Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 28 of 163
Found at i:8950304 original size:48 final size:48
Alignment explanation
Indices: 8950236--8950329 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
8950226 GGAAAGATTG
* *
8950236 TGCTAACTTCTTGCTACACAGGGGGAAA-AGCATCTAAATTTGGGATCA
1 TGCTAACTTCTTACTACACA-GGGGAAATAGCATCTAAACTTGGGATCA
* *
8950284 TGCTAACTTCTTAC-AGCACAGGGGAAATAGTATTTAAACTTGGGAT
1 TGCTAACTTCTTACTA-CACAGGGGAAATAGCATCTAAACTTGGGAT
8950330 AGCACCTTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 8 0.20
48 32 0.80
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (48 bp):
TGCTAACTTCTTACTACACAGGGGAAATAGCATCTAAACTTGGGATCA
Found at i:8953243 original size:13 final size:13
Alignment explanation
Indices: 8953225--8953254 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
8953215 ATTGTAATGA
8953225 CATTCCATCATGT
1 CATTCCATCATGT
8953238 CATTCCATCATGT
1 CATTCCATCATGT
8953251 CATT
1 CATT
8953255 ATACCATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (13 bp):
CATTCCATCATGT
Found at i:8956387 original size:36 final size:36
Alignment explanation
Indices: 8956347--8956418 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
8956337 AATAACTGAG
* * *
8956347 TGTTTGGCTGCTGGACAGGAGTTGGAAAATCAAGAA
1 TGTTTGGCAGCTGGACAGGAGCTAGAAAATCAAGAA
*
8956383 TGTTTGGCAGTTGGACAGGAGCTAGAAAATCAAGAA
1 TGTTTGGCAGCTGGACAGGAGCTAGAAAATCAAGAA
8956419 GAAAGAATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.24
Consensus pattern (36 bp):
TGTTTGGCAGCTGGACAGGAGCTAGAAAATCAAGAA
Found at i:8964008 original size:13 final size:13
Alignment explanation
Indices: 8963990--8964014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8963980 ATTGTTGGGG
8963990 AGCTTTGAAACAT
1 AGCTTTGAAACAT
8964003 AGCTTTGAAACA
1 AGCTTTGAAACA
8964015 GATGAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
AGCTTTGAAACAT
Found at i:8966714 original size:2 final size:2
Alignment explanation
Indices: 8966707--8966734 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8966697 TGCCCATGTA
8966707 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8966735 TACTTGCAGA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8978175 original size:3 final size:3
Alignment explanation
Indices: 8978167--8978204 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8978157 GCAAAATGTA
*
8978167 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8978205 GGAAAGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:8978761 original size:13 final size:13
Alignment explanation
Indices: 8978745--8978780 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
8978735 GTTTTTTTTA
8978745 TTTTCTTTTTCAT
1 TTTTCTTTTTCAT
* *
8978758 TTTTATTTTTCCT
1 TTTTCTTTTTCAT
8978771 TTTTCTTTTT
1 TTTTCTTTTT
8978781 GTTTCTTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTCAT
Found at i:8979134 original size:31 final size:31
Alignment explanation
Indices: 8979072--8979135 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
8979062 TTACACAATT
*
8979072 ATGCATATTTAAACAAAAATATAGAACATAA
1 ATGCATATTTAAACAAAAATATAGAAAATAA
* * *
8979103 ATGCATGTTTAAA-AATAATATATAATAATAA
1 ATGCATATTTAAACAAAAATATAGAA-AATAA
8979134 AT
1 AT
8979136 AATAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (31 bp):
ATGCATATTTAAACAAAAATATAGAAAATAA
Found at i:8980439 original size:21 final size:21
Alignment explanation
Indices: 8980406--8980445 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8980396 GATTTTCAAC
*
8980406 AAAAATTTCAAAGATTTAATT
1 AAAAATTTCAAAGAATTAATT
* *
8980427 AAAATTTTGAAAGAATTAA
1 AAAAATTTCAAAGAATTAA
8980446 CGAGAGATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAAATTTCAAAGAATTAATT
Found at i:8981143 original size:28 final size:25
Alignment explanation
Indices: 8981096--8981152 Score: 60
Period size: 28 Copynumber: 2.2 Consensus size: 25
8981086 AAAATCATTT
* *
8981096 TTTTTAAATTTACTGAAATGGGCCGA
1 TTTTTAAATTTACCGAAATGAGCC-A
*
8981122 TTTTTAATTATTTACCGGAATGAGCCA
1 TTTTTAA--ATTTACCGAAATGAGCCA
8981149 TTTT
1 TTTT
8981153 CTCCAAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 5 0.19
28 14 0.54
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (25 bp):
TTTTTAAATTTACCGAAATGAGCCA
Found at i:8981616 original size:124 final size:125
Alignment explanation
Indices: 8981408--8981687 Score: 363
Period size: 124 Copynumber: 2.2 Consensus size: 125
8981398 TTATTTCGAA
** *
8981408 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTAT
* * * *
8981472 GAAATCATGCCTTCGTGGACGCGATTTCAGC-ACATTTGGTCATATAAGAAATTATT-TTTT
65 GAAATCACGCCCTCGTGGACGCGATTTC-GCTACAGTTGGTCATATAAGAAATAATTATTTT
8981532 TTGACGTTTTCTGAGCAAATAGTAT-AAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTA
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTA
* * *
8981595 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCACGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATATAAGAAATAATTATTTT
* * * *
8981657 TTGACATTTCTGAGTAAATAGTGTCAAATCG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCG
8981688 TGCCCTCGTG
Statistics
Matches: 137, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
123 3 0.02
124 102 0.74
125 31 0.23
126 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTATG
AAATCACGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATATAAGAAATAATTATTTT
Found at i:8982249 original size:12 final size:12
Alignment explanation
Indices: 8982229--8982286 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
8982219 TGGAAGAAAA
8982229 TTGAGAGAATTT
1 TTGAGAGAATTT
*
8982241 TTGAAAGAA--T
1 TTGAGAGAATTT
*
8982251 TTGAGAGAGTTT
1 TTGAGAGAATTT
*
8982263 TTGAAAGAA--T
1 TTGAGAGAATTT
8982273 TTGAGAGAATTT
1 TTGAGAGAATTT
8982285 TT
1 TT
8982287 AAATGAAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 17 0.47
12 19 0.53
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
TTGAGAGAATTT
Found at i:8982300 original size:22 final size:22
Alignment explanation
Indices: 8982210--8982286 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
8982200 ACACTCGGTT
* *
8982210 AGAGAA-TTTTGGAAGAAAATTG
1 AGAGAATTTTTGAAAG-AATTTG
8982232 AGAGAATTTTTGAAAGAATTTG
1 AGAGAATTTTTGAAAGAATTTG
*
8982254 AGAGAGTTTTTGAAAGAATTTG
1 AGAGAATTTTTGAAAGAATTTG
8982276 AGAGAATTTTT
1 AGAGAATTTTT
8982287 AAATGAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 42 0.84
23 8 0.16
ACGTcount: A:0.40, C:0.00, G:0.25, T:0.35
Consensus pattern (22 bp):
AGAGAATTTTTGAAAGAATTTG
Found at i:8988896 original size:41 final size:41
Alignment explanation
Indices: 8988851--8988937 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
8988841 TTTAGCCTCC
* *
8988851 AATAA-CCAACCAAAATAATTAACAAATATAATTAATCATCA
1 AATAATCC-ACCAAAATAATTAACAAATATAACTAATAATCA
**
8988892 AATAATCCATTAAAATAATTAACAAATATAACTAATAATCA
1 AATAATCCACCAAAATAATTAACAAATATAACTAATAATCA
8988933 AATAA
1 AATAA
8988938 ACCATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 39 0.95
42 2 0.05
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (41 bp):
AATAATCCACCAAAATAATTAACAAATATAACTAATAATCA
Found at i:8988948 original size:41 final size:41
Alignment explanation
Indices: 8988862--8988949 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
8988852 ATAACCAACC
* * * *
8988862 AAAATAATTAACAAATATAATTAATCATCAAATAATCCATT
1 AAAATAATTAACAAATATAACTAATAATCAAATAAACCATA
8988903 AAAATAATTAACAAATATAACTAATAATCAAATAAACCATA
1 AAAATAATTAACAAATATAACTAATAATCAAATAAACCATA
8988944 AAAATA
1 AAAATA
8988950 TTAGATTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (41 bp):
AAAATAATTAACAAATATAACTAATAATCAAATAAACCATA
Found at i:8991407 original size:32 final size:32
Alignment explanation
Indices: 8991368--8991435 Score: 111
Period size: 32 Copynumber: 2.1 Consensus size: 32
8991358 AACAACTTAA
*
8991368 AAAAAACAAT-TCCATAATTCTCATCATCAATT
1 AAAAAACAATAT-CATAATTCTCATAATCAATT
8991400 AAAAAACAATATCATAATTCTCATAATCAATT
1 AAAAAACAATATCATAATTCTCATAATCAATT
8991432 AAAA
1 AAAA
8991436 TAACGTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (32 bp):
AAAAAACAATATCATAATTCTCATAATCAATT
Found at i:8991988 original size:298 final size:299
Alignment explanation
Indices: 8991452--8992048 Score: 1187
Period size: 298 Copynumber: 2.0 Consensus size: 299
8991442 TTCATCTTTC
8991452 TAGTGTCATTATTGTTCGAATATGATTTGATATTGCCTCTTCGAAGAACCTCATGATTTGATTTA
1 TAGTGTCATTATTGTTCGAATATGATTTGATATTGCCTCTTCGAAGAACCTCATGATTTGATTTA
8991517 ATGCTCCATTCTTTTGGATCCTTTGATTGAATATGACTAACTATTGGATGCTATTTATAGAGCTA
66 ATGCTCCATTCTTTTGGATCCTTTGATTGAATATGACTAACTATTGGATGCTATTTATAGAGCTA
8991582 AACTTAATTTTTAATTGATATGTAACTCTAATATTTTATCTATATTACCTTTAAAATTCTATTCA
131 AACTTAATTTTTAATTGATATGTAACTCTAATATTTTATCTATATTACCTTTAAAATTCTATTCA
8991647 AATCAAAACTCGATAGTTTTGTTTGATCAATGAAAGAGACTAAATTTGACAAACTTAAAAGAATC
196 AATCAAAACTCGATAGTTTTGTTTGATCAATGAAAGAGACTAAATTTGACAAACTTAAAAGAATC
8991712 CCTCCATATTAAAATTAATCGGGACGAA-ATCATTATAT
261 CCTCCATATTAAAATTAATCGGGACGAATATCATTATAT
8991750 TAGTGTCATTATTGTTCGAATATGATTTGATATTGCCTCTTCGAAGAACCTCATGATTTGATTTA
1 TAGTGTCATTATTGTTCGAATATGATTTGATATTGCCTCTTCGAAGAACCTCATGATTTGATTTA
8991815 ATGCTCCATTCTTTTGGATCCTTTGATTGAATATGACTAACTATTGGATGCTATTTATAGAGCTA
66 ATGCTCCATTCTTTTGGATCCTTTGATTGAATATGACTAACTATTGGATGCTATTTATAGAGCTA
8991880 AACTTAATTTTTAATTGATATGTAACTCTAATATTTTATCTATATTACCTTTAAAATTCTATTCA
131 AACTTAATTTTTAATTGATATGTAACTCTAATATTTTATCTATATTACCTTTAAAATTCTATTCA
8991945 AATCAAAACTCGATAGTTTTGTTTGATCAATGAAAGAGACTAAATTTGACAAACTTAAAAGAATC
196 AATCAAAACTCGATAGTTTTGTTTGATCAATGAAAGAGACTAAATTTGACAAACTTAAAAGAATC
8992010 CCTCCATATTAAAATTAATCGGGACGAATATCATTATAT
261 CCTCCATATTAAAATTAATCGGGACGAATATCATTATAT
8992049 ATATTATAAA
Statistics
Matches: 298, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
298 288 0.97
299 10 0.03
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (299 bp):
TAGTGTCATTATTGTTCGAATATGATTTGATATTGCCTCTTCGAAGAACCTCATGATTTGATTTA
ATGCTCCATTCTTTTGGATCCTTTGATTGAATATGACTAACTATTGGATGCTATTTATAGAGCTA
AACTTAATTTTTAATTGATATGTAACTCTAATATTTTATCTATATTACCTTTAAAATTCTATTCA
