772047 TGATAGGTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.28
Consensus pattern (42 bp):
CCCCCAACAAATCCCTCCAATAATATGTATGTATGTTAAGTA
Found at i:10772351 original size:32 final size:34
Alignment explanation
Indices: 10772302--10772369 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
10772292 AATACTTAGA
10772302 GATAAAAGAGCCCAC-A-AACCATGATATAAAAT
1 GATAAAAGAGCCCACAATAACCATGATATAAAAT
**
10772334 GATAAAAGAGCTTACAAATTAACCATGATATAAAAT
1 GATAAAAGAGCCCAC-AA-TAACCATGATATAAAAT
10772370 AAGGAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 13 0.43
34 1 0.03
36 16 0.53
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (34 bp):
GATAAAAGAGCCCACAATAACCATGATATAAAAT
Found at i:10772687 original size:29 final size:29
Alignment explanation
Indices: 10772645--10772702 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10772635 AACAAGAGGT
10772645 GTCACCAATTATAGCATGTCTTTCCTTGG
1 GTCACCAATTATAGCATGTCTTTCCTTGG
10772674 GTCACCAATTATAGCATGTCTTTCCTTGG
1 GTCACCAATTATAGCATGTCTTTCCTTGG
10772703 AATTATCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (29 bp):
GTCACCAATTATAGCATGTCTTTCCTTGG
Found at i:10773926 original size:80 final size:80
Alignment explanation
Indices: 10773793--10773950 Score: 239
Period size: 80 Copynumber: 2.0 Consensus size: 80
10773783 CAAATGCAGC
* *
10773793 AGTGAAGAGGAAGAAATCGGGAAGGGAAGACGAAGGAATTTGGGTTAGGGTTTCATTTTCAAATC
1 AGTGAAGAGGAAGAAATCGGGAAGGGAAGACAAAGGAATTTGGGCTAGGGTTTCATTTTCAAATC
*
10773858 GGAAT-TGGGGATTAA
66 AG-ATGTGGGGATTAA
* *
10773873 AGTGAAGAGGAAGGAATTGGGAAGGGAAGACAAAGGAA-TTGAGGCTAGGGTTTCATTTTCAAAT
1 AGTGAAGAGGAAGAAATCGGGAAGGGAAGACAAAGGAATTTG-GGCTAGGGTTTCATTTTCAAAT
10773937 CAGATGTGGGGATT
65 CAGATGTGGGGATT
10773951 TCAGGAATAG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 5 0.07
80 66 0.93
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.23
Consensus pattern (80 bp):
AGTGAAGAGGAAGAAATCGGGAAGGGAAGACAAAGGAATTTGGGCTAGGGTTTCATTTTCAAATC
AGATGTGGGGATTAA
Found at i:10776525 original size:18 final size:19
Alignment explanation
Indices: 10776492--10776527 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10776482 AACTGATCGC
*
10776492 CATAATCTATTTTAATCAT
1 CATAATCTAATTTAATCAT
10776511 CATAA-CTAATTTAATCA
1 CATAATCTAATTTAATCA
10776528 AATAGTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
CATAATCTAATTTAATCAT
Found at i:10778644 original size:29 final size:28
Alignment explanation
Indices: 10778611--10778670 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
10778601 ATACCCTTTT
*
10778611 TAATCTCTTTAAATTTTAATTATTTAATA
1 TAATCTCTTTAAATTTTAATTATAT-ATA
* **
10778640 TAATCTTTTTATTTTTTAATTATATATA
1 TAATCTCTTTAAATTTTAATTATATATA
10778668 TAA
1 TAA
10778671 ATTATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TAATCTCTTTAAATTTTAATTATATATA
Found at i:10780588 original size:3 final size:3
Alignment explanation
Indices: 10780582--10780628 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
10780572 CAAGCAACAA
* * * *
10780582 CAG CAG CAG CAG CAG CAG CAG CAA CAA CAA CAG CAA CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
10780629 ACAACAATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:10780629 original size:12 final size:12
Alignment explanation
Indices: 10780574--10780631 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
10780564 TTTGCTTCCA
*
10780574 AGCAACAACAGC
1 AGCAGCAACAGC
*
10780586 AGCAGCAGCAGC
1 AGCAGCAACAGC
*
10780598 AGCAGCAACAAC
1 AGCAGCAACAGC
*
10780610 AACAGCAACAGC
1 AGCAGCAACAGC
10780622 AGCAGCAACA
1 AGCAGCAACA
