Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 50 of 56
Found at i:8529204 original size:19 final size:20
Alignment explanation
Indices: 8529155--8529204 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
8529145 CACACCCAGA
*
8529155 TGTATCAAAACATATTGCTT
1 TGTATCAATACATATTGCTT
* * *
8529175 AGTATCGATACATGTT-CTT
1 TGTATCAATACATATTGCTT
8529194 TGTATCAATAC
1 TGTATCAATAC
8529205 CCCATAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
TGTATCAATACATATTGCTT
Found at i:8529319 original size:52 final size:52
Alignment explanation
Indices: 8529257--8529355 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
8529247 TAAGTGAATT
*
8529257 GTATCGATACA-TAGTAAATTGTATCGATATATTGAGCCTAACGGCTATAATC
1 GTATCGATACATTA-TAAATTGTATCGATACATTGAGCCTAACGGCTATAATC
* *
8529309 GTATCGATACATTATGAATTGTATCGATACATTGAGTCTAACGGCTA
1 GTATCGATACATTATAAATTGTATCGATACATTGAGCCTAACGGCTA
8529356 GAATTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 41 0.95
53 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (52 bp):
GTATCGATACATTATAAATTGTATCGATACATTGAGCCTAACGGCTATAATC
Found at i:8529816 original size:35 final size:34
Alignment explanation
Indices: 8529770--8529835 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
8529760 AAAATGATTG
*
8529770 AGAGGTTTTATCTTAGCCTTTATAAAAGATAGGGA
1 AGAGGCTTTATCTTAGCCTTTA-AAAAGATAGGGA
8529805 AGAGGCTTTATCTTAGCCTTTAAAAAGATAG
1 AGAGGCTTTATCTTAGCCTTTAAAAAGATAG
8529836 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (34 bp):
AGAGGCTTTATCTTAGCCTTTAAAAAGATAGGGA
Found at i:8531442 original size:21 final size:21
Alignment explanation
Indices: 8531417--8531472 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
8531407 GATGTGCTTA
*
8531417 AAAAGAAAGTAAATGAGTTAG
1 AAAAGAAAATAAATGAGTTAG
* *
8531438 AAAAGAAAATATATGAGTTAT
1 AAAAGAAAATAAATGAGTTAG
*
8531459 AAGAAGACAATAAA
1 AA-AAGAAAATAAA
8531473 AAAAATTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.61, C:0.02, G:0.18, T:0.20
Consensus pattern (21 bp):
AAAAGAAAATAAATGAGTTAG
Found at i:8532266 original size:73 final size:73
Alignment explanation
Indices: 8532179--8532316 Score: 258
Period size: 73 Copynumber: 1.9 Consensus size: 73
8532169 TATTGTCAAT
8532179 TATGTGACAAAGGAATGAAAGTCATATTTAAATCACAAAATTGTCACGTAGTTGATACGCTTAGC
1 TATGTGACAAAGGAATGAAAGTCATATTTAAATCACAAAATTGTCACGTAGTTGATACGCTTAGC
8532244 AACCAAAC
66 AACCAAAC
* *
8532252 TATGTGACAAAGGAATGAAAGTCATATTTGAATCACAAAATTGTCACGTAGTTGATATGCTTAGC
1 TATGTGACAAAGGAATGAAAGTCATATTTAAATCACAAAATTGTCACGTAGTTGATACGCTTAGC
8532317 CCCCTTAGTA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (73 bp):
TATGTGACAAAGGAATGAAAGTCATATTTAAATCACAAAATTGTCACGTAGTTGATACGCTTAGC
AACCAAAC
Found at i:8532581 original size:21 final size:21
Alignment explanation
Indices: 8532548--8532588 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8532538 CTAAGTAAAA
8532548 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
8532569 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
8532589 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:8532653 original size:20 final size:19
Alignment explanation
Indices: 8532628--8532698 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
8532618 ACCCTGAAAA
8532628 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
8532648 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
8532667 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
8532688 GTATCGATACA
1 GTATCGATACA
8532699 GGACATTAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:8532751 original size:53 final size:53
Alignment explanation
Indices: 8532668--8532804 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
8532658 AAATTGCATA
8532668 GTATCGATACACACAAATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT
* *
8532722 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT
*
8532775 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
8532805 TTGGTATTGG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTAGCAGTAGCCAAATTT
Found at i:8532847 original size:10 final size:10
Alignment explanation
Indices: 8532828--8532858 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8532818 AATCTCATTT
8532828 TCACTGTTCA
1 TCACTGTTCA
*
8532838 TCACTATTCA
1 TCACTGTTCA
8532848 TCACTGTTCA
1 TCACTGTTCA
8532858 T
1 T
8532859 GTATCGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:8532910 original size:13 final size:13
Alignment explanation
Indices: 8532892--8532930 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
8532882 TCACTATTCA
8532892 TGTATCGATACAT
1 TGTATCGATACAT
*
8532905 TGTATCGATACAG
1 TGTATCGATACAT
*
8532918 TGTATCAATACAT
1 TGTATCGATACAT
8532931 CATAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8537130 original size:20 final size:20
Alignment explanation
Indices: 8537107--8537147 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8537097 TATAAATTTG
8537107 GTTTTATCAACTTAGCTTAT
1 GTTTTATCAACTTAGCTTAT
8537127 GTTTTATCAACTTAGCTTAT
1 GTTTTATCAACTTAGCTTAT
8537147 G
1 G
8537148 AACCAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (20 bp):
GTTTTATCAACTTAGCTTAT
Found at i:8538030 original size:21 final size:21
Alignment explanation
Indices: 8538006--8538046 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8537996 CTAAGTAATA
8538006 ATACGTATT-GTATCAATACAT
1 ATAC-TATTGGTATCAATACAT
*
8538027 ATACTATTGGTATTAATACA
1 ATACTATTGGTATCAATACA
8538047 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACTATTGGTATCAATACAT
Found at i:8538210 original size:53 final size:53
Alignment explanation
Indices: 8538126--8538262 Score: 222
Period size: 53 Copynumber: 2.6 Consensus size: 53
8538116 AAATTGCATA
*
8538126 GTATCGATACACACAAATATGTATCAATACAGGAT-ATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGG-TCATTGGCAGTAGCCAAATTT
*
8538180 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCTAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
*
8538233 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
8538263 TTGGTAGTGG
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
52 1 0.01
53 64 0.81
54 14 0.18
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
Found at i:8538368 original size:13 final size:13
Alignment explanation
Indices: 8538350--8538388 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
8538340 TCACTATTCA
8538350 TGTATCGATACAT
1 TGTATCGATACAT
*
8538363 TGTATCGATACAG
1 TGTATCGATACAT
8538376 TGTATCGATACAT
1 TGTATCGATACAT
8538389 CATAAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8541703 original size:13 final size:13
Alignment explanation
Indices: 8541685--8541709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8541675 TAATTATTCA
8541685 TGTATCGATACAT
1 TGTATCGATACAT
8541698 TGTATCGATACA
1 TGTATCGATACA
8541710 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8541797 original size:13 final size:13
Alignment explanation
Indices: 8541779--8541804 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8541769 TACAGTGAAC
8541779 ATGTATCGATACA
1 ATGTATCGATACA
8541792 ATGTATCGATACA
1 ATGTATCGATACA
8541805 TCTGGATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:8548907 original size:15 final size:15
Alignment explanation
Indices: 8548887--8548918 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8548877 GTCAACTTCC
8548887 TCATTATCATCATCA
1 TCATTATCATCATCA
*
8548902 TCATTATCTTCATCA
1 TCATTATCATCATCA
8548917 TC
1 TC
8548919 TTTGATGGTT
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:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (15 bp):
TCATTATCATCATCA
Found at i:8553066 original size:78 final size:78
Alignment explanation
Indices: 8552937--8553155 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 78
8552927 ACAATGGGGC
* * *
8552937 TGGAGTATCCCTGATTATGGAAAATCTG-TGTTCTGAAAATAAAACCGGGGTTGGAGTATCCCTC
1 TGGAGTATCCCTGATTATGAAAAATC-GATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCTC
*
8553001 -AGAAATAACAGGGA
65 GA-AAATAACAGAGA
* * *
8553015 TGGAGTATCCCTGATTATAAAAAATCGATATTTTGAAAATAAAATCGGGGTTAGAGTATCCCCTC
1 TGGAGTATCCCTGATTATGAAAAATCGATATTTTGAAAATAAAACCGGGGTTGGAGTAT-CCCTC
*
8553080 GAAAATAACAGAGT
65 GAAAATAACAGAGA
* * * ** *
8553094 TGGAGAATCCCTGATTGTGAAAAATCGATGATTTAG-AAATAAGGCCGGGGTTGAAGTATCCC
1 TGGAGTATCCCTGATTATGAAAAATCGAT-ATTTTGAAAATAAAACCGGGGTTGGAGTATCCC
8553156 CGATTGTGAG
