Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 21 of 135
Found at i:8539022 original size:9 final size:9
Alignment explanation
Indices: 8539008--8539065 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
8538998 TTTGGTTAAA
8539008 AATTAACCG
1 AATTAACCG
8539017 AATTAACCG
1 AATTAACCG
*
8539026 AATTACCCG
1 AATTAACCG
*
8539035 AATTACCCG
1 AATTAACCG
*
8539044 AATTACCCG
1 AATTAACCG
*
8539053 AATTAACCA
1 AATTAACCG
8539062 AATT
1 AATT
8539066 GAATCACTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:8539035 original size:18 final size:18
Alignment explanation
Indices: 8539008--8539065 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
8538998 TTTGGTTAAA
*
8539008 AATTAACCGAATTAACCG
1 AATTACCCGAATTAACCG
*
8539026 AATTACCCGAATTACCCG
1 AATTACCCGAATTAACCG
*
8539044 AATTACCCGAATTAACCA
1 AATTACCCGAATTAACCG
8539062 AATT
1 AATT
8539066 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:8539212 original size:18 final size:18
Alignment explanation
Indices: 8539172--8539215 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8539162 TAATTTTATG
**
8539172 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
8539190 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
8539208 CTTGGGTT
1 ATTGGGTT
8539216 TAGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:8540485 original size:14 final size:14
Alignment explanation
Indices: 8540466--8540514 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
8540456 CATGGCCGTG
8540466 TGTCACACACGAGC
1 TGTCACACACGAGC
*
8540480 TGTCACACA-AATG-
1 TGTCACACACGA-GC
*
8540493 TGTCACACACGTGC
1 TGTCACACACGAGC
8540507 TGTCACAC
1 TGTCACAC
8540515 GGTTGTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (14 bp):
TGTCACACACGAGC
Found at i:8540583 original size:29 final size:29
Alignment explanation
Indices: 8540463--8540574 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
8540453 CCACATGGCC
* **
8540463 GTGTGTCACACACGAGCTGTCACAC--AA
1 GTGTGTCACACACGGGCTGTCACACGGTT
* *
8540490 ATGTGTCACACACGTGCTGTCACACGGTT
1 GTGTGTCACACACGGGCTGTCACACGGTT
* *
8540519 GTGTGTCACACACGGGCTATCACATGGTT
1 GTGTGTCACACACGGGCTGTCACACGGTT
8540548 GTGTGTCACACACGGGCTGTCACACGG
1 GTGTGTCACACACGGGCTGTCACACGG
8540575 CCGCATGTCC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.32
29 50 0.68
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (29 bp):
GTGTGTCACACACGGGCTGTCACACGGTT
Found at i:8548370 original size:30 final size:30
Alignment explanation
Indices: 8548326--8548383 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8548316 CACAGTCTGG
*
8548326 CACATGGGCGTGTGTCCAACCCATGTGGCT
1 CACACGGGCGTGTGTCCAACCCATGTGGCT
* * *
8548356 CACACGGGCTTGTGTCCAGCCCGTGTGG
1 CACACGGGCGTGTGTCCAACCCATGTGG
8548384 AAATGCTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.22
Consensus pattern (30 bp):
CACACGGGCGTGTGTCCAACCCATGTGGCT
Found at i:8550215 original size:6 final size:6
Alignment explanation
Indices: 8550206--8550259 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
8550196 TAAGTCTAAG
* *
8550206 AAAATA AAAATA AAGCAACTA AAAACA AAAATA AAGATA AAAAT- AAAATA
1 AAAATA AAAATA AA--AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
8550256 AAAA
1 AAAA
8550260 CGAAATAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 5 0.12
6 27 0.68
7 2 0.05
8 2 0.05
9 4 0.10
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:8550477 original size:18 final size:18
Alignment explanation
Indices: 8550408--8550479 Score: 72
Period size: 18 Copynumber: 3.7 Consensus size: 18
8550398 AAAAAGGAAA
* * *
8550408 AAAATAAAATAGATTAGT
1 AAAATAAAATAAATAAAT
8550426 AAAATAAAACTAAATAATAT
1 AAAATAAAA-TAAATAA-AT
8550446 AATAGATAATAATAAATAAAT
1 AA-A-ATAA-AATAAATAAAT
8550467 AAAATAAAATAAA
1 AAAATAAAATAAA
8550480 GAAAAGTGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 15 0.33
19 9 0.20
20 4 0.09
21 5 0.11
22 11 0.24
23 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (18 bp):
AAAATAAAATAAATAAAT
Found at i:8562139 original size:48 final size:48
Alignment explanation
Indices: 8562080--8562327 Score: 158
Period size: 48 Copynumber: 5.0 Consensus size: 48
8562070 GAGTAAAGTG
8562080 ACCCTACTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
1 ACCCTACTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
* * * *
8562128 ACCCTGCTCCCAGATGA-ATAGGGGGAAGCTTATGGAAAGTAATATTATAAATAATATA
1 ACCCTACTCCCAGA-CACAT-GGGGGAGGCTTAT-G--A--AA-A--GT-AATAATATA
* * * * * * *
8562186 ACCCTACTCTCAAACACAT-GTGAAGACTTATGGAAAGTATTAATATA
1 ACCCTACTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
** * ** * ** *
8562233 GTCTTGTTCCCAGACGCATGATGGAGGCTTACGAAAAGTAATAATATA
1 ACCCTACTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
* * * * *
8562281 ACCCTACTCTCAAACACATGGGGAAGGCTTACGAAAAGTAACAATAT
1 ACCCTACTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATAT
8562328 TCTTGTATTT
Statistics
Matches: 146, Mismatches: 41, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
47 19 0.13
48 73 0.50
49 13 0.09
50 2 0.01
51 2 0.01
52 1 0.01
54 2 0.01
55 2 0.01
56 8 0.05
57 2 0.01
58 22 0.15
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (48 bp):
ACCCTACTCCCAGACACATGGGGGAGGCTTATGAAAAGTAATAATATA
Found at i:8563792 original size:18 final size:18
Alignment explanation
Indices: 8563769--8563806 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8563759 ACTATCAGCG
8563769 CTAGCCCAAGCGAGAGCC
1 CTAGCCCAAGCGAGAGCC
*
8563787 CTAGCCCAAGCGGGAGCC
1 CTAGCCCAAGCGAGAGCC
8563805 CT
1 CT
8563807 GAGGAAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.29, T:0.08
Consensus pattern (18 bp):
CTAGCCCAAGCGAGAGCC
Found at i:8568017 original size:9 final size:9
Alignment explanation
Indices: 8567993--8568029 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
8567983 TGGGTTTTCG
*
8567993 AATTCAAAT
1 AATTCGAAT
*
8568002 AACTCGAAT
1 AATTCGAAT
8568011 AATTCGAAT
1 AATTCGAAT
8568020 AATTCGAAT
1 AATTCGAAT
8568029 A
1 A
8568030 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:8570517 original size:23 final size:23
Alignment explanation
Indices: 8570469--8570517 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8570459 AAAAATGCTA
* **
8570469 TTTTCTCACTGTTTTGATGTTGT
1 TTTTCTCACTGATTTGATGTCAT
*
8570492 TTTTCTCACTGATTTGTTGTCAT
1 TTTTCTCACTGATTTGATGTCAT
8570515 TTT
1 TTT
8570518 ACTATAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.61
Consensus pattern (23 bp):
TTTTCTCACTGATTTGATGTCAT
Found at i:8575870 original size:20 final size:20
Alignment explanation
Indices: 8575833--8575869 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
8575823 GAAAAAATAA
8575833 GAAATATTTGGAAATTTTAG
1 GAAATATTTGGAAATTTTAG
*
8575853 GAAA-ATTTTGAAATTTT
1 GAAATATTTGGAAATTTT
8575870 TGGACTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (20 bp):
GAAATATTTGGAAATTTTAG
Found at i:8577014 original size:40 final size:40
Alignment explanation
Indices: 8576927--8577036 Score: 105
Period size: 40 Copynumber: 2.8 Consensus size: 40
8576917 AGATAAATAG
* * ** *
8576927 AACACACCAGACAGAAGCTCATAAAAGCTGATTTAACTAA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * * *
8576967 AATACACCAAACAGAAGCTCATAAGAGCTGGTCCACCCGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * *
8577007 AACACACC-AATAGAAGCTTATAGGAGCTGA
1 AACACACCAAACAGAAGCTCATAAGAGCTGA
8577037 ACAGAAGCTC
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 18 0.32
40 38 0.68
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (40 bp):
AACACACCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
Found at i:8577044 original size:21 final size:21
Alignment explanation
Indices: 8577018--8577078 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
8577008 ACACACCAAT
* *
8577018 AGAAGCTTATAGGAGCTGAAC
1 AGAAGCTCATAAGAGCTGAAC
* *
8577039 AGAAGCTCATAAGTGCTTAAC
1 AGAAGCTCATAAGAGCTGAAC
*
8577060 AAAAGCTCATAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
8577079 TCCACCCGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (21 bp):
AGAAGCTCATAAGAGCTGAAC
Found at i:8579748 original size:14 final size:15
Alignment explanation
Indices: 8579729--8579771 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
8579719 ATAAAATTAT
8579729 TAAATATATATATA-
1 TAAATATATATATAG
8579743 TAAATATATATATATG
1 TAAATATATATATA-G
*
8579759 TAAGTATATATAT
1 TAAATATATATAT
8579772 TTACAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
TAAATATATATATAG
Found at i:8579753 original size:16 final size:16
Alignment explanation
Indices: 8579732--8579771 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8579722 AAATTATTAA
8579732 ATATATATATATAAAT
1 ATATATATATATAAAT
* *
8579748 ATATATATATGTAAGT
1 ATATATATATATAAAT
8579764 ATATATAT
1 ATATATAT
8579772 TTACAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
ATATATATATATAAAT
Found at i:8579914 original size:3 final size:3
Alignment explanation
Indices: 8579906--8579959 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
8579896 GTAAATAAAA
* *
8579906 AAT AAT AAT AAT AAGGT AAGT AAT AAT AAT AAT GAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AA--T AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
8579954 AAT AAT
1 AAT AAT
8579960 GCTAAAACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 38 0.84
4 4 0.09
5 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8579956 original size:18 final size:18
Alignment explanation
Indices: 8579905--8579956 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
8579895 GGTAAATAAA
*
8579905 AAATAATAATAATAAGGT
1 AAATAATAATAATAATGT
*
8579923 AAGTAATAATAATAATG-
1 AAATAATAATAATAATGT
8579940 ACAATAATAATAATAAT
1 A-AATAATAATAATAAT
8579957 AATGCTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 1 0.03
18 29 0.97
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (18 bp):
AAATAATAATAATAATGT
Found at i:8583898 original size:21 final size:21
Alignment explanation
Indices: 8583844--8583946 Score: 111