10780632 ACAATCAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.47, C:0.33, G:0.21, T:0.00
Consensus pattern (12 bp):
AGCAGCAACAGC
Found at i:10780964 original size:5 final size:6
Alignment explanation
Indices: 10780946--10780971 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10780936 ATGATGGGTA
10780946 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
10780972 ATTCTCTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:10783383 original size:16 final size:16
Alignment explanation
Indices: 10783358--10783388 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10783348 ATATTTAAAA
10783358 AAAAAAGATATAATTC
1 AAAAAAGATATAATTC
*
10783374 AAAAATGATATAATT
1 AAAAAAGATATAATT
10783389 ACCAGGTAAT
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:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAAAAGATATAATTC
Found at i:10783446 original size:16 final size:16
Alignment explanation
Indices: 10783425--10783458 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10783415 TATAAATTTT
10783425 ATCTGAACAAAAAATG
1 ATCTGAACAAAAAATG
**
10783441 ATCTGAACCTAAAATG
1 ATCTGAACAAAAAATG
10783457 AT
1 AT
10783459 TCAAACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (16 bp):
ATCTGAACAAAAAATG
Found at i:10784428 original size:18 final size:18
Alignment explanation
Indices: 10784405--10784441 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10784395 AGTCTCAAAA
10784405 TAATTTTTCTTATCCAAG
1 TAATTTTTCTTATCCAAG
10784423 TAATTTTTCTTATCCAAG
1 TAATTTTTCTTATCCAAG
10784441 T
1 T
10784442 TCGTCCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TAATTTTTCTTATCCAAG
Found at i:10786459 original size:18 final size:18
Alignment explanation
Indices: 10786436--10786489 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
10786426 CCACCACCAA
10786436 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
10786454 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
10786466 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
10786484 CTCCAC
1 CTCCAC
10786490 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:10786462 original size:30 final size:30
Alignment explanation
Indices: 10786426--10786494 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
10786416 CTAGCCTTTG
10786426 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
10786456 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
10786486 CCACCACCA
1 CCACCACCA
10786495 CTTGTACCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.26, C:0.52, G:0.06, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:10786981 original size:15 final size:15
Alignment explanation
Indices: 10786961--10787009 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
10786951 TTTTTGTTAT
10786961 TATTATATTTTTTAA
1 TATTATATTTTTTAA
* *
10786976 TATTATATTATAT-A
1 TATTATATTTTTTAA
10786990 TATATATATTCTTTTAA
1 TAT-TATATT-TTTTAA
10787007 TAT
1 TAT
10787010 ATTAGGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 4 0.15
15 17 0.63
16 2 0.07
17 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATTTTTTAA
Found at i:10787087 original size:25 final size:25
Alignment explanation
Indices: 10787029--10787087 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
10787019 ATTCTAAATT
* *
10787029 CTATATTACGTATATATATATTATA
1 CTATATTATGTACATATATATTATA
* *
10787054 CTATTTTATGTACATATCT-TTAATA
1 CTATATTATGTACATATATATT-ATA
10787079 CTATATTAT
1 CTATATTAT
10787088 TTATATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (25 bp):
CTATATTATGTACATATATATTATA
Found at i:10787164 original size:25 final size:24
Alignment explanation