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 54 0.45
79 59 0.49
80 6 0.05
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (78 bp):
TGGAGTATCCCTGATTATGAAAAATCGATATTTTGAAAATAAAACCGGGGTTGGAGTATCCCTCG
AAAATAACAGAGA
Found at i:8553161 original size:51 final size:51
Alignment explanation
Indices: 8553100--8553207 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 51
8553090 GAGTTGGAGA
* * *
8553100 ATCCCTGATTGTGAAAAATCGATGA-TTTAGAAATAAGGCCG-GGGTTGAAGT
1 ATCCCCGATTGTGAAAAATCAAT-ATTTTAGAAATAAAGCCGAGGG-TGAAGT
* * *
8553151 ATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGAGGGTGGAGT
1 ATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGCCGAGGGTGAAGT
8553202 ATCCCC
1 ATCCCC
8553208 TCGAAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 1 0.02
51 45 0.92
52 3 0.06
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (51 bp):
ATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGCCGAGGGTGAAGT
Found at i:8553222 original size:79 final size:79
Alignment explanation
Indices: 8553139--8553286 Score: 217
Period size: 79 Copynumber: 1.9 Consensus size: 79
8553129 GAAATAAGGC
* *
8553139 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGAGGG-TGGAGTA
1 CGGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACC-AGGGTTGGAGTA
8553203 TCCCCTCGAAAATAA
65 TCCCCTCGAAAATAA
* * * * *
8553218 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTATTGTTTTGGAAATAAAATCAGGGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACCAGGGTTGGAGTAT
8553283 CCCC
66 CCCC
8553287 GATTATGAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 4 0.07
79 57 0.93
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAACCAGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:8553263 original size:130 final size:130
Alignment explanation
Indices: 8553009--8553415 Score: 428
Period size: 130 Copynumber: 3.1 Consensus size: 130
8552999 TCAGAAATAA
* * * * * * *
8553009 CAGGGATGGAGTATCCCTGATTATAAAAAATCGATATTTTGAAAATAAAATCG-GGGTTAGAGTA
1 CAGGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAA-CGAGGGTTGGAGTA
* * * * **
8553073 TCCCCTCGAAAATAACAGAGTTGGAGAATCCCTGATTGTGAAAAATCGATGATTTAGAAATAAGG
65 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAA
8553138 C
130 C
* * * *
8553139 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGAGGG-TGGAGTA
1 CAGGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAA-ACGAGGGTTGGAGTA
* * *
8553203 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT-TATTGTTTTGGAAATAAA
65 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGA-TGATTTAGAAATAAA
*
8553267 AT
129 AC
* * * * * *
8553269 CAGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTAGGGTTGGAGTAT
1 CAGGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAACGAGGGTTGGAGTAT
* * * * * * *
8553334 CCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAACTAG-TGTTTTAGGAATAAAAT
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAAC
*
8553398 C-GAGGTTGGAGTATCCCC
1 CAG-GGTTGAAGTATCCCC
8553416 TCAGAAATAA
Statistics
Matches: 234, Mismatches: 37, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
128 1 0.00
129 37 0.16
130 193 0.82
131 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (130 bp):
CAGGGTTGAAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAACGAGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAAAC
Found at i:8553285 original size:51 final size:51
Alignment explanation
Indices: 8553220--8553337 Score: 193
Period size: 51 Copynumber: 2.3 Consensus size: 51
8553210 GAAAATAACG
* * *
8553220 GGGTTGGAGTATCCCCGATTGTGAAAAATTATTGTTTTGGAAATAAAA-TCA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACT-A
8553271 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTA
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTA
8553322 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
8553338 TCAAAAATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
51 62 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTA
Found at i:8553354 original size:79 final size:79
Alignment explanation
Indices: 8553271--8553494 Score: 319
Period size: 78 Copynumber: 2.8 Consensus size: 79
8553261 AATAAAATCA
8553271 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
8553336 CCTCAAAAATAACG
66 CCTCAAAAATAACG
* * * * *
8553350 GGGTTGGAGTATCCCCAATTGTG-AAAACTAGTGTTTTAGGAATAAAA-TCGAGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTAG-GGTTGGAGTATC
*
8553413 CCCTCAGAAATAACG
65 CCCTCAAAAATAACG
* * **
8553428 GGATTGGAGTATCCCCGATTATGAAAAATT-GATGTTTTGGAAATAAAACCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTATGAAAAATTAG-TGTTTTAGAAATAAAACTAGGGTTGGAGTATC
8553492 CCC
65 CCC
8553495 GAGATGAAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
77 2 0.02
78 69 0.54
79 55 0.43
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAACTAGGGTTGGAGTATCC
CCTCAAAAATAACG
Found at i:8555810 original size:20 final size:19
Alignment explanation
Indices: 8555785--8555858 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
8555775 AAAATGCCTG
*
8555785 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
8555805 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGA-A
*
8555825 AATGTATCGATATAATGCAA
1 AATGTATCGATACAATG-AA
8555845 AATGTATCGATACA
1 AATGTATCGATACA
8555859 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:8555921 original size:13 final size:13
Alignment explanation
Indices: 8555874--8555903 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8555864 GTAAACCCAG
*
8555874 AATGTATTGATAC
1 AATGTATCGATAC
8555887 AATGTATCGATAC
1 AATGTATCGATAC
8555900 AATG
1 AATG
8555904 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:8556763 original size:31 final size:33
Alignment explanation
Indices: 8556728--8556806 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
8556718 CCTTTTCAAG
* * * *
8556728 TTTCATCAAATTC-TCATC-AAATCTCTTTGTT
1 TTTCATCAAATTCATCAACAAAAACACTTTCTT
8556759 TTTCATCAAATTCATCAACAAAAACACTTTCTT
1 TTTCATCAAATTCATCAACAAAAACACTTTCTT
8556792 TTTCATCAAA-TCATC
1 TTTCATCAAATTCATC
8556807 CATCCAAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 13 0.31
32 9 0.21
33 20 0.48
ACGTcount: A:0.33, C:0.24, G:0.01, T:0.42
Consensus pattern (33 bp):
TTTCATCAAATTCATCAACAAAAACACTTTCTT
Found at i:8559099 original size:13 final size:13
Alignment explanation
Indices: 8559081--8559105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8559071 ATATTGCTTA
8559081 GTATCGATACATT
1 GTATCGATACATT
8559094 GTATCGATACAT
1 GTATCGATACAT
8559106 GTTCTTTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:8559122 original size:32 final size:33
Alignment explanation
Indices: 8559062--8559123 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
8559052 CACCCAAATA
8559062 TATCGATACATATTGCTTAGTATCGATACATTG
1 TATCGATACATATTGCTTAGTATCGATACATTG
* *
8559095 TATCGATACATGTT-CTTTGTATCGATACA
1 TATCGATACATATTGCTTAGTATCGATACA
8559124 CCATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (33 bp):
TATCGATACATATTGCTTAGTATCGATACATTG
Found at i:8559237 original size:52 final size:52
Alignment explanation
Indices: 8559171--8559273 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
8559161 ACCCTAAGTG
*
8559171 AATTGTATCGATACATGATAAATTGTATCGATACATTGAG-CCTAACGGCTAT
1 AATTGTATCGATACATGATAAATTATATCGATACATTGAGTCC-AACGGCTAT
* *
8559223 AATTGTATCGATACATTATGAATTATATCGATACATTGAGTCCAACGGCTA
1 AATTGTATCGATACATGATAAATTATATCGATACATTGAGTCCAACGGCTA
8559274 GAATATCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 45 0.96
53 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (52 bp):
AATTGTATCGATACATGATAAATTATATCGATACATTGAGTCCAACGGCTAT
Found at i:8559739 original size:35 final size:34
Alignment explanation
Indices: 8559688--8559753 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 34
8559678 GAAGTGATTG
*
8559688 AGAGTTTCTATCTTAGCCTTTACAAAAGATAGGGA
1 AGAGGTTCTATCTTAGCCTTT-CAAAAGATAGGGA
*
8559723 AGAGGTTCTATCTTAGCCTTTGAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTTCAAAAGATAG
8559754 TGTTGTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 9 0.31
35 20 0.69
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTTCAAAAGATAGGGA
Found at i:8561070 original size:40 final size:40
Alignment explanation
Indices: 8561015--8561096 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
8561005 ATTTAATCTT