Period size: 23 Copynumber: 4.8 Consensus size: 21
8583834 ATCAGTATAT
*
8583844 GACACAT-AAGTGCCTGAAAC
1 GACACATAAAGTGCCTGATAC
* * *
8583864 GACATATGATGTGCCTGATAC
1 GACACATAAAGTGCCTGATAC
8583885 -AGCACATAAAGTGCCTGAGATAC
1 GA-CACATAAAGTGCCT--GATAC
8583908 GACACATAAAGTGCCTGATGTAC
1 GACACATAAAGTGCCTGA--TAC
8583931 GACACATAAAGTGCCT
1 GACACATAAAGTGCCT
8583947 TATTGGCAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.10
21 24 0.34
23 38 0.54
24 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (21 bp):
GACACATAAAGTGCCTGATAC
Found at i:8583940 original size:46 final size:42
Alignment explanation
Indices: 8583844--8583946 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 42
8583834 ATCAGTATAT
* * *
8583844 GACACAT-AAGTGCCTGAAACGACATATGATGTGCCTGATAC
1 GACACATAAAGTGCCTGAAACGACACATAAAGTGCCTGATAC
8583885 -AGCACATAAAGTGCCTGAGATACGACACATAAAGTGCCTGATGTAC
1 GA-CACATAAAGTGCCTGA-A-ACGACACATAAAGTGCCTGA--TAC
8583931 GACACATAAAGTGCCT
1 GACACATAAAGTGCCT
8583947 TATTGGCAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
40 1 0.02
41 5 0.10
42 10 0.19
43 1 0.02
44 17 0.33
46 17 0.33
47 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (42 bp):
GACACATAAAGTGCCTGAAACGACACATAAAGTGCCTGATAC
Found at i:8584220 original size:36 final size:37
Alignment explanation
Indices: 8584142--8584238 Score: 92
Period size: 36 Copynumber: 2.6 Consensus size: 37
8584132 AACACATATA
* **
8584142 TTTCAAATCCACATTTCAATTC-AATTTCACTTTTTCAC
1 TTTC-AAT-CACAATTCAATTCAAATTTCACTTTCCCAC
*
8584180 TTTCAATCACAATTCAATTCAAATTT-ACTTTCCCAT
1 TTTCAATCACAATTCAATTCAAATTTCACTTTCCCAC
*
8584216 TTTCAAGTCA-ATATTCATTTCAA
1 TTTCAA-TCACA-ATTCAATTCAA
8584239 TTCCACACAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
36 26 0.51
37 21 0.41
38 4 0.08
ACGTcount: A:0.32, C:0.24, G:0.01, T:0.43
Consensus pattern (37 bp):
TTTCAATCACAATTCAATTCAAATTTCACTTTCCCAC
Found at i:8584312 original size:16 final size:17
Alignment explanation
Indices: 8584291--8584322 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8584281 TAATAATAAT
8584291 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
8584307 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
8584323 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:8590408 original size:16 final size:16
Alignment explanation
Indices: 8590387--8590421 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8590377 AGTCCTTGTA
8590387 ATTTTA-TCACTTTAAC
1 ATTTTAGTC-CTTTAAC
8590403 ATTTTAGTCCTTTAAC
1 ATTTTAGTCCTTTAAC
8590419 ATT
1 ATT
8590422 AAAATTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (16 bp):
ATTTTAGTCCTTTAAC
Found at i:8594308 original size:66 final size:66
Alignment explanation
Indices: 8594227--8594359 Score: 203
Period size: 66 Copynumber: 2.0 Consensus size: 66
8594217 GAATTCTCTT
** *
8594227 TTTGCACTCTATCCTCCTTGTGCTTATAATGTCTCTTCTTGCAAGTTTCTTAATAAAAAGAAAAG
1 TTTGCACTCTATCCTCCTCCTGCTTATAACGTCTCTTCTTGCAAGTTTCTTAATAAAAAGAAAAG
8594292 G
66 G
* * * *
8594293 TTTGCACTCTATCCTCGTCCTGCTTATCACGTCTCTTTTTGCAAGTTTCTTAATAAAGAGAAAAG
1 TTTGCACTCTATCCTCCTCCTGCTTATAACGTCTCTTCTTGCAAGTTTCTTAATAAAAAGAAAAG
8594358 G
66 G
8594359 T
1 T
8594360 GAGTTAATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (66 bp):
TTTGCACTCTATCCTCCTCCTGCTTATAACGTCTCTTCTTGCAAGTTTCTTAATAAAAAGAAAAG
G
Found at i:8600103 original size:93 final size:93
Alignment explanation
Indices: 8599990--8600266 Score: 437
Period size: 93 Copynumber: 3.0 Consensus size: 93
8599980 TCATGGTCCA
* *
8599990 CAGAAGAAATCATTTCAGAAGCAACCAGGCCCTCGCCACTGGGCTCAGTTTCTTTAGCTTGCATA
1 CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
* *
8600055 AAATGTTCGGCATGAGTTGTAACATCTG
66 AAATGTTCAGCATGAGTTGTAACACCTG
* *
8600083 CAGAAGAAATCATTTGAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGAATA
1 CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
8600148 AAATGTTCAGCATGAGTTGTAACACCTG
66 AAATGTTCAGCATGAGTTGTAACACCTG
* * * *
8600176 CAGAAGAAATCATTTTAGAAGCAACCTGGGCCTCAACACTGGCCTCAGTTTCTTTAGCTTGCATA
1 CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
** *
8600241 AAATGTTCCCCGTGAGTTGTAACACC
66 AAATGTTCAGCATGAGTTGTAACACC
8600267 ATGTAATGAC
Statistics
Matches: 170, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 170 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (93 bp):
CAGAAGAAATCATTTCAGAAGCAACCTGGCCCTCACCACTGGGCTCAGTTTCTTTAGCTTGCATA
AAATGTTCAGCATGAGTTGTAACACCTG
Found at i:8601729 original size:81 final size:81
Alignment explanation
Indices: 8601593--8601792 Score: 215
Period size: 81 Copynumber: 2.5 Consensus size: 81
8601583 CAGAAGGATA
** * * *
8601593 AGAACTTTCGGCAACACTACCAGCATTCAAACTACCCGCAAGCCTAACAGAAGTAGAACTCACTG
1 AGAACTTGAGGCAACACTACCAGCATTAAAACTAGCTGCAAGCCTAACAGAAGTAGAACTCACTG
* *** *
8601658 CAGCACTGGAAGCTTT
66 CAACACCCAAAGCATT
* * * * *
8601674 AGAACTTGAGGCAACGCTACCAGCATTAAAACAAGCTGC-AGCACTACCAGCAGTAGAACTCATT
1 AGAACTTGAGGCAACACTACCAGCATTAAAACTAGCTGCAAGC-CTAACAGAAGTAGAACTCACT
8601738 GCAACACCCAAAGCATT
65 GCAACACCCAAAGCATT
* *
8601755 AGAACTTGTA-GCAAAACTACCAGCATTTAAACTAGCTG
1 AGAACTTG-AGGCAACACTACCAGCATTAAAACTAGCTG
8601793 TAACACCATC
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 3 0.03
81 94 0.96
82 1 0.01
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (81 bp):
AGAACTTGAGGCAACACTACCAGCATTAAAACTAGCTGCAAGCCTAACAGAAGTAGAACTCACTG
CAACACCCAAAGCATT
Found at i:8601883 original size:27 final size:26
Alignment explanation
Indices: 8601814--8601936 Score: 72
Period size: 27 Copynumber: 4.6 Consensus size: 26
8601804 GCATTGATAA
*
8601814 CACTGGT-TTTCGAACTCCCTAAA-ATTC
1 CACTGGTGTTT-GAACTCGCTAAACA--C
* ** *
8601841 CACTGTTGTTCAAACTCGCTACGACAC
1 CACTGGTGTTTGAACTCGCTA-AACAC
* *
8601868 CACTGGTGTTTGAACTGGCTAAAGCAT
1 CACTGGTGTTTGAACTCGCTAAA-CAC
** *
8601895 CACTGGTACTTGAACTCACTAAAACAC
1 CACTGGTGTTTGAACTCGCT-AAACAC
8601922 CACTGG-GTGTTGAAC
1 CACTGGTGT-TTGAAC
8601937 GCACTGCAAC
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
26 1 0.01
27 64 0.89
28 6 0.08
29 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (26 bp):
CACTGGTGTTTGAACTCGCTAAACAC
Found at i:8606110 original size:16 final size:16
Alignment explanation
Indices: 8606091--8606135 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8606081 AATAGGGCCA
8606091 TAATGAAATAGAGATG
1 TAATGAAATAGAGATG
* *
8606107 TAATGAAATGGAGTTG
1 TAATGAAATAGAGATG
* *
8606123 TACTAAAATAGAG
1 TAATGAAATAGAG
8606136 TTATAATCAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (16 bp):
TAATGAAATAGAGATG
Found at i:8606136 original size:16 final size:16
Alignment explanation
Indices: 8606091--8606142 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
8606081 AATAGGGCCA
* *
8606091 TAATGAAATAGAGATG
1 TAATAAAATAGAGTTG
* *
8606107 TAATGAAATGGAGTTG
1 TAATAAAATAGAGTTG
* *
8606123 TACTAAAATAGAGTTA
1 TAATAAAATAGAGTTG
8606139 TAAT
1 TAAT
8606143 CAGTAATTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.31
Consensus pattern (16 bp):
TAATAAAATAGAGTTG
Found at i:8606626 original size:69 final size:68
Alignment explanation
Indices: 8606545--8606680 Score: 245
Period size: 69 Copynumber: 2.0 Consensus size: 68
8606535 ATACATTAAC
* *
8606545 AAAAAGTTACATGATCTCGTTAGCTTATATGCCATAATCTATATGTTAAATTTTATAGCATCAAA
1 AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCAT-AAA
8606610 AAAT
65 AAAT
8606614 AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCATAAAA
1 AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCATAAAA
8606679 AA
66 AA
8606681 GTTATAACAG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 6 0.09
69 59 0.91
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (68 bp):
AAAAAGTTACATGATCTCATTAGCTTATATGCCATAATCTATATGTTAAATTTTACAGCATAAAA
AAT
Found at i:8611053 original size:9 final size:9
Alignment explanation
Indices: 8611035--8611089 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
8611025 CGAAGAAACA
*
8611035 TCATCATCC
1 TCATCGTCC
8611044 TCATCGTCC
1 TCATCGTCC
* *
8611053 TCAACGTCG
1 TCATCGTCC
8611062 TCATCGTCC
1 TCATCGTCC
*
8611071 TCATCGTCT
1 TCATCGTCC
8611080 TCATCGTCC
1 TCATCGTCC
8611089 T
1 T
8611090 TTTTGCAACC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.15, C:0.40, G:0.11, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:8611976 original size:19 final size:19
Alignment explanation
Indices: 8611947--8612000 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
8611937 TATTTTTTCC
8611947 AAAAATT-TTATAAAAATT
1 AAAAATTATTATAAAAATT
**
8611965 AAAAATTATTATGAAATCTT
1 AAAAATTATTAT-AAAAATT
8611985 AAAAA-TA-TATAAAAAT
1 AAAAATTATTATAAAAAT
8612001 GCTAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.13
18 10 0.33
19 6 0.20
20 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTATTATAAAAATT
Found at i:8614241 original size:11 final size:11
Alignment explanation
Indices: 8614210--8614247 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
8614200 AGGCAACAAC
8614210 AACAGATTATA
1 AACAGATTATA
*
8614221 AAGAAGATTATA
1 AA-CAGATTATA
8614233 AACAGATTATA
1 AACAGATTATA
8614244 AACA
1 AACA
8614248 AAAGACATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.58, C:0.08, G:0.11, T:0.24
Consensus pattern (11 bp):
AACAGATTATA
Found at i:8616672 original size:21 final size:21
Alignment explanation
Indices: 8616646--8616691 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
8616636 GTTTCTAATT
*
8616646 TCACCGCTACAGTACCCAATC
1 TCACCGCTACAGTAACCAATC
*
8616667 TCACCGCTACAGTAACTAATC
1 TCACCGCTACAGTAACCAATC
8616688 TCAC
1 TCAC
8616692 TGCCACCGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.22
Consensus pattern (21 bp):
TCACCGCTACAGTAACCAATC
Found at i:8630742 original size:31 final size:34
Alignment explanation
Indices: 8630689--8630759 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
8630679 AGAGGATTTT
*
8630689 GATTTTTGGGTTTAAAAGGGGA-G-AAA-TAAAA
1 GATTTTTGGGGTTAAAAGGGGAGGAAAAGTAAAA