Indices: 10787114--10787176 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
10787104 CATGTTATCT
*
10787114 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
10787140 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
10787165 TACATATTTTTT
1 TATGTATTTTTT
10787177 TTATATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:10787266 original size:25 final size:24
Alignment explanation
Indices: 10787238--10787293 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
10787228 GTTATATTTT
*
10787238 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
10787263 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
10787286 CACTATTA
1 CACTATTA
10787294 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:10788240 original size:5 final size:5
Alignment explanation
Indices: 10788230--10788260 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
10788220 ATAAAACATG
10788230 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
10788261 AATGATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:10793537 original size:37 final size:37
Alignment explanation
Indices: 10793487--10793557 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
10793477 TATTAGACAA
10793487 CAATTCAATTGAAAAATAACTAAAAAAAAATAGGCAC
1 CAATTCAATTGAAAAATAACTAAAAAAAAATAGGCAC
10793524 CAATTCAATTGAAAAATAACTAAAAAAAAATAGG
1 CAATTCAATTGAAAAATAACTAAAAAAAAATAGG
10793558 TGAGACAGAA
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:0.61, C:0.11, G:0.08, T:0.20
Consensus pattern (37 bp):
CAATTCAATTGAAAAATAACTAAAAAAAAATAGGCAC
Found at i:10793842 original size:21 final size:23
Alignment explanation
Indices: 10793811--10793854 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
10793801 TGATTATAAA
10793811 AAAATTATTAAAAA-ATAAAAAT
1 AAAATTATTAAAAATATAAAAAT
10793833 AAAA-TATTAAAAATTATAAAAA
1 AAAATTATTAAAAA-TATAAAAA
10793855 GTGATTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATTATTAAAAATATAAAAAT
Found at i:10794143 original size:31 final size:30
Alignment explanation
Indices: 10794075--10794136 Score: 94
Period size: 27 Copynumber: 2.2 Consensus size: 30
10794065 TATTATTGTA
10794075 TTTTAAAAATATATATATATAATTTTTATT
1 TTTTAAAAATATATATATATAATTTTTATT
*
10794105 TTTTAAAAAT-TATATATAT--TTTTTGTT
1 TTTTAAAAATATATATATATAATTTTTATT
10794132 TTTTA
1 TTTTA
10794137 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTAAAAATATATATATATAATTTTTATT
Found at i:10797345 original size:35 final size:36
Alignment explanation
Indices: 10797290--10797363 Score: 141
Period size: 35 Copynumber: 2.1 Consensus size: 36
10797280 TATTTCTTAG
10797290 TATTTTATATTTTTTAATTTTAATTTTGATTGTAAT
1 TATTTTATATTTTTTAATTTTAATTTTGATTGTAAT
10797326 TATTTTAT-TTTTTTAATTTTAATTTTGATTGTAAT
1 TATTTTATATTTTTTAATTTTAATTTTGATTGTAAT
10797361 TAT
1 TAT
10797364 CGTAAAATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 30 0.79
36 8 0.21
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (36 bp):
TATTTTATATTTTTTAATTTTAATTTTGATTGTAAT
Found at i:10797834 original size:14 final size:15
Alignment explanation
Indices: 10797815--10797845 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10797805 GTTATGATAA
10797815 TTATTTAT-AATTTT
1 TTATTTATAAATTTT
10797829 TTATTTATAAATTTT
1 TTATTTATAAATTTT
10797844 TT
1 TT
10797846 GTTCTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATAAATTTT
Found at i:10798053 original size:31 final size:30
Alignment explanation
Indices: 10797975--10798069 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 30
10797965 TCTTGACATT
*
10797975 AAATTTTAAGAGA-TTAATTAAAATATTTAA