8561015 ATATCTCATTTAACTTTGGTATGTCCAACTAACTAAGAAA
1 ATATCTCATTTAACTTTGGTATGTCCAACTAACTAAGAAA
* *
8561055 ATATCTCATTTAACTTTGGTATTTCTAACTAACTAAGAAA
1 ATATCTCATTTAACTTTGGTATGTCCAACTAACTAAGAAA
8561095 AT
1 AT
8561097 TGACTGATGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (40 bp):
ATATCTCATTTAACTTTGGTATGTCCAACTAACTAAGAAA
Found at i:8561762 original size:112 final size:112
Alignment explanation
Indices: 8561521--8561741 Score: 370
Period size: 112 Copynumber: 2.0 Consensus size: 112
8561511 ATTTAATTAA
**
8561521 TAATATATAAACATCTATCAAATAGCTCAATCTCTATTTTATCAGGAAAAATTTTGAAAAATTGT
1 TAATATATAAACATCTATCAAATAGCTCAATCTCTATTTTATCAGGAAAAATTTTGAAAAATAAT
* *
8561586 AGTTTTACTTTTAAGTTTAAAAAGAAAAATAAAACAAATTAACACAT
66 AATTTTACTTTAAAGTTTAAAAAGAAAAATAAAACAAATTAACACAT
* * *
8561633 TAATATATAAACATCTATCAAATAGCTCAATTTCTATTTTATCAGGCAAAATTTTGAAAAGTAAT
1 TAATATATAAACATCTATCAAATAGCTCAATCTCTATTTTATCAGGAAAAATTTTGAAAAATAAT
*
8561698 AATTTTACTTTAAAGTTTAAAAAGAAAAATAAGACAAATTAACA
66 AATTTTACTTTAAAGTTTAAAAAGAAAAATAAAACAAATTAACA
8561742 TGTTAACTTA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (112 bp):
TAATATATAAACATCTATCAAATAGCTCAATCTCTATTTTATCAGGAAAAATTTTGAAAAATAAT
AATTTTACTTTAAAGTTTAAAAAGAAAAATAAAACAAATTAACACAT
Found at i:8562005 original size:2 final size:2
Alignment explanation
Indices: 8561998--8562033 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
8561988 CATAAAATAG
* *
8561998 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8562034 TTATGATCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8565584 original size:28 final size:28
Alignment explanation
Indices: 8565553--8565608 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
8565543 ATTTATGCAG
8565553 AAAATTTAAATCAAACCCATGATACAGT
1 AAAATTTAAATCAAACCCATGATACAGT
*
8565581 AAAATTTAAATCAAACCCATGTTACAGT
1 AAAATTTAAATCAAACCCATGATACAGT
8565609 TTTAGGAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (28 bp):
AAAATTTAAATCAAACCCATGATACAGT
Found at i:8568428 original size:16 final size:15
Alignment explanation
Indices: 8568403--8568432 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8568393 TTGGTCATGA
8568403 TAAAAAATAAATAAG
1 TAAAAAATAAATAAG
8568418 TAAATAAATAAATAA
1 TAAA-AAATAAATAA
8568433 AGGTGAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAATAAG
Found at i:8570272 original size:22 final size:22
Alignment explanation
Indices: 8570244--8570299 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
8570234 AGCCACGATC
* *
8570244 CCACATCTAAACCCTTAATAGT
1 CCACATCTAAACCCTCAACAGT
8570266 CCACATCTAAACCCTCAACAGT
1 CCACATCTAAACCCTCAACAGT
8570288 CCACATCTAAAC
1 CCACATCTAAAC
8570300 ACATAACCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.21
Consensus pattern (22 bp):
CCACATCTAAACCCTCAACAGT
Found at i:8571194 original size:33 final size:33
Alignment explanation
Indices: 8571156--8571221 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
8571146 AATTAAAAAC
* *
8571156 CTAAAGTAGCCCTACAAATACAATTGGAAATGG
1 CTAAAGTAGCCATACAAATACAACTGGAAATGG
8571189 CTAAAGTAGCCATACAAATACAACTGGAAATGG
1 CTAAAGTAGCCATACAAATACAACTGGAAATGG
8571222 TTAGATGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (33 bp):
CTAAAGTAGCCATACAAATACAACTGGAAATGG
Found at i:8572254 original size:13 final size:13
Alignment explanation
Indices: 8572217--8572254 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
8572207 AACTCACTCA
*
8572217 GTATCGATACAGT
1 GTATCGATACATT
8572230 GTATCGATACATT
1 GTATCGATACATT
*
8572243 GTATCTATACAT
1 GTATCGATACAT
8572255 AGTGAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:8573837 original size:3 final size:3
Alignment explanation
Indices: 8573829--8573871 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
8573819 TTAACCATCA
8573829 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
8573872 AGTTGACTCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:8577336 original size:32 final size:32
Alignment explanation
Indices: 8577295--8577375 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
8577285 TTTCAACAAT
* *
8577295 TTGTATCGATACAGTGTATCGATGCAGAAGTG
1 TTGTATCGATACAATGTATCGATACAGAAGTG
* *
8577327 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACAGAAGTG
8577359 TTGTATCGATACAATGT
1 TTGTATCGATACAATGT
8577376 GTCGCTACGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACAGAAGTG
Found at i:8577346 original size:13 final size:13
Alignment explanation
Indices: 8577328--8577352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8577318 GCAGAAGTGT
8577328 TGTATCGATACAA
1 TGTATCGATACAA
8577341 TGTATCGATACA
1 TGTATCGATACA
8577353 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8577444 original size:13 final size:13
Alignment explanation
Indices: 8577426--8577450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8577416 TACTCAAATG
8577426 TATCGATACATTA
1 TATCGATACATTA
8577439 TATCGATACATT
1 TATCGATACATT
8577451 GATCTTTTGT
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:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:8589494 original size:20 final size:21
Alignment explanation
Indices: 8589458--8589497 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
8589448 ATATAAATGT
8589458 TTTTCAAGTATAAAAATAATA
1 TTTTCAAGTATAAAAATAATA
8589479 TTTTCAAGTA-AAAAATAAT
1 TTTTCAAGTATAAAAATAAT
8589498 CCAAAATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
TTTTCAAGTATAAAAATAATA
Found at i:8589616 original size:20 final size:19
Alignment explanation
Indices: 8589593--8589647 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
8589583 CACACCCAGA
*
8589593 TGTATTGATACATATTACTT
1 TGTATCGATACATATT-CTT
8589613 TGTATCGATACATATTCTT
1 TGTATCGATACATATTCTT
*
8589632 GGTATCGATACATATT
1 TGTATCGATACATATT
8589648 GAATTGTGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTCTT
Found at i:8589638 original size:19 final size:20
Alignment explanation
Indices: 8589594--8589665 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
8589584 ACACCCAGAT
* *
8589594 GTATTGATACATATTACTTT
1 GTATCGATACATATTACTTG
8589614 GTATCGATACATATT-CTTG
1 GTATCGATACATATTACTTG
*
8589633 GTATCGATACATATTGAATT-
1 GTATCGATACATATT-ACTTG
*
8589653 GTGTCGATACATA
1 GTATCGATACATA
8589666 AAACTAGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 18 0.39
20 26 0.57
21 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCGATACATATTACTTG
Found at i:8594692 original size:79 final size:78
Alignment explanation
Indices: 8594592--8594839 Score: 259
Period size: 80 Copynumber: 3.1 Consensus size: 78
8594582 AATAACGGGG
* * * * * *
8594592 TTGGAGTATCCCCTT-GAAAATAACGGGTTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTC
1 TTGGAGTAT-CCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAATGTAAAAAATTGATGTTTTA
8594656 GAAATAAAATCGAGA
65 GAAATAAAATCG-GA
* * * * * *
8594671 TTGGAGTATCCCTTCGGAAATAACGGGGTTAGAGTATCTCTGACTATAAAAAAATTGATGTTTTA
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAATGT-AAAAAATTGATGTTTTA
* *
8594736 GAAATAAAACCGGGG
65 GAAATAAAATC-GGA
* * *
8594751 TTGGAGTATCTCC-ACGAAAATAAGGGGGTTGGAGTATCCCC-AATGAAAAAAATTGATGTTTTA
1 TTGGAGTATC-CCTTCGAAAATAACGGGGTTGGAGTATCCCCGAATGTAAAAAATTGATGTTTTA
8594814 GAAATAAAATCGGA
65 GAAATAAAATCGGA
*
8594828 GTTAGAGTATCC
1 -TTGGAGTATCC
8594840 TCGATTATGG
Statistics
Matches: 139, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
77 3 0.02
78 41 0.29
79 36 0.26
80 56 0.40
81 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAATGTAAAAAATTGATGTTTTAG
AAATAAAATCGGA
Found at i:8594862 original size:51 final size:51
Alignment explanation
Indices: 8594782--8594942 Score: 182
Period size: 51 Copynumber: 3.2 Consensus size: 51
8594772 AAGGGGGTTG
* * *
8594782 GAGTATCCCCAATGAA-AAAAATTGATGTTTTAGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTAAGAAAAATGGATGTTTTAGAAATAAAATCGGAGTTA
* * * * *
8594832 GAGTATCCTCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTAAGAAAAATGGATGTTTTAGAAATAAAATCGGAGTTA
* * * * *
8594883 GAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-GATTG
1 GAGTATCCCCGATTAAGAAAAATGGATGTTTTAGAAATAAAATCGGAG-TTA
8594934 GAGTATCCC
1 GAGTATCCC
8594943 TAAGATGAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 13 0.14
51 80 0.86
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTAAGAAAAATGGATGTTTTAGAAATAAAATCGGAGTTA
Found at i:8597248 original size:20 final size:19