8630720 GATTTTTGGGAGTTAAAA-GGGAGGAAAAGTAAAA
1 GATTTTTGGG-GTTAAAAGGGGAGGAAAAGTAAAA
8630754 -ATTTTT
1 GATTTTT
8630760 TGAGGTAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
31 14 0.40
32 7 0.20
33 9 0.26
34 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (34 bp):
GATTTTTGGGGTTAAAAGGGGAGGAAAAGTAAAA
Found at i:8638022 original size:22 final size:21
Alignment explanation
Indices: 8637997--8638043 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
8637987 AGACTAATTT
*
8637997 AAATAATAAAAATCTAAAAAAC
1 AAAT-ATAAAAATATAAAAAAC
**
8638019 AAAT-TGTAAATATAAAAAAC
1 AAATATAAAAATATAAAAAAC
8638039 AAATA
1 AAATA
8638044 GAATGTCGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 17 0.81
22 4 0.19
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATATAAAAATATAAAAAAC
Found at i:8642806 original size:20 final size:20
Alignment explanation
Indices: 8642783--8642893 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
8642773 GGTCGAGCCA
8642783 CCAGTAATGCAAATAAACTG
1 CCAGTAATGCAAATAAACTG
* * **
8642803 CCAGTAGTGTAGAA-AAGTTG
1 CCAGTAATGCA-AATAAACTG
* *
8642823 CCAGTATTGCAGATAAACTG
1 CCAGTAATGCAAATAAACTG
*** * * *
8642843 CCAGTAATG-TGGTCAAGTCA
1 CCAGTAATGCAAATAAACT-G
*
8642863 CCAGTGATGCAAATAAACTG
1 CCAGTAATGCAAATAAACTG
8642883 CCAGTAATGCA
1 CCAGTAATGCA
8642894 GACAAGGCTA
Statistics
Matches: 64, Mismatches: 23, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
19 6 0.09
20 52 0.81
21 6 0.09
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (20 bp):
CCAGTAATGCAAATAAACTG
Found at i:8642827 original size:40 final size:40
Alignment explanation
Indices: 8642781--8642891 Score: 141
Period size: 40 Copynumber: 2.8 Consensus size: 40
8642771 GTGGTCGAGC
*
8642781 CACCAGTAATGCAAATAAACTGCCAGTAGTGTAGAAAAGT
1 CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
** * * * **
8642821 TGCCAGTATTGCAGATAAACTGCCAGTAATGTGGTCAAGT
1 CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
*
8642861 CACCAGTGATGCAAATAAACTGCCAGTAATG
1 CACCAGTAATGCAAATAAACTGCCAGTAATG
8642892 CAGACAAGGC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGTAATGCAAATAAACTGCCAGTAATGTAGAAAAGT
Found at i:8645624 original size:31 final size:31
Alignment explanation
Indices: 8645554--8646038 Score: 604
Period size: 31 Copynumber: 15.7 Consensus size: 31
8645544 GTATATGTTT
* *
8645554 TATACATTGCCAAATTTGATTTGTTTATAGATA
1 TATACATTGCCGAATTTGATTTGTATATAG--A
* * * *
8645587 TATACATTGCCAAAATTGATTTTTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
8645618 TATACATTGCCGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
8645649 TATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
8645680 TATACATTGCCGAATTTGATTTGTATAT-GA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * ** *
8645710 TTGTACATTGTCGAATTTGATTTGTATAGGGT
1 -TATACATTGCCGAATTTGATTTGTATATAGA
*
8645742 TATACATTGCCGAATTTGATTTGCATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
**
8645773 TATACATTGTGGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * * *
8645803 TATAAATTGCCTAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
8645834 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
8645865 TATACGTTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
8645895 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
8645926 TATACATTG-CGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
8645956 TATACGTTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
8645986 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
8646017 TATATATTGCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
8646039 AGCATTGGAT
Statistics
Matches: 397, Mismatches: 49, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
30 117 0.29
31 251 0.63
32 1 0.00
33 28 0.07
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:8645821 original size:61 final size:62
Alignment explanation
Indices: 8645554--8646038 Score: 613
Period size: 61 Copynumber: 7.9 Consensus size: 62
8645544 GTATATGTTT
* * * * * * *
8645554 TATACATTGCCAAATTTGATTTGTTTATAGATATATACATTGCCAAAATTGATTTTTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAG--ATATACATTGCCGAATTTGATTTGTATATGGA
* * * *
8645618 TATACATTGCCGAATTTGAATTGTTTATAGATATACATTGTCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGA
* * * *
8645680 TATACATTGCCGAATTTGATTTGTATAT-GATTGTACATTGTCGAATTTGATTTGTATAGGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA-TATACATTGCCGAATTTGATTTGTATATGGA
* ** *
8645742 TATACATTGCCGAATTTGATTTGCATATAGATATACATTGTGGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGA
* * * *
8645803 TATAAATTGCCTAATTTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGA
* *
8645865 TATACGTTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGA
* * *
8645926 TATACATTG-CGAATTTGATTTGTATATGGATATACGTTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGA
* * * *
8645986 TATACATTGCCGAATTTGATTCGTATATGGATATATATTGCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTG
8646039 AGCATTGGAT
Statistics
Matches: 374, Mismatches: 42, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
60 27 0.07
61 172 0.46
62 145 0.39
63 2 0.01
64 28 0.07
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (62 bp):
TATACATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATGGA
Found at i:8645838 original size:92 final size:92
Alignment explanation
Indices: 8645543--8646038 Score: 665
Period size: 92 Copynumber: 5.4 Consensus size: 92
8645533 TGAATTTAAA
* * * * *
8645543 TGTATATGTTTTATACATTGCCAAATTTGATTTGTTTATAGATATATACATTGCCAAAATTGATT
1 TGTATATG-GTTATACATTGCCGAATTTGATTTGTATAT-G-GATATACATTGCC-GAATTGATT
* * *
8645608 TTTTTATAGATATACATTGCCGAATTTGAAT
62 TGTATATAGATATACATTGCCGAATTTGATT
* * * * *
8645639 TGTTTATAGATATACATTGTCGAATTTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGT
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAA-TTGATTTGT
* *
8645704 ATAT-GATTGTACATTGTCGAATTTGATT
65 ATATAGA-TATACATTGCCGAATTTGATT
* * * **
8645732 TGTATAGGGTTATACATTGCCGAATTTGATTTGCATATAGATATACATTGTGGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
* *
8645797 TATAGATATAAATTGCCTAATTTGATT
66 TATAGATATACATTGCCGAATTTGATT
*
8645824 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACGTTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
8645889 TATAGATATACATTGCCGAATTTGATT
66 TATAGATATACATTGCCGAATTTGATT
*
8645916 TGTATATGGTTATACATTG-CGAATTTGATTTGTATATGGATATACGTTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
8645980 TATAGATATACATTGCCGAATTTGATT
66 TATAGATATACATTGCCGAATTTGATT
* * * *
8646007 CGTATATGGATATATATTGCTGAA-TTGATTTG
1 TGTATATGGTTATACATTGCCGAATTTGATTTG
8646039 AGCATTGGAT
Statistics
Matches: 355, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
91 96 0.27
92 140 0.39
93 87 0.25
94 1 0.00
95 25 0.07
96 6 0.02
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.44
Consensus pattern (92 bp):
TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTGATTTGTA
TATAGATATACATTGCCGAATTTGATT
Found at i:8650923 original size:43 final size:43
Alignment explanation
Indices: 8650872--8650970 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
8650862 TAGAAACAAA
* * *
8650872 CGCCGCTAAAGGTCACGGCCTTTAGCGGCGTTTGTGAATTGAG
1 CGCCGCTAAAGGTCAAGCCCTTTAGCGGCGTTTGTGAATTAAG
* **
8650915 CGCCGCTAAAAGTCAAGCCCTTTAGCGGCGTTTGTGGCTTAAG
1 CGCCGCTAAAGGTCAAGCCCTTTAGCGGCGTTTGTGAATTAAG
8650958 CGCCGCTAAAGGT
1 CGCCGCTAAAGGT
8650971 TATTATCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGGTCAAGCCCTTTAGCGGCGTTTGTGAATTAAG
Found at i:8651044 original size:43 final size:43
Alignment explanation
Indices: 8650977--8651355 Score: 187
Period size: 43 Copynumber: 8.8 Consensus size: 43
8650967 AGGTTATTAT
** *
8650977 CTTTAGCGGCGCTTAAACCTA-AAACGCCGCTAAAGAGCTTGAC
1 CTTTAGCGGCGCTTTCA-CTACAAACGCCGCTAAATAGCTTGAC
* * * *
8651020 CTTTAGCGGCGCTTTCACTAAAAACACCGC-AAAAAACATT-AGC
1 CTTTAGCGGCGCTTTCACTACAAACGCCGCTAAATAGC-TTGA-C
* * * * * * *
8651063 CTATAGCGGCGCTTT-ATTTACAAATGCCACTAGATACCTTAAC
1 CTTTAGCGGCGCTTTCA-CTACAAACGCCGCTAAATAGCTTGAC
* * * *
8651106 CTTTAGCGGCGCTTTGACCACAAACGCCGCTAAA-AACTCTGATT
1 CTTTAGCGGCGCTTTCACTACAAACGCCGCTAAATAGCT-TGA-C
*
8651150 TTTTAGCGGCGCTTTCACTACAAACGCCGC-AAATA-CATT-AGC
1 CTTTAGCGGCGCTTTCACTACAAACGCCGCTAAATAGC-TTGA-C
* * * * * *
8651192 CTATAGCGGCGCTTT-ATTTTCAAATGCCACTATATATG-TTGAC
1 CTTTAGCGGCGCTTTCA-CTACAAACGCCGCTAAATA-GCTTGAC
** *
8651235 CTTTAGCGGCGCTTTGGGC-ACAAACGCCGCTAAA-AGACCTTG-G
1 CTTTAGCGGCGCTTT-CACTACAAACGCCGCTAAATAG--CTTGAC
* * * * *
8651278 TTTTAGCGACGCTTTTCA-TAAAAACGCCACTAAAT-GCATTAAC
1 CTTTAGCGGCGC-TTTCACTACAAACGCCGCTAAATAGC-TTGAC
* *
8651321 CTTTAGCGGCACTTTTC-CCACAAACGCCGCTAAAT
1 CTTTAGCGGCGC-TTTCACTACAAACGCCGCTAAAT
8651356 TGAGCAGCTT
Statistics
Matches: 252, Mismatches: 57, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
41 3 0.01
42 39 0.15
43 168 0.67
44 42 0.17
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTCACTACAAACGCCGCTAAATAGCTTGAC
Found at i:8651295 original size:129 final size:129
Alignment explanation
Indices: 8650977--8651335 Score: 424
Period size: 129 Copynumber: 2.8 Consensus size: 129
8650967 AGGTTATTAT
** *
8650977 CTTTAGCGGCGCTTAAACCTA-AAACGCCGCT-AAAGAGCTTGACCTTTAGCGGCGCTTTCACTA
1 CTTTAGCGGCGCTTTGACC-ACAAACGCCGCTAAAAGA-CTTGACTTTTAGCGGCGCTTTCACTA
* *
8651040 AAAACACCGCAAAAAACATTAGCCTATAGCGGCGCTTTATTTACAAATGCCACTAGATACCTTAA
64 AAAACGCCGCAAAATACATTAGCCTATAGCGGCGCTTTATTTACAAATGCCACTAGATACCTTAA
8651105 C
129 C
*
8651106 CTTTAGCGGCGCTTTGACCACAAACGCCGCTAAAA-ACTCTGATTTTTTAGCGGCGCTTTCACTA
1 CTTTAGCGGCGCTTTGACCACAAACGCCGCTAAAAGACT-TGA-CTTTTAGCGGCGCTTTCACTA
* * * ** *
8651170 CAAACGCCGC-AAATACATTAGCCTATAGCGGCGCTTTATTTTCAAATGCCACTATATATGTTGA
64 AAAACGCCGCAAAATACATTAGCCTATAGCGGCGCTTTATTTACAAATGCCACTAGATACCTTAA
8651234 C
129 C
** * *
8651235 CTTTAGCGGCGCTTTGGGCACAAACGCCGCTAAAAGACCTTG-GTTTTAGCGACGCTTTTCA-TA
1 CTTTAGCGGCGCTTTGACCACAAACGCCGCTAAAAGA-CTTGACTTTTAGCGGCGC-TTTCACTA
* * * * * *