AATCAAAACTCGATAGTTTTGTTTGATCAATGAAAGAGACTAAATTTGACAAACTTAAAAGAATC
CCTCCATATTAAAATTAATCGGGACGAATATCATTATAT
Found at i:8999180 original size:88 final size:86
Alignment explanation
Indices: 8999029--8999203 Score: 201
Period size: 88 Copynumber: 2.0 Consensus size: 86
8999019 AAAATGGGTA
* **
8999029 AATTAGTTTTTTACATTAGATTAAATAATAAATTAGTCATTCCATTAAAAATTTATCTTTTTACG
1 AATTAGTTTTTTACATTAGATTAAAGAATAAATTAGTCATTCCATTAAAAATTTATCCATTTACG
*
8999094 CGGTTATAAATTGG-CTATTGT
66 CGGTTAAAAATTGGTC-ATTGT
* * * **
8999115 AATTAGTCTTTTATATATTAGATTAAAGAGTAAATT-GATCTTTCTTTTAAAAATTTATCCATTT
1 AATTAGT-TTTT-TACATTAGATTAAAGAATAAATTAG-TCATTCCATTAAAAATTTATCCATTT
**
8999179 ACGTTGTTAAAAATTGGTCATTGT
63 ACGCGGTTAAAAATTGGTCATTGT
8999203 A
1 A
8999204 TGTTAGCATA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
86 7 0.09
87 5 0.07
88 61 0.82
89 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (86 bp):
AATTAGTTTTTTACATTAGATTAAAGAATAAATTAGTCATTCCATTAAAAATTTATCCATTTACG
CGGTTAAAAATTGGTCATTGT
Found at i:9000603 original size:21 final size:21
Alignment explanation
Indices: 9000567--9000608 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9000557 CTCCAAAACA
*
9000567 AGGGAAAATGGGTTACATTTT
1 AGGGAAAATGGCTTACATTTT
* *
9000588 AGGGAAAATGTCTTACCTTTT
1 AGGGAAAATGGCTTACATTTT
9000609 CAATTTCCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (21 bp):
AGGGAAAATGGCTTACATTTT
Found at i:9001217 original size:29 final size:29
Alignment explanation
Indices: 9001175--9001241 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
9001165 CACGGTTTTT
* *
9001175 TTACCAAAATAATATA-AAAAAATAATTAA
1 TTACGAAAAAAATATAGAAAAAA-AATTAA
*
9001204 TTACGAAAAAAATATAGAAAACAAATTAA
1 TTACGAAAAAAATATAGAAAAAAAATTAA
*
9001233 TTATGAAAA
1 TTACGAAAA
9001242 TAGGCATTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 28 0.85
30 5 0.15
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.25
Consensus pattern (29 bp):
TTACGAAAAAAATATAGAAAAAAAATTAA
Found at i:9001778 original size:5 final size:5
Alignment explanation
Indices: 9001768--9001792 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
9001758 ATTAAAAGAG
9001768 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
9001793 TAAACAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:9009058 original size:32 final size:34
Alignment explanation
Indices: 9009022--9009097 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 34
9009012 TAAAATAAAT
*
9009022 TATGAAAAGTTAAG-AATGTAAAGAGACTTG-AG
1 TATGAAAAGTTAAGTAATGTAAAAAGACTTGAAG
*
9009054 TATGAAGAGTT-AGTAATGTAAAAAGACTTGAAG
1 TATGAAAAGTTAAGTAATGTAAAAAGACTTGAAG
9009087 -ATGAAAAGTTA
1 TATGAAAAGTTA
9009098 CACACATGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
31 2 0.05
32 34 0.89
33 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.24, T:0.26
Consensus pattern (34 bp):
TATGAAAAGTTAAGTAATGTAAAAAGACTTGAAG
Found at i:9009149 original size:38 final size:38
Alignment explanation
Indices: 9009107--9009194 Score: 149
Period size: 38 Copynumber: 2.3 Consensus size: 38
9009097 ACACACATGC
*
9009107 ATGAATAGTCACAACTCCTATAACATTTAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAACATTTAGTGATGTAA
* *
9009145 ATGAATAGTCACAACTCCTATAGCATTTAGTGATGTAG
1 ATGAATAGTCACAACTCCTATAACATTTAGTGATGTAA
9009183 ATGAATAGTCAC
1 ATGAATAGTCAC
9009195 TTATAATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (38 bp):
ATGAATAGTCACAACTCCTATAACATTTAGTGATGTAA
Found at i:9013048 original size:29 final size:29
Alignment explanation
Indices: 9013014--9013076 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
9013004 AAAAAAAATG
9013014 ATAAAAAATAAAA-AA-AATTAAATTTTA
1 ATAAAAAATAAAACAATAATTAAATTTTA
*
9013041 ATAAAAAATAAAACAATATTTAAATTTTA
1 ATAAAAAATAAAACAATAATTAAATTTTA
*
9013070 TTAAAAA
1 ATAAAAA
9013077 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 13 0.41
28 2 0.06
29 17 0.53
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (29 bp):
ATAAAAAATAAAACAATAATTAAATTTTA
Found at i:9013087 original size:29 final size:28
Alignment explanation
Indices: 9013014--9013088 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
9013004 AAAAAAAATG
*
9013014 ATAAAAAA-TAAAAAAAATTAAATTTTA
1 ATAAAAAATTAAAAATAATTAAATTTTA
* *
9013041 ATAAAAAATAAAACAATATTTAAATTTTA
1 ATAAAAAATTAAA-AATAATTAAATTTTA
* *
9013070 TTAAAAATTTTAAAAATAA
1 ATAAAAA-ATTAAAAATAA
9013089 AAACCGCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.21
28 3 0.08
29 23 0.61
30 4 0.11
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAAAAAATTAAAAATAATTAAATTTTA
Found at i:9013163 original size:20 final size:19
Alignment explanation
Indices: 9013129--9013192 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
9013119 AAAATTTGAT
*
9013129 AAAATCATAAGAAAATTATTA
1 AAAATCGTAA-AAAATTA-TA
* *
9013150 AAAAT-GTAAAAAAATACA
1 AAAATCGTAAAAAATTATA
9013168 AAAATTCGTAAAAAATTATA
1 AAAA-TCGTAAAAAATTATA
9013188 AAAAT
1 AAAAT
9013193 TATCATACCA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 5 0.14
19 8 0.22
20 18 0.50
21 5 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAATCGTAAAAAATTATA
Found at i:9016537 original size:14 final size:15
Alignment explanation
Indices: 9016518--9016551 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9016508 TTTACAAAAA
*
9016518 AAAAATAGAAT-AAT
1 AAAAATAAAATAAAT
9016532 AAAAATAAAATAAAT
1 AAAAATAAAATAAAT
9016547 AAAAA
1 AAAAA
9016552 AAGGTTCACC
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:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:9017348 original size:26 final size:28
Alignment explanation
Indices: 9017318--9017395 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 28
9017308 GGATGGGAGG
*
9017318 GGAGTAAAAGTTTTGGGGGAAAGT-G-A
1 GGAGTAAAAGTTTTGGGGAAAAGTAGAA
*
9017344 GGAGTAAAGGTTTTGAGGGAAAAGTGAGAA
1 GGAGTAAAAGTTTTG-GGGAAAAGT-AGAA
*
9017374 GGAGTAAACGTTTTGGGGAAAA
1 GGAGTAAAAGTTTTGGGGAAAA
9017396 AGTAAAAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 14 0.31
27 8 0.18
29 8 0.18
30 15 0.33
ACGTcount: A:0.37, C:0.01, G:0.40, T:0.22
Consensus pattern (28 bp):
GGAGTAAAAGTTTTGGGGAAAAGTAGAA
Found at i:9017744 original size:21 final size:20
Alignment explanation
Indices: 9017718--9017764 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
9017708 AAAAGGACCT
9017718 TTTTATACAT-TTTATAAATTA
1 TTTTATACATATTTATAAA--A
*
9017739 TTTTAT-GATATTTATAAAA
1 TTTTATACATATTTATAAAA
9017758 TTTTATA
1 TTTTATA
9017765 TTTTTATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
20 2 0.09
21 14 0.61
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTTATACATATTTATAAAA
Found at i:9017795 original size:9 final size:9
Alignment explanation
Indices: 9017717--9017824 Score: 53
Period size: 9 Copynumber: 11.6 Consensus size: 9
9017707 TAAAAGGACC
9017717 TTTTTATACA
1 TTTTTATA-A
9017727 -TTTTATAAA
1 TTTTTAT-AA
*
9017736 TTATTTTATGA
1 -T-TTTTATAA
*
9017747 TATTTATAAA
1 TTTTTAT-AA
*
9017757 ATTTTAT-A
1 TTTTTATAA
9017765 TTTTTATTCAA
1 TTTTTA-T-AA
* *
9017776 ATTTAATAA
1 TTTTTATAA
9017785 TTTTTATAA
1 TTTTTATAA
* *
9017794 TTTTTGTTTA
1 TTTTT-ATAA
9017804 TTTTTAT--
1 TTTTTATAA
9017811 TTTTTATAA
1 TTTTTATAA
9017820 TTTTT
1 TTTTT
9017825 TTACCACATA
Statistics
Matches: 74, Mismatches: 13, Indels: 23
0.67 0.12 0.21
Matches are distributed among these distances:
7 7 0.09
8 6 0.08
9 33 0.45
10 16 0.22
11 6 0.08
12 6 0.08
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9020761 original size:21 final size:21
Alignment explanation
Indices: 9020735--9020787 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
9020725 CAGCAGTGGT
*
9020735 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGGTACTGTAGC
*
9020756 GGTGAGATTGGGTACTGTAGC
1 GGTGAGATTAGGTACTGTAGC
9020777 GGTGAGATTAG
1 GGTGAGATTAG
9020788 AAATAATGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.08, G:0.40, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGGTACTGTAGC
Found at i:9023835 original size:7 final size:7
Alignment explanation
Indices: 9023823--9023849 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9023813 CCTACATAAC
9023823 ATGTTAA
1 ATGTTAA
9023830 ATGTTAA
1 ATGTTAA
9023837 ATGTTAA
1 ATGTTAA
9023844 ATGTTA
1 ATGTTA
9023850 TACTAAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:9025191 original size:11 final size:12
Alignment explanation
Indices: 9025159--9025209 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
9025149 TCTTTTGTTT
9025159 TATATAT-AT-A
1 TATATATAATAA
9025169 TATATA-ATATAA
1 TATATATA-ATAA
9025181 TATAT-TAATAA
1 TATATATAATAA
9025192 TA-ATATAATAA
1 TATATATAATAA
9025203 TATATAT
1 TATATAT
9025210 TAACTAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.23
11 16 0.46
12 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TATATATAATAA
Found at i:9025198 original size:24 final size:24
Alignment explanation
Indices: 9025170--9025221 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
9025160 ATATATATAT
9025170 ATATAAT-ATAATATATTAA-TAATA
1 ATATAATAAT-ATATATTAACTAA-A
9025194 ATATAATAATATATATTAACTAAA
1 ATATAATAATATATATTAACTAAA
9025218 ATAT
1 ATAT
9025222 CTTTAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAATAATATATATTAACTAAA
Found at i:9025221 original size:14 final size:13
Alignment explanation
Indices: 9025166--9025221 Score: 53
Period size: 14 Copynumber: 4.3 Consensus size: 13
9025156 TTTTATATAT
*
9025166 ATATATATAATATA
1 ATATAT-TAATAAA
*
9025180 ATATATTAATAAT
1 ATATATTAATAAA
*
9025193 A-ATA-TAATAAT
1 ATATATTAATAAA
9025204 ATATATTAACTAAA
1 ATATATTAA-TAAA
9025218 ATAT
1 ATAT
9025222 CTTTAACATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 8 0.22
12 6 0.17
13 9 0.25
14 13 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATATATTAATAAA
Found at i:9030418 original size:27 final size:30
Alignment explanation
Indices: 9030359--9030412 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 30
9030349 ATTTGTAAAG
*
9030359 TTTAATTTATTATATTTAATACTATTTGAA
1 TTTAATTTATTATATTTAATAATATTTGAA