Alignment explanation
Indices: 8597223--8597337 Score: 158
Period size: 20 Copynumber: 5.8 Consensus size: 19
8597213 AAAATGCCTG
*
8597223 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
8597243 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
8597263 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
8597283 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
8597303 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
8597322 CAATGTATCGATACAA
1 -AATGTATCGATACAA
8597338 ATTATGAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.02
20 83 0.97
21 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:8597285 original size:40 final size:39
Alignment explanation
Indices: 8597223--8597337 Score: 194
Period size: 40 Copynumber: 2.9 Consensus size: 39
8597213 AAAATGCCTG
*
8597223 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGC
1 AATGTATCGATACAATG-AAAATGTATCGATACAATGAGC
8597263 AATGTATCGATACAATGCAAAATGTATCGATACAATGAGC
1 AATGTATCGATACAATG-AAAATGTATCGATACAATGAGC
8597303 AATGTATCGATACAATGAACAATGTATCGATACAA
1 AATGTATCGATACAATGAA-AATGTATCGATACAA
8597338 ATTATGAAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 2 0.03
40 70 0.97
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (39 bp):
AATGTATCGATACAATGAAAATGTATCGATACAATGAGC
Found at i:8597316 original size:60 final size:60
Alignment explanation
Indices: 8597223--8597337 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 60
8597213 AAAATGCCTG
* *
8597223 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGCAATGTATCGATACAATGCAA
1 AATGTATCGATACAATGTAAAATGTATCGATACAATGAACAATGTATCGATACAATGCAA
*
8597283 AATGTATCGATACAATG-AGCAATGTATCGATACAATGAACAATGTATCGATACAA
1 AATGTATCGATACAATGTA-AAATGTATCGATACAATGAACAATGTATCGATACAA
8597338 ATTATGAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
59 1 0.02
60 50 0.98
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (60 bp):
AATGTATCGATACAATGTAAAATGTATCGATACAATGAACAATGTATCGATACAATGCAA
Found at i:8601178 original size:13 final size:13
Alignment explanation
Indices: 8601160--8601185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8601150 AATTTTTTTG
8601160 TGTATCGATACAT
1 TGTATCGATACAT
8601173 TGTATCGATACAT
1 TGTATCGATACAT
8601186 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8603354 original size:32 final size:32
Alignment explanation
Indices: 8603318--8603384 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
8603308 CTGCCTAGGG
8603318 GGTTGCTGGTTCAGGCTTTTTGCCGAACAGGT
1 GGTTGCTGGTTCAGGCTTTTTGCCGAACAGGT
8603350 GGTTGCTGGTTCAGGCTTTTTGCCGAACAGGT
1 GGTTGCTGGTTCAGGCTTTTTGCCGAACAGGT
8603382 GGT
1 GGT
8603385 GGTCACTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.12, C:0.18, G:0.36, T:0.34
Consensus pattern (32 bp):
GGTTGCTGGTTCAGGCTTTTTGCCGAACAGGT
Found at i:8603793 original size:13 final size:13
Alignment explanation
Indices: 8603775--8603800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8603765 ATAATCCCCC
8603775 TGTATCGATACAA
1 TGTATCGATACAA
8603788 TGTATCGATACAA
1 TGTATCGATACAA
8603801 ACACAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8607685 original size:22 final size:20
Alignment explanation
Indices: 8607636--8607687 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8607626 ATCATGCAAG
8607636 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCTAAT
**
8607657 TCATTATTTTCATTAGCTAAAT
1 TTTTTATTTTC-TTAGCT-AAT
8607679 TTTTTATTT
1 TTTTTATTT
8607688 CAATTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 10 0.40
22 10 0.40
ACGTcount: A:0.23, C:0.10, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCTAAT
Found at i:8613547 original size:25 final size:24
Alignment explanation
Indices: 8613500--8613547 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
8613490 ATTCTTATAA
* *
8613500 TTTTAAAAATATAATTTTATTATT
1 TTTTAAAAATAAAATTATATTATT
*
8613524 TTTTAAAAGATAAAATTATCTTAT
1 TTTTAAAA-ATAAAATTATATTAT
8613548 CTTTAACCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTTAAAAATAAAATTATATTATT
Found at i:8614664 original size:20 final size:20
Alignment explanation
Indices: 8614618--8614674 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
8614608 TTATATCGAT
8614618 ACAA-TGTATCGATACAT-G
1 ACAATTGTATCGATACATGG
***
8614636 TTTATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
8614656 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
8614675 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 17 0.55
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:8614728 original size:20 final size:20
Alignment explanation
Indices: 8614703--8614756 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
8614693 CTATCACTAT
*
8614703 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
8614723 TTGTATAGATACATGATGAA
1 TTGTATCGATACATGATGAA
8614743 TTGTATCGATACAT
1 TTGTATCGATACAT
8614757 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:8616338 original size:3 final size:3
Alignment explanation
Indices: 8616330--8616365 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
8616320 TCAACCATCA
* *
8616330 ATG ATG ATG AAG ATG ATA ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
8616366 GTGACTCAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:8621089 original size:20 final size:21
Alignment explanation
Indices: 8621053--8621092 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8621043 TTACAAATTT
*
8621053 CTTCATTTTTACTTCAAAATA
1 CTTCATTTTTACATCAAAATA
8621074 CTTCATTTTT-CATCAAAAT
1 CTTCATTTTTACATCAAAAT
8621093 CACTAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAATA
Found at i:8623462 original size:13 final size:13
Alignment explanation
Indices: 8623444--8623470 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8623434 ACATTATGCT
8623444 TTGTATCGATACA
1 TTGTATCGATACA
8623457 TTGTATCGATACA
1 TTGTATCGATACA
8623470 T
1 T
8623471 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:8623545 original size:20 final size:20
Alignment explanation
Indices: 8623520--8623573 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
8623510 CTATCACTAT
*
8623520 TTGTATCGATACATGGT-AGA
1 TTGTATCGATACATGATGA-A
*
8623540 TTGTATAGATACATGATGAA
1 TTGTATCGATACATGATGAA
8623560 TTGTATCGATACAT
1 TTGTATCGATACAT
8623574 TGCTTCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:8625264 original size:7 final size:6
Alignment explanation
Indices: 8625227--8625278 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
8625217 TTTATGATTA
* * * *
8625227 TTAATT TTTATT TTAATT TT-CTT TTAATT TTAAATT TTTATT TTATTT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TT-AATT TTAATT TTAATT
8625275 TTAA
1 TTAA
8625279 ACTAGTTTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
5 4 0.11
6 26 0.72
7 6 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (6 bp):
TTAATT
Found at i:8625276 original size:25 final size:25
Alignment explanation
Indices: 8625191--8625278 Score: 63
Period size: 24 Copynumber: 3.5 Consensus size: 25
8625181 ATCAAGATTT
* * * *
8625191 TTTTATTATTTTATTTCAAAATTTTG
1 TTTTATT-TTTAATTTTAAATTTTTA
* * *
8625217 TTTATGATTATTAATTTT-TATTTTAA
1 TTT-T-ATTTTTAATTTTAAATTTTTA
*
8625243 TTTT-CTTTTAATTTTAAATTTTTA
1 TTTTATTTTTAATTTTAAATTTTTA
8625267 TTTTATTTTTAA
1 TTTTATTTTTAA
8625279 ACTAGTTTCA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
23 9 0.20
24 10 0.22
25 7 0.15
26 10 0.22
27 7 0.15
28 3 0.07
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTATTTTTAATTTTAAATTTTTA
Found at i:8625277 original size:11 final size:11
Alignment explanation
Indices: 8625227--8625275 Score: 53
Period size: 11 Copynumber: 4.2 Consensus size: 11
8625217 TTTATGATTA
8625227 TTAATTTTTATT
1 TTAA-TTTTATT
*
8625239 TTAATTTTCTT
1 TTAATTTTATT
8625250 TTAATTTTAAATT
1 TTAATTTT--ATT
*
8625263 TTTATTTTATT
1 TTAATTTTATT
8625274 TT
1 TT
8625276 TAAACTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 19 0.59
12 4 0.12
13 9 0.28
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (11 bp):
TTAATTTTATT
Found at i:8627385 original size:152 final size:151
Alignment explanation
Indices: 8627017--8627386 Score: 372
Period size: 153 Copynumber: 2.4 Consensus size: 151
8627007 TATTATTTTT
* *
8627017 CATGTCCTTTAGGTTAGTAGGATA-TTTCATGTTGAAGGTATACCTTAGAGGCATTTTAGTAATT
1 CATGTCCTTAAGGTTACTAGGATATTTTCATGTTGAAGGTATACCTTAGAGGCATTTT-GTAATT