1 AAATTTTGAGAGATTTAA-TAAAATATTTAA
* *
10798005 AATTTTTGAGA-ATTTTAATAATAATTTTTAA
1 AAATTTTGAGAGA-TTTAATAA-AATATTTAA
* *
10798036 AAATTTTGATAGATTTAATTAAAATATTCAA
1 AAATTTTGAGAGATTTAA-TAAAATATTTAA
10798067 AAA
1 AAA
10798070 ATTTAAAAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
29 1 0.02
30 12 0.23
31 36 0.68
32 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (30 bp):
AAATTTTGAGAGATTTAATAAAATATTTAA
Found at i:10798083 original size:61 final size:61
Alignment explanation
Indices: 10797975--10798092 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
10797965 TCTTGACATT
* ** * *
10797975 AAATTTTAAGAGATTAATTAAAATATTTAAAATTTTTGAGAATTTTAAT-AATAATTTTTAA
1 AAATTTTAAGAGATTAATTAAAATATTCAAAAAATTTGAAAAGTTTAATGAA-AATTTTTAA
* *
10798036 AAATTTTGATAGATTTAATTAAAATATTCAAAAAATTT-AAAAGTTTAATGAAAATTT
1 AAATTTTAAGAGA-TTAATTAAAATATTCAAAAAATTTGAAAAGTTTAATGAAAATTT
10798093 ACGCAAATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
61 25 0.52
62 23 0.48
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (61 bp):
AAATTTTAAGAGATTAATTAAAATATTCAAAAAATTTGAAAAGTTTAATGAAAATTTTTAA
Found at i:10802054 original size:167 final size:167
Alignment explanation
Indices: 10801778--10802114 Score: 674
Period size: 167 Copynumber: 2.0 Consensus size: 167
10801768 CAACAAGGAT
10801778 CATGTCAGATGATTCTTATTCTTCTAATGGAAAGTACGGAAGATATATCTGAGCTTAAAGGCTAA
1 CATGTCAGATGATTCTTATTCTTCTAATGGAAAGTACGGAAGATATATCTGAGCTTAAAGGCTAA
10801843 GCTTCTGCAATTATGGGCTCCTGGTTTATGTTATTAATAATTTTCAATCATGCTTTTGACTTCAC
66 GCTTCTGCAATTATGGGCTCCTGGTTTATGTTATTAATAATTTTCAATCATGCTTTTGACTTCAC
10801908 TAATGGTTAAACAGCAAATAATGCTTAAAACAAAATC
131 TAATGGTTAAACAGCAAATAATGCTTAAAACAAAATC
10801945 CATGTCAGATGATTCTTATTCTTCTAATGGAAAGTACGGAAGATATATCTGAGCTTAAAGGCTAA
1 CATGTCAGATGATTCTTATTCTTCTAATGGAAAGTACGGAAGATATATCTGAGCTTAAAGGCTAA
10802010 GCTTCTGCAATTATGGGCTCCTGGTTTATGTTATTAATAATTTTCAATCATGCTTTTGACTTCAC
66 GCTTCTGCAATTATGGGCTCCTGGTTTATGTTATTAATAATTTTCAATCATGCTTTTGACTTCAC
10802075 TAATGGTTAAACAGCAAATAATGCTTAAAACAAAATC
131 TAATGGTTAAACAGCAAATAATGCTTAAAACAAAATC
10802112 CAT
1 CAT
10802115 TTGTGCTAGA
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 170 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (167 bp):
CATGTCAGATGATTCTTATTCTTCTAATGGAAAGTACGGAAGATATATCTGAGCTTAAAGGCTAA
GCTTCTGCAATTATGGGCTCCTGGTTTATGTTATTAATAATTTTCAATCATGCTTTTGACTTCAC
TAATGGTTAAACAGCAAATAATGCTTAAAACAAAATC
Found at i:10804801 original size:15 final size:15
Alignment explanation
Indices: 10804772--10804800 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10804762 TAAACAAAAA
10804772 AAATATATTATTTTT
1 AAATATATTATTTTT
10804787 AAATAT-TTATTTTT
1 AAATATATTATTTTT
10804801 TTAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATATATTATTTTT
Found at i:10804811 original size:15 final size:17
Alignment explanation
Indices: 10804777--10804809 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10804767 AAAAAAAATA
10804777 TATTATTTTTAAATATT
1 TATTATTTTTAAATATT
*
10804794 TATT-TTTTTAATTATT
1 TATTATTTTTAAATATT
10804810 ATACTCATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTATTTTTAAATATT
Found at i:10818743 original size:40 final size:40
Alignment explanation
Indices: 10818699--10818778 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10818689 TGCTTGTTGT
10818699 ACCTTTCTGGGTATCGGACCTTTTTGCTGTAAATTTCATC
1 ACCTTTCTGGGTATCGGACCTTTTTGCTGTAAATTTCATC
10818739 ACCTTTCTGGGTATCGGACCTTTTTGCTGTAAATTTCATC
1 ACCTTTCTGGGTATCGGACCTTTTTGCTGTAAATTTCATC
10818779 TCATTTGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (40 bp):