9030389 TTTAATTT-TTA-A-TTAATAATATTT
1 TTTAATTTATTATATTTAATAATATTT
9030413 ATATTTGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 11 0.48
28 1 0.04
29 3 0.13
30 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTAATTTATTATATTTAATAATATTTGAA
Found at i:9031894 original size:21 final size:21
Alignment explanation
Indices: 9031868--9031925 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9031858 CCTAAGGCTG
9031868 AACAGAAGCACATAAGTGG-TA
1 AACAGAAGCACATAAG-GGTTA
* *
9031889 AACAGAAACCCATAAGGGTTA
1 AACAGAAGCACATAAGGGTTA
* *
9031910 AACGGAAGCTCATAAG
1 AACAGAAGCACATAAG
9031926 AGCTGAACGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (21 bp):
AACAGAAGCACATAAGGGTTA
Found at i:9031918 original size:42 final size:42
Alignment explanation
Indices: 9031872--9032022 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
9031862 AGGCTGAACA
* *
9031872 GAAGCACATAAGTGGTAAAC-AGAAACCCATAAGGGTTAAACG
1 GAAGCACATAAGAGCTAAACGA-AAACCCATAAGGGTTAAACG
* * * *
9031914 GAAGCTCATAAGAGCTGAACGAAAACCGATAAGGGTTAAACA
1 GAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTAAACG
* * * * * * *
9031956 GAAACTCAAAAGAGCTAAACGAAAACTCATAAGAGTTGAACA
1 GAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTAAACG
* *
9031998 GAAG-ATCATGAGAGCTAAATGAAAA
1 GAAGCA-CATAAGAGCTAAACGAAAA
9032023 GCAAACACGA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 88 0.99
43 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (42 bp):
GAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTAAACG
Found at i:9031934 original size:21 final size:21
Alignment explanation
Indices: 9031878--9032016 Score: 84
Period size: 21 Copynumber: 6.6 Consensus size: 21
9031868 AACAGAAGCA
* * * *
9031878 CATAAGTGGTAAACAGAAACC
1 CATAAGAGCTAAACGGAAACT
* * *
9031899 CATAAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAACGGAAACT
* *
9031920 CATAAGAGCTGAACGAAAAC-
1 CATAAGAGCTAAACGGAAACT
* * *
9031940 CGATAAGGGTTAAACAGAAACT
1 C-ATAAGAGCTAAACGGAAACT
* *
9031962 CAAAAGAGCTAAACGAAAACT
1 CATAAGAGCTAAACGGAAACT
* * *
9031983 CATAAGAGTTGAACAGAAGA-T
1 CATAAGAGCTAAACGGAA-ACT
*
9032004 CATGAGAGCTAAA
1 CATAAGAGCTAAA
9032017 TGAAAAGCAA
Statistics
Matches: 87, Mismatches: 28, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
20 1 0.01
21 84 0.97
22 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (21 bp):
CATAAGAGCTAAACGGAAACT
Found at i:9035842 original size:27 final size:27
Alignment explanation
Indices: 9035808--9035876 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
9035798 GGAGTGGCTA
* *
9035808 CCACAGGCGGCACCAGTGGTGCCAGTG
1 CCACAGGCGGCACCAATGGTGCCACTG
* *
9035835 GCAGAGGCGGCACCAATGGTGCCACTG
1 CCACAGGCGGCACCAATGGTGCCACTG
*
9035862 CCACAGGTGGCACCA
1 CCACAGGCGGCACCA
9035877 CCCCCCTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.33, G:0.35, T:0.10
Consensus pattern (27 bp):
CCACAGGCGGCACCAATGGTGCCACTG
Found at i:9035952 original size:10 final size:10
Alignment explanation
Indices: 9035933--9036026 Score: 66
Period size: 10 Copynumber: 9.3 Consensus size: 10
9035923 AAGGAGAGGG
*
9035933 GAAAAAGAAA
1 GAAAAGGAAA
*
9035943 GAAAACGAAA
1 GAAAAGGAAA
*
9035953 GGAAAGGAAA
1 GAAAAGGAAA
*
9035963 GGAAAGGAGAA
1 GAAAAGGA-AA
*
9035974 G-AAAGAAAA
1 GAAAAGGAAA
* *
9035983 AAAAAGAAAA
1 GAAAAGGAAA
*
9035993 GGAAAGGAGAA
1 GAAAAGGA-AA
9036004 G-AAAGGAAA
1 GAAAAGGAAA
*
9036013 GGAAAGGAGAA
1 GAAAAGGA-AA
9036024 GAA
1 GAA
9036027 GAAGAGGGAG
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
9 5 0.07
10 55 0.79
11 10 0.14
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAAGGAAA
Found at i:9035959 original size:5 final size:5
Alignment explanation
Indices: 9035939--9036020 Score: 78
Period size: 5 Copynumber: 16.4 Consensus size: 5
9035929 AGGGGAAAAA
* * * * *
9035939 GAAAG AAAAC GAAAG GAAAG GAAAG GAAAG GAGAA- GAAAG AAAAA AAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GA-AAG GAAAG GAAAG GAAAG
*
9035989 AAAAG GAAAG GAGAA- GAAAG GAAAG GAAAG GA
1 GAAAG GAAAG GA-AAG GAAAG GAAAG GAAAG GA
9036021 GAAGAAGAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.06
5 57 0.88
6 4 0.06
ACGTcount: A:0.66, C:0.01, G:0.33, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:9035977 original size:20 final size:20
Alignment explanation
Indices: 9035949--9036026 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
9035939 GAAAGAAAAC
9035949 GAAAGGAAAGGA-AAGGAAAG
1 GAAAGGAAAGGAGAA-GAAAG
* * *
9035969 GAGAA-GAAAGAAAAAAAAAG
1 GA-AAGGAAAGGAGAAGAAAG
*
9035989 AAAAGGAAAGGAGAAGAAAG
1 GAAAGGAAAGGAGAAGAAAG
9036009 GAAAGGAAAGGAGAAGAA
1 GAAAGGAAAGGAGAAGAA
9036027 GAAGAGGGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 2 0.04
20 42 0.88
21 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
GAAAGGAAAGGAGAAGAAAG
Found at i:9035982 original size:35 final size:33
Alignment explanation
Indices: 9035937--9036059 Score: 105
Period size: 30 Copynumber: 3.7 Consensus size: 33
9035927 AGAGGGGAAA
*
9035937 AAGAAAGAAAACGAAAGGAAAGGAAAGGAAAGGAG
1 AAGAAAG-AAA-GAAAGGAAAGAAAAGGAAAGGAG
9035972 AAGAAAGAAA-AAA--AAAGAAAAGGAAAGGAG
1 AAGAAAGAAAGAAAGGAAAGAAAAGGAAAGGAG
**
9036002 AAGAAAGGAAAGGAAAGGAGAAGAAGAAGAGGGAGG-G
1 AAGAAA-GAAA-GAAAGGA-AAGAA-AAG-GAAAGGAG
*
9036039 AAGGAA-AAAGAAA-GAAAGAAA
1 AAGAAAGAAAGAAAGGAAAGAAA
9036060 TAAGTAAAGG
Statistics
Matches: 76, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
30 22 0.29
31 5 0.07
32 8 0.11
33 5 0.07
34 7 0.09
35 11 0.14
36 5 0.07
37 9 0.12
38 4 0.05
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (33 bp):
AAGAAAGAAAGAAAGGAAAGAAAAGGAAAGGAG
Found at i:9036296 original size:10 final size:10
Alignment explanation
Indices: 9036283--9036367 Score: 62
Period size: 10 Copynumber: 9.3 Consensus size: 10
9036273 TTTTTTTAGG
9036283 GAAAGGAGAA
1 GAAAGGAGAA
9036293 GAAA-GA-AA
1 GAAAGGAGAA
* *
9036301 GAAAGAAAAA
1 GAAAGGAGAA
9036311 GAAA-GA-AA
1 GAAAGGAGAA
9036319 GAAA--AG--
1 GAAAGGAGAA
9036325 GAAAGGAGAA
1 GAAAGGAGAA
* *
9036335 GAAAGAAAAA
1 GAAAGGAGAA
9036345 GAAAGGA-AA
1 GAAAGGAGAA
9036354 GGAAAGGAGAA
1 -GAAAGGAGAA
9036365 GAA
1 GAA
9036368 GAAAAGGGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
6 4 0.07
7 1 0.02
8 14 0.23
9 6 0.10
10 34 0.56
11 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGGAGAA
Found at i:9036298 original size:4 final size:4
Alignment explanation
Indices: 9036291--9036359 Score: 56
Period size: 4 Copynumber: 16.8 Consensus size: 4
9036281 GGGAAAGGAG
9036291 AAGA AAGA AAGA AAG- AA-A AAGA AAGA AAGAA AAGGA AAGGA GAAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA
9036337 AAG- AA-A AAGA AAGGA AAGGA AAG
1 AAGA AAGA AAGA AA-GA AA-GA AAG
9036360 GAGAAGAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
3 8 0.14
4 26 0.46
5 20 0.35
6 3 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:9036311 original size:14 final size:14
Alignment explanation
Indices: 9036289--9036406 Score: 73
Period size: 15 Copynumber: 8.0 Consensus size: 14
9036279 TAGGGAAAGG
9036289 AGAAGAAAGAAAGAA
1 AGAA-AAAGAAAGAA
9036304 AGAAAAAGAAAGAA
1 AGAAAAAGAAAGAA
9036318 AGAAAAGGAAAGGAGAAGAA
1 AG--AA--AAA-GA-AAGAA
9036338 AGAAAAAGAAAGGAA
1 AGAAAAAGAAA-GAA
* *
9036353 AGGAAAGGAGAAG-A
1 AGAAAAAGA-AAGAA
* *
9036367 AGAAAAGGGAAGGAA
1 AGAAAA-AGAAAGAA
*
9036382 GGAAAAA-AAA-AA
1 AGAAAAAGAAAGAA
9036394 AGAAAAA-AAAGAA
1 AGAAAAAGAAAGAA
9036407 GTAAAGGTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
12 11 0.13
13 4 0.05
14 22 0.26
15 26 0.31
16 7 0.08
18 5 0.06
19 2 0.02
20 7 0.08
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAGAA
Found at i:9036346 original size:30 final size:30
Alignment explanation
Indices: 9036303--9036372 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
9036293 GAAAGAAAGA
9036303 AAGAAA-AAGAAAGAAAGAAAAGGAAAGGAG
1 AAGAAAGAA-AAAGAAAGAAAAGGAAAGGAG
*
9036333 AAGAAAGAAAAAGAAAGGAAAGGAAAGGAG
1 AAGAAAGAAAAAGAAAGAAAAGGAAAGGAG
9036363 AAG-AAGAAAA
1 AAGAAAGAAAA
9036373 GGGAAGGAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 7 0.18
30 29 0.76
31 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
AAGAAAGAAAAAGAAAGAAAAGGAAAGGAG
Found at i:9036383 original size:23 final size:23
Alignment explanation
Indices: 9036282--9036395 Score: 90
Period size: 23 Copynumber: 4.8 Consensus size: 23
9036272 TTTTTTTTAG
9036282 GGAAAGGAGAAGAAAGAAA-GAAA
1 GGAAAGGAGAA-AAAGAAAGGAAA
* *
9036305 GAAAAAGA-AAGAAAGAAAAGGAAA
1 GGAAAGGAGAA-AAAG-AAAGGAAA
*
9036329 GGAGAAGAAAGAAAAAGAAAGGAAA
1 GGA-AAG-GAGAAAAAGAAAGGAAA
* *
9036354 GGAAAGGAGAAGAAGAAAAGGGAA
1 GGAAAGGAGAAAAAG-AAAGGAAA
* *
9036378 GG-AAGGAAAAAAAAAAAG
1 GGAAAGGAGAAAAAGAAAG
9036396 AAAAAAAAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
22 11 0.15
23 25 0.34
24 18 0.24
25 13 0.18
26 5 0.07
27 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (23 bp):
GGAAAGGAGAAAAAGAAAGGAAA
Found at i:9036590 original size:336 final size:337
Alignment explanation
Indices: 9035949--9036616 Score: 1026
Period size: 336 Copynumber: 2.0 Consensus size: 337
9035939 GAAAGAAAAC
* * * *
9035949 GAAAGGAAAGGAAAGGAAAGGAGAAGAAAGAAAAAAAAAGAAAAGGAAAGGAGAAGAAAGGAAAG
1 GAAAGGAAAGGAAAGAAAAAGAGAAGAAAGAAAAAAAAAGAAAAGGAAAGAAAAAGAAAGGAAAG
* * * * *
9036014 GAAAGGAGAAGAAGAAGAGGGAGGGAAGGAAAAAGAAAGAAAGAAATAAGTAAAGGTAATTTTTT
66 GAAAGGAGAAGAAGAAAAGGGAAGGAAGGAAAAAAAAAGAAAAAAAGAAGTAAAGGTAATTTTTT
*
9036079 TTGTATTAATTTAAAATTTTTTTTTTTTGTAATATTTGTGTAAAAAATCTATGTTATGTACATTG
131 TTGTATTAACTT-AAA------TTTTTTGTAATATTTGTGTAAAAAATCTATGTTATGTACATTG
9036144 TATGTGTTTTTTATTTTATTTAGCATATATATTTTATAAAATTTATTTAGTATGAAAAAATCCAT
189 TATGTGTTTTTTATTTTATTTAGCATATATATTTTATAAAATTTATTTAGTATGAAAAAATCCAT
9036209 GTTATGTACATTCTATGTTGATTAGAATTTTTTAATAAAATTTATTTAGCATGTTGTAATTAGTT
254 GTTATGTACATTCTATGTTGATTAGAATTTTTTAATAAAATTTATTTAGCATGTTGTAATTAGTT
9036274 TTTTTTAGGGAAAGGAGAA
319 TTTTTTAGGGAAAGGAGAA
* * *
9036293 GAAA-GAAA-GAAAGAAAAAGA-AAGAAAGAAAAGGAAAGGAGAA-GAAAGAAAAAGAAAGGAAA
1 GAAAGGAAAGGAAAGAAAAAGAGAAGAAAGAAAA-AAAAAGAAAAGGAAAGAAAAAGAAAGGAAA