* * * *
8627081 TTCCCTAGAACCGAGTCTTATGTAGTCATTGGGATGCATATATGTCAAAGGTGTACATTTAGGAT
65 TTCCCTAGAACCGAGTCTTATGTAATCATCGAGATGCATATATGTCAAAGGTGCACATTTAGGAT
* * *
8627146 AGGTTTATCCTTTTATCATTTT
130 AGGTTCATCCTTTTATCACTTC
* * * * * * * * * *
8627168 CATGTCATTGAGGGT-CATCAAGATATTTTGATGTTGAAGGAATATCATAGTGGCATATTGATAA
1 CATGTCCTTAAGGTTAC-T-AGGATATTTTCATGTTGAAGGTATACCTTAGAGGCATTTTG-TAA
* ** * * * *
8627232 TTTT-TCTAGAATTGAGT-TTGATGTAATCGTCGAGATGCTTTTATGTCAAAGGTGCGCATTTAG
63 TTTTCCCTAGAACCGAGTCTT-ATGTAATCATCGAGATGCATATATGTCAAAGGTGCACATTTAG
8627295 GATAGGTTCATCCTTTCATATC-CTTC
127 GATAGGTTCATCCTTT--TATCACTTC
* * *
8627321 CATGTCCGTTAAGGTTACTAGGATATTTTCATGTAGAAGGTATACCTTAGGGGTATTTTGTAATT
1 CATGTCC-TTAAGGTTACTAGGATATTTTCATGTTGAAGGTATACCTTAGAGGCATTTTGTAATT
8627386 T
65 T
8627387 CTTTATAATC
Statistics
Matches: 173, Mismatches: 37, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
151 15 0.09
152 72 0.42
153 74 0.43
154 11 0.06
155 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (151 bp):
CATGTCCTTAAGGTTACTAGGATATTTTCATGTTGAAGGTATACCTTAGAGGCATTTTGTAATTT
TCCCTAGAACCGAGTCTTATGTAATCATCGAGATGCATATATGTCAAAGGTGCACATTTAGGATA
GGTTCATCCTTTTATCACTTC
Found at i:8628908 original size:2 final size:2
Alignment explanation
Indices: 8628901--8628937 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8628891 TTTTTAAATG
8628901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8628938 AAAGAGTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8629818 original size:74 final size:74
Alignment explanation
Indices: 8629660--8629818 Score: 187
Period size: 74 Copynumber: 2.1 Consensus size: 74
8629650 TATTTTCTCT
* *
8629660 AAATTAAATTAATATAACAAATCATACAAAATATATGATGAATTGAAATATAACACGAATATATA
1 AAATTAAAATAATATAACAAATCATACAAAATAAATGATGAATTGAAATATAACACGAATATATA
*****
8629725 AATTTTTCG
66 AATTAAAAA
* * * *
8629734 AAATTGAAATACTATAACAAATTATGCAAAATAAATGATGAATTGAAATATAACAC-AA-ATATA
1 AAATTAAAATAATATAACAAATCATACAAAATAAATGATGAATTGAAATATAACACGAATATATA
8629797 ATATTAAAAA
66 A-ATTAAAAA
8629807 ATAATTAAAATA
1 A-AATTAAAATA
8629819 TGACATGAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
72 6 0.08
73 6 0.08
74 59 0.83
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (74 bp):
AAATTAAAATAATATAACAAATCATACAAAATAAATGATGAATTGAAATATAACACGAATATATA
AATTAAAAA
Found at i:8631726 original size:18 final size:18
Alignment explanation
Indices: 8631703--8631741 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8631693 CGCCAAACTC
8631703 ACACCTCTTTTTTCACAA
1 ACACCTCTTTTTTCACAA
8631721 ACACCTCTTTTTTCACAA
1 ACACCTCTTTTTTCACAA
8631739 ACA
1 ACA
8631742 AAACAGACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
ACACCTCTTTTTTCACAA
Found at i:8633725 original size:12 final size:12
Alignment explanation
Indices: 8633702--8633938 Score: 92
Period size: 12 Copynumber: 21.2 Consensus size: 12
8633692 TTCCCTTACT
8633702 ATAATAATATTTA
1 ATAAT-ATATTTA
8633715 ATAATATATTTCA
1 ATAATATATTT-A
* * *
8633728 AT-ATTTAATCTG
1 ATAATAT-ATTTA
8633740 AT-A-ATATTTA
1 ATAATATATTTA
*
8633750 ATGATATATTTA
1 ATAATATATTTA
*
8633762 ATAGTATA-TTA
1 ATAATATATTTA
8633773 A-ACATAT-TTTA
1 ATA-ATATATTTA
*
8633784 ATATTATATTTA
1 ATAATATATTTA
*
8633796 ATAATGTA-TTA
1 ATAATATATTTA
8633807 A-AAT-TATTTTA
1 ATAATATA-TTTA
*
8633818 AAAATATTATTTA
1 ATAATA-TATTTA
*
8633831 AT--TATATTAA
1 ATAATATATTTA
*
8633841 AT-A-ATA-CTA
1 ATAATATATTTA
* *
8633850 ATAACATATTAA
1 ATAATATATTTA
8633862 AT-A-ATATTTA
1 ATAATATATTTA
8633872 ATAATATA-TT-
1 ATAATATATTTA
*
8633882 A-AATGT-TTTA
1 ATAATATATTTA
* *
8633892 AAAATTTTATTTA
1 ATAA-TATATTTA
8633905 ATAATATA--T-
1 ATAATATATTTA
8633914 -TAA-ATATTTA
1 ATAATATATTTA
*
8633924 ATAATATATTAA
1 ATAATATATTTA
8633936 ATA
1 ATA
8633939 TTTAATATAT
Statistics
Matches: 171, Mismatches: 24, Indels: 59
0.67 0.09 0.23
Matches are distributed among these distances:
7 3 0.02
8 3 0.02
9 12 0.07
10 31 0.18
11 38 0.22
12 59 0.35
13 23 0.13
14 2 0.01
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
ATAATATATTTA
Found at i:8633747 original size:15 final size:14
Alignment explanation
Indices: 8633727--8633763 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
8633717 AATATATTTC
8633727 AATATTTAATCTGAT
1 AATATTTAAT-TGAT
8633742 AATATTTAA-TGAT
1 AATATTTAATTGAT
8633755 -ATATTTAAT
1 AATATTTAAT
8633764 AGTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 4 0.19
15 9 0.43
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (14 bp):
AATATTTAATTGAT
Found at i:8633792 original size:34 final size:32
Alignment explanation
Indices: 8633746--8633841 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 32
8633736 TCTGATAATA
8633746 TTTAATGATATATTTAATAGTATATTAAACA-TAT
1 TTTAAT-ATATATTTAATA-TATATTAAA-ATTAT
*
8633780 TTTAATATTATATTTAATAATGTATTAAAATTAT
1 TTTAATA-TATATTTAAT-ATATATTAAAATTAT
*
8633814 TTTAAAAATATTATTTAAT-TATATTAAA
1 TTT-AATATA-TATTTAATATATATTAAA
8633842 TAATACTAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
33 10 0.19
34 32 0.59
35 12 0.22
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTAATATATATTTAATATATATTAAAATTAT
Found at i:8633880 original size:22 final size:22
Alignment explanation
Indices: 8633704--8633885 Score: 110
Period size: 22 Copynumber: 8.1 Consensus size: 22
8633694 CCCTTACTAT
8633704 AATAATATTTAATAATATATT-
1 AATAATATTTAATAATATATTA
* *
8633725 --TCAATATTTAATCTGATAATATTT
1 AAT-AATATTTAA--TAAT-ATATTA
*
8633749 AATGATATATTTAATAGTATATTA
1 AAT-A-ATATTTAATAATATATTA
* * *
8633773 AA-CATATTTTAATATTATATTT
1 AATAATA-TTTAATAATATATTA
* *
8633795 AATAATGTATTAA-AATTATTTTA
1 AATAATAT-TTAATAA-TATATTA
*
8633818 AA-AATA-TTATTTAATTATATTA
1 AATAATATTTA-ATAA-TATATTA
* *
8633840 AATAATA-CTAATAACATATTA
1 AATAATATTTAATAATATATTA
8633861 AATAATATTTAATAATATATTA
1 AATAATATTTAATAATATATTA
8633883 AAT
1 AAT
8633886 GTTTTAAAAA
Statistics
Matches: 124, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
19 1 0.01
20 12 0.10
21 16 0.13
22 52 0.42
23 24 0.19
24 7 0.06
25 2 0.02
26 2 0.02
27 8 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (22 bp):
AATAATATTTAATAATATATTA
Found at i:8633906 original size:74 final size:75
Alignment explanation
Indices: 8633704--8633938 Score: 210
Period size: 74 Copynumber: 3.1 Consensus size: 75
8633694 CCCTTACTAT
** ** * *
8633704 AATAATATTTAATAATATATTTCAA-TA-TTTAATCTGATAATATTTAATGATATATTTAATAGT
1 AATAATATTTAATAATATATTAAAATTATTTTAA--AAATATTATTTAAT-ATATATTAAATA-T
* *
8633767 ATATTAAACATATTTTA
62 CTAAT-AACATA--TTA
* *
8633784 ATATTATATTTAATAATGTATTAAAATTATTTTAAAAATATTATTTAAT-TATATTAAATAATAC
1 A-ATAATATTTAATAATATATTAAAATTATTTTAAAAATATTATTTAATATATATTAAAT-AT-C
8633848 TAATAACATATTA
63 TAATAACATATTA
* * *
8633861 AATAATATTTAATAATATATT-AAA-TGTTTTAAAAATTTTATTTAATAATATATTAAATATTTA
1 AATAATATTTAATAATATATTAAAATTATTTTAAAAATATTATTTAAT-ATATATTAAATATCTA
*
8633924 ATAATATATTA
65 ATAACATATTA
8633935 AATA
1 AATA
8633939 TTTAATATAT
Statistics
Matches: 132, Mismatches: 16, Indels: 20
0.79 0.10 0.12
Matches are distributed among these distances:
74 36 0.27
75 5 0.04
76 28 0.21
77 4 0.03
79 16 0.12
80 5 0.04
81 31 0.23
82 2 0.02
83 5 0.04
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (75 bp):
AATAATATTTAATAATATATTAAAATTATTTTAAAAATATTATTTAATATATATTAAATATCTAA
TAACATATTA
Found at i:8633953 original size:19 final size:19
Alignment explanation
Indices: 8633825--8633945 Score: 105
Period size: 19 Copynumber: 6.5 Consensus size: 19
8633815 TTAAAAATAT
8633825 TATTTAAT--TATATTAAA
1 TATTTAATAATATATTAAA
* *
8633842 TAATACTAATAACATATTAAATAA
1 T-AT-TTAATAATATATT--A-AA
8633866 TATTTAATAATATATTAAA
1 TATTTAATAATATATTAAA
*
8633885 TGTTTTAA-AA-AT-TT---
1 T-ATTTAATAATATATTAAA
8633899 TATTTAATAATATATTAAA
1 TATTTAATAATATATTAAA
8633918 TATTTAATAATATATTAAA
1 TATTTAATAATATATTAAA
8633937 TATTTAATA
1 TATTTAATA
8633946 TATTATTAGA
Statistics
Matches: 84, Mismatches: 6, Indels: 26
0.72 0.05 0.22
Matches are distributed among these distances:
13 5 0.06
14 3 0.04
15 2 0.02
16 2 0.02
17 3 0.04
18 4 0.05
19 37 0.44
20 6 0.07
21 5 0.06
22 11 0.13
23 3 0.04
24 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (19 bp):
TATTTAATAATATATTAAA
Found at i:8641079 original size:15 final size:17
Alignment explanation
Indices: 8641048--8641080 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
