Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 185 of 279
Found at i:60682612 original size:40 final size:40
Alignment explanation
Indices: 60682551--60682665 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
60682541 CACACAATGC
* * *
60682551 TAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACT
1 TAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACT
* *
60682591 TAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCT
1 TAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACT
60682631 TAACCCGGAATTT-GTATCTCGCACAAATGCCTTCG
1 TAACCCGG-ATTTAGTATCTCGCACAAATGCCTTCG
60682666 AATCTTAGTC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 64 0.94
41 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TAACCCGGATTTAGTATCTCGCACAAATGCCTTCGGGACT
Found at i:60690529 original size:40 final size:40
Alignment explanation
Indices: 60690438--60690660 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
60690428 TCCTCGTTCA
* * * * *
60690438 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
60690477 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
60690517 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60690557 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
60690597 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60690637 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60690661 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60690669 original size:41 final size:41
Alignment explanation
Indices: 60690592--60690669 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60690582 TTAGTATCTC
* * *
60690592 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60690633 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60690670 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60695543 original size:48 final size:48
Alignment explanation
Indices: 60695305--60695545 Score: 207
Period size: 48 Copynumber: 5.0 Consensus size: 48
60695295 AAGAGGATGA
* * * * * **
60695305 ATTGCCGAGGCCATGTTCCAAATATGGTCTTACACT-GACTCACATGCC
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATC
** * ** *
60695353 AAGGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGTCTC
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
* * * * *
60695401 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTTGCTCTCACAAC
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
* * * * *
60695449 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATC
1 ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
* * * *
60695497 -TTGGCCAACGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 ATT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
60695545 A
1 A
60695546 CCCAAATGTC
Statistics
Matches: 152, Mismatches: 38, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
47 2 0.01
48 149 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
ATTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC
Found at i:60702161 original size:14 final size:13
Alignment explanation
Indices: 60702138--60702169 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
60702128 GGAATATCAA
60702138 AACAATAATTAAG
1 AACAATAATTAAG
60702151 AACACATAATTAAG
1 AACA-ATAATTAAG
60702165 AACAA
1 AACAA
60702170 GTCAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:60707776 original size:56 final size:56
Alignment explanation
Indices: 60707686--60707805 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
60707676 ACAAGGGATG
60707686 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
* *
60707742 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