9036354 GGAAAGGAGAAGAAGAAAAGGGAAGGAAGGAAAAAAAAAAAGAAAAAAAAGAAGTAAAGGTAA-T
65 GGAAAGGAGAAGAAGAAAAGGGAAGGAAGG--AAAAAAAAAG-AAAAAAAGAAGTAAAGGTAATT
* * *
9036418 TTTTTTGTATTAACTT-AA-TTTTTGTAATTATTTGTGTAAAAAATTTATGTTATGTATATTTTA
127 TTTTTTGTATTAACTTAAATTTTTTGTAA-TATTTGTGTAAAAAATCTATGTTATGTACATTGTA
9036481 TGTGTTTTATTATTTTATTTAGCATATATATTTTATAAAATTTATTTAGTATGAAAAAATCCATG
191 TGTGTTTT-TTATTTTATTTAGCATATATATTTTATAAAATTTATTTAGTATGAAAAAATCCATG
9036546 TTATGTACATTCTATGTTGATTAGAATTTTTTAATAAAATTTATTTAGCATGTTGTAATTAGTTT
255 TTATGTACATTCTATGTTGATTAGAATTTTTTAATAAAATTTATTTAGCATGTTGTAATTAGTTT
9036611 TTTTTA
320 TTTTTA
9036617 AATAGCATTA
Statistics
Matches: 302, Mismatches: 16, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
334 9 0.03
335 40 0.13
336 127 0.42
341 58 0.19
342 17 0.06
343 29 0.10
344 22 0.07
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.34
Consensus pattern (337 bp):
GAAAGGAAAGGAAAGAAAAAGAGAAGAAAGAAAAAAAAAGAAAAGGAAAGAAAAAGAAAGGAAAG
GAAAGGAGAAGAAGAAAAGGGAAGGAAGGAAAAAAAAAGAAAAAAAGAAGTAAAGGTAATTTTTT
TTGTATTAACTTAAATTTTTTGTAATATTTGTGTAAAAAATCTATGTTATGTACATTGTATGTGT
TTTTTATTTTATTTAGCATATATATTTTATAAAATTTATTTAGTATGAAAAAATCCATGTTATGT
ACATTCTATGTTGATTAGAATTTTTTAATAAAATTTATTTAGCATGTTGTAATTAGTTTTTTTTA
GGGAAAGGAGAA
Found at i:9037357 original size:152 final size:154
Alignment explanation
Indices: 9037009--9037390 Score: 567
Period size: 155 Copynumber: 2.5 Consensus size: 154
9036999 AAGGTTGTTT
* *
9037009 TAAATTTATTTAAAAAATATATTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
1 TAAATTTATTTAAAAAACAAATTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
* *
9037074 ATAATAAAATCCAAAAATAATATATTTTTATTGAAAGTAATAAAATCCGAGAAAAAATACGAGCA
66 ATAATAAAATACAAAAATAACATATTTTTATTGAAAGTAATAAAATCC-AGAAAAAATACGAGCA
*
9037139 AAGGGGCGAAATAAGGGTTATTTTC
130 AAGGGCCGAAATAAGGGTTATTTTC
* *
9037164 TAAATTTATTTAAAAAACAGAATT-AATTAATACATTTCAAACATAATGTAATAAAATAATATAA
1 TAAATTTATTTAAAAAACA-AATTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
* * *
9037228 AATAATAAAATACGAAAATAACATATTTTTATTGAAAGTAATAATATCC-G-AAAAATACGAGTA
65 AATAATAAAATACAAAAATAACATATTTTTATTGAAAGTAATAAAATCCAGAAAAAATACGAGCA
*
9037291 AAGGGCCGAAATAA-GGTTTTTTTAC
130 AAGGGCCGAAATAAGGGTTATTTT-C
* * * *
9037316 TAAATTTTTTTAAAAAACACATTAAATTAGTAAATTTCAAACATAATGTACTAAAATAATGTAAA
1 TAAATTTATTTAAAAAACAAATTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
9037381 AT-ATAAAATA
66 ATAATAAAATA
9037391 AAGGCCGAAA
Statistics
Matches: 207, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
151 19 0.09
152 83 0.40
153 1 0.00
155 101 0.49
156 3 0.01
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.32
Consensus pattern (154 bp):
TAAATTTATTTAAAAAACAAATTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
ATAATAAAATACAAAAATAACATATTTTTATTGAAAGTAATAAAATCCAGAAAAAATACGAGCAA
AGGGCCGAAATAAGGGTTATTTTC
Found at i:9037428 original size:100 final size:101
Alignment explanation
Indices: 9037289--9037491 Score: 297
Period size: 100 Copynumber: 2.0 Consensus size: 101
9037279 AAAATACGAG
* * *
9037289 TAAAGGGCCGAAATAAGGTTTTTTTACTAAATTTTTTTAAAAAACA-CATTAAATTAGTAAATTT
1 TAAAGGGCCGAAATAAGGTTTTTTTACTAAATTTATTTAAAAAACAGAATT-AATTAATAAATTT
*
9037353 CAAACATAATGTACTAAAATAATGTAAAAT-ATAAAA
65 CAAACATAATGTACTAAAATAATATAAAATAATAAAA
*
9037389 TAAA-GGCCGAAATAAGGGTTATTTTT-CTAAATTTATTTAAAAAACAGAATTAATTAATACATT
1 TAAAGGGCCGAAATAA-GGTT-TTTTTACTAAATTTATTTAAAAAACAGAATTAATTAATAAATT
*
9037452 TCTAACATAATGTACTAAAATAATATAAAATAATAAAA
64 TCAAACATAATGTACTAAAATAATATAAAATAATAAAA
9037490 TA
1 TA
9037492 CGAAAATAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 7
0.88 0.06 0.07
Matches are distributed among these distances:
99 11 0.12
100 66 0.71
101 16 0.17
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (101 bp):
TAAAGGGCCGAAATAAGGTTTTTTTACTAAATTTATTTAAAAAACAGAATTAATTAATAAATTTC
AAACATAATGTACTAAAATAATATAAAATAATAAAA
Found at i:9043340 original size:11 final size:11
Alignment explanation
Indices: 9043314--9043347 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9043304 TAAACTAACA
9043314 ACAAAAAATA-
1 ACAAAAAATAT
*
9043324 ATAAAAAATAT
1 ACAAAAAATAT
9043335 ACAAAAAATAT
1 ACAAAAAATAT
9043346 AC
1 AC
9043348 TAACAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
ACAAAAAATAT
Found at i:9043823 original size:23 final size:26
Alignment explanation
Indices: 9043779--9043825 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9043769 TAAGATATGA
9043779 AAATAATAAAGTATATATAATTTAAT
1 AAATAATAAAGTATATATAATTTAAT
*
9043805 AAATTATAAA-TAT-TA-AATTTA
1 AAATAATAAAGTATATATAATTTA
9043826 TTAGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 2 0.10
25 3 0.15
26 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATAATAAAGTATATATAATTTAAT
Found at i:9053526 original size:11 final size:11
Alignment explanation
Indices: 9053500--9053533 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9053490 TAAACTAACA
9053500 ACAAAAAATA-
1 ACAAAAAATAT
*
9053510 ATAAAAAATAT
1 ACAAAAAATAT
9053521 ACAAAAAATAT
1 ACAAAAAATAT
9053532 AC
1 AC
9053534 TAACAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
ACAAAAAATAT
Found at i:9054009 original size:23 final size:26
Alignment explanation
Indices: 9053965--9054011 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
9053955 TAAGATATGA
9053965 AAATAATAAAGTATATATAATTTAAT
1 AAATAATAAAGTATATATAATTTAAT
*
9053991 AAATTATAAA-TAT-TA-AATTTA
1 AAATAATAAAGTATATATAATTTA
9054012 TTAGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 2 0.10
25 3 0.15
26 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATAATAAAGTATATATAATTTAAT
Found at i:9070371 original size:113 final size:113
Alignment explanation
Indices: 9070108--9070371 Score: 257
Period size: 113 Copynumber: 2.3 Consensus size: 113
9070098 AGCCTGATAA
** * * *
9070108 TTAGCGGCGCTTCCTATAAAGCGCCGCTAATGCTCAGGTCTTTAGCAGCGTTTCTGGGAAAGTGC
1 TTAGCGGCGCTTTATAAAAAGCGCCGCTAATGCTCAGGTCTTTAGCAGCGTTTCTGGAAAAGCGC
* *
9070173 CGCAAAAAAATCTAGCGCAACGACATCGTCTCGCCAGCTTTCAGGGAT
66 CGCAAAAAAACCTAGCCCAACGACATCGTCTCGCCAGCTTTCAGGGAT
* ** ** * * *
9070221 TTAGTGGCGCTTTATAGGAAGCGCCGCTAATTATCAGG-CTTTTAGCGGCGTTTGTTGTAAAAGC
1 TTAGCGGCGCTTTATAAAAAGCGCCGCTAATGCTCAGGTC-TTTAGCAGCGTTT-CTGGAAAAGC
* * * * ** *
9070285 GCCGC-TAAAAACCTAAGCCCAACGACGTCGTCTC-CTTATCTTTTGGGGTT
64 GCCGCAAAAAAACCT-AGCCCAACGACATCGTCTCGC-CAGCTTTCAGGGAT
*
9070335 TTAGCGGCGTTTTA-AAAAAGCGCCGCTAATGCTCAGG
1 TTAGCGGCGCTTTATAAAAAGCGCCGCTAATGCTCAGG
9070372 GATTTAAAAT
Statistics
Matches: 120, Mismatches: 27, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
112 1 0.01
113 70 0.58
114 49 0.41
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGCTTTATAAAAAGCGCCGCTAATGCTCAGGTCTTTAGCAGCGTTTCTGGAAAAGCGC
CGCAAAAAAACCTAGCCCAACGACATCGTCTCGCCAGCTTTCAGGGAT
Found at i:9071814 original size:78 final size:77
Alignment explanation
Indices: 9071321--9072147 Score: 795
Period size: 76 Copynumber: 10.4 Consensus size: 77
9071311 TTAAATTTCT
* *
9071321 AGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTTTTAAAAAATTTCTATTTTTTT--TAAATAAA
1 AGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTT---AAATTTCT-TTTTTTTCAAAAATCAA
* *
9071384 CTCAT-ATAATGAGAAGTG
60 CTCATAAT-ACGAGAGGTG
*
9071402 AGTTGAGTCTCGGGTCGCACGCTGAGGTATTTTTTTAAATTTCTGTTTTTTTTCAAAAATCAACT
1 AGTTGAGCCTCGGGT--CACGCTGAGGTATTTTTTTAAATTTC--TTTTTTTTCAAAAATCAACT
* * *
9071467 CATATTGCGAGAAGTG
62 CATAATACGAGAGGTG
9071483 AGTTGAGCCTCGGGTCGCACGCTGAGGTATTTATTTATTTTAAATTTCTGTTTTTTTTTTCAAAA
1 AGTTGAGCCTCGGGT--CACGCTGAGG----TATTT-TTTTAAATTTC----TTTTTTTTCAAAA
* * *
9071548 ATCAACTCATATTGCGAGAAGTG
55 ATCAACTCATAATACGAGAGGTG
9071571 AGTTGAGCCTCGGGTCGCACGCTGAGGTATTTATTTATTTTAAATTTCTGTTTTTTTTTTCAAAA
1 AGTTGAGCCTCGGGT--CACGCTGAGG----TATTT-TTTTAAATTTC----TTTTTTTTCAAAA
* * *
9071636 ATCAACTCATATTGCGAGAAGTG
55 ATCAACTCATAATACGAGAGGTG
* **
9071659 AGTTGAGCCTTGGGTCATC-CTGAGGTA--TTTTTAAATTT-TCGTTTTTCAAAAATCAACTCAT
1 AGTTGAGCCTCGGGTCA-CGCTGAGGTATTTTTTTAAATTTCTTTTTTTTCAAAAATCAACTCAT
9071720 AATAC-AGAGGTG
65 AATACGAGAGGTG
**
9071732 AGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTTATTTCTATTTTTTTCAAAAAATCAACTCA
1 AGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCT-TTTTTTTC-AAAAATCAACTCA
9071797 TAATAC-AGAGGTG
64 TAATACGAGAGGTG
* * * **
9071810 AGTTGAGCCTCGAGTCATGCCGAGGTATTTCTTTTAAATTT-TCGTTTTTCAAAAATCAACTCAT
1 AGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTTTTTTTTCAAAAATCAACTCAT
9071874 AATAC-AGAGGTG
65 AATACGAGAGGTG
* * *
9071886 AGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAATTTC-TGTTTTTCAAAAATCAACTCAT
1 AGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTTTTTTTTCAAAAATCAACTCAT
*
9071950 AATA-TAGAGGTG
65 AATACGAGAGGTG
* ** * * * * * *
9071962 AGTTGAGCCTAGGACCATGCCGAGATATTTCTTTTAAATTT-ATGTTTTTGAAAAATCAACTCAT
1 AGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCTTTTTTTTCAAAAATCAACTCAT
* *
9072026 ATTGCGAGAGGTG
65 AATACGAGAGGTG
*
9072039 AGTTGAGCCTCGGGTCACGCCGAGGTATTTCTTTTAAATTT-TCTTTTTTTCAAAAATCAACTCA
1 AGTTGAGCCTCGGGTCACGCTGAGGTATTT-TTTTAAATTTCT-TTTTTTTCAAAAATCAACTCA
*
9072103 CAATACGAGAGGTG
64 TAATACGAGAGGTG
9072117 AGTTGAGCCTCGGGTCATC-CTGAGGTATTTT
1 AGTTGAGCCTCGGGTCA-CGCTGAGGTATTTT
9072148 CAATTTCTGT
Statistics
Matches: 672, Mismatches: 48, Indels: 56
0.87 0.06 0.07
Matches are distributed among these distances:
72 1 0.00
73 30 0.04
74 24 0.04
75 9 0.01
76 159 0.24
77 56 0.08
78 118 0.18
79 26 0.04
80 2 0.00
81 80 0.12
82 3 0.00
85 5 0.01
86 19 0.03
87 1 0.00
88 139 0.21
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (77 bp):
AGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTCTTTTTTTTCAAAAATCAACTCATA
ATACGAGAGGTG
Found at i:9073100 original size:29 final size:29
Alignment explanation
Indices: 9073061--9073200 Score: 158
Period size: 29 Copynumber: 4.8 Consensus size: 29
9073051 ACAAAAAATA
9073061 AAAATTTACATTTTGACCCCAAACTTTGCT-
1 AAAA-TTACATTTTGACCCCAAACTTT-CTC
*
9073091 AAAATTACATTTTGGCCCCAAACTTTCTC
1 AAAATTACATTTTGACCCCAAACTTTCTC