8641038 TCCTTTTATA
8641048 TAAATATATATATATGT
1 TAAATATATATATATGT
8641065 TAAATA-ATA-ATATGT
1 TAAATATATATATATGT
8641080 T
1 T
8641081 GGATAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TAAATATATATATATGT
Found at i:8641317 original size:2 final size:2
Alignment explanation
Indices: 8641310--8641348 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
8641300 TACCTTCGAA
8641310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8641349 TAAGCAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8641743 original size:2 final size:2
Alignment explanation
Indices: 8641736--8641762 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8641726 CCTCAATTTC
8641736 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
8641763 CCTTTCTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8643701 original size:16 final size:16
Alignment explanation
Indices: 8643678--8643738 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
8643668 TTTATATTAG
8643678 TTTAGGTTCGAGCCTA
1 TTTAGGTTCGAGCCTA
* * *
8643694 TTTGGGTTTGAGCTTA
1 TTTAGGTTCGAGCCTA
**
8643710 TTTAGGTTCGAGTTTA
1 TTTAGGTTCGAGCCTA
*
8643726 TTCAGGTTCGAGC
1 TTTAGGTTCGAGC
8643739 ATTTTCAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.16, C:0.13, G:0.28, T:0.43
Consensus pattern (16 bp):
TTTAGGTTCGAGCCTA
Found at i:8643745 original size:16 final size:16
Alignment explanation
Indices: 8643698--8643768 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
8643688 AGCCTATTTG
*
8643698 GGTTTGAGCTTATTT-A
1 GGTTCGAGCTT-TTTCA
8643714 GGTTCGAG-TTTATTCA
1 GGTTCGAGCTTT-TTCA
*
8643730 GGTTCGAGCATTTTCA
1 GGTTCGAGCTTTTTCA
*
8643746 AGTTC-ATGCTTTTTCAA
1 GGTTCGA-GCTTTTTC-A
8643763 GGTTCG
1 GGTTCG
8643769 CTCCTTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
14 1 0.02
15 5 0.11
16 31 0.70
17 7 0.16
ACGTcount: A:0.18, C:0.14, G:0.24, T:0.44
Consensus pattern (16 bp):
GGTTCGAGCTTTTTCA
Found at i:8643934 original size:14 final size:14
Alignment explanation
Indices: 8643912--8643959 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
8643902 AAGTAAATTA
8643912 TTAAATTATTATTT
1 TTAAATTATTATTT
* *
8643926 TTAAGTTATTTTTT
1 TTAAATTATTATTT
*
8643940 TTATAATATGTTATTT
1 TTA-AAT-TATTATTT
8643956 TTAA
1 TTAA
8643960 TATATTCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 15 0.56
15 3 0.11
16 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TTAAATTATTATTT
Found at i:8645141 original size:527 final size:532
Alignment explanation
Indices: 8644142--8645205 Score: 1471
Period size: 527 Copynumber: 2.0 Consensus size: 532
8644132 ATTTGTATTG
* * * *
8644142 TATAATCTTTTTGCATTTGAAATTTTTAATTTTGTGCCACATTATATTTATATTCGTAACACTCG
1 TATAATCTTGTTGCATTTGAAATTTTTAATTTTGTACCACATTATATTTATATTCATAACACTCA
* * * * *
8644207 ATTCAAATAGCTTAATCAAGTTTTTTTTATTTTTTATATATATTTTTAATATTTTAATATGAAAT
66 ACTCAAATAACTCAATCAAG-TCTTTTTATTTTATATATATATTTTTAATATTTTAATATGAAAT
*
8644272 TATCTTTTTATCCTTAATATATATACACACTTAAAACCCAAAATTTAATTTTTTTCCTTTCGATA
130 TATCTTTTTATCCTTAATATATATACACACTTAAAACCCAAAATCTAATTTTTTTCCTTTCGATA
* ** * * *
8644337 GTAGCAACTCTTATTTTCCTTAATATTAGTAAAAACCCAAAACCTAATTTTTCCTTTTGGTAGTG
195 GTAGCAACTCTTATTTTCCTTAACACCAGTAAAAACCCAAAACCTAATTTCTCCCTTTGGTAGCG
* * * * * * *
8644402 TAATTCTTATTTTAGTGAAAATCTGAATTTACTTTGACATTTTCAGGCGATTATAACCTAAATTA
260 CAACTCTTAGTTTAGTGAAAATCTAAATTTACTTTGACATTTTAAGGCGATTACAACCAAAATTA
* * * * *
8644467 TCTTTCAAATTTTCTTCCTCAATTATGACTATAGATGAAGGAAAACAAAAAGAGTTAAGTCACAT
325 TCTCTCAAATCTTCTTCCTCAATTACGACCATAGATGAAGGAAAACAAAAAGAGCTAAGTCACAT
* * * *
8644532 CACAACTTTTAAGTTTGTCTCTAAAATTAAGCTGATAGCTATCATGTAATTTTTAAAGTGTAAAG
390 CACAACTTTTAAGTTTGTCTCCAAAATTAAACTGATAGCTATCATGCAACTTTTAAAGTGTAAAG
8644597 TATATTTGTGTGCTTCTTATACTTAAAGAAACTATAAAAAAATTTAACAGTCCCCACAGTTTTGT
455 TATATTTGTGTGCTTCTTATACTTAAAGAAACTATAAAAAAATTTAACAGTCCCCACAGTTTTGT
* *
8644662 ATTTAGAATATGA
520 ATTTAAAATATAA
* *
8644675 TATAATCTTGTTGCATTTGAAATTTTTAATTTTGTATCACATTATATTTATATTCATAATACTCA
1 TATAATCTTGTTGCATTTGAAATTTTTAATTTTGTACCACATTATATTTATATTCATAACACTCA
* * *
8644740 ACTCAAGTAACTCAATCGAG-CTTTTTA-TTTAT-TATATA-TTTTAATATTTTAATATTAAATT
66 ACTCAAATAACTCAATCAAGTCTTTTTATTTTATATATATATTTTTAATATTTTAATATGAAATT
*
8644801 AT-TATTTTATTCTTAATATATATACACACTTAAAACCCAAAATCTAATTTTTTTCCCTTT-GAT
131 ATCT-TTTTATCCTTAATATATATACACACTTAAAACCCAAAATCTAATTTTTTT-CCTTTCGAT
* * *
8644864 AGTCGCAACTCTTATTTTCCTTAGCACCAGTAAAAACCC-AAATCTAATTTCTCCCTTTGGTAGC
194 AGTAGCAACTCTTATTTTCCTTAACACCAGTAAAAACCCAAAACCTAATTTCTCCCTTTGGTAGC
*
8644928 GCAACTCTTAGTTTAGT-AAAATCTCAAATTTACTTTGACATTTTAAGGCGATTACAATCAAAAT
259 GCAACTCTTAGTTTAGTGAAAATCT-AAATTTACTTTGACATTTTAAGGCGATTACAACCAAAAT
* * * * *
8644992 TATCTCTCAAGTCTTCTTCCTTAATTACGGCCATAG-TCGAAGGAAAAGAAAATGAGCTAAGTCA
323 TATCTCTCAAATCTTCTTCCTCAATTACGACCATAGAT-GAAGGAAAACAAAAAGAGCTAAGTCA
* * * * * *
8645056 CATCACGATTTTTAGGTTTGTTTCCAAAATTAAACTGATAGGTATCATGCAACTTTTGAAGTGTA
387 CATCACAACTTTTAAGTTTGTCTCCAAAATTAAACTGATAGCTATCATGCAACTTTTAAAGTGTA
* * * **
8645121 AAGTATATTTGTGTGCTTCTTGTACTTAAAGAAACTGTAAAAAATTTTAACAGTCCTTACAGTTT
452 AAGTATATTTGTGTGCTTCTTATACTTAAAGAAACTATAAAAAAATTTAACAGTCCCCACAGTTT
*
8645186 TGTGTTTAAAATATAA
517 TGTATTTAAAATATAA
8645202 TATA
1 TATA
8645206 GCTTTTTGAT
Statistics
Matches: 466, Mismatches: 61, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
526 8 0.02
527 254 0.55
528 109 0.23
529 11 0.02
530 4 0.01
531 6 0.01
533 74 0.16
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (532 bp):
TATAATCTTGTTGCATTTGAAATTTTTAATTTTGTACCACATTATATTTATATTCATAACACTCA
ACTCAAATAACTCAATCAAGTCTTTTTATTTTATATATATATTTTTAATATTTTAATATGAAATT
ATCTTTTTATCCTTAATATATATACACACTTAAAACCCAAAATCTAATTTTTTTCCTTTCGATAG
TAGCAACTCTTATTTTCCTTAACACCAGTAAAAACCCAAAACCTAATTTCTCCCTTTGGTAGCGC
AACTCTTAGTTTAGTGAAAATCTAAATTTACTTTGACATTTTAAGGCGATTACAACCAAAATTAT
CTCTCAAATCTTCTTCCTCAATTACGACCATAGATGAAGGAAAACAAAAAGAGCTAAGTCACATC
ACAACTTTTAAGTTTGTCTCCAAAATTAAACTGATAGCTATCATGCAACTTTTAAAGTGTAAAGT
ATATTTGTGTGCTTCTTATACTTAAAGAAACTATAAAAAAATTTAACAGTCCCCACAGTTTTGTA
TTTAAAATATAA
Found at i:8645620 original size:16 final size:17
Alignment explanation
Indices: 8645598--8645642 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
8645588 ATTAATTAAA
8645598 ATTTTAATATTTAGTTT
1 ATTTTAATATTTAGTTT
*
8645615 -TTTTAATTTTTAGTTT
1 ATTTTAATATTTAGTTT
8645631 ATTTT-ATATTTA
1 ATTTTAATATTTA
8645643 TTATCACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (17 bp):
ATTTTAATATTTAGTTT
Found at i:8646052 original size:15 final size:15
Alignment explanation
Indices: 8646032--8646065 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8646022 TATTTTTATG
8646032 ATTTAA-TATATATAT
1 ATTTAATTATATAT-T
8646047 ATTTAATTATATATT
1 ATTTAATTATATATT
8646062 ATTT
1 ATTT
8646066 TGTATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTAATTATATATT
Found at i:8646608 original size:22 final size:22
Alignment explanation
Indices: 8646556--8646599 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8646546 AAAGCTCATG
*
8646556 ATATAATTTACCTTTTGATAAA
1 ATATAATTTACCTTTTCATAAA
*
8646578 ATATAATTTACTTTTTCATAAA
1 ATATAATTTACCTTTTCATAAA
8646600 TTACTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATAATTTACCTTTTCATAAA
Found at i:8646844 original size:16 final size:16
Alignment explanation
Indices: 8646815--8646859 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8646805 CGGGTTTAGG
* * *
8646815 TTCTTTCGACTTTGAT
1 TTCTTTTGAGTTTGAA
8646831 TTCTTTTGAGTTTGAA
1 TTCTTTTGAGTTTGAA
*
8646847 TTATTTTGAGTTT
1 TTCTTTTGAGTTT
8646860 AAACCATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.60
Consensus pattern (16 bp):
TTCTTTTGAGTTTGAA
Found at i:8647884 original size:31 final size:32
Alignment explanation
Indices: 8647846--8647915 Score: 124
Period size: 31 Copynumber: 2.2 Consensus size: 32
8647836 AAACTATAAC
8647846 TGTATCGATACATAAGTGTTG-ATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
8647877 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
8647909 TGTATCG
1 TGTATCG
8647916 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 20 0.54
32 17 0.46
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:8647901 original size:19 final size:18
Alignment explanation
Indices: 8647846--8647907 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
8647836 AAACTATAAC
8647846 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