60707798 ATGGGCAA
1 ATGGGCAA
60707806 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
Found at i:60709044 original size:39 final size:40
Alignment explanation
Indices: 60708936--60709120 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
60708926 TCGAATGATG
* * *
60708936 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * *
60708975 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATCCTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
60709016 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
60709055 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
60709094 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
60709121 AATGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:60709142 original size:79 final size:79
Alignment explanation
Indices: 60708992--60709153 Score: 177
Period size: 79 Copynumber: 2.1 Consensus size: 79
60708982 CTAAGATCCA
* * **
60708992 AAGGCATTTGTGCGAGATCCTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
*
60709057 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * * *
60709071 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
*
60709134 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
60709150 AAGG
1 AAGG
60709154 TACGTGATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 44 0.64
80 23 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:60714712 original size:18 final size:18
Alignment explanation
Indices: 60714691--60714727 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60714681 ATTCGTGGTG
*
60714691 TTTTGAAAACATATATCC
1 TTTTGAAAAAATATATCC
*
60714709 TTTTGAAAAAATGTATCC
1 TTTTGAAAAAATATATCC
60714727 T
1 T
60714728 AAAGCTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (18 bp):
TTTTGAAAAAATATATCC
Found at i:60715067 original size:34 final size:34
Alignment explanation
Indices: 60715019--60715103 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
60715009 CCCATTTCAG
60715019 TTACAAT-ACAGTATCAGTGTGAGCCTTAGCCCA
1 TTACAATAACAGTATCAGTGTGAGCCTTAGCCCA
* * *
60715052 TTACAATAACAGTATCAGTGTGGGCTTTATCCCA
1 TTACAATAACAGTATCAGTGTGAGCCTTAGCCCA
*
60715086 TTACAATAACTGTATCAG
1 TTACAATAACAGTATCAG
60715104 AAAATGCAAC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 7 0.15
34 40 0.85
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (34 bp):
TTACAATAACAGTATCAGTGTGAGCCTTAGCCCA
Found at i:60718178 original size:27 final size:27
Alignment explanation
Indices: 60718148--60718209 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
60718138 GTAGTCGGTC
* *
60718148 ATTTTACTCTACAAGGGTATTTCAATA
1 ATTTTACACGACAAGGGTATTTCAATA
*
60718175 ATTTTACACGACAAGGGTATTTCGATA
1 ATTTTACACGACAAGGGTATTTCAATA
60718202 ATTTTACA
1 ATTTTACA
60718210 AATCAGAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACGACAAGGGTATTTCAATA
Found at i:60718224 original size:27 final size:26
Alignment explanation
Indices: 60718163--60718612 Score: 358
Period size: 27 Copynumber: 16.8 Consensus size: 26
60718153 ACTCTACAAG
* * *
60718163 GGTATTTCAATAATTTTACACGA-CAA
1 GGTATTTCGATAATTTTACA-AATCGA
60718189 GGGTATTTCGATAATTTTACAAATCAGA
1 -GGTATTTCGATAATTTTACAAATC-GA
* *
60718217 GGTGTTTCGGTAATTTTACAAATCGA
1 GGTATTTCGATAATTTTACAAATCGA
* *
60718243 GGGTATTTTGATAATTTTCCAAATCGA
1 -GGTATTTCGATAATTTTACAAATCGA
* *
60718270 GGGTATTT-TAGTAATTTTACAAATTGA
1 -GGTATTTCGA-TAATTTTACAAATCGA
*
60718297 GGGTGTTTC-AGTAATTTTACAAATCGA
1 -GGTATTTCGA-TAATTTTACAAATCGA
* * * *
60718324 GGGTGTTTTGATAATTTTATAAATCGG
1 -GGTATTTCGATAATTTTACAAATCGA
* *
60718351 GGTACTTCGATAATTTTACAAA-CAAGG
1 GGTATTTCGATAATTTTACAAATC--GA
* * *