* * *
9073120 AAAATTACACTTTGACCCCTAAACTTTTTG
1 AAAATTACATTTTGACCCC-AAACTTTCTC
* * *
9073150 AAAATTACATTTTGGCCCCATATTTTC-C
1 AAAATTACATTTTGACCCCAAACTTTCTC
*
9073178 TAAAATTACATTTTTACCCCAAA
1 -AAAATTACATTTTGACCCCAAA
9073201 TATTTTGCGT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.02
29 62 0.67
30 29 0.31
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAACTTTCTC
Found at i:9073154 original size:59 final size:58
Alignment explanation
Indices: 9073061--9073200 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 58
9073051 ACAAAAAATA
9073061 AAAATTTACATTTTGACCCCAAACTTTGCTAAAATTACATTTTGGCCCCAAACTTT-CT
1 AAAA-TTACATTTTGACCCCAAACTTTGCTAAAATTACATTTTGGCCCCAAACTTTCCT
* * * *
9073119 CAAAATTACACTTTGACCCCTAAACTTT-TTGAAAATTACATTTTGGCCCCATATTTTCCT
1 -AAAATTACATTTTGACCCC-AAACTTTGCT-AAAATTACATTTTGGCCCCAAACTTTCCT
*
9073179 AAAATTACATTTTTACCCCAAA
1 AAAATTACATTTTGACCCCAAA
9073201 TATTTTGCGT
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
58 18 0.25
59 52 0.72
60 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (58 bp):
AAAATTACATTTTGACCCCAAACTTTGCTAAAATTACATTTTGGCCCCAAACTTTCCT
Found at i:9073374 original size:25 final size:24
Alignment explanation
Indices: 9073344--9073390 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
9073334 AGACAAGAAG
9073344 AAAAAGGACAAAAAAT-GAAGAGATT
1 AAAAA-GA-AAAAAATGGAAGAGATT
*
9073369 AAAAAGAAGAAAATGGAAGAGA
1 AAAAAGAAAAAAATGGAAGAGA
9073391 AGAAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.66, C:0.02, G:0.23, T:0.09
Consensus pattern (24 bp):
AAAAAGAAAAAAATGGAAGAGATT
Found at i:9073748 original size:24 final size:23
Alignment explanation
Indices: 9073716--9073812 Score: 115
Period size: 24 Copynumber: 4.1 Consensus size: 23
9073706 GTGCTGCCCG
* *
9073716 AAGAAGAAGAAAGAAGAAAGAAAA
1 AAGAAAAAGAAAAAAGAAAG-AAA
* *
9073740 AAGAAGAAGAAAAAGGGAGAAGAAA
1 AAGAAAAAGAAAAA-AGA-AAGAAA
9073765 AAGAAAAAGAAAAAGAGAAAGAAA
1 AAGAAAAAGAAAAA-AGAAAGAAA
9073789 AAGAAAAAGAAAAAAGAAA-AAA
1 AAGAAAAAGAAAAAAGAAAGAAA
9073811 AA
1 AA
9073813 TTTAAAAGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
22 5 0.07
23 5 0.07
24 33 0.49
25 21 0.31
26 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAAAAGAAAGAAA
Found at i:9073778 original size:37 final size:37
Alignment explanation
Indices: 9073715--9073809 Score: 113
Period size: 37 Copynumber: 2.5 Consensus size: 37
9073705 GGTGCTGCCC
9073715 GAAGAAGAAGAAAGAAGAAAGAAAAAAGA-AGAAGAAAAA
1 GAAGAAGAA-AAAGAA-AAAGAAAAAAGAGA-AAGAAAAA
*
9073754 GGGAGAAGAAAAAGAAAAAG-AAAAAGAGAAAGAAAAA
1 -GAAGAAGAAAAAGAAAAAGAAAAAAGAGAAAGAAAAA
*
9073791 GAAAAAGAAAAAAGAAAAA
1 GAAGAAG-AAAAAGAAAAA
9073810 AAATTTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
36 5 0.10
37 26 0.52
38 5 0.10
39 6 0.12
40 8 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (37 bp):
GAAGAAGAAAAAGAAAAAGAAAAAAGAGAAAGAAAAA
Found at i:9073786 original size:43 final size:43
Alignment explanation
Indices: 9073715--9073797 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 43
9073705 GGTGCTGCCC
* *
9073715 GAAGAAGAAGAAAGAAGAAAGAAAAAAGAAGAAGAAAAAGGGA
1 GAAGAAAAAGAAAGAAGAAAGAAAAAAGAAAAAGAAAAAGGGA
9073758 GAAGAAAAAGAAA-AAGAAA-AAGAGAAAGAAAAAGAAAAAG
1 GAAGAAAAAGAAAGAAGAAAGAA-A-AAAGAAAAAGAAAAAG
9073798 AAAAAAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 2 0.06
42 7 0.19
43 27 0.75
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (43 bp):
GAAGAAAAAGAAAGAAGAAAGAAAAAAGAAAAAGAAAAAGGGA
Found at i:9073800 original size:6 final size:6
Alignment explanation
Indices: 9073719--9073809 Score: 101
Period size: 6 Copynumber: 14.3 Consensus size: 6
9073709 CTGCCCGAAG
* * *
9073719 AAGAAGA AAGAAGA AAGAAAA AAGAAG AAGAAA AAGGGAG AAGAAA AAGAAA
1 AAGAA-A AAGAA-A AAG-AAA AAGAAA AAGAAA AA-GAAA AAGAAA AAGAAA
*
9073771 AAGAAA AAGAGA AAGAAA AAGAAA AAGAAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAG-AAA AAGAAA AA
9073810 AAATTTAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
6 47 0.64
7 24 0.33
8 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:9073807 original size:7 final size:7
Alignment explanation
Indices: 9073719--9073810 Score: 66
Period size: 7 Copynumber: 13.3 Consensus size: 7
9073709 CTGCCCGAAG
*
9073719 AAGAAGA
1 AAGAAAA
*
9073726 AAGAAGA
1 AAGAAAA
9073733 AAGAAAA
1 AAGAAAA
*
9073740 AAG-AAG
1 AAGAAAA
9073746 AAG-AAA
1 AAGAAAA
** *
9073752 AAGGGAG
1 AAGAAAA
9073759 AAG-AAA
1 AAGAAAA
9073765 AAG-AAA
1 AAGAAAA
9073771 AAGAAAA
1 AAGAAAA
9073778 AGAGAAAGA
1 A-AGAAA-A
*
9073787 AAAAGAAA
1 AAGA-AAA
9073795 AAGAAAA
1 AAGAAAA
9073802 AAGAAAA
1 AAGAAAA
9073809 AA
1 AA
9073811 AATTTAAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
6 20 0.28
7 36 0.51
8 11 0.15
9 4 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:9074100 original size:23 final size:23
Alignment explanation
Indices: 9074054--9074097 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9074044 TCCAGTCCAG
9074054 GCCCAACAGCACCTAGCAGGCCA
1 GCCCAACAGCACCTAGCAGGCCA
* *
9074077 GCCCAGCAGCAGC-AGCAGGCC
1 GCCCAACAGCACCTAGCAGGCC
9074098 CAGTACCGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.43, G:0.27, T:0.02
Consensus pattern (23 bp):
GCCCAACAGCACCTAGCAGGCCA
Found at i:9074215 original size:10 final size:10
Alignment explanation
Indices: 9074200--9074237 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
9074190 CAACAGGCCC
9074200 AGAAAAAAAA
1 AGAAAAAAAA
9074210 AGAAAAAAAA
1 AGAAAAAAAA
*
9074220 GGAAAAAAAA
1 AGAAAAAAAA
9074230 AGAAAAAA
1 AGAAAAAA
9074238 GGAAAAGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:9074217 original size:9 final size:9
Alignment explanation
Indices: 9074203--9074237 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
9074193 CAGGCCCAGA
9074203 AAAAAAAAG
1 AAAAAAAAG
9074212 AAAAAAAAGG
1 AAAAAAAA-G
9074222 AAAAAAAAAG
1 -AAAAAAAAG
9074232 AAAAAA
1 AAAAAA
9074238 GGAAAAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 14 0.58
10 2 0.08
11 8 0.33
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:9074227 original size:18 final size:18
Alignment explanation
Indices: 9074201--9074243 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
9074191 AACAGGCCCA
9074201 GAAAAAAAAAGAAAAAAAAG
1 GAAAAAAAAAG--AAAAAAG
9074221 GAAAAAAAAAGAAAAAAG
1 GAAAAAAAAAGAAAAAAG
9074239 GAAAA
1 GAAAA
9074244 GGGCCCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.52
20 11 0.48
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAAGAAAAAAG
Found at i:9074542 original size:20 final size:20
Alignment explanation
Indices: 9074514--9074551 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9074504 GAAAATATTC
*
9074514 AAAATTCCTCGTATTTCAAT
1 AAAAATCCTCGTATTTCAAT
*
9074534 AAAAATCCTCGTGTTTCA
1 AAAAATCCTCGTATTTCA
9074552 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (20 bp):
AAAAATCCTCGTATTTCAAT
Found at i:9074701 original size:17 final size:17
Alignment explanation
Indices: 9074674--9074719 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
9074664 AAAAAAATCG
9074674 TGTTTCGAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
9074691 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
9074709 TGTTTCAAAAT
1 TGTTTCAAAAT
9074720 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.28, C:0.15, G:0.11, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:9074800 original size:18 final size:18
Alignment explanation
Indices: 9074777--9074829 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
9074767 TTTTCAAAAA
9074777 AAAAATTTCCGTGTTTTC
1 AAAAATTTCCGTGTTTTC
* * *
9074795 AAAAATTCCCTTG-TTTG
1 AAAAATTTCCGTGTTTTC
9074812 AAAAATGTT-CGTGTTTTC
1 AAAAAT-TTCCGTGTTTTC
9074830 GTGTTTTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.43
Consensus pattern (18 bp):
AAAAATTTCCGTGTTTTC
Found at i:9074875 original size:24 final size:24
Alignment explanation
Indices: 9074828--9074875 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
9074818 GTTCGTGTTT
*
9074828 TCGTGTTTTCAAAAAAATAATTTC
1 TCGTGTTTTCAAAAAAAAAATTTC
9074852 TCGTG-TTTCAAAAAAAAAACTTTC
1 TCGTGTTTTCAAAAAAAAAA-TTTC
9074876 GCGAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (24 bp):
TCGTGTTTTCAAAAAAAAAATTTC
Found at i:9075022 original size:18 final size:17
Alignment explanation
Indices: 9074965--9075155 Score: 61
Period size: 17 Copynumber: 10.5 Consensus size: 17
9074955 AAATTTTGCA
*
9074965 TTTCAAAAATCTTCGTAT
1 TTTCAAAAAT-TTCGTGT
*
9074983 TTTC-AAAATTCCAGTG-
1 TTTCAAAAATTTC-GTGT
9074999 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATT-TCGTGT
*
9075017 TTTCAACAAAAAAATTTTTCTTGT
1 TTT---C--AAAAA--TTTCGTGT
* ** *
9075041 TTTCAAAAGTCCCGT-A
1 TTTCAAAAATTTCGTGT
** *
9075057 TTTCGAAATTTTTCTTGT
1 TTTC-AAAAATTTCGTGT
* *
9075075 CTTCAAAAAAATTCCGTG-
1 TTTC-AAA-AATTTCGTGT
*
9075093 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTT-CGTGT
9075111 TTTCAAAAAAATTT--TGT
1 TTTC--AAAAATTTCGTGT
9075128 CTTTCAAAAATTTTCGTGT
1 -TTTCAAAAA-TTTCGTGT
9075147 TTTCAAAAA
1 TTTCAAAAA
9075156 AATTGACCNN
Statistics
Matches: 126, Mismatches: 25, Indels: 44
0.65 0.13 0.23
Matches are distributed among these distances:
16 19 0.15
17 37 0.29
18 34 0.27
19 12 0.10
20 7 0.06
21 2 0.02
23 5 0.04
24 8 0.06
25 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATTTCGTGT
Found at i:9075117 original size:36 final size:36
Alignment explanation
Indices: 9075076--9075159 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
9075066 TTTTCTTGTC
* *
9075076 TTCAAAAAAATTCCGTGTTTCATAAATTTCCGTGTT
1 TTCAAAAAAATTCCGTCTTTCAAAAATTTCCGTGTT
** *
9075112 TTCAAAAAAATTTTGTCTTTCAAAAATTTTCGTGTT
1 TTCAAAAAAATTCCGTCTTTCAAAAATTTCCGTGTT
9075148 TTCAAAAAAATT
1 TTCAAAAAAATT
9075160 GACCNNNNNN
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (36 bp):
TTCAAAAAAATTCCGTCTTTCAAAAATTTCCGTGTT
Found at i:9075154 original size:17 final size:18
Alignment explanation
Indices: 9074965--9075155 Score: 74
Period size: 18 Copynumber: 10.5 Consensus size: 18
9074955 AAATTTTGCA
* *