8647865 TG-ATCGATAC--AA---
1 TGTATCGATACATAAGTT
8647877 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
8647896 TGTATCGATACA
1 TGTATCGATACA
8647908 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.06
13 8 0.22
15 2 0.06
16 2 0.06
18 8 0.22
19 14 0.39
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:8653756 original size:13 final size:13
Alignment explanation
Indices: 8653738--8653763 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8653728 CAATTTTTTG
8653738 TGTATCGATACAT
1 TGTATCGATACAT
8653751 TGTATCGATACAT
1 TGTATCGATACAT
8653764 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8656327 original size:13 final size:13
Alignment explanation
Indices: 8656309--8656347 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
8656299 ATAATCACCC
*
8656309 TGTATCGATACAG
1 TGTATCGATACAA
8656322 TGTATCGATACAA
1 TGTATCGATACAA
8656335 TGTATCGATACAA
1 TGTATCGATACAA
8656348 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:8660281 original size:21 final size:21
Alignment explanation
Indices: 8660252--8660296 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8660242 AAGTTTTCAT
*
8660252 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
8660272 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
8660294 TTT
1 TTT
8660297 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:8662519 original size:13 final size:13
Alignment explanation
Indices: 8662501--8662526 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8662491 CAATTTTTTG
8662501 TGTATCGATACAT
1 TGTATCGATACAT
8662514 TGTATCGATACAT
1 TGTATCGATACAT
8662527 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8663491 original size:158 final size:158
Alignment explanation
Indices: 8663203--8663512 Score: 584
Period size: 158 Copynumber: 2.0 Consensus size: 158
8663193 ATATGCTACG
*
8663203 AGTGTAAGAAGCCAGGGCATATTAAATTTGATTGTCCAAATTTAAAGAAGAAAAGTATAAGCAAA
1 AGTGTAAGAAGCCAGGGCATATTAAATTTGATTGTCCAAATTTAAAAAAGAAAAGTATAAGCAAA
*
8663268 CTAAAGAAGAAAGCCATGATAGCCACATGGAGTGATAGCAACTCATCCGATGATGATGAAGAAGT
66 CTAAAGAAGAAAGCCATGATAGCCACATGGAGTGATAGCAACACATCCGATGATGATGAAGAAGT
8663333 CGCAAATCTATGTCTTATGGCTCCAAGT
131 CGCAAATCTATGTCTTATGGCTCCAAGT
*
8663361 AGTGTAAGAAGCCAGGGCATATTAAATTTGATTGTCCAAATTTAAAAAAGAAAAGTATGAGCAAA
1 AGTGTAAGAAGCCAGGGCATATTAAATTTGATTGTCCAAATTTAAAAAAGAAAAGTATAAGCAAA
*
8663426 CTAAAGAAGAAAGCCATGGTAGCCACATGGAGTGATAGCAACACATCCGATGATGATGAAGAAGT
66 CTAAAGAAGAAAGCCATGATAGCCACATGGAGTGATAGCAACACATCCGATGATGATGAAGAAGT
8663491 CGCAAATCTATGTCTTATGGCT
131 CGCAAATCTATGTCTTATGGCT
8663513 TACGAAGACT
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 148 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (158 bp):
AGTGTAAGAAGCCAGGGCATATTAAATTTGATTGTCCAAATTTAAAAAAGAAAAGTATAAGCAAA
CTAAAGAAGAAAGCCATGATAGCCACATGGAGTGATAGCAACACATCCGATGATGATGAAGAAGT
CGCAAATCTATGTCTTATGGCTCCAAGT
Found at i:8669839 original size:13 final size:13
Alignment explanation
Indices: 8669821--8669847 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8669811 ACATTATGCT
8669821 TTGTATCGATACA
1 TTGTATCGATACA
8669834 TTGTATCGATACA
1 TTGTATCGATACA
8669847 T
1 T
8669848 GATACATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:8669919 original size:63 final size:62
Alignment explanation
Indices: 8669848--8669978 Score: 235
Period size: 63 Copynumber: 2.1 Consensus size: 62
8669838 ATCGATACAT
*
8669848 GATACATGAAACTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGGACAATTGTATC
1 GATACATGAAACTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGGAC-ATCGTATC
*
8669911 GATACATGAAACTGGCAGTAGCTACCCTACCATTGTTTGTATCGATACATGGACATCGTATC
1 GATACATGAAACTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGGACATCGTATC
8669973 GATACA
1 GATACA
8669979 ATGTATCGAT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 13 0.20
63 53 0.80
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (62 bp):
GATACATGAAACTGGCAGTAGCTACCCTACCACTGTTTGTATCGATACATGGACATCGTATC
Found at i:8669973 original size:19 final size:19
Alignment explanation
Indices: 8669949--8670044 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
8669939 ACCATTGTTT
8669949 GTATCGATACATGGACATC
1 GTATCGATACATGGACATC
8669968 GTATCGATAC----A-AT-
1 GTATCGATACATGGACATC
8669981 GTATCGATACATGGACATC
1 GTATCGATACATGGACATC
8670000 GTATCGATAC----A-AT-
1 GTATCGATACATGGACATC
*
8670013 GTATCGATATATGGACATC
1 GTATCGATACATGGACATC
*
8670032 ATATCGATACATG
1 GTATCGATACATG
8670045 ATGAATTGTA
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 19 0.31
14 4 0.06
15 2 0.03
17 2 0.03
18 4 0.06
19 31 0.50
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (19 bp):
GTATCGATACATGGACATC
Found at i:8669986 original size:13 final size:13
Alignment explanation
Indices: 8669968--8670021 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 13
8669958 CATGGACATC
8669968 GTATCGATACAAT
1 GTATCGATACAAT
8669981 GTATCGATACATGGACAT
1 GTATCGATAC----A-AT
8669999 CGTATCGATACAAT
1 -GTATCGATACAAT
8670013 GTATCGATA
1 GTATCGATA
8670022 TATGGACATC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 19 0.54
14 2 0.06
15 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:8669989 original size:32 final size:32
Alignment explanation
Indices: 8669948--8670042 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
8669938 TACCATTGTT
8669948 TGTATCGATACATGGACATCGTATCGATACAA
1 TGTATCGATACATGGACATCGTATCGATACAA
8669980 TGTATCGATACATGGACATCGTATCGATACAA
1 TGTATCGATACATGGACATCGTATCGATACAA
* *
8670012 TGTATCGATATATGGACATCATATCGATACA
1 TGTATCGATACATGGACATCGTATCGATACA
8670043 TGATGAATTG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATGGACATCGTATCGATACAA
Found at i:8675227 original size:20 final size:20
Alignment explanation
Indices: 8675202--8675255 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
8675192 GTTATAAGCA
8675202 ATGTATCAATACAAT-T-CATC
1 ATGTATCAATACAATGTGC--C
*
8675222 ATGTATCGATACAATGTGCC
1 ATGTATCAATACAATGTGCC
8675242 ATGTATCAATACAA
1 ATGTATCAATACAA
8675256 ACAGTGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 28 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCAATACAATGTGCC
Found at i:8676374 original size:20 final size:20
Alignment explanation
Indices: 8676330--8676387 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
8676320 ATTTCAACGA
***
8676330 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATATTTT
*
8676350 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
*
8676370 TTTGTATTGATACA-ATTT
1 TTTGTATCGATACATATTT
8676388 AAGCTACTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:8676423 original size:13 final size:13
Alignment explanation
Indices: 8676405--8676429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8676395 TGCCAAAAAA
8676405 TGTATCGATACAT
1 TGTATCGATACAT
8676418 TGTATCGATACA
1 TGTATCGATACA
8676430 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8676496 original size:52 final size:52
Alignment explanation
Indices: 8676438--8676566 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
8676428 CACTGATCTT
*
8676438 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
8676490 TGTATCGATACGTGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
8676542 TGTATCGATTCATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
8676567 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:8687219 original size:13 final size:13
Alignment explanation
Indices: 8687201--8687225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8687191 CAATTCATCA
8687201 TGTATCGATACAT
1 TGTATCGATACAT
8687214 TGTATCGATACA
1 TGTATCGATACA
8687226 ATATGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8687223 original size:33 final size:32
Alignment explanation
Indices: 8687181--8687245 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
8687171 TTATAAGCAA
8687181 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATATC--CATGTATCGATACAT
8687214 TGTATCGATACAATATGCCATGTATCGATACA
1 TGTATCGATACAATAT-CCATGTATCGATACA
8687246 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAATATCCATGTATCGATACAT
Found at i:8687300 original size:20 final size:20
Alignment explanation
Indices: 8687275--8687328 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
8687265 TTGCCAGTTT
* *
8687275 CATGTATCGATACAATTGTA
1 CATGTATCGATACAAGTGAA
8687295 CATGTATCGATAC-AGTGAA