8651298 AAAACGCCACTAAATGCATTAACCTTTAGCGGCACTTT
64 AAAACGCCGCAAAATACATTAGCCTATAGCGGCGCTTT
8651336 TCCCACAAAC
Statistics
Matches: 200, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
128 24 0.12
129 141 0.70
130 33 0.17
131 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTGACCACAAACGCCGCTAAAAGACTTGACTTTTAGCGGCGCTTTCACTAAA
AACGCCGCAAAATACATTAGCCTATAGCGGCGCTTTATTTACAAATGCCACTAGATACCTTAAC
Found at i:8659982 original size:86 final size:84
Alignment explanation
Indices: 8659879--8660036 Score: 253
Period size: 86 Copynumber: 1.9 Consensus size: 84
8659869 AAAACCAAAT
*
8659879 GCCGCTAAGTACATTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCACCAATCAAA
1 GCCGCTAAATACATTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCC-CCAA-CAAA
8659944 TAGCGGCGCTATGATAGAAAC
64 TAGCGGCGCTATGATAGAAAC
* * * *
8659965 GCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGCCACTATCACCCTCAACCAATA
1 GCCGCTAAATACATTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACAAATA
8660030 GCGGCGC
66 GCGGCGC
8660037 ATACATAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
84 12 0.18
85 3 0.04
86 52 0.78
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (84 bp):
GCCGCTAAATACATTAACATTAGTGGCGATTGACCAAAACACGCCACTATCACCCCCAACAAATA
GCGGCGCTATGATAGAAAC
Found at i:8660166 original size:125 final size:125
Alignment explanation
Indices: 8659944--8660286 Score: 578
Period size: 125 Copynumber: 2.7 Consensus size: 125
8659934 ACCAATCAAA
*
8659944 TAGCGGCGCTATGATAGAAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGC
1 TAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGC
* *
8660009 CACTATCACCCTCAACCAATAGCGGCGCATACATAAAAACGCCAGTAAAATTCACAACAG
66 CACTATCACCCCCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATTCACAACAG
8660069 TAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGC
1 TAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGC
* *
8660134 CACTATCACCCCCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATTCCCAACAT
66 CACTATCACCCCCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATTCACAACAG
* * * *
8660194 TAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAATATTAGTGGCGATTTACTAGAAAACGC
1 TAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGC
* * *
8660259 CACTATCACCACCAACCGATAGTGGCGC
66 CACTATCACCCCCAACCAATAGCGGCGC
8660287 TAAGAGAAAA
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 206 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.18
Consensus pattern (125 bp):
TAGCGGCGCTAGGATAGAAACGCCGCTAAATACCTTAACATTAGTGGCGATTGACCAGAACACGC
CACTATCACCCCCAACCAATAGCGGCGCATACATAAAAACGCCAGGAAAATTCACAACAG
Found at i:8660215 original size:41 final size:40
Alignment explanation
Indices: 8660028--8660217 Score: 114
Period size: 41 Copynumber: 4.6 Consensus size: 40
8660018 CCTCAACCAA
* * * *
8660028 TAGCGGCGCATACATAAAAACGCCAGTAAAATTCACAACAG
1 TAGCGGCGC-TAGATAGAAACGCCAGTAAAATTCCCAACAT
* *
8660069 TAGCGGCGCTAGGATAGAAACGCC-GCT-AAATACCTTAACAT
1 TAGCGGCGCTA-GATAGAAACGCCAG-TAAAATTCC-CAACAT
* * * * * ** ** *
8660110 TAGTGGCGATTGACCAGAACACGCCACTATCACCCCCAACCAA
1 TAGCGGCGCTAGA-TAGAA-ACGCCAGTAAAATTCCCAA-CAT
* * *
8660153 TAGCGGCGCATACATAAAAACGCCAGGAAAATTCCCAACAT
1 TAGCGGCGC-TAGATAGAAACGCCAGTAAAATTCCCAACAT
8660194 TAGCGGCGCTAGGATAGAAACGCC
1 TAGCGGCGCTA-GATAGAAACGCC
8660218 GCTAAATACC
Statistics
Matches: 107, Mismatches: 32, Indels: 20
0.67 0.20 0.13
Matches are distributed among these distances:
40 12 0.11
41 57 0.53
42 21 0.20
43 15 0.14
44 2 0.02
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.15
Consensus pattern (40 bp):
TAGCGGCGCTAGATAGAAACGCCAGTAAAATTCCCAACAT
Found at i:8663478 original size:43 final size:43
Alignment explanation
Indices: 8663309--8663481 Score: 156
Period size: 43 Copynumber: 4.1 Consensus size: 43
8663299 CATAGGATTT
* * * *
8663309 TCGATATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGTA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * * * * ** *
8663352 TCGATTTATGTTTACGTGTAAGACCATGTCTGGGATATTGTCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
* * *
8663395 TCG-TATTTGATT-CGTGTAAGACC-CTGTCTGGGATAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTAGGA-CGTTGGCA
*
8663436 TCGATATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
8663479 TCG
1 TCG
8663482 TACGAGCCTT
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 26 0.25
42 15 0.15
43 61 0.59
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCA
Found at i:8682698 original size:215 final size:214
Alignment explanation
Indices: 8682327--8682760 Score: 789
Period size: 215 Copynumber: 2.0 Consensus size: 214
8682317 TTTGGATATG
*
8682327 ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGACATGTTATTATAGAGTAATTAGTGTATAT
1 ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
* *
8682392 ATATGGTCCAATTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAGGGTAATTACAT
66 ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAAGGTAATTACAT
*
8682457 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAGGTTTAT
131 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTT-T
* *
8682522 TGGGCTTTATTTTTTAAATA
195 TGGGCTTTAATTATTAAATA
8682542 ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
1 ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
*
8682607 ATATGGTCCAAGTGGGAGATTGTTGGAAAGTATGGACATCACATATATAATAAAGGTAATTACAT
66 ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAAGGTAATTACAT
8682672 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTTT
131 GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTTT
8682737 GGGCTTTAATTATTAAATA
196 GGGCTTTAATTATTAAATA
8682756 A-AGTA
1 ATAGTA
8682761 TGGGTCAAAT
Statistics
Matches: 212, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
213 4 0.02
214 20 0.09
215 188 0.89
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (214 bp):
ATAGTAAAATTTTGAGCTTATAAGGTTATATAATGACATGTAATTATAGAGTAATTAGTGTATAT
ATATGGTCCAAGTGGGAGATAGTTGGAAAGTATGGACATCACATATATAATAAAGGTAATTACAT
GTTATTATTTACTATCATAATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGATTAAGGTTTTT
GGGCTTTAATTATTAAATA
Found at i:8685137 original size:70 final size:71
Alignment explanation
Indices: 8685048--8685189 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 71
8685038 TAATTGATAT
8685048 ATTTATATGAATTTAAGAATATTTTTTATTAATATATTTTATTTGGATGTTTTTTACTTTTATTG
1 ATTTATATGAATTTAAGAATATTTTTTATTAATATATTTTATTTGGATGTTTTTTACTTTTATTG
8685113 TTAAAC
66 TTAAAC
8685119 ATTTATATG-ATTTAAGAATATTTTTTATTAATATATTTTATTTGGATGTTTTTTACTTTTATTG
1 ATTTATATGAATTTAAGAATATTTTTTATTAATATATTTTATTTGGATGTTTTTTACTTTTATTG
8685183 TTAAAC
66 TTAAAC
8685189 A
1 A
8685190 ATTTTTAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 62 0.87
71 9 0.13
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (71 bp):
ATTTATATGAATTTAAGAATATTTTTTATTAATATATTTTATTTGGATGTTTTTTACTTTTATTG
TTAAAC
Found at i:8691935 original size:129 final size:129
Alignment explanation
Indices: 8691705--8691965 Score: 441
Period size: 129 Copynumber: 2.0 Consensus size: 129
8691695 CGTCGGGACT
* * * * *
8691705 GAGCCATAGAATGATACATTAGAAAATAGAACACTTATATACTTTTAACGGATAATTTGAATCGA
1 GAGCCATAGAATGATACAGTACAAAACAAAACACTTATAGACTTTTAACGGATAATTTGAATCGA
*
8691770 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAATAC
66 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
* *
8691834 GAGCCATATAATGCTACAGTACAAAACAAAACACTTATAGACTTTTAACGGATAATTTGAATCGA
1 GAGCCATAGAATGATACAGTACAAAACAAAACACTTATAGACTTTTAACGGATAATTTGAATCGA
*
8691899 AAATAATTAACTATCATAATATGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
66 AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
8691963 GAG
1 GAG
8691966 TTTACGTGAG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.28
Consensus pattern (129 bp):
GAGCCATAGAATGATACAGTACAAAACAAAACACTTATAGACTTTTAACGGATAATTTGAATCGA
AAATAATTAACTATCATAATACGAATCACACATAACAAATTTAAACCTTTATCGAGCTTAACAC
Found at i:8692230 original size:138 final size:138
Alignment explanation
Indices: 8691982--8692396 Score: 794
Period size: 138 Copynumber: 3.0 Consensus size: 138
8691972 TGAGCTCTAA
* *
8691982 AGCTAACCTAAAATCGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
1 AGCTAACCTGAAATTGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
8692047 TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCTGTTC
66 TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCTGTTC
8692112 AATGTTGC
131 AATGTTGC
8692120 AGCTAACCTGAAATTGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
1 AGCTAACCTGAAATTGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
8692185 TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCTGTTC
66 TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCTGTTC
8692250 AATGTTGC
131 AATGTTGC
8692258 AGCTAACCTGAAATTGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
1 AGCTAACCTGAAATTGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
* *
8692323 TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCCGCTC
66 TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCTGTTC
8692388 AATGTTGC
131 AATGTTGC
8692396 A
1 A
8692397 ACATCACTCA
Statistics
Matches: 273, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 273 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (138 bp):
AGCTAACCTGAAATTGAACAAGGACCAATCTGCAAAGGTTTTAAAAGTTCACAACGACATCGTGA
TGTTAGGGAGTTCTTCGTCGCGACGTCACCAAAATAGTTTGTCACGTCACGGCATCCATCTGTTC
AATGTTGC
Found at i:8696808 original size:15 final size:15
Alignment explanation
Indices: 8696784--8696815 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8696774 CCAATTGGAC
*
8696784 GAGGATGGAGTATAT
1 GAGGAAGGAGTATAT
8696799 GAGGAAGGAGTATAT
1 GAGGAAGGAGTATAT
8696814 GA
1 GA
8696816 ACAATGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.22
Consensus pattern (15 bp):
GAGGAAGGAGTATAT
Found at i:8698923 original size:13 final size:13
Alignment explanation