ACCTTTCTGGGTATCGGACCTTTTTGCTGTAAATTTCATC
Found at i:10820878 original size:24 final size:23
Alignment explanation
Indices: 10820837--10820881 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
10820827 TTCCAGTATC
*
10820837 AAAATGAAATTAGAAAAAGTTTT
1 AAAATGAAATGAGAAAAAGTTTT
*
10820860 AAAATGAAAATGAGGAAAAGTT
1 AAAATG-AAATGAGAAAAAGTT
10820882 AGGGACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (23 bp):
AAAATGAAATGAGAAAAAGTTTT
Found at i:10834922 original size:19 final size:20
Alignment explanation
Indices: 10834884--10834922 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10834874 TTTGAAAGCC
**
10834884 AACAAAAGAGAAAAGGAAAG
1 AACAAAAGAGAAAAAAAAAG
10834904 AACAAAA-AGAAAAAAAAAG
1 AACAAAAGAGAAAAAAAAAG
10834923 TGACAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (20 bp):
AACAAAAGAGAAAAAAAAAG
Found at i:10870639 original size:2 final size:2
Alignment explanation
Indices: 10870634--10870661 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10870624 GAAGTTTGTC
10870634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10870662 GCTTTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10872685 original size:21 final size:20
Alignment explanation
Indices: 10872629--10872667 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10872619 TTCTCAAAAT
10872629 AAAT-GCAAAAAAAATCAGA
1 AAATAGCAAAAAAAATCAGA
10872648 AAATAGCAAAAAGAAATCAG
1 AAATAGCAAAAA-AAATCAG
10872668 GTAAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (20 bp):
AAATAGCAAAAAAAATCAGA
Found at i:10874978 original size:25 final size:24
Alignment explanation
Indices: 10874949--10874996 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10874939 TGGTTCATGT
10874949 TTTCAATCTC-ATATCTCAATTTCAA
1 TTTCAAT-TCAATATCTC-ATTTCAA
*
10874974 TTTCAATTCAATTTCTCATTTCA
1 TTTCAATTCAATATCTCATTTCA
10874997 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTCAATTCAATATCTCATTTCAA
Found at i:10874999 original size:17 final size:17
Alignment explanation
Indices: 10874949--10874988 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
10874939 TGGTTCATGT
*
10874949 TTTCAATCTCATATCTCAA
1 TTTCAATTTCA-AT-TCAA
10874968 TTTCAATTTCAATTCAA
1 TTTCAATTTCAATTCAA
10874985 TTTC
1 TTTC
10874989 TCATTTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
19 10 0.50
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTCAATTTCAATTCAA
Found at i:10875177 original size:21 final size:23
Alignment explanation
Indices: 10875150--10875213 Score: 89
Period size: 21 Copynumber: 2.9 Consensus size: 23
10875140 CCTGATCAGT
10875150 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTAAA
*
10875172 A-ACGACACACT-AGGTGCCTAAA
1 ATACGACACA-TAAAGTGCCTAAA
10875194 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
10875214 GATCGATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 15 0.42
22 6 0.17
23 15 0.42
ACGTcount: A:0.42, C:0.25, G:0.16, T:0.17
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTAAA
Found at i:10875612 original size:15 final size:15
Alignment explanation
Indices: 10875587--10875644 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
10875577 TCATATATAT
10875587 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
10875603 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
10875618 AATAATTTCAATCAA
1 TATAAATTCAATCAA
10875633 TATAAATTCAAT
1 TATAAATTCAAT
10875645 AAAACAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:10875629 original size:30 final size:28
Alignment explanation
Indices: 10875590--10875648 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
10875580 TATATATTAT