1 CATGTATCGATACAAGTGAA
8687314 CATGTATCGATACAA
1 CATGTATCGATACAA
8687329 AGCATAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAAGTGAA
Found at i:8687866 original size:20 final size:20
Alignment explanation
Indices: 8687841--8687878 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8687831 CTCTCTCATC
8687841 CCACCTCCTTAAAGATTACG
1 CCACCTCCTTAAAGATTACG
**
8687861 CCACCTTTTTAAAGATTA
1 CCACCTCCTTAAAGATTA
8687879 TTGGCTTTAG
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:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (20 bp):
CCACCTCCTTAAAGATTACG
Found at i:8688967 original size:204 final size:201
Alignment explanation
Indices: 8688614--8689003 Score: 663
Period size: 204 Copynumber: 1.9 Consensus size: 201
8688604 TGGTGGAATG
8688614 ATAAAATGGGTGGCAGAAGAATACATTAGCTTAGTTGGGACAAGCTATGCATGCTAAAATCAATA
1 ATAAAATGGGTGGCAGAAGAATACATTAGCTTAGTTGGGACAAGCTATGCATGCTAAAATCAATA
* *
8688679 GGACTTGGGTTTGGGACCTACACCTTTTTAATTGAACATTTTTAGGCAAGCAAAAATGATGCTAT
66 GGACTTGGGTTTGGGACCTACACCATTTTAATTGAACATTTTTAGGCAAGCAAAAATAATGCTAT
* *
8688744 TCATCCCACTGACTCTTTGTGCTCTAAGGTCCTTAAAGCTAAATAGTTTGCTTAAAATTATTGGT
131 TCATCACACTGACTCTTTGTGCTCTAAGGTCCTTAAAGCTAAATACTTTGCTTAAAATTATTGGT
8688809 GAAACA
196 GAAACA
* *
8688815 ATAAAATGGGTGGTAGAAGAATACATTAGCTTAGTTGGGACAAGCTATGCATGCTAAAATTAATA
1 ATAAAATGGGTGGCAGAAGAATACATTAGCTTAGTTGGGACAAGCTATGCATGCTAAAATCAATA
* *
8688880 GAAGAACTTGGGTTTGGGACCTGCACCATTTTAATTGAGCATTTTTAGGCAAGCAAAAATAATGC
66 G--G-ACTTGGGTTTGGGACCTACACCATTTTAATTGAACATTTTTAGGCAAGCAAAAATAATGC
* *
8688945 TATTCATCATACTGATTCTTTGTGCTCTAAGGTCCTTAAAGCTAAATACTTTGCTTAAA
128 TATTCATCACACTGACTCTTTGTGCTCTAAGGTCCTTAAAGCTAAATACTTTGCTTAAA
8689004 TTTTTTTTAG
Statistics
Matches: 176, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
201 64 0.36
203 1 0.01
204 111 0.63
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (201 bp):
ATAAAATGGGTGGCAGAAGAATACATTAGCTTAGTTGGGACAAGCTATGCATGCTAAAATCAATA
GGACTTGGGTTTGGGACCTACACCATTTTAATTGAACATTTTTAGGCAAGCAAAAATAATGCTAT
TCATCACACTGACTCTTTGTGCTCTAAGGTCCTTAAAGCTAAATACTTTGCTTAAAATTATTGGT
GAAACA
Found at i:8696563 original size:19 final size:20
Alignment explanation
Indices: 8696516--8696569 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
8696506 CTGCCAGTTT
* **
8696516 CATGTATCAATACAATTGTC
1 CATGTATCGATACAATTGAA
*
8696536 CATGCATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
8696555 CATGTATCGATACAA
1 CATGTATCGATACAA
8696570 AGCGTAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:8703671 original size:19 final size:20
Alignment explanation
Indices: 8703620--8703672 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
8703610 TTTCCAGTTT
**
8703620 CATGTATCAATACAATTGTC
1 CATGTATCAATACAATTGAA
* *
8703640 CATGCATCGATACAA-TGAA
1 CATGTATCAATACAATTGAA
8703659 CATGTATCAATACA
1 CATGTATCAATACA
8703673 TTGTATCGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (20 bp):
CATGTATCAATACAATTGAA
Found at i:8709284 original size:33 final size:34
Alignment explanation
Indices: 8709246--8709312 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
8709236 AGAGAATAGA
8709246 GAAGAA-TTTTTATTATCTTTTCATTCAAATTCT
1 GAAGAATTTTTTATTATCTTTTCATTCAAATTCT
8709279 GAAGAATTTTTTATTATCTTTTCATTCAAATTCT
1 GAAGAATTTTTTATTATCTTTTCATTCAAATTCT
8709313 TCTTTACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 6 0.18
34 27 0.82
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (34 bp):
GAAGAATTTTTTATTATCTTTTCATTCAAATTCT
Found at i:8727543 original size:2 final size:2
Alignment explanation
Indices: 8727536--8727567 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8727526 AAAACATTCT
8727536 AG AG 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 AG AG
8727568 GAAAGGGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8732087 original size:22 final size:24
Alignment explanation
Indices: 8732062--8732117 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
8732052 TATTGAAATA
8732062 TAAAAATAAATA-ATAAAATAT-T
1 TAAAAATAAATATATAAAATATAT
* * *
8732084 TAAAATTAAATATATAAATTTTAT
1 TAAAAATAAATATATAAAATATAT
8732108 TAAAAATAAA
1 TAAAAATAAA
8732118 GATTTATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.39
23 7 0.25
24 10 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAAAATAAATATATAAAATATAT
Found at i:8734503 original size:16 final size:16
Alignment explanation
Indices: 8734464--8734503 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8734454 TTATACTTAA
8734464 TTTAAGTTTGAATCAT
1 TTTAAGTTTGAATCAT
**
8734480 TTCGAGTTTGAATCAT
1 TTTAAGTTTGAATCAT
8734496 TTTAAGTT
1 TTTAAGTT
8734504 AAGATTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (16 bp):
TTTAAGTTTGAATCAT
Found at i:8737890 original size:22 final size:24
Alignment explanation
Indices: 8737831--8737878 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 24
8737821 TTTTTAGGTC
*
8737831 AAAAATAT-ATT-TAT-TTTTTAG
1 AAAAATATAATTGTATAATTTTAG
8737852 AAAAATATAATTGTATAATTTTA-
1 AAAAATATAATTGTATAATTTTAG
8737875 AAAA
1 AAAA
8737879 TTAAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 7 0.30
24 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
AAAAATATAATTGTATAATTTTAG
Found at i:8743859 original size:42 final size:42
Alignment explanation
Indices: 8743790--8743882 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
8743780 TGAACAAATA
* * *
8743790 TATATATTTAGAATGATGGTAAGGAATGTTAACATAATTTAT
1 TATATATTTAGAATCATAGTAAAGAATGTTAACATAATTTAT
8743832 TATATATTTAGAATCATAGTAAAGAATGTTAACATAATTTAT
1 TATATATTTAGAATCATAGTAAAGAATGTTAACATAATTTAT
*
8743874 TATTTATTT
1 TATATATTT
8743883 TTATAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (42 bp):
TATATATTTAGAATCATAGTAAAGAATGTTAACATAATTTAT
Found at i:8745147 original size:2 final size:2
Alignment explanation
Indices: 8745140--8745169 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8745130 ACGTAAGATT
8745140 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8745170 ATAAGTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8745417 original size:21 final size:22
Alignment explanation
Indices: 8745375--8745418 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
8745365 ATATTGTTAA
*
8745375 ATATATTTTTATGTTAATATTT
1 ATATATTTTTATATTAATATTT
8745397 ATATA-TTTTATAATTAA-ATTT
1 ATATATTTTTAT-ATTAATATTT
8745418 A
1 A
8745419 AATAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATATATTTTTATATTAATATTT
Found at i:8747064 original size:18 final size:17
Alignment explanation
Indices: 8747015--8747069 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
8747005 ATATATATTT
8747015 TAAAATTTATA-AAATA
1 TAAAATTTATATAAATA
8747031 T-AAA-TTAT-TAATATA
1 TAAAATTTATATAA-ATA
8747046 TCAAAATTTATATAAATA
1 T-AAAATTTATATAAATA
8747064 TAAAAT
1 TAAAAT
8747070 ATCTTAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
16 1 0.03
17 8 0.24
18 8 0.24
19 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:8750443 original size:49 final size:49
Alignment explanation
Indices: 8750367--8750464 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
8750357 TTTTTCATGC
* * * *
8750367 ACATTTTTTAAATATGGATGCACTATTAACATGTTAGGTATCAACAAAT
1 ACATTTTTTAAATATAGATACACTATTAACATATTAGATATCAACAAAT
* * * *
8750416 ACATTTTTTAAATGTAGATATATTATTAACATATTAGATATCAATAAAT
1 ACATTTTTTAAATATAGATACACTATTAACATATTAGATATCAACAAAT
8750465 TTCCAGTGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (49 bp):
ACATTTTTTAAATATAGATACACTATTAACATATTAGATATCAACAAAT
Found at i:8750718 original size:35 final size:35
Alignment explanation
Indices: 8750679--8750745 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
8750669 AAATTTTAAA
* * *
8750679 ATTTTTAACTTATTCAAAAAGTTTATTTGAAAGCT
1 ATTTTTAACTAATGCAAAAAGTTCATTTGAAAGCT
*
8750714 ATTTTTAACTAATGCAAAGAGTTCATTTGAAA
1 ATTTTTAACTAATGCAAAAAGTTCATTTGAAA
8750746 AGCTCTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (35 bp):
ATTTTTAACTAATGCAAAAAGTTCATTTGAAAGCT
Found at i:8752333 original size:19 final size:19
Alignment explanation
Indices: 8752301--8752348 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
8752291 CTTGACTAGC
8752301 AAAATCAAAT-AATAATAAT
1 AAAAT-AAATAAATAATAAT
8752320 AAAATAAATAAATAATAAT
1 AAAATAAATAAATAATAAT
8752339 -AAATAAATAA
1 AAAATAAATAA
8752349 GGAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATAAATAAATAATAAT
Done.