60718378 GGTATTTTGATGATTTTACAAATAGAA
1 GGTATTTCGATAATTTTACAAATCG-A
* *
60718405 GGTCTTTCGATAATTTTACAAAGCGA
1 GGTATTTCGATAATTTTACAAATCGA
* * *
60718431 GGGTGTTTCGGTAATTTTACAAAT-AA
1 -GGTATTTCGATAATTTTACAAATCGA
* * * *
60718457 GGGTGTTTCGATAATTTCACAAATTAGG
1 -GGTATTTCGATAATTTTACAAA-TCGA
60718485 GGTATTTCGATAATTTTACAAATTACG-
1 GGTATTTCGATAATTTTACAAA-T-CGA
* *
60718512 GGTAATTC-AGTAATTTTAC-AATCAA
1 GGTATTTCGA-TAATTTTACAAATCGA
* *
60718537 GGGTATTTCGGTAATTTTACAAATCGG
1 -GGTATTTCGATAATTTTACAAATCGA
*
60718564 GAGTATTTCGATAATTTTACAAATCGG
1 G-GTATTTCGATAATTTTACAAATCGA
*
60718591 GGTACTTCGATAATTTTACAAA
1 GGTATTTCGATAATTTTACAAA
60718613 CAAGGGGTAT
Statistics
Matches: 353, Mismatches: 50, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.00
25 2 0.01
26 86 0.24
27 261 0.74
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (26 bp):
GGTATTTCGATAATTTTACAAATCGA
Found at i:60718417 original size:80 final size:78
Alignment explanation
Indices: 60718162--60718633 Score: 425
Period size: 80 Copynumber: 5.9 Consensus size: 78
60718152 TACTCTACAA
* * * * *
60718162 GGGTATTTCAATAATTTTACACGA-CAAGGGTATTTCGATAATTTTACAAATC-AGAGGTGTTTC
1 GGGTATTTCGATAATTTTACA-AATC-GGGGTACTTCGATAATTTTACAAA-CAAG-GGTATTTC
* *
60718225 GGTAATTTTACAAATCG
62 GATAATTTTACAAATAG
* * ** ** *
60718242 AGGGTATTTTGATAATTTTCCAAATCGAGGGTA-TTTTAGTAATTTTACAAATTGAGGGTGTTTC
1 -GGGTATTTCGATAATTTTACAAATCG-GGGTACTTCGA-TAATTTTACAAA-CAAGGGTATTTC
*
60718306 -AGTAATTTTACAAATCG
62 GA-TAATTTTACAAATAG
* * * *
60718323 AGGGTGTTTTGATAATTTTATAAATCGGGGTACTTCGATAATTTTACAAACAAGGGGTATTTTGA
1 -GGGTATTTCGATAATTTTACAAATCGGGGTACTTCGATAATTTTACAAACAA-GGGTATTTCGA
*
60718388 TGATTTTACAAATAG
64 TAATTTTACAAATAG
* * * ** * * *
60718403 AAGGTCTTTCGATAATTTTACAAAGCGAGGGTGTTTCGGTAATTTTACAAATAAGGGTGTTTCGA
1 -GGGTATTTCGATAATTTTACAAATCG-GGGTACTTCGATAATTTTACAAACAAGGGTATTTCGA
*
60718468 TAATTTCACAAATTAG
64 TAATTTTACAAA-TAG
* *
60718484 GGGTATTTCGATAATTTTACAAATTAC-GGGTAATTC-AGTAATTTTACAATCAAGGGTATTTCG
1 GGGTATTTCGATAATTTTACAAA-T-CGGGGTACTTCGA-TAATTTTACAAACAAGGGTATTTCG
* *
60718547 GTAATTTTACAAATCG
63 ATAATTTTACAAATAG
*
60718563 GGAGTATTTCGATAATTTTACAAATCGGGGTACTTCGATAATTTTACAAACAAGGGGTATTTCGG
1 GG-GTATTTCGATAATTTTACAAATCGGGGTACTTCGATAATTTTACAAACAA-GGGTATTTCGA
60718628 TAATTT
64 TAATTT
60718634 CTCTTCACTA
Statistics
Matches: 327, Mismatches: 47, Indels: 35
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.00
79 28 0.09
80 182 0.56
81 113 0.35
82 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (78 bp):
GGGTATTTCGATAATTTTACAAATCGGGGTACTTCGATAATTTTACAAACAAGGGTATTTCGATA
ATTTTACAAATAG
Found at i:60718419 original size:107 final size:106
Alignment explanation
Indices: 60718162--60718633 Score: 489
Period size: 107 Copynumber: 4.4 Consensus size: 106
60718152 TACTCTACAA
*
60718162 GGGTATTTCAATAATTTTACACGACA-AG-GGTATTTC-GATAATTTTACAAATC-AGAGGTGTT
1 GGGTATTTCGATAATTTTACA--A-ATAGAGGTATTTCAG-TAATTTTACAAATCGAG-GGTGTT
* *
60718223 TCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTCCAAATC-G
61 TCGGTAATTTTACAAATCG-GGGTATTTCGATAATTTTACAAATCAG
* * * *
60718269 AGGGTATTT-TAGTAATTTTACAAATTGAGGGTGTTTCAGTAATTTTACAAATCGAGGGTGTTTT
1 -GGGTATTTCGA-TAATTTTACAAATAGA-GGTATTTCAGTAATTTTACAAATCGAGGGTGTTTC
* * *
60718333 GATAATTTTATAAATCGGGGTACTTCGATAATTTTACAAA-CAAG
63 GGTAATTTTACAAATCGGGGTATTTCGATAATTTTACAAATC-AG
* * * *
60718377 GGGTATTTTGATGATTTTACAAATAGAAGGTCTTTC-GATAATTTTACAAAGCGAGGGTGTTTCG
1 GGGTATTTCGATAATTTTACAAATAG-AGGTATTTCAG-TAATTTTACAAATCGAGGGTGTTTCG
** * * *
60718441 GTAATTTTACAAATAAGGGTGTTTCGATAATTTCACAAATTAG