10875590 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
10875619 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
10875648 A
1 A
10875649 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:10875807 original size:2 final size:2
Alignment explanation
Indices: 10875800--10875827 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10875790 ATATCTCATT
10875800 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10875828 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:10875832 original size:2 final size:2
Alignment explanation
Indices: 10875827--10875866 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
10875817 ACACACACAC
*
10875827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10875867 ATTCAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10876661 original size:2 final size:2
Alignment explanation
Indices: 10876654--10876695 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
10876644 TTGTTTCTTT
10876654 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10876695 T
1 T
10876696 GACAATAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10879570 original size:3 final size:3
Alignment explanation
Indices: 10879562--10879603 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10879552 TCTTATTGCC
10879562 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10879604 ATAGTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10882883 original size:81 final size:80
Alignment explanation
Indices: 10882789--10882948 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
10882779 ATTGAAAGTT
* **
10882789 AAATAAAAATATTTTTAAAAATGTTTAATTTAAATTTGGACATAGCAGGTCTAATCTGAACTGAA
1 AAATAAAAATATTTTTAAAAATATTTAATTTAAATTTGGACATAG-AAATCTAATCTGAA-TGAA
10882854 -AACACAATTAATTATA
64 TAACACAATTAATTATA
* * * * * *
10882870 AAATAAAAATATTTTTTAAATTATTTAATTTAAATTTGTACATAGAAATTTAATTTGAATTAATA
1 AAATAAAAATATTTTTAAAAATATTTAATTTAAATTTGGACATAGAAATCTAATCTGAATGAATA
10882935 ACACAATTAATTAT
66 ACACAATTAATTAT
10882949 TAATCATTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 3 0.04
80 25 0.36
81 41 0.59
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.39
Consensus pattern (80 bp):
AAATAAAAATATTTTTAAAAATATTTAATTTAAATTTGGACATAGAAATCTAATCTGAATGAATA
ACACAATTAATTATA
Found at i:10891118 original size:18 final size:18
Alignment explanation
Indices: 10891097--10891163 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
10891087 AATCGGTTAA
*
10891097 TCAGTAACAATCATTTAT
1 TCAGTAACAGTCATTTAT
* *
10891115 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCATTTAT
* *
10891133 TCAATAACAGTCAATTAT
1 TCAGTAACAGTCATTTAT
*
10891151 TCAGTAGCAGTCA
1 TCAGTAACAGTCA
10891164 GTCTTTAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:10891888 original size:19 final size:19
Alignment explanation
Indices: 10891864--10891905 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
10891854 ATCCCAATTT
*
10891864 TTCCTTTTTCTTTCTTTCC
1 TTCCTTTTTCCTTCTTTCC
10891883 TTCCTTTTTCCTTCTTTCC
1 TTCCTTTTTCCTTCTTTCC
10891902 TTCC
1 TTCC
10891906 CTTGTTTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (19 bp):
TTCCTTTTTCCTTCTTTCC
Found at i:10893249 original size:23 final size:24
Alignment explanation
Indices: 10893208--10893257 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
10893198 TGGTTTGGAT
10893208 TATAAAACTTAGTTTTAAAAAATA
1 TATAAAACTTAGTTTTAAAAAATA
* *
10893232 TATAAAATTTA-TTTTAAATAATA
1 TATAAAACTTAGTTTTAAAAAATA
10893255 TAT
1 TAT
10893258 TTTAGGGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TATAAAACTTAGTTTTAAAAAATA
Done.