Indices: 8698907--8698951 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8698897 TTTTTATTTT
8698907 TATTTTAAATATA
1 TATTTTAAATATA
* *
8698920 TATTTTTAAGACT-
1 TATTTTAAATA-TA
8698933 TATTTTAAATATA
1 TATTTTAAATATA
8698946 TATTTT
1 TATTTT
8698952 TAAGACTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:8698935 original size:26 final size:26
Alignment explanation
Indices: 8698906--8698965 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
8698896 TTTTTTATTT
8698906 TTATTTTAAATATATATTTTTAAGAC
1 TTATTTTAAATATATATTTTTAAGAC
8698932 TTATTTTAAATATATATTTTTAAGAC
1 TTATTTTAAATATATATTTTTAAGAC
8698958 TTATTTTA
1 TTATTTTA
8698966 TTTTTGGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (26 bp):
TTATTTTAAATATATATTTTTAAGAC
Found at i:8698962 original size:13 final size:13
Alignment explanation
Indices: 8698920--8698964 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8698910 TTTAAATATA
8698920 TATTTTTAAGACT
1 TATTTTTAAGACT
* *
8698933 TATTTTAAATA-T
1 TATTTTTAAGACT
8698945 ATATTTTTAAGACT
1 -TATTTTTAAGACT
8698959 TATTTT
1 TATTTT
8698965 ATTTTTGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (13 bp):
TATTTTTAAGACT
Found at i:8699749 original size:15 final size:15
Alignment explanation
Indices: 8699729--8699762 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
8699719 GTACTAATCT
8699729 ATTTAGGTGTATATA
1 ATTTAGGTGTATATA
8699744 ATTTAGGTGTATATA
1 ATTTAGGTGTATATA
8699759 ATTT
1 ATTT
8699763 CTAGCTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (15 bp):
ATTTAGGTGTATATA
Found at i:8701405 original size:17 final size:18
Alignment explanation
Indices: 8701366--8701399 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8701356 GTGGTCAAAC
8701366 AATA-TAATAGAATAATA
1 AATATTAATAGAATAATA
8701383 AATATTAATA-AATAATA
1 AATATTAATAGAATAATA
8701400 TTTATTGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AATATTAATAGAATAATA
Found at i:8712406 original size:25 final size:25
Alignment explanation
Indices: 8712377--8712528 Score: 87
Period size: 25 Copynumber: 6.0 Consensus size: 25
8712367 AAAGTAAACA
8712377 CAAATCCTCTAGAAAGCCTTTGTGG
1 CAAATCCTCTAGAAAGCCTTTGTGG
* * * * *
8712402 CAAATACTTTGGAAATCCTTTATGG
1 CAAATCCTCTAGAAAGCCTTTGTGG
* *
8712427 CAAA-CACACTAGAAAGCTTTTGTGG
1 CAAATC-CTCTAGAAAGCCTTTGTGG
** * * * *
8712452 TGAATACTTTGGAGTA-CCTTTGTGG
1 CAAATCCTCTAGA-AAGCCTTTGTGG
*
8712477 CGAAAT-CTCTGGAAAGCCTTTGTGG
1 C-AAATCCTCTAGAAAGCCTTTGTGG
8712502 CAAACTCTTTCTCTAG-AAGCCTTTGTG
1 CAAA-TC---CTCTAGAAAGCCTTTGTG
8712529 TCGTGTTACC
Statistics
Matches: 92, Mismatches: 25, Indels: 17
0.69 0.19 0.13
Matches are distributed among these distances:
24 4 0.04
25 68 0.74
26 4 0.04
28 11 0.12
29 5 0.05
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (25 bp):
CAAATCCTCTAGAAAGCCTTTGTGG
Found at i:8715031 original size:4 final size:4
Alignment explanation
Indices: 8714989--8715045 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
8714979 TCGATTGGAA
* * * * *
8714989 AATT ATTT AATT GATA AATT AATTT AGTT AATTT GATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AA-TT AATT AA-TT AATT AATT AATT AATT
8715039 AATT AAT
1 AATT AAT
8715046 ATTTAGTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
4 35 0.85
5 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (4 bp):
AATT
Found at i:8718139 original size:6 final size:6
Alignment explanation
Indices: 8718128--8718156 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8718118 GGTTCTCTCC
8718128 AAAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAAT
8718157 TGACCTAAAA
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:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:8720304 original size:27 final size:27
Alignment explanation
Indices: 8720274--8720325 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
8720264 TAAATAAAAG
8720274 AACAT-AAATT-AAGAATTAAATTAAATT
1 AACATAAAATTAAAG-A-TAAATTAAATT
8720301 AACATAAAATTAAAGATAAATTAAA
1 AACATAAAATTAAAGATAAATTAAA
8720326 ATCAAACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 14 0.61
28 6 0.26
29 3 0.13
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (27 bp):
AACATAAAATTAAAGATAAATTAAATT
Found at i:8729597 original size:21 final size:21
Alignment explanation
Indices: 8729552--8729597 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8729542 CTACACGGGT
**
8729552 GTGTGTAGCCTTCACATGGGT
1 GTGTGTAGCCTTCACATGGAC
*
8729573 GTGTGTGGCCTTCACATGGAC
1 GTGTGTAGCCTTCACATGGAC
8729594 GTGT
1 GTGT
8729598 AGACCCCCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.20, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGTGTAGCCTTCACATGGAC
Found at i:8729597 original size:23 final size:21
Alignment explanation
Indices: 8729548--8729591 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8729538 CCCTCTACAC
8729548 GGGTGTGTGTAGCCTTCACAT
1 GGGTGTGTGTAGCCTTCACAT
*
8729569 GGGTGTGTGTGGCCTTCACAT
1 GGGTGTGTGTAGCCTTCACAT
8729590 GG
1 GG
8729592 ACGTGTAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.39, T:0.32
Consensus pattern (21 bp):
GGGTGTGTGTAGCCTTCACAT
Found at i:8731466 original size:16 final size:16
Alignment explanation
Indices: 8731432--8731466 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8731422 TTTATTCTTC
*
8731432 ATTTATTATATTCTGT
1 ATTTATTATATTCTAT
*
8731448 ATTTATTATATTTTAT
1 ATTTATTATATTCTAT
8731464 ATT
1 ATT
8731467 ATAATTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (16 bp):
ATTTATTATATTCTAT
Found at i:8733661 original size:21 final size:21
Alignment explanation
Indices: 8733637--8733682 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
8733627 CCCTCTACAC
*
8733637 GGGTGTGTGTAGCCTTCACAT
1 GGGTATGTGTAGCCTTCACAT
*
8733658 GGGTATGTGTGGCCTTCACAT
1 GGGTATGTGTAGCCTTCACAT
8733679 GGGT
1 GGGT
8733683 TTGTAGACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.37, T:0.33
Consensus pattern (21 bp):
GGGTATGTGTAGCCTTCACAT
Found at i:8741237 original size:20 final size:21
Alignment explanation
Indices: 8741202--8741243 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
8741192 CTACAACTAG
* *
8741202 TAGTTGCAGAAAAAATGTCAT
1 TAGTTACAGAAAAAATGACAT
8741223 TAGTTACAG-AAAAATGACAT
1 TAGTTACAGAAAAAATGACAT
8741243 T
1 T
8741244 CCTTTAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.29
Consensus pattern (21 bp):
TAGTTACAGAAAAAATGACAT
Found at i:8744867 original size:15 final size:16
Alignment explanation
Indices: 8744847--8744876 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8744837 TGGAAAAGTC
8744847 AAAATTA-TTTATTTT
1 AAAATTATTTTATTTT
8744862 AAAATTATTTTATTT
1 AAAATTATTTTATTT
8744877 AAATTCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AAAATTATTTTATTTT
Found at i:8744904 original size:43 final size:43
Alignment explanation
Indices: 8744856--8744991 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
8744846 CAAAATTATT
8744856 TATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAATGAG
1 TATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAATGAG
* * * ** * * *
8744899 TATTTT-AAATGA-TTTAATAAAATT-GGAAAAGTCA-AATTATT
1 TATTTTAAAATTATTTTATTTAAATTCTTAAAAAT-ATAATGA-G
8744940 TATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAATGAG
1 TATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAATGAG
8744983 TATTTTAAA
1 TATTTTAAA
8744992 TGATTTAATA
Statistics
Matches: 71, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
40 9 0.13
41 17 0.24
42 10 0.14
43 26 0.37
44 9 0.13
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (43 bp):
TATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAATGAG
Found at i:8745006 original size:84 final size:85
Alignment explanation
Indices: 8744832--8745009 Score: 342
Period size: 84 Copynumber: 2.1 Consensus size: 85
8744822 TCATCATTGT
8744832 TAAAA-TGGAAAAGTCAAAATTATTTATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAAT
1 TAAAATTGGAAAAGTCAAAATTATTTATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAAT
8744896 GAGTATTTTAAATGATTTAA
66 GAGTATTTTAAATGATTTAA
8744916 TAAAATTGGAAAAGTC-AAATTATTTATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAAT
1 TAAAATTGGAAAAGTCAAAATTATTTATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAAT
8744980 GAGTATTTTAAATGATTTAA
66 GAGTATTTTAAATGATTTAA
8745000 TAAAATTGGA
1 TAAAATTGGA
8745010 CATGTGGTGC
Statistics
Matches: 93, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 83 0.89
85 10 0.11
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (85 bp):
TAAAATTGGAAAAGTCAAAATTATTTATTTTAAAATTATTTTATTTAAATTCTTAAAAATATAAT
GAGTATTTTAAATGATTTAA
Found at i:8745601 original size:22 final size:22
Alignment explanation
Indices: 8745576--8745625 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
8745566 TTATTAATTA
8745576 TATTTGGGAAATTTAGAA-AATC
1 TATTTGGGAAATTTA-AAGAATC
* *
8745598 TATTTGTGAACTTTAAAGAATC
1 TATTTGGGAAATTTAAAGAATC
8745620 TATTTG
1 TATTTG
8745626 ATGATGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (22 bp):
TATTTGGGAAATTTAAAGAATC
Found at i:8746113 original size:40 final size:40
Alignment explanation
Indices: 8746065--8746145 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
8746055 CAGTTTGTAA
* *
8746065 GCGATCTTTTGCGGACCCTTGAATGATTTTGTCTGTAAAT
1 GCGATCTTTTGCGAACCCTTGAATGATTTTGTCTATAAAT
8746105 GCGATCTTTTGCGAACCCTTGAATGATTTTGTCTATAAAT
1 GCGATCTTTTGCGAACCCTTGAATGATTTTGTCTATAAAT
8746145 G
1 G
8746146 ATCTGTAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (40 bp):
GCGATCTTTTGCGAACCCTTGAATGATTTTGTCTATAAAT
Found at i:8746161 original size:38 final size:38
Alignment explanation
Indices: 8746079--8746163 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 38
8746069 TCTTTTGCGG
* **
8746079 ACCCTTGAATGATTTTGTCTGTAAATGCGATCTTTTGCGA
1 ACCCTTGAATGATTTTGTCTATAAAT-CGATCTTAAGC-A
8746119 ACCCTTGAATGATTTTGTCTATAAAT-GATCTGTAAGTC-
1 ACCCTTGAATGATTTTGTCTATAAATCGATCT-TAAG-CA
8746157 ACCCTTG
1 ACCCTTG