9074965 TTTCAAAAATCTTCGTAT
1 TTTCAAAAATTTTCGTGT
*
9074983 TTTC-AAAA-TTCCAGTG-
1 TTTCAAAAATTTTC-GTGT
*
9074999 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
*
9075017 TTTCAACAAAAAAATTTTTCTTGT
1 TTT---C--AAAAA-TTTTCGTGT
* ** *
9075041 TTTC-AAAAGTCCCGT-A
1 TTTCAAAAATTTTCGTGT
* * *
9075057 TTTCGAAATTTTTCTTGT
1 TTTCAAAAATTTTCGTGT
* * *
9075075 CTTCAAAAAAATTCCGTG-
1 TTTC-AAAAATTTTCGTGT
* *
9075093 TTTCATAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
*
9075111 TTTCAAAAAAATTTT-GT-C
1 TTTC--AAAAATTTTCGTGT
9075129 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
9075147 TTTCAAAAA
1 TTTCAAAAA
9075156 AATTGACCNN
Statistics
Matches: 124, Mismatches: 31, Indels: 36
0.65 0.16 0.19
Matches are distributed among these distances:
16 19 0.15
17 35 0.28
18 36 0.29
19 10 0.08
20 7 0.06
21 2 0.02
23 5 0.04
24 10 0.08
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:9076947 original size:26 final size:28
Alignment explanation
Indices: 9076918--9076973 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
9076908 TAAGACGAAT
*
9076918 TAAAAT-AATAGATAAA-AAGTTCAAAA
1 TAAAATAAATAGAAAAAGAAGTTCAAAA
*
9076944 T-AAATAAATAGAAAAAGAAGTTTAAAA
1 TAAAATAAATAGAAAAAGAAGTTCAAAA
9076971 TAA
1 TAA
9076974 TACACAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 10 0.40
28 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (28 bp):
TAAAATAAATAGAAAAAGAAGTTCAAAA
Found at i:9076975 original size:26 final size:26
Alignment explanation
Indices: 9076920--9076973 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
9076910 AGACGAATTA
*
9076920 AAAT-AATAGATAAAAAGTTCAAAAT
1 AAATAAATAGAAAAAAAGTTCAAAAT
*
9076945 AAATAAATAGAAAAAGAAGTTTAAAAT
1 AAATAAATAGAAAAA-AAGTTCAAAAT
9076972 AA
1 AA
9076974 TACACAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 9 0.36
27 12 0.48
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (26 bp):
AAATAAATAGAAAAAAAGTTCAAAAT
Found at i:9078892 original size:44 final size:44
Alignment explanation
Indices: 9078830--9078998 Score: 167
Period size: 44 Copynumber: 3.8 Consensus size: 44
9078820 AATTTGCTAT
* * * * *
9078830 CTTCAGTCTACTCTACTGCAACATCAGGGATATAAGACTTGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGG
* * * * * **
9078874 CTTCAATCTGCCCCACTGCAATTTTAGGGGGATAAGATTTGTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGG
* * * *
9078918 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGG
* **
9078962 CTTCAATCTACTCCACTGCAACTTCAGAAAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
9078999 TCGGCCATAA
Statistics
Matches: 96, Mismatches: 29, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
44 96 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGG
Found at i:9078962 original size:88 final size:89
Alignment explanation
Indices: 9078821--9078982 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 89
9078811 GGGAAATGAA
** * * * * *
9078821 ATTTGCTATCTTCAGTCTACTCTACTGCAACATCAGGGATATAAGACTTGTGGCTTCAATCTGCC
1 ATTTGCTATCTTCAACCTACTCCACTACAACATCAGGGAGATAAGACTGGTGGCTTCAATCTACC
9078886 CCACTGCAATTTTAGGGGGATAAG
66 CCACTGCAATTTTAGGGGGATAAG
* * * *
9078910 ATTTG-TATCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACT
1 ATTTGCTATCTTCAACCTACTCCACTACAACATCAGGGAGATAAGACTGGTGGCTTCAATCTACC
9078974 CCACTGCAA
66 CCACTGCAA
9078983 CTTCAGAAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 57 0.92
89 5 0.08
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (89 bp):
ATTTGCTATCTTCAACCTACTCCACTACAACATCAGGGAGATAAGACTGGTGGCTTCAATCTACC
CCACTGCAATTTTAGGGGGATAAG
Found at i:9079988 original size:373 final size:371
Alignment explanation
Indices: 9079303--9080013 Score: 1395
Period size: 373 Copynumber: 1.9 Consensus size: 371
9079293 AAAACTTTTC
9079303 TTACTTTTACGATTTAGTCTTTTCTTGAATTAATATATCATAATATACTTCCTAAACAGATTTTG
1 TTACTTTTACGATTTAGTCTTTTCTTGAATTAATATATCATAATATACTTCCTAAACAGATTTTG
9079368 TTGACATAACTCAAACTTTCCCTTTTTTTTTCACTTTATTTCTTTATTTTACTATATCAAAGATA
66 TTGACATAACTCAAACTTTCCCTTTTTTTTTCACTTTATTTCTTTATTTTACTATATCAAAGATA
9079433 ATATCTCACTTTCTTACTATAGCAACTTTTAGGGTGTTACAAACAAACAACAAGTTGATGTGGCA
131 ATATCTCACTTTCTTACTATAGCAACTTTTAGGGTGTTACAAACAAACAACAAGTTGATGTGGCA
9079498 GTTAAAAAATTTTTACAATAAGCCCTCAAATTCTACATATTATATCCATTTATTCATAATTTTTA
196 GTTAAAAAATTTTTACAATAAGCCCTCAAATTCTACATATTATATCCATTTATTCATAATTTTTA
9079563 AAAAATTAAGTCTAAAAATTTACAAATATTTTCAATTTGATCCTAATTCTAAAAAATTCAAAGAA
261 AAAAATTAAGTCTAAAAATTTACAAATATTTTCAATTTGATCCTAATTCTAAAAAATTC-AA-AA
9079628 ATATATAAAAATACATAAATATTTTTTTAAAAAAGTATTATTTAAAAT
324 ATATATAAAAATACATAAATATTTTTTTAAAAAAGTATTATTTAAAAT
9079676 TTACTTTTACGATTTAGTCTTTTCTTGAATTAATATATCATAATATACTTCCTAAACAGATTTTG
1 TTACTTTTACGATTTAGTCTTTTCTTGAATTAATATATCATAATATACTTCCTAAACAGATTTTG
9079741 TTGACATAACTCAAACTTTCCCTTTTTTTTTCACTTTATTTCTTTATTTTACTATATCAAAGATA
66 TTGACATAACTCAAACTTTCCCTTTTTTTTTCACTTTATTTCTTTATTTTACTATATCAAAGATA
9079806 ATATCTCACTTTCTTACTATAGCAACTTTTAGGGTGTTACAAACAAACAACAAGTTGATGTGGCA
131 ATATCTCACTTTCTTACTATAGCAACTTTTAGGGTGTTACAAACAAACAACAAGTTGATGTGGCA
9079871 GTTAAAAAATTTTTACAATAAGCCCTCAAATTCTACATATTATATCCATTTATTCATAATTTTTA
196 GTTAAAAAATTTTTACAATAAGCCCTCAAATTCTACATATTATATCCATTTATTCATAATTTTTA
9079936 AAAAATTAAGTCTAAAAATTTACAAATATTTTCAATTTGATCCTAATTCTAAAAAATTCAAAAAT
261 AAAAATTAAGTCTAAAAATTTACAAATATTTTCAATTTGATCCTAATTCTAAAAAATTCAAAAAT
*
9080001 ATATATAAATACA
326 ATATAAAAATACA
9080014 ATAATAAATT
Statistics
Matches: 337, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
371 16 0.05
372 2 0.01
373 319 0.95
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.41
Consensus pattern (371 bp):
TTACTTTTACGATTTAGTCTTTTCTTGAATTAATATATCATAATATACTTCCTAAACAGATTTTG
TTGACATAACTCAAACTTTCCCTTTTTTTTTCACTTTATTTCTTTATTTTACTATATCAAAGATA
ATATCTCACTTTCTTACTATAGCAACTTTTAGGGTGTTACAAACAAACAACAAGTTGATGTGGCA
GTTAAAAAATTTTTACAATAAGCCCTCAAATTCTACATATTATATCCATTTATTCATAATTTTTA
AAAAATTAAGTCTAAAAATTTACAAATATTTTCAATTTGATCCTAATTCTAAAAAATTCAAAAAT
ATATAAAAATACATAAATATTTTTTTAAAAAAGTATTATTTAAAAT
Found at i:9088405 original size:23 final size:24
Alignment explanation
Indices: 9088378--9088422 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9088368 TTAATGTTTA
*
9088378 TATTTTTTTGTT-AATTTGATTCT
1 TATTTTTTAGTTAAATTTGATTCT
9088401 TATTTTTTAGTTAAATTTGATT
1 TATTTTTTAGTTAAATTTGATT
9088423 TTTAACTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (24 bp):
TATTTTTTAGTTAAATTTGATTCT
Found at i:9088432 original size:24 final size:23
Alignment explanation
Indices: 9088382--9088433 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
9088372 TGTTTATATT
* **
9088382 TTTTTGTTAATTTGATTCTTATT
1 TTTTAGTTAATTTGATTCTTAAC
*
9088405 TTTTAGTTAAATTTGATTTTTAAC
1 TTTTAGTT-AATTTGATTCTTAAC
9088429 TTTTA
1 TTTTA
9088434 AAAAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.23, C:0.04, G:0.08, T:0.65
Consensus pattern (23 bp):
TTTTAGTTAATTTGATTCTTAAC
Found at i:9092375 original size:3 final size:3
Alignment explanation
Indices: 9092367--9092408 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
9092357 TTAAATAAAT
9092367 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9092409 GTTAGTAGTA
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):
TTA
Found at i:9096890 original size:16 final size:15
Alignment explanation
Indices: 9096865--9096907 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
9096855 TGTATGATTG
*
9096865 TTTTTCAAATTTATT
1 TTTTTTAAATTTATT
*
9096880 TATTTTTAAATATATT
1 T-TTTTTAAATTTATT
*
9096896 TTTTTTGAATTT
1 TTTTTTAAATTT
9096908 TTATGAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTTAAATTTATT
Found at i:9097049 original size:18 final size:18
Alignment explanation
Indices: 9097022--9097058 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9097012 TTTAAAGGTT
9097022 AAAGGCCAAAATGACAAA
1 AAAGGCCAAAATGACAAA
*
9097040 AAAGGGCAAAATGACAAA
1 AAAGGCCAAAATGACAAA
9097058 A
1 A
9097059 TGAGTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.14, G:0.19, T:0.05
Consensus pattern (18 bp):
AAAGGCCAAAATGACAAA
Found at i:9100850 original size:19 final size:18
Alignment explanation
Indices: 9100802--9100853 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
9100792 AATTTTATGC
9100802 ATTTCTATTTTTAATATT
1 ATTTCTATTTTTAATATT
9100820 -TTGGT-TATTTTTTAATATAT
1 ATT--TCTA-TTTTTAATAT-T
9100840 ATTTCTATTTTTAA
1 ATTTCTATTTTTAA
9100854 AGATTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 19 0.68
20 3 0.11
21 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTCTATTTTTAATATT
Found at i:9101456 original size:19 final size:19
Alignment explanation
Indices: 9101420--9101457 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9101410 AATCAAACAG
*
9101420 ATAATATTAGAATCAATAT
1 ATAATATTAGAATAAATAT
9101439 ATAATATT-GAATAAA-AT
1 ATAATATTAGAATAAATAT
9101456 AT
1 AT
9101458 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (19 bp):
ATAATATTAGAATAAATAT
Found at i:9101752 original size:18 final size:19
Alignment explanation
Indices: 9101729--9101768 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
9101719 NNNNNNNNAC
*
9101729 TTTAAAAGAATAT-TAAAA
1 TTTAAAACAATATATAAAA
9101747 TTTAAAACAATATATAAAA
1 TTTAAAACAATATATAAAA
9101766 TTT
1 TTT
9101769 TAGCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
TTTAAAACAATATATAAAA
Found at i:9103258 original size:18 final size:18
Alignment explanation
Indices: 9103235--9103273 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9103225 TTCAGAATTT
* *
9103235 TGGGCCCAATTGCCCATG
1 TGGGCCAAAATGCCCATG
9103253 TGGGCCAAAATGCCCATG
1 TGGGCCAAAATGCCCATG
9103271 TGG
1 TGG
9103274 CATGTCCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (18 bp):
TGGGCCAAAATGCCCATG
Found at i:9109269 original size:107 final size:107
Alignment explanation
Indices: 9109083--9109302 Score: 323
Period size: 107 Copynumber: 2.1 Consensus size: 107
9109073 AGTCTGTTCC
* *
9109083 ATCTGTGCTAGGGAAATAAGGTTCGTCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTC
1 ATCTGTGCCAGGGAAATAAGGTTCGTCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTC
* **
9109148 CACTACAACACCAGGGCAGTAAGATTTACCGTTGTAGCTTCA
66 CACTACAACACCAGGGAAGTAAGATCCACCGTTGTAGCTTCA
* *
9109190 ATCTGTGCCATGGAAATAAGGTTCGTCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTC
1 ATCTGTGCCAGGGAAATAAGGTTCGTCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTC
* * * * * *
9109255 CATTGCACCGCCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
66 CACTACAACACCAGGGAAGTAAGATCCACCGTTGTAGCTTCA
9109297 ATCTGT
1 ATCTGT
9109303 TCCACCGTAC
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 100 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (107 bp):
ATCTGTGCCAGGGAAATAAGGTTCGTCAAGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTC
CACTACAACACCAGGGAAGTAAGATCCACCGTTGTAGCTTCA
Found at i:9109561 original size:50 final size:50
Alignment explanation
Indices: 9109221--9109550 Score: 448
Period size: 50 Copynumber: 6.6 Consensus size: 50
9109211 TTCGTCAGGG
* * * * *
9109221 AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCATTGCACCGCCAGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
* *
9109271 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACCGTACCGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
** * ** * *
9109321 AAGTAAGATCCGCTGTTGTAGCTTCAATCT-TTTTAGCCGCAATG-TCGGGG
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCA-CTGCACCGCT-AGGA
* * * *
9109371 AAGCAAAATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAGAA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
* *
9109421 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAGAA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
9109471 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
9109521 AAGTAAGATCCGCTGTTGTAGCTTCAATCT
1 AAGTAAGATCCGCTGTTGTAGCTTCAATCT
9109551 TTTTAACTGC
Statistics
Matches: 249, Mismatches: 27, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
49 4 0.02
50 241 0.97
51 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (50 bp):
AAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCTAGGA
Found at i:9141228 original size:50 final size:51
Alignment explanation
Indices: 9141144--9141275 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
9141134 AAAGTGATGG
* *
9141144 TCACGTGTTTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGATAA-G-
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGATAATGA
* * * *
9141194 TCGCATGTGTAGTATTATGTGCAGGCTACTACGTGTATCTGATGGTAATGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGA
* *
9141245 TCATATGTGTAGTACTATGTGTAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
9141276 TGTGAACTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 6 0.09
50 37 0.53
51 27 0.39
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGATAATGA
Found at i:9141265 original size:12 final size:14
Alignment explanation
Indices: 9141248--9141279 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9141238 GTAATGATCA
9141248 TATGTGTA-G-TAC
1 TATGTGTAGGCTAC
9141260 TATGTGTAGGCTAC
1 TATGTGTAGGCTAC
9141274 TATGTG
1 TATGTG
9141280 AACTGAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 1 0.06
14 9 0.50
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
TATGTGTAGGCTAC
Found at i:9141335 original size:45 final size:45
Alignment explanation
Indices: 9141286--9141371 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
9141276 TGTGAACTGA
* * *
9141286 ACATCATTGATTAGTAAGGTGGCTGCTATGTGCTGATTCCATCGG
1 ACATCATTGATTAATAAGGTGGCTGCTATGCGCTGAATCCATCGG
*
9141331 ACATCATTGATTAATAAGGTGGTTGCTATGCGCTGAATCCA
1 ACATCATTGATTAATAAGGTGGCTGCTATGCGCTGAATCCA
9141372 CTGAGTATCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGCTGCTATGCGCTGAATCCATCGG
Found at i:9145081 original size:29 final size:29
Alignment explanation
Indices: 9145020--9145098 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
9145010 ATTCTTAAAT
* * *
9145020 GATAGTCACTGCCAGACTCTTGTTTGGCG
1 GATAGTCACTGACAGACTCTTGTTTGACA
* *
9145049 GATAGTCACTG-CAGACTCTTGATTTTATA
1 GATAGTCACTGACAGACTCTTG-TTTGACA
* *
9145078 GATATTCATTGACAGACTCTT
1 GATAGTCACTGACAGACTCTT
9145099 AAATAAAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.24
29 23 0.55
30 9 0.21
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (29 bp):
GATAGTCACTGACAGACTCTTGTTTGACA
Found at i:9147783 original size:43 final size:43
Alignment explanation
Indices: 9147722--9147880 Score: 201
Period size: 43 Copynumber: 3.7 Consensus size: 43
9147712 TTATGTGGAA
* *
9147722 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAC
* * *** * *
9147765 AAACGCCGCTAAAAAACATAACCTTTAGCGTTGCTTTTCCTAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAC
* * *
9147808 AAACGCCACTAAAGAACATCACCTTTAGTGGCACTTTCCCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAC
*
9147851 AAACGCTGCTAAAGAACATGACCTTTAGCG
1 AAACGCCGCTAAAGAACATGACCTTTAGCG
9147881 ACGCTTTTCC
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCTAC
Found at i:9147869 original size:86 final size:86
Alignment explanation
Indices: 9147722--9147890 Score: 248
Period size: 86 Copynumber: 2.0 Consensus size: 86
9147712 TTATGTGGAA
* * *
9147722 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAAAACATAAC
1 AAACGCCACTAAAGAACATCACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAAAACATAAC
**
9147787 CTTTAGCGTTGCTTTTCCTAT
66 CTTTAGCGACGCTTTTCCTAT
* * * * *
9147808 AAACGCCACTAAAGAACATCACCTTTAGTGGCACTTTCCCTACAAACGCTGCTAAAGAACATGAC
1 AAACGCCACTAAAGAACATCACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAAAACATAAC
9147873 CTTTAGCGACGCTTTTCC
66 CTTTAGCGACGCTTTTCC
9147891 CAAAAATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (86 bp):
AAACGCCACTAAAGAACATCACCTTTAGCGGCACTTTCCCCACAAACGCCGCTAAAAAACATAAC
CTTTAGCGACGCTTTTCCTAT
Found at i:9148391 original size:66 final size:65
Alignment explanation
Indices: 9148264--9148393 Score: 154
Period size: 66 Copynumber: 2.0 Consensus size: 65
9148254 ATTCTGAAGC
* * ** * *
9148264 TGTAGCTGGAGTTCGTCATATTTTCTACTTGCCTTTGCTTCCCTCGCTACTGCCTCTGCTTTAAC
1 TGTAGCTGGAGTTCATCATATTTTCTA-TTGCCTCTGCTTCCCTCAATACTACCTCCGCTTTAAC
9148329 T
65 T
* *
9148330 TGTAGCTGGAGTTCATCATATTTTCT-TTAAGCCTCTGCTTCTCTCAATGCTACCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTATT--GCCTCTGCTTCCCTCAATACTACCTCCGCTTTAA
9148394 GTTGAGCAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 2 0.04
66 52 0.96
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.42
Consensus pattern (65 bp):
TGTAGCTGGAGTTCATCATATTTTCTATTGCCTCTGCTTCCCTCAATACTACCTCCGCTTTAACT
Found at i:9154005 original size:43 final size:43
Alignment explanation
Indices: 9153958--9154059 Score: 195
Period size: 43 Copynumber: 2.4 Consensus size: 43
9153948 ATTCAAAGAT
9153958 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
9154001 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
*
9154044 TTACGTAAGTTATGAT
1 TTATGTAAGTTATGAT
9154060 CCAAAGTTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (43 bp):
TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
Found at i:9154006 original size:9 final size:9
Alignment explanation
Indices: 9153958--9154057 Score: 59
Period size: 9 Copynumber: 11.6 Consensus size: 9
9153948 ATTCAAAGAT
9153958 TTATGTAAG
1 TTATGTAAG
*
9153967 TTATGATATG
1 TTATG-TAAG
* * *
9153977 ATATAT-AT
1 TTATGTAAG
9153985 TTATGT-A-
1 TTATGTAAG
9153992 TTATGTAAG
1 TTATGTAAG
9154001 TTATGTAAG
1 TTATGTAAG
*
9154010 TTATGATATG
1 TTATG-TAAG
* * *
9154020 ATATAT-AT
1 TTATGTAAG
9154028 TTATGT-A-
1 TTATGTAAG
9154035 TTATGTAAG
1 TTATGTAAG
*
9154044 TTACGTAAG
1 TTATGTAAG
9154053 TTATG
1 TTATG
9154058 ATCCAAAGTT
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
7 12 0.17
8 12 0.17
9 33 0.48
10 12 0.17
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9158688 original size:71 final size:72
Alignment explanation
Indices: 9158607--9158824 Score: 217
Period size: 71 Copynumber: 3.1 Consensus size: 72
9158597 AAATGGTTCC
*
9158607 ACTTAATATCAAAACTCAATAAATTGAACTAAA-TAACCTTTTTAAAAATTCATAATTGAACAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
*
9158671 CATTTTT
66 CAATTTT
** ** * * * *
9158678 ACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGC-TTTTGAAAATGT-ATAACTAAATAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAAT-TCATAATTAAACAA
**** *
9158741 ATGGGTTC
65 ACAATTTT
* * * * **
9158749 GCGTAATATAAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACACATAATTAAACAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
9158814 CAATTTT
66 CAATTTT
9158821 ACTT
1 ACTT
9158825 GATAATTAAT
Statistics
Matches: 108, Mismatches: 35, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
71 80 0.74
72 28 0.26
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (72 bp):
ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
CAATTTT
Found at i:9160789 original size:21 final size:19
Alignment explanation
Indices: 9160764--9160811 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
9160754 GTGGGAAATT
*
9160764 TTTAGGGGAAAACTTTAAGGA
1 TTTAGGGGAAAA--TAAAGGA
9160785 TTTA-GGGAAAATAAAGGA
1 TTTAGGGGAAAATAAAGGA
*
9160803 TTTCGGGGA
1 TTTAGGGGA
9160812 TATGAGTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.38
19 4 0.17
20 7 0.29
21 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (19 bp):
TTTAGGGGAAAATAAAGGA
Found at i:9160992 original size:41 final size:40
Alignment explanation
Indices: 9160876--9161012 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 40
9160866 TAAATGATAC
* * *
9160876 TTTGTGGCCTTTTTCTCAT-AGTGCCTCTAATGCTTGACCT
1 TTTGCGGCATTTTTCTCATAAATG-CTCTAATGCTTGACCT
** * * *
9160916 TTTGCGGTGTTTTTATCATAAACGCCGCTAATGCTTGACCT
1 TTTGCGGCATTTTTCTCATAAATG-CTCTAATGCTTGACCT
* * *
9160957 TTTGAGGCATTTTTCTCATAAATGCTACTACTGCTTTACCT
1 TTTGCGGCATTTTTCTCATAAATGCT-CTAATGCTTGACCT
*
9160998 ATTGCGGCATTTTTC
1 TTTGCGGCATTTTTC
9161013 CATCCAAACG
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
40 16 0.21
41 62 0.79
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.43
Consensus pattern (40 bp):