64 GTAATTTTACAAATCGGGGTATTTCGATAATTTTACAAATCAG
* * *
60718484 GGGTATTTCGATAATTTTACAAATTACG-GGTAATTCAGTAATTTTAC-AATCAAGGGTATTTCG
1 GGGTATTTCGATAATTTTACAAA-TA-GAGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCG
60718547 GTAATTTTACAAATCGGGAGTATTTCGATAATTTTACAAATC-G
64 GTAATTTTACAAATCGGG-GTATTTCGATAATTTTACAAATCAG
* * * *
60718590 GGGTACTTCGATAATTTTACAAACAAGGGGTATTTCGGTAATTT
1 GGGTATTTCGATAATTTTACAAA-TAGAGGTATTTCAGTAATTT
60718634 CTCTTCACTA
Statistics
Matches: 307, Mismatches: 40, Indels: 36
0.80 0.10 0.09
Matches are distributed among these distances:
105 2 0.01
106 71 0.23
107 163 0.53
108 67 0.22
109 4 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (106 bp):
GGGTATTTCGATAATTTTACAAATAGAGGTATTTCAGTAATTTTACAAATCGAGGGTGTTTCGGT
AATTTTACAAATCGGGGTATTTCGATAATTTTACAAATCAG
Found at i:60718609 original size:53 final size:52
Alignment explanation
Indices: 60718162--60718633 Score: 402
Period size: 54 Copynumber: 8.8 Consensus size: 52
60718152 TACTCTACAA
* * *
60718162 GGGTATTTCAATAATTTTACACGA-CAAGGGTATTTCGATAATTTTACAAATCAG
1 GGGTATTTCGATAATTTTACA-AATC-GGGGTATTTCGATAATTTTACAAATC-G
* * * * *
60718216 AGGTGTTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTCCAAATCG
1 GGGTATTTCGATAATTTTACAAATCG-GGGTATTTCGATAATTTTACAAATCG
* * *
60718269 AGGGTATTT-TAGTAATTTTACAAATTGAGGGTGTTTC-AGTAATTTTACAAATCG
1 -GGGTATTTCGA-TAATTTTACAAATCG-GGGTATTTCGA-TAATTTTACAAATCG
* * * *
60718323 AGGGTGTTTTGATAATTTTATAAATCGGGGTACTTCGATAATTTTACAAA-CAAG
1 -GGGTATTTCGATAATTTTACAAATCGGGGTATTTCGATAATTTTACAAATC--G
* * * * * *
60718377 GGGTATTTTGATGATTTTACAAATAGAAGGTCTTTCGATAATTTTACAAAGCG
1 GGGTATTTCGATAATTTTACAAATCG-GGGTATTTCGATAATTTTACAAATCG
* * ** * * *
60718430 AGGGTGTTTCGGTAATTTTACAAATAAGGGTGTTTCGATAATTTCACAAATTAG
1 -GGGTATTTCGATAATTTTACAAATCGGGGTATTTCGATAATTTTACAAA-TCG
* *
60718484 GGGTATTTCGATAATTTTACAAATTAC-GGGTAATTC-AGTAATTTTAC-AATCAA
1 GGGTATTTCGATAATTTTACAAA-T-CGGGGTATTTCGA-TAATTTTACAAATC-G
*
60718537 GGGTATTTCGGTAATTTTACAAATCGGGAGTATTTCGATAATTTTACAAATCG
1 GGGTATTTCGATAATTTTACAAATCGGG-GTATTTCGATAATTTTACAAATCG
* *
60718590 GGGTACTTCGATAATTTTACAAA-CAAGGGGTATTTCGGTAATTT
1 GGGTATTTCGATAATTTTACAAATC--GGGGTATTTCGATAATTT
60718634 CTCTTCACTA
Statistics
Matches: 342, Mismatches: 53, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
51 1 0.00
52 6 0.02
53 161 0.47
54 172 0.50
55 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (52 bp):
GGGTATTTCGATAATTTTACAAATCGGGGTATTTCGATAATTTTACAAATCG
Found at i:60718740 original size:30 final size:30
Alignment explanation
Indices: 60718704--60718763 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
60718694 GAACAGATAC
*
60718704 TATGCACCAGGTAGGATTCCAGAGAAGAGG
1 TATGCACCAGGTAGGATTCCAAAGAAGAGG
60718734 TATGCACCAGGTAGGATTCCAAAGAAGAGG
1 TATGCACCAGGTAGGATTCCAAAGAAGAGG
60718764 AGGTGAGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.17
Consensus pattern (30 bp):
TATGCACCAGGTAGGATTCCAAAGAAGAGG
Found at i:60719028 original size:28 final size:28
Alignment explanation
Indices: 60718984--60719075 Score: 76
Period size: 28 Copynumber: 3.3 Consensus size: 28
60718974 TGGCCCCTTT
* * *
60718984 AGGCCCAATCTCGTTCACAAGGCCCGTC
1 AGGCCCAATCACATTCACAAGGCCCATC
* *
60719012 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACAAGGCCCATC
* * * * **
60719040 AAGCCCATTCAGATTCATATCGCCCATC
1 AGGCCCAATCACATTCACAAGGCCCATC
*
60719068 ACGCCCAA
1 AGGCCCAA
60719076 CTACTTCCCA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.27, C:0.38, G:0.15, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACAAGGCCCATC
Found at i:60729763 original size:27 final size:26