8746164 TGAAGCACCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 12 0.30
39 2 0.05
40 26 0.65
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (38 bp):
ACCCTTGAATGATTTTGTCTATAAATCGATCTTAAGCA
Found at i:8747176 original size:29 final size:28
Alignment explanation
Indices: 8747137--8747194 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 28
8747127 GTGAAATATT
8747137 TTTTTAATTTGATTAAA-ATAT-TTTTAA
1 TTTTTAATTTG-TTAAAGATATATTTTAA
8747164 TTTTTAATTTTTGTTAAAGATATATTTTAA
1 TTTTTAA--TTTGTTAAAGATATATTTTAA
8747194 T
1 T
8747195 ATTAAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 7 0.26
28 5 0.19
29 8 0.30
30 7 0.26
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (28 bp):
TTTTTAATTTGTTAAAGATATATTTTAA
Found at i:8749356 original size:35 final size:35
Alignment explanation
Indices: 8749316--8749404 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
8749306 ACAACAACAA
*
8749316 TTATAGGTCATTCGAGGCGACACCATGGAAACGAT
1 TTATAGGTCTTTCGAGGCGACACCATGGAAACGAT
** *** * * *
8749351 TTATAGGTCTTTCTCGGCGAGGTCGTGGGAATGAT
1 TTATAGGTCTTTCGAGGCGACACCATGGAAACGAT
8749386 TTATAGGTCTTTCGAGGCG
1 TTATAGGTCTTTCGAGGCG
8749405 GTAACTCCGA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (35 bp):
TTATAGGTCTTTCGAGGCGACACCATGGAAACGAT
Found at i:8750758 original size:43 final size:43
Alignment explanation
Indices: 8750697--8750820 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
8750687 ATTTTCGATA
* *
8750697 TGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 TGTGTTTACGAGTAAGACCACGTCTGGGACGTTGGCATCGACT
*
8750740 TGTGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATT
1 TGTGTTTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT
** *
8750783 TGTGAATAC-ATGTAAGACCACATCTGGGACGTTGGCAT
1 TGTGTTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
8750821 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
42 3 0.04
43 65 0.93
44 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (43 bp):
TGTGTTTACGAGTAAGACCACGTCTGGGACGTTGGCATCGACT
Found at i:8754300 original size:67 final size:68
Alignment explanation
Indices: 8754204--8754374 Score: 181
Period size: 67 Copynumber: 2.5 Consensus size: 68
8754194 CATAACCGAA
* * * * * *
8754204 CTATTGTCTTACACAACATACCCCGTGTTTAAT-GTTC-TTGCGAACTCCATATGTTGCCATAGC
1 CTATGGTCTTACATAATATAACCCATGTTTAATCG-TCATGGCGAACTCCATATGTTGCCATAG-
*
8754267 TGA-G
64 TCACG
* * * *
8754271 CTATGGTCTTACATAATATAACCCATGTTT-ATCGTCATGGCGGACTTCATTTGTTTCCATAGTC
1 CTATGGTCTTACATAATATAACCCATGTTTAATCGTCATGGCGAACTCCATATGTTGCCATAGTC
8754335 ACG
66 ACG
8754338 CTATGGTCTTACATAATATAACCCCATGTTT-ATCGTC
1 CTATGGTCTTACATAATATAA-CCCATGTTTAATCGTC
8754375 CTGGTAGACT
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
66 6 0.07
67 68 0.76
68 15 0.17
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (68 bp):
CTATGGTCTTACATAATATAACCCATGTTTAATCGTCATGGCGAACTCCATATGTTGCCATAGTC
ACG
Found at i:8754477 original size:68 final size:68
Alignment explanation
Indices: 8754255--8754497 Score: 260
Period size: 68 Copynumber: 3.6 Consensus size: 68
8754245 GAACTCCATA
* * * * *
8754255 TGTTGCCATAGCTGA-GCTATGGTCTTACATAATATAACC-CATGTTTATCGTCATGGCGGACTT
1 TGTTGCCATAGC-CACGCTATGGTCTTACACAAAATAACCTCATGTTTATCGTCCTGGTGGACTT
*
8754318 CATT
65 TATT
* * * * * * *
8754322 TGTTTCCATAGTCACGCTATGGTCTTACATAATATAACCCCATGTTTATCGTCCTGGTAGACTCT
1 TGTTGCCATAGCCACGCTATGGTCTTACACAAAATAACCTCATGTTTATCGTCCTGGTGGACTTT
8754387 ATT
66 ATT
** * * *
8754390 TGTTAACATATCCATGCTATGGTCTTGCACAAAATAACCTCATGTTTATCGTCCTGGTGGACTTT
1 TGTTGCCATAGCCACGCTATGGTCTTACACAAAATAACCTCATGTTTATCGTCCTGGTGGACTTT
8754455 ATT
66 ATT
* *
8754458 TGTTGCCAAAGCCGA-GCTATGGTCTTATACAAAA-AACCTC
1 TGTTGCCATAGCC-ACGCTATGGTCTTACACAAAATAACCTC
8754498 TTTTGAGGTG
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
66 1 0.01
67 40 0.27
68 106 0.72
69 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (68 bp):
TGTTGCCATAGCCACGCTATGGTCTTACACAAAATAACCTCATGTTTATCGTCCTGGTGGACTTT
ATT
Found at i:8755976 original size:30 final size:33
Alignment explanation
Indices: 8755926--8756005 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 33
8755916 GTCTATATCT
* * *
8755926 TTATAATTTTAAAAAAATT-AAAT-T-ATTTTC
1 TTATTATTTTTAAAAAATTAAAATATAATTTTA
*
8755956 TTATTATTTTTAAAAGATTAAAATATAATTTTA
1 TTATTATTTTTAAAAAATTAAAATATAATTTTA
8755989 TTATTATTAATTTAAAA
1 TTATTATT--TTTAAAA
8756006 TTTTAACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 16 0.39
31 4 0.10
32 1 0.02
33 13 0.32
35 7 0.17
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (33 bp):
TTATTATTTTTAAAAAATTAAAATATAATTTTA
Found at i:8758437 original size:25 final size:23
Alignment explanation
Indices: 8758403--8758457 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
8758393 AAACAATCAA
8758403 ATATA-AATATTTCAGTTTTCTTAT
1 ATATATAATATTTCA-TTTTCTT-T
*
8758427 ATTTATAATATTTCATTTTCTTT
1 ATATATAATATTTCATTTTCTTT
8758450 ATATATAA
1 ATATATAA
8758458 AATCCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 11 0.39
25 9 0.32
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATATAATATTTCATTTTCTTT
Found at i:8758517 original size:14 final size:15
Alignment explanation
Indices: 8758487--8758520 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8758477 TTTAGCTCGA
8758487 TATAATATATCCATT
1 TATAATATATCCATT
*
8758502 TATAATAT-TTCATT
1 TATAATATATCCATT
8758516 TATAA
1 TATAA
8758521 AATGCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (15 bp):
TATAATATATCCATT
Found at i:8758632 original size:29 final size:29
Alignment explanation
Indices: 8758590--8758645 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
8758580 AAAAGCCCTT
8758590 TTTTTTCAATATTTACCGAAATGGGCCGG
1 TTTTTTCAATATTTACCGAAATGGGCCGG
*
8758619 TTTTTT-AATTATTTACCGGAATGGGCC
1 TTTTTTCAA-TATTTACCGAAATGGGCC
8758646 ATTTTCCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTTTTCAATATTTACCGAAATGGGCCGG
Found at i:8761486 original size:67 final size:67
Alignment explanation
Indices: 8761375--8761500 Score: 207
Period size: 67 Copynumber: 1.9 Consensus size: 67
8761365 TTGAGGCCAA
* *
8761375 CTACAATGATATCGTGATACCGAGTAACGGGTATTATGAGACCGAGACCTCTAAAACTTTCAACC
1 CTACAATGATATCGCGATACCGAGTAACGGGTATTATGAGACCGAGACCCCTAAAACTTTCAACC
8761440 AG
66 AG
* * *
8761442 CTACAATGATATCGCGATACTGAGTAATGGGTATTATGATACCGAGACCCCTAAAACTT
1 CTACAATGATATCGCGATACCGAGTAACGGGTATTATGAGACCGAGACCCCTAAAACTT
8761501 CCAATCTCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (67 bp):
CTACAATGATATCGCGATACCGAGTAACGGGTATTATGAGACCGAGACCCCTAAAACTTTCAACC
AG
Found at i:8761779 original size:25 final size:26
Alignment explanation
Indices: 8761735--8761784 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
8761725 AGGTTTGTTT
*
8761735 TCTTTTCATTTTTAAGTTAGATTTTC
1 TCTTTTCATTTTTAAATTAGATTTTC
8761761 TCTTTT-ATTTTTAAATTAGATTTT
1 TCTTTTCATTTTTAAATTAGATTTT
8761785 ATTTTTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (26 bp):
TCTTTTCATTTTTAAATTAGATTTTC
Found at i:8780636 original size:27 final size:28
Alignment explanation
Indices: 8780538--8780637 Score: 132
Period size: 27 Copynumber: 3.6 Consensus size: 28
8780528 CAAAAAATAA
*
8780538 AAGCCTTTGTGGCAATCTATGAAAA-GG
1 AAGCCTTTGTGGCGATCTATGAAAATGG
** *
8780565 AAGCCTTTGTAACTATCTATGAAAATGG
1 AAGCCTTTGTGGCGATCTATGAAAATGG
8780593 AAGCCTTTGTGGCGATCTATGAAAATGG
1 AAGCCTTTGTGGCGATCTATGAAAATGG
* *
8780621 -AGCTTTTGTGGTGATCT
1 AAGCCTTTGTGGCGATCT
8780638 TTGTGGTGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 37 0.58
28 27 0.42
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
AAGCCTTTGTGGCGATCTATGAAAATGG
Found at i:8780642 original size:12 final size:12
Alignment explanation
Indices: 8780625--8780649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8780615 AAATGGAGCT
8780625 TTTGTGGTGATC
1 TTTGTGGTGATC
8780637 TTTGTGGTGATC
1 TTTGTGGTGATC
8780649 T
1 T
8780650 ATGAAAACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.52
Consensus pattern (12 bp):
TTTGTGGTGATC
Found at i:8780651 original size:39 final size:39
Alignment explanation
Indices: 8780597--8780676 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
8780587 AAATGGAAGC
* * * *
8780597 CTTTGTGGCGATCTATGAAAATGGAGCTTTTGTGGTGAT
1 CTTTGTGGCGATCTATGAAAACGAAGCCTTTGTGGCGAT
*
8780636 CTTTGTGGTGATCTATGAAAACGAAGCCTTTGTGGCGAT
1 CTTTGTGGCGATCTATGAAAACGAAGCCTTTGTGGCGAT
8780675 CT
1 CT
8780677 ATGAAGGGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (39 bp):
CTTTGTGGCGATCTATGAAAACGAAGCCTTTGTGGCGAT
Found at i:8780652 original size:94 final size:93
Alignment explanation
Indices: 8780542--8780724 Score: 235
Period size: 94 Copynumber: 2.0 Consensus size: 93
8780532 AAATAAAAGC
* * * * *
8780542 CTTTGTGGCAATCTATGAAAAGGAAGCCTTTGTAACTATCTATGAAAATGGAA-GCCTTTGTGGC
1 CTTTGTGGCAATCTATGAAAACGAAGCCTTTGTAACGATCTATG--AAGGGAATGCATTTATGGC
*
8780606 GATCTATGAAAATGG-AGCTTTTGTGGTGAT
64 GATCTATGAAAA-GGAAGCCTTTGTGGTGAT
** **
8780636 CTTTGTGGTGATCTATGAAAACGAAGCCTTTGTGGCGATCTATGAAGGGAATGCATTTATGGCGA
1 CTTTGTGGCAATCTATGAAAACGAAGCCTTTGTAACGATCTATGAAGGGAATGCATTTATGGCGA
8780701 TCTATGAAAAGGAAGCCTTTGTGG
66 TCTATGAAAAGGAAGCCTTTGTGG
8780725 CGTTCTATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
92 8 0.10
93 31 0.40
94 38 0.49
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (93 bp):
CTTTGTGGCAATCTATGAAAACGAAGCCTTTGTAACGATCTATGAAGGGAATGCATTTATGGCGA
TCTATGAAAAGGAAGCCTTTGTGGTGAT
Found at i:8780675 original size:27 final size:27
Alignment explanation
Indices: 8780636--8780735 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
8780626 TTGTGGTGAT
* *
8780636 CTTTGTGGTGATCTATGAAAACGAAGC
1 CTTTGTGGCGATCTATGAAAAGGAAGC
*
8780663 CTTTGTGGCGATCTATG-AAGGGAATGC
1 CTTTGTGGCGATCTATGAAAAGGAA-GC
* *
8780690 ATTTATGGCGATCTATGAAAAGGAAGC
1 CTTTGTGGCGATCTATGAAAAGGAAGC
*
8780717 CTTTGTGGCGTTCTATGAA
1 CTTTGTGGCGATCTATGAA
8780736 GGGAATACCT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.08
27 51 0.82
28 6 0.10