TTTGCGGCATTTTTCTCATAAATGCTCTAATGCTTGACCT
Found at i:9162438 original size:21 final size:21
Alignment explanation
Indices: 9162414--9162455 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9162404 CATTTTCTTC
*
9162414 AATTCAATTCTCAACTCTCAA
1 AATTCAACTCTCAACTCTCAA
9162435 AATTCAACTCTCAACTCTCAA
1 AATTCAACTCTCAACTCTCAA
9162456 TTTATTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (21 bp):
AATTCAACTCTCAACTCTCAA
Found at i:9167158 original size:63 final size:63
Alignment explanation
Indices: 9167000--9167181 Score: 170
Period size: 63 Copynumber: 2.9 Consensus size: 63
9166990 ACACATACGA
* * * * * *
9167000 CACCAGTTTATTTTACACGAA-CACCACATCACGCA-CAATCATTCCCTACACCAACACATTCAT
1 CACCAATTTATTTCACAC-AAGCACCACAACATG-AGCAACCATTCCCTACACCGACACATTCAT
* * ** * *
9167063 CACTACTTTATTTCACACAAGCACCATTACATGAGTAACCATTTCCTACACCGACACATTCAT
1 CACCAATTTATTTCACACAAGCACCACAACATGAGCAACCATTCCCTACACCGACACATTCAT
** * * * *
9167126 TGCCAATTTATTTCACATAAGCATCACAACATGCGCAATCATTCCCTACACCGACA
1 CACCAATTTATTTCACACAAGCACCACAACATGAGCAACCATTCCCTACACCGACA
9167182 ACATCAGCAG
Statistics
Matches: 94, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
62 3 0.03
63 91 0.97
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.26
Consensus pattern (63 bp):
CACCAATTTATTTCACACAAGCACCACAACATGAGCAACCATTCCCTACACCGACACATTCAT
Found at i:9167219 original size:60 final size:60
Alignment explanation
Indices: 9167003--9167239 Score: 164
Period size: 63 Copynumber: 3.9 Consensus size: 60
9166993 CATACGACAC
* * * *
9167003 CAGTTTATTTTACACGAA-CACCACATCACGCACAATCATTCCCTACACCAACACATTCATCA-
1 CAGTTTATTTCACAC-AAGCACTACATCATGCACAATCATTCCCTACACCGACA-A--CATCAG
* * * *
9167065 CTACTTTATTTCACACAAGCAC--CATTACATG-AGTAACCATTTCCTACACCGAC-ACATTCAT
1 C-AGTTTATTTCACACAAGCACTACA-T-CATGCA-CAATCATTCCCTACACCGACAACA-TCA-
9167126 TG
60 -G
* * * *
9167128 CCAATTTATTTCACATAAGCA-TCACAACATGCGCAATCATTCCCTACACCGACAACATCAG
1 -CAGTTTATTTCACACAAGCACT-ACATCATGCACAATCATTCCCTACACCGACAACATCAG
** * *
9167189 CAGTTTATTTTTCACAAGCACTACATCATGCACAATCATTCCATGCACCGA
1 CAGTTTATTTCACACAAGCACTACATCATGCACAATCATTCCCTACACCGA
9167240 TACCTTCCTC
Statistics
Matches: 137, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
59 2 0.01
60 44 0.32
61 5 0.04
62 5 0.04
63 75 0.55
64 4 0.03
65 2 0.01
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.27
Consensus pattern (60 bp):
CAGTTTATTTCACACAAGCACTACATCATGCACAATCATTCCCTACACCGACAACATCAG
Found at i:9179734 original size:118 final size:119
Alignment explanation
Indices: 9179593--9179829 Score: 467
Period size: 118 Copynumber: 2.0 Consensus size: 119
9179583 CACATGGATA
9179593 CCACGTTAGTAAAAATTAATTTTTAAAAATTTAAATATTCAAAAAATATAAAAATTATTTTGAAA
1 CCACGTTAGTAAAAATTAATTTTTAAAAATTTAAATATTCAAAAAATATAAAAATTATTTTGAAA
9179658 ATCATAAAATTATAAAAAAAATATTTTAATTTTTTAAAAAATTAGTTAGTTGCT
66 ATCATAAAATTATAAAAAAAATATTTTAATTTTTTAAAAAATTAGTTAGTTGCT
9179712 CCACGTTAGT-AAAATTAATTTTTAAAAATTTAAATATTCAAAAAATATAAAAATTATTTTGAAA
1 CCACGTTAGTAAAAATTAATTTTTAAAAATTTAAATATTCAAAAAATATAAAAATTATTTTGAAA
9179776 ATCATAAAATTATAAAAAAAATATTTTAATTTTTTAAAAAATTAGTTAGTTGCT
66 ATCATAAAATTATAAAAAAAATATTTTAATTTTTTAAAAAATTAGTTAGTTGCT
9179830 AACGTGGCAT
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 108 0.92
119 10 0.08
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (119 bp):
CCACGTTAGTAAAAATTAATTTTTAAAAATTTAAATATTCAAAAAATATAAAAATTATTTTGAAA
ATCATAAAATTATAAAAAAAATATTTTAATTTTTTAAAAAATTAGTTAGTTGCT
Found at i:9184564 original size:17 final size:18
Alignment explanation
Indices: 9184532--9184566 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9184522 ATTTTTTTTA
9184532 TTTTAGTCTCTATTTAAT
1 TTTTAGTCTCTATTTAAT
*
9184550 TTTTTGTCTCT-TTTAAT
1 TTTTAGTCTCTATTTAAT
9184567 ACTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.17, C:0.11, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTAGTCTCTATTTAAT
Found at i:9186573 original size:14 final size:14
Alignment explanation
Indices: 9186554--9186580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9186544 TTAAAAAAAT
9186554 TTAAGTTTGATTTA
1 TTAAGTTTGATTTA
9186568 TTAAGTTTGATTT
1 TTAAGTTTGATTT
9186581 TAAACCAATT
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:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (14 bp):
TTAAGTTTGATTTA
Found at i:9196191 original size:44 final size:43
Alignment explanation
Indices: 9196143--9196348 Score: 157
Period size: 43 Copynumber: 4.8 Consensus size: 43
9196133 AGTGCTGCTA
* * * *
9196143 TTTAGCGGCG-TTTATGTGAAAAAATGCCGCTAAAGATCATGGCC
1 TTTAGCGGCGCTTT-TAT-AAAAAACGCCGCTAAAGATCACGACC
* * *
9196187 TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGATCACGACT
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGATCACGACC
* * * * * * *
9196230 TTTAGCGGCGCTTTTTTCACAAACACTGTTAAAGATCATGACC
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGATCACGACC
* * * * * *
9196273 TTTAGCGGCACTTTTTATCACAAACGCCGCTATAGAACA-AACC
1 TTTAGCGGCGC-TTTTATAAAAAACGCCGCTAAAGATCACGACC
* *
9196316 TTTAGCGGCGCTTCTCA-CAAAAACGCCGCTAAA
1 TTTAGCGGCGCTT-TTATAAAAAACGCCGCTAAA
9196349 AACATAACCT
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
42 16 0.12
43 82 0.61
44 33 0.25
45 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGATCACGACC
Found at i:9196220 original size:43 final size:43
Alignment explanation
Indices: 9196168--9196361 Score: 214
Period size: 43 Copynumber: 4.5 Consensus size: 43
9196158 GTGAAAAAAT
*
9196168 GCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAAC
* * *
9196211 GCCGCTAAAGATCACGACTTTTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAAC
* * * *
9196254 ACTGTTAAAGATCATGACCTTTAGCGGCACTTTTTATCACAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTATCACAAAC
* * * * *
9196298 GCCGCTATAGAACA-AACCTTTAGCGGCGCTTCTCA-CAAAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGGCGCTT-TTATCACAAAC
* *
9196340 GCCGCTAAA-AACATAACCTTTA
1 GCCGCTAAAGATCATGACCTTTA
9196362 AAAAAAATTA
Statistics
Matches: 127, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
41 4 0.03
42 24 0.19
43 78 0.61
44 21 0.17
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAAC
Found at i:9199322 original size:1 final size:1
Alignment explanation
Indices: 9199316--9199341 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
9199306 GTTCGTTAAC
9199316 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
9199342 TCATAATCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9199364 original size:14 final size:14
Alignment explanation
Indices: 9199345--9199390 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
9199335 AAAAAAATCA
*
9199345 TAATCCCTAATCCC
1 TAATCCATAATCCC
*
9199359 TAATCCATAATCCG
1 TAATCCATAATCCC
*
9199373 TAAATCCATACTCCC
1 T-AATCCATAATCCC
9199388 TAA
1 TAA
9199391 ACCAGCCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.28
Consensus pattern (14 bp):
TAATCCATAATCCC
Found at i:9199391 original size:15 final size:15
Alignment explanation
Indices: 9199346--9199391 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
9199336 AAAAAATCAT
*
9199346 AATCCCTAATCCCT-
1 AATCCATAATCCCTA
*
9199360 AATCCATAATCCGTA
1 AATCCATAATCCCTA
*
9199375 AATCCATACTCCCTA
1 AATCCATAATCCCTA
9199390 AA
1 AA
9199392 CCAGCCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.37, C:0.35, G:0.02, T:0.26
Consensus pattern (15 bp):
AATCCATAATCCCTA
Found at i:9199848 original size:39 final size:40
Alignment explanation
Indices: 9199805--9199911 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
9199795 TGGCGTTTTT
9199805 TAATGCTC-ATTTTTAGCGGCGTTTTTTGAAAAACGCCGC
1 TAATGCTCAATTTTTAGCGGCGTTTTTTGAAAAACGCCGC
* * ** * * **
9199844 TAATGCTCAATCTTTAGTGGCAATTTCTGTAAAGTGCCGC
1 TAATGCTCAATTTTTAGCGGCGTTTTTTGAAAAACGCCGC
* * *
9199884 TAATGCTCGATTTTTACCTGCGTTTTTT
1 TAATGCTCAATTTTTAGCGGCGTTTTTT
9199912 TGTCCAAACG
Statistics
Matches: 51, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
39 8 0.16
40 43 0.84
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (40 bp):
TAATGCTCAATTTTTAGCGGCGTTTTTTGAAAAACGCCGC
Found at i:9207947 original size:9 final size:9
Alignment explanation
Indices: 9207933--9208046 Score: 156
Period size: 9 Copynumber: 12.4 Consensus size: 9
9207923 TTTGGTTAAA
9207933 AATTACCCG
1 AATTACCCG
9207942 AATTACCCG
1 AATTACCCG
9207951 AATTACCCG
1 AATTACCCG
*
9207960 ACTTACCCG
1 AATTACCCG
9207969 AATTACCCG
1 AATTACCCG
*
9207978 AATTACTCG
1 AATTACCCG
*
9207987 ACTTACCCG
1 AATTACCCG
9207996 AATTACCCG
1 AATTACCCG
* *
9208005 AATTAACTG
1 AATTACCCG
9208014 AAAATTACCCG
1 --AATTACCCG
*
9208025 AATTACCCA
1 AATTACCCG
9208034 AATTACCCG
1 AATTACCCG
9208043 AATT
1 AATT
9208047 GACACTTTGA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
9 84 0.92
11 7 0.08
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:9208697 original size:20 final size:20
Alignment explanation
Indices: 9208672--9208735 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
9208662 TTTAAAACAT
9208672 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
9208692 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
9208709 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
9208729 TACATAA
1 TACATAA
9208736 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:9208712 original size:37 final size:37
Alignment explanation
Indices: 9208665--9208794 Score: 189
Period size: 37 Copynumber: 3.6 Consensus size: 37
9208655 GATGAGGTTT
9208665 AAAACATTACATAAATCTTTGAATCACTACATAATTA
1 AAAACATTACATAAATCTTTGAATCACTACATAATTA
* *
9208702 AAAATATTACATAAGTCTTTGAATCACTACATAATTA
1 AAAACATTACATAAATCTTTGAATCACTACATAATTA
*
9208739 AAAATATTACAT-AA--TTTGAATCAC-ACATAATTA
1 AAAACATTACATAAATCTTTGAATCACTACATAATTA
*
9208772 AAAACATTACATAAGTC-TTGAAT
1 AAAACATTACATAAATCTTTGAAT
9208795 TAACACATAA
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
33 20 0.24
34 11 0.13
35 6 0.07
36 1 0.01
37 47 0.55
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (37 bp):
AAAACATTACATAAATCTTTGAATCACTACATAATTA
Done.