Alignment explanation
Indices: 60729725--60729812 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
60729715 AAAACAGTCC
* * *
60729725 TTTTACCCTACAGCGGTATGTCGGTCA
1 TTTTACACTACAG-GGTATGTCGATAA
* *
60729752 TTTTACACTACAAGGGTATTTTGATAA
1 TTTTACACTAC-AGGGTATGTCGATAA
* *
60729779 TTTTACACTACAAGGGTATTTCAATAA
1 TTTTACACTAC-AGGGTATGTCGATAA
60729806 TTTTACA
1 TTTTACA
60729813 AATTAGGGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 51 0.96
28 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (26 bp):
TTTTACACTACAGGGTATGTCGATAA
Found at i:60729827 original size:27 final size:26
Alignment explanation
Indices: 60729764--60730222 Score: 316
Period size: 27 Copynumber: 17.2 Consensus size: 26
60729754 TTACACTACA
* * * **
60729764 AGGGTATTTTGATAATTTTACACTACA
1 AGGGTGTTTCGATAATTTTACA-AATT
* *
60729791 AGGGTATTTCAATAATTTTACAAATT
1 AGGGTGTTTCGATAATTTTACAAATT
*
60729817 AGGGTTGTTTCGATAATTTTACAAATCG
1 AGGG-TGTTTCGATAATTTTACAAAT-T
* * * *
60729845 AGGGTATTCCGATAATTTGACAAATCG
1 AGGGTGTTTCGATAATTTTACAAAT-T
* *
60729872 AGGGTATTTC-ACTAACTTTACAAATT
1 AGGGTGTTTCGA-TAATTTTACAAATT
* * * *
60729898 GAGGGTGTTTTGGTAATTTTATAAATCG
1 -AGGGTGTTTCGATAATTTTACAAAT-T
* *
60729926 AGTGTGTTTCGATAATTTTACAAATCG
1 AGGGTGTTTCGATAATTTTACAAAT-T
* * *
60729953 AGGGTGTTTCAATAATTTCA-AAAAT
1 AGGGTGTTTCGATAATTTTACAAATT
* * *
60729978 CGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTGTTTCGATAATTTTACAAAT-T
* *
60730005 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTGTTTCGATAATTTTACAAAT-T
*
60730032 AGGGTGTTTCGGTAATTTTACAAATT
1 AGGGTGTTTCGATAATTTTACAAATT
* *
60730058 AAGGGTGTTTCAATAATTTCACAAATT
1 -AGGGTGTTTCGATAATTTTACAAATT
*
60730085 AAGGGTATTTC-AGTAATTTTACAAATT
1 -AGGGTGTTTCGA-TAATTTTACAAATT
** * *
60730112 AAGGGTAATTC-AGTAATTTCAC-AATCG
1 -AGGGTGTTTCGA-TAATTTTACAAAT-T
* *
60730139 AGGGTATTTCGATAATTTTACAAATC
1 AGGGTGTTTCGATAATTTTACAAATT
* * *
60730165 GGAGGTATTTCGATAATTTTACAAATCG
1 AG-GGTGTTTCGATAATTTTACAAAT-T
** * *
60730193 AGGGTACTTCGGTAATTTTACAAACT
1 AGGGTGTTTCGATAATTTTACAAATT
60730219 AGGG
1 AGGG
60730223 GTAGTTTGGT
Statistics
Matches: 359, Mismatches: 58, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
25 16 0.04
26 38 0.11
27 300 0.84
28 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (26 bp):
AGGGTGTTTCGATAATTTTACAAATT
Found at i:60729832 original size:54 final size:53
Alignment explanation
Indices: 60729764--60730216 Score: 360
Period size: 54 Copynumber: 8.5 Consensus size: 53
60729754 TTACACTACA
* * * *
60729764 AGGGTATTTTGATAATTTTAC-ACTACAAGGGTATTTCAATAATTTTACAAATT
1 AGGGTGTTTCGATAATTTTACAAAT-CGAGGGTATTTCAATAATTTTACAAATT
* * * *
60729817 AGGGTTGTTTCGATAATTTTACAAATCGAGGGTATTCCGATAATTTGACAAATCG
1 AGGG-TGTTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAAT-T
* * * * *** * *
60729872 AGGGTATTTC-ACTAACTTTACAAATTGAGGGTGTTTTGGTAATTTTATAAATCG
1 AGGGTGTTTCGA-TAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAAT-T
* * * *
60729926 AGTGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCAATAATTTCA-AAAAT
1 AGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATT
* * * ** *
60729978 CGGGTGTTTTGATAATTTTACAAATCGAGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAAT-T
* ** * *
60730032 AGGGTGTTTCGGTAATTTTACAAATTAAGGGTGTTTCAATAATTTCACAAATT
1 AGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATT
* ** * * * *
60730085 AAGGGTATTTC-AGTAATTTTACAAATTAAGGGTAATTCAGTAATTTCAC-AATCG
1 -AGGGTGTTTCGA-TAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAAT-T
* * *
60730139 AGGGTATTTCGATAATTTTACAAATCG-GAGGTATTTCGATAATTTTACAAATCG
1 