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCGATCTATGAAAAGGAAGC
Found at i:8780703 original size:66 final size:66
Alignment explanation
Indices: 8780579--8780703 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
8780569 CTTTGTAACT
* * * * *
8780579 ATCTATGAAAATGGAAGCCTTTGTGGCGATCTATGAAAATGGAGCTTTTGTGGTGATCTTTGTGG
1 ATCTATGAAAATCGAAGCCTTTGTGGCGATCTATG-AAAGGGAGCATTTATGGCGATCTTTGTGG
8780644 TG
65 TG
8780646 ATCTATGAAAA-CGAAGCCTTTGTGGCGATCTATG-AAGGGAATGCATTTATGGCGATCT
1 ATCTATGAAAATCGAAGCCTTTGTGGCGATCTATGAAAGGG-A-GCATTTATGGCGATCT
8780704 ATGAAAAGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 4 0.08
65 1 0.02
66 35 0.69
67 11 0.22
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (66 bp):
ATCTATGAAAATCGAAGCCTTTGTGGCGATCTATGAAAGGGAGCATTTATGGCGATCTTTGTGGT
G
Found at i:8780746 original size:27 final size:27
Alignment explanation
Indices: 8780636--8780747 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
8780626 TTGTGGTGAT
* **
8780636 CTTTGTGGTGATCTATGAAAACGAA-GC
1 CTTTGTGGCGATCTATG-AAGGGAATGC
8780663 CTTTGTGGCGATCTATGAAGGGAATGC
1 CTTTGTGGCGATCTATGAAGGGAATGC
* * *
8780690 ATTTATGGCGATCTATGAAAAGGAA-GC
1 CTTTGTGGCGATCTATG-AAGGGAATGC
* *
8780717 CTTTGTGGCGTTCTATGAAGGGAATAC
1 CTTTGTGGCGATCTATGAAGGGAATGC
8780744 CTTT
1 CTTT
8780748 TGCGGCATGC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 11 0.15
27 54 0.76
28 6 0.08
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
CTTTGTGGCGATCTATGAAGGGAATGC
Found at i:8783791 original size:16 final size:15
Alignment explanation
Indices: 8783753--8783791 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8783743 AGACAGAAAG
8783753 TTTTATTTATTTCAT
1 TTTTATTTATTTCAT
* *
8783768 TTTGATTTAGTTTTAT
1 TTTTATTTA-TTTCAT
8783784 TTTTATTT
1 TTTTATTT
8783792 TTACTTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTATTTATTTCAT
Found at i:8785719 original size:22 final size:23
Alignment explanation
Indices: 8785693--8785747 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
8785683 AGGATATGTT
**
8785693 TGATATGTTATGTGATAT-ACTC
1 TGATATGTTATAAGATATGACTC
* *
8785715 TGATATGCTATAAGATATGACTT
1 TGATATGTTATAAGATATGACTC
8785738 TGATATGTTA
1 TGATATGTTA
8785748 AGCAATATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (23 bp):
TGATATGTTATAAGATATGACTC
Found at i:8793177 original size:159 final size:160
Alignment explanation
Indices: 8792877--8793195 Score: 631
Period size: 159 Copynumber: 2.0 Consensus size: 160
8792867 AATTATATAT
8792877 ATTTAAATATACATTTCATTTTATAAATTTTTTAAGTTGAATTAATTTTATTTATTCATAATACA
1 ATTTAAATATACATTTCATTTTATAAATTTTTTAAGTTGAATTAATTTTATTTATTCATAATACA
8792942 AAATCAAATAAAAACAATATAAAAGAACAAATAAATTATAAGTTAATATTAATATTATTTATCCC
66 AAATCAAATAAAAACAATATAAAAGAACAAATAAATTATAAGTTAATATTAATATTATTTATCCC
8793007 TTTTAATTCTACACTATTTTGGAAAAAGAG
131 TTTTAATTCTACACTATTTTGGAAAAAGAG
8793037 ATTTAAATAT-CATTTCATTTTATAAATTTTTTAAGTTGAATTAATTTTATTTATTCATAATACA
1 ATTTAAATATACATTTCATTTTATAAATTTTTTAAGTTGAATTAATTTTATTTATTCATAATACA
8793101 AAATCAAATAAAAACAATATAAAAGAACAAATAAATTATAAGTTAATATTAATATTATTTATCCC
66 AAATCAAATAAAAACAATATAAAAGAACAAATAAATTATAAGTTAATATTAATATTATTTATCCC
8793166 TTTTAATTCTACACTATTTTGGAAAAAGAG
131 TTTTAATTCTACACTATTTTGGAAAAAGAG
8793196 TCATCTCTAA
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 149 0.94
160 10 0.06
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.41
Consensus pattern (160 bp):
ATTTAAATATACATTTCATTTTATAAATTTTTTAAGTTGAATTAATTTTATTTATTCATAATACA
AAATCAAATAAAAACAATATAAAAGAACAAATAAATTATAAGTTAATATTAATATTATTTATCCC
TTTTAATTCTACACTATTTTGGAAAAAGAG
Found at i:8793737 original size:19 final size:17
Alignment explanation
Indices: 8793696--8793737 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
8793686 TGTTTCTTTG
*
8793696 CTCAAGCCGAGCCACCT
1 CTCAAGCCGAGCCACAT
8793713 -TCAAGCCGAGCCATCAT
1 CTCAAGCCGAGCCA-CAT
8793730 ACTCAAGC
1 -CTCAAGC
8793738 TATTCTGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
19 6 0.29
ACGTcount: A:0.29, C:0.40, G:0.17, T:0.14
Consensus pattern (17 bp):
CTCAAGCCGAGCCACAT
Found at i:8814163 original size:36 final size:36
Alignment explanation
Indices: 8814123--8814200 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
8814113 CTCTGGAATC
*
8814123 AACACAACCTAAACTTGATACAAAAGAGAATCCCAA
1 AACACAACCTAAACCTGATACAAAAGAGAATCCCAA
**
8814159 AACACAACCTAAACCTGATACAAAAGAGAATCCTGA
1 AACACAACCTAAACCTGATACAAAAGAGAATCCCAA
8814195 AACACA
1 AACACA
8814201 GCCGGTGCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.53, C:0.26, G:0.09, T:0.13
Consensus pattern (36 bp):
AACACAACCTAAACCTGATACAAAAGAGAATCCCAA
Found at i:8821633 original size:9 final size:9
Alignment explanation
Indices: 8821619--8821669 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
8821609 CATTAGGGAC
8821619 TAAATTGAA
1 TAAATTGAA
8821628 TAAATTGAA
1 TAAATTGAA
8821637 TAAATTGAA
1 TAAATTGAA
8821646 TAAATTGAA
1 TAAATTGAA
8821655 TAAATTGAA
1 TAAATTGAA
*
8821664 AAAATT
1 TAAATT
8821670 TCATGAAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (9 bp):
TAAATTGAA
Found at i:8825188 original size:11 final size:11
Alignment explanation
Indices: 8825172--8825209 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
8825162 TATTTTTTAA
8825172 TTTTAAAATAT
1 TTTTAAAATAT
8825183 TTTTAAAATACTT
1 TTTTAAAATA--T
8825196 TTTTAAAA-AT
1 TTTTAAAATAT
8825206 TTTT
1 TTTT
8825210 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 10 0.40
12 1 0.04
13 9 0.36
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:8825565 original size:217 final size:217
Alignment explanation
Indices: 8825190--8825594 Score: 645
Period size: 217 Copynumber: 1.9 Consensus size: 217
8825180 TATTTTTAAA
* *
8825190 ATACTTTTTTAAAAATTTTTTATTTTTAAAATAAATTTTTAGTGTTTTATTAAAAAAATGGGCCG
1 ATACTTTTTTAAAAATTTTTTATTTTTAAAATAAAATTTTAGTGTTTTATTAAAAAAATAGGCCG
* *
8825255 GGCTGGGCCGGGCTCGAGCTTAGGAATTTTTCTCGAGCTGGGCCTGAACAAAATCTCAGGCCCAT
66 GGCCGGGCCGGGCTCGAGCTTAGGAATTTTTCCCGAGCTGGGCCTGAACAAAATCTCAGGCCCAT
*
8825320 ATTTCGGGCAGGGCAGGGCCCGGGCCTAGGATGCGGGCTAAAATTTTTTTCTAGGCCCGGCCCGA
131 ATTTCGGGCAGGGCAGGGCCCGGGCCTAGGATGCGGGCCAAAATTTTTTTCTAGGCCCGGCCCGA
8825385 ACCCGGCCTGAACCGACCCCTG
196 ACCCGGCCTGAACCGACCCCTG
*
8825407 ATACTTTTTTAAAAATTTTTTATTTTTAAAATAAAATTTTAGTGTTTTATT-AAAAAATAGGTCG
1 ATACTTTTTTAAAAATTTTTTATTTTTAAAATAAAATTTTAGTGTTTTATTAAAAAAATAGGCCG
* *
8825471 GGCCGGGCCGGGCTCGGGCTTAGGAATTTTTTCCC-AGGCTGGGCCTGGACAAAATCTCAGGCCC
66 GGCCGGGCCGGGCTCGAGCTTAGGAA-TTTTTCCCGA-GCTGGGCCTGAACAAAATCTCAGGCCC
* * ** *
8825535 ATATTTCTGGCCGGGTCA-GGCCCGGGCCTAGGATTTGGGCCGAAATTTTTTTCTAGGCCC
129 ATATTTCGGGCAGGG-CAGGGCCCGGGCCTAGGATGCGGGCCAAAATTTTTTTCTAGGCCC
8825595 AACCCATGAG
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
216 36 0.21
217 134 0.78
218 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (217 bp):
ATACTTTTTTAAAAATTTTTTATTTTTAAAATAAAATTTTAGTGTTTTATTAAAAAAATAGGCCG
GGCCGGGCCGGGCTCGAGCTTAGGAATTTTTCCCGAGCTGGGCCTGAACAAAATCTCAGGCCCAT
ATTTCGGGCAGGGCAGGGCCCGGGCCTAGGATGCGGGCCAAAATTTTTTTCTAGGCCCGGCCCGA
ACCCGGCCTGAACCGACCCCTG
Found at i:8828833 original size:49 final size:49
Alignment explanation
Indices: 8828740--8828833 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
8828730 ATATCTATTT
* * *
8828740 AAAGGTTAAAAAAACTCATTCTAATCAATGTCAAATAGATGAAGTGTAG
1 AAAGGTTAAAAAAACTCATTCTAATCAATGTCAAACAAAAGAAGTGTAG
* * *
8828789 AAAGGTTGAAAAATA-TTATTCTATTCAATGTCAAACAAAAGAAGT
1 AAAGGTT-AAAAAAACTCATTCTAATCAATGTCAAACAAAAGAAGT
8828834 ATAATTCTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 32 0.84
50 6 0.16
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.28
Consensus pattern (49 bp):
AAAGGTTAAAAAAACTCATTCTAATCAATGTCAAACAAAAGAAGTGTAG
Found at i:8830957 original size:50 final size:50
Alignment explanation
Indices: 8830862--8830957 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
8830852 GGAAAGAGTT
* * * *
8830862 TACTCAGTTCAGCAGCCTTTCGGATCTATTCTAATTGATGTACTCAACTC
1 TACTCAGTTCAGCAGCCTTTCGGATCTATTCTAACTAAAGCACTCAACTC
* *
8830912 TACTCAGTTTAGCAGCCTTTCGGATCTATTCTGACTAAAGCACTCA
1 TACTCAGTTCAGCAGCCTTTCGGATCTATTCTAACTAAAGCACTCA
8830958 TCCGTTTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (50 bp):
TACTCAGTTCAGCAGCCTTTCGGATCTATTCTAACTAAAGCACTCAACTC
Found at i:8831697 original size:22 final size:24
Alignment explanation
Indices: 8831671--8831714 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8831661 AAAAAATATT
8831671 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
8831693 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
8831715 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:8831825 original size:9 final size:9
Alignment explanation
Indices: 8831811--8831838 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8831801 TTTTGTTACA
8831811 ACAATTAAT
1 ACAATTAAT
8831820 ACAATTAAT
1 ACAATTAAT
8831829 ACAATTAAT
1 ACAATTAAT
8831838 A
1 A
8831839 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:8831860 original size:68 final size:66
Alignment explanation
Indices: 8831781--8831922 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
8831771 TCAAGTTTGT
*
8831781 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
8831846 AAA
64 AAA
8831849 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
8831914 T
66 A
8831915 TTTACTAA
1 TTTACTAA
8831923 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:8831932 original size:16 final size:16
Alignment explanation
Indices: 8831911--8831952 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8831901 AATAATTTGA
*
8831911 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
8831927 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
8831943 TAGTTTTAAT
1 TAATTTTAAT
8831953 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:8831936 original size:22 final size:22
Alignment explanation
Indices: 8831926--8831986 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
8831916 TTACTAACAA
* * *
8831926 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
8831948 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
8831970 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
8831987 CGGGCCGAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:8831941 original size:59 final size:66
Alignment explanation
Indices: 8831781--8831944 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
8831771 TCAAGTTTGT
*
8831781 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
8831846 AAA
64 AAA
8831849 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
8831912 AAT
64 AAA
*
8831915 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
8831945 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:8835489 original size:23 final size:23
Alignment explanation
Indices: 8835462--8835508 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8835452 CAAATAAAAG
8835462 AAATATAATTCTATATGAATTTT
1 AAATATAATTCTATATGAATTTT
8835485 AAATATAATTCTATATGAATTTT
1 AAATATAATTCTATATGAATTTT
8835508 A
1 A
8835509 CTTTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
AAATATAATTCTATATGAATTTT
Found at i:8840538 original size:93 final size:94
Alignment explanation
Indices: 8840394--8840594 Score: 377
Period size: 93 Copynumber: 2.1 Consensus size: 94
8840384 ATAATAGTAA
* *
8840394 AATTAATATTAAAAATATTGATTAAGATTTATTTTTAAAAAATTCATTTAAACTCGTTATAATAA
1 AATTAATGTTAATAATATTGATTAAGATTTATTTTTAAAAAATTCATTTAAACTCGTTATAATAA
8840459 AATTATTTTTTATTGTAGTGTTCTAAAAT
66 AATTATTTTTTATTGTAGTGTTCTAAAAT
8840488 AATTAATGTTAATAATATTGATT-AGATTTATTTTTAAAAAATTCATTTAAACTCGTTATAATAA
1 AATTAATGTTAATAATATTGATTAAGATTTATTTTTAAAAAATTCATTTAAACTCGTTATAATAA
8840552 AATTATTTTTTATTGTAGTGTTCTAAAAT
66 AATTATTTTTTATTGTAGTGTTCTAAAAT
8840581 AATTAATGTTAATA
1 AATTAATGTTAATA
8840595 TTTTAATTGA
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 84 0.80
94 21 0.20
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (94 bp):
AATTAATGTTAATAATATTGATTAAGATTTATTTTTAAAAAATTCATTTAAACTCGTTATAATAA
AATTATTTTTTATTGTAGTGTTCTAAAAT
Found at i:8840629 original size:93 final size:92
Alignment explanation
Indices: 8840428--8840613 Score: 297
Period size: 93 Copynumber: 2.0 Consensus size: 92
8840418 AGATTTATTT
8840428 TTAAAAAATTCATTTAAACTCGTTATAATAAAATTATTTTTTATTGTAGTGTTCTAAAATAATTA
1 TTAAAAAATTCATTTAAACTCGTTATAATAAAATTATTTTTTATTGTAGTGTTCTAAAATAATTA
* ** *
8840493 ATGTTAATAATATTGATTAGATTTATTT
66 ATGTTAATAATATTAATTAGAAGTA-TA
8840521 TTAAAAAATTCATTTAAACTCGTTATAATAAAATTATTTTTTATTGTAGTGTTCTAAAATAATTA
1 TTAAAAAATTCATTTAAACTCGTTATAATAAAATTATTTTTTATTGTAGTGTTCTAAAATAATTA
*
8840586 ATGTTAAT-ATTTTAATT-GAAGTA-A
66 ATGTTAATAATATTAATTAGAAGTATA
8840610 TTAA
1 TTAA
8840614 CAATATCATT
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
89 4 0.05
91 4 0.05
92 7 0.08
93 73 0.83
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (92 bp):
TTAAAAAATTCATTTAAACTCGTTATAATAAAATTATTTTTTATTGTAGTGTTCTAAAATAATTA
ATGTTAATAATATTAATTAGAAGTATA
Found at i:8841248 original size:25 final size:25
Alignment explanation
Indices: 8841220--8841272 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
8841210 GGATCAGTTA
8841220 ATACTTAAATTAAATTATTCGAAAT
1 ATACTTAAATTAAATTATTCGAAAT
8841245 ATACTTAAATTAAATTATTCGAAAT
1 ATACTTAAATTAAATTATTCGAAAT
8841270 ATA
1 ATA
8841273 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATACTTAAATTAAATTATTCGAAAT
Found at i:8841445 original size:120 final size:122
Alignment explanation
Indices: 8841300--8841550 Score: 470
Period size: 120 Copynumber: 2.1 Consensus size: 122
8841290 ATCAAACCGA
8841300 AATTTTTTTTAAATACATTAACCGAATTGAAATATTTCGGTTAATTCGGTCAGTTAACTAAAATT
1 AATTTTTTTTAAATACATTAACCGAATTGAAATATTTCGGTTAATTCGGTCAGTTAACTAAAATT
**
8841365 TATATGTTTTTATTTTTTGATTAAAATAAGTATAAAACATATAAAAAATACATTACT
66 TATATGTTTTTATTTTTTGATTAAAATAAAAATAAAACATATAAAAAATACATTACT
8841422 AATTTTTTTT-AA-ACATTAACCGAATTGAAATATTTCGGTTAATTCGGTCAGTTAACTAAAATT
1 AATTTTTTTTAAATACATTAACCGAATTGAAATATTTCGGTTAATTCGGTCAGTTAACTAAAATT
8841485 TATATGTTTTTATTTTTTGATTAAAATAAAAATAAAACATATAAAAAATACATTACT
66 TATATGTTTTTATTTTTTGATTAAAATAAAAATAAAACATATAAAAAATACATTACT
8841542 AATTTTTTT
1 AATTTTTTT
8841551 ATTTAATAGT
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
120 115 0.91
121 2 0.02
122 10 0.08
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (122 bp):
AATTTTTTTTAAATACATTAACCGAATTGAAATATTTCGGTTAATTCGGTCAGTTAACTAAAATT
TATATGTTTTTATTTTTTGATTAAAATAAAAATAAAACATATAAAAAATACATTACT
Found at i:8842614 original size:17 final size:17
Alignment explanation
Indices: 8842592--8842655 Score: 55
Period size: 18 Copynumber: 3.8 Consensus size: 17
8842582 ATGCTATTTT
8842592 TTTTTAAT-TTTTATGAA
1 TTTTTAATATTTT-TGAA
8842609 TTTTT-ATATTTTATTGAA
1 TTTTTAATA-TTT-TTGAA
*
8842627 TTTTAAATATTTTT--A
1 TTTTTAATATTTTTGAA
*
8842642 TTTTTTATATTTTT
1 TTTTTAATATTTTT
8842656 TGAAATTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 13 0.32
16 2 0.05
17 7 0.17
18 14 0.35
19 4 0.10
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTTAATATTTTTGAA
Found at i:8842656 original size:17 final size:17
Alignment explanation
Indices: 8842591--8842658 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
8842581 CATGCTATTT
8842591 TTTTTTA-ATTTTTATGA
1 TTTTTTATATTTTT-TGA
*
8842608 ATTTTTATATTTTATTGA
1 TTTTTTATATTTT-TTGA
* *
8842626 -ATTTTAAATATTTTT-A
1 TTTTTTATAT-TTTTTGA
8842642 TTTTTTATATTTTTTGA
1 TTTTTTATATTTTTTGA
8842659 AATTATTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 6 0.15
17 23 0.56
18 11 0.27
19 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
TTTTTTATATTTTTTGA
Found at i:8854142 original size:16 final size:16
Alignment explanation
Indices: 8854121--8854152 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8854111 TGTGACTGAC
8854121 TAGACTGATAGTACAT
1 TAGACTGATAGTACAT
8854137 TAGACTGATAGTACAT
1 TAGACTGATAGTACAT
8854153 CGGATTGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
TAGACTGATAGTACAT
Found at i:8856772 original size:45 final size:45
Alignment explanation
Indices: 8856633--8856820 Score: 159
Period size: 45 Copynumber: 4.2 Consensus size: 45
8856623 AATAATAACA
* * * * *
8856633 GATACACGGTGG-ATCAACACATAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
** * * * **
8856676 GATACTTGGTGGAATCAACACATAACAACC-GCTTTCCTAAGAAAT
1 GATACCCGGTGGAATCAACACACAACAACCACCTTT-ATAATCAAT
8856721 -AGTACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
* ** * *
8856766 GATACCCGGTGGAATCAGCACACAGTAGCCACATTTATAATCAAT
1 GATACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
* *
8856811 GGTTCCCGGT
1 GATACCCGGT
8856821 ACACATAGTA
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
43 10 0.09
44 16 0.14
45 85 0.73
46 5 0.04
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAACACACAACAACCACCTTTATAATCAAT
Found at i:8858244 original size:6 final size:6
Alignment explanation
Indices: 8858233--8858271 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
8858223 TGGTTTTTTC
*
8858233 AAAATG AAAATG AAAACG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
8858272 TTCATTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.13
Consensus pattern (6 bp):
AAAATG
Found at i:8859697 original size:163 final size:163
Alignment explanation
Indices: 8859427--8859726 Score: 433
Period size: 163 Copynumber: 1.8 Consensus size: 163
8859417 ATTGTTTAAT
**
8859427 TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTTGACCCTCAGTTAAAAAATCGA
1 TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATCGA
* * *
8859492 TGATCTCTTCATACTTCACCTCTTTTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
66 TGATCTCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
*
8859557 TTCTTATGGACGGCTTCGATCACAATTAAAGAA
131 GTCTTATGGACGGCTTCGATCACAATTAAAGAA
* * * * *
8859590 TCTTATTGGTTTTTTAGTTACG-GCT-TTTCGAACCTAATTTTCTCAACCTTCAGTTAAAAAATC
1 TCTTATTGGTTCTTTAGTT--GTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATC
** **
8859653 GATGATCTCATCATAATTTTCCTCTTCTTCATGTAAGTTTTCATAAAAATCTGGGTTATACCAAG
64 GATGATCTCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAG
8859718 GTGTCTTAT
129 GTGTCTTAT
8859727 TGATATCTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
163 116 0.97
164 3 0.03
165 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (163 bp):
TCTTATTGGTTCTTTAGTTGTGCTCTTTCGAACCCAAGTTCCTCAACCCTCAGTTAAAAAATCGA
TGATCTCATCATAATTCACCTCTTCTTCATGTAAGTTTTCATAAAAATCCAGGTTATACCAAGGT
GTCTTATGGACGGCTTCGATCACAATTAAAGAA
Found at i:8874353 original size:193 final size:186
Alignment explanation
Indices: 8873999--8874367 Score: 542
Period size: 193 Copynumber: 1.9 Consensus size: 186
8873989 ACAAAGAGAT
8873999 CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
1 CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
* * * * *
8874064 CTTTATTGTCCTATAGGATAGCGTACAAGACACCTTTAGGGATGTCACCCTATAGGTTGGTCTTT
66 CTTTATTGGCCTATAGGATAGCATACAAGACACCTTAAGGGATATCACCCTAGAGGTTGGTCTTT
*
8874129 GGGAAAGCCTGTCATCTGCCCTTAGAGTTAGAACACAAATCTTACTTGGCTCAGAA
131 GGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTTGGCTCAGAA
** * *
8874185 CAAAGGCATACTCGAGAAGGTAGTTTGCTTGAACCGACGAGATTGGTCCAAAAGATTGG-TGATG
1 CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
* *
8874249 CTTTATGGGCTTATGGGCTTATAGGATAGCATACAAGCCACCTTAAGGGATATCACCCTAGAGGT
66 CTTTA------T-T-GGCCTATAGGATAGCATACAAGACACCTTAAGGGATATCACCCTAGAGGT
*
8874314 TGGTCTTTGGGAAAGCCTGTCATCTGCCTTTAAAGTTAGAACACAAATCTTACT
123 TGGTCTTTGGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACT
8874368 AGGTTCTCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
185 10 0.06
186 55 0.34
191 1 0.01
192 1 0.01
193 95 0.59
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (186 bp):
CAAAGGCATACTCGAGAAGGTAGTTTGCCCGAACCGACGAGATTGATCCAAAAGACTGGATGATG
CTTTATTGGCCTATAGGATAGCATACAAGACACCTTAAGGGATATCACCCTAGAGGTTGGTCTTT
GGGAAAGCCTGTCATCTGCCCTTAAAGTTAGAACACAAATCTTACTTGGCTCAGAA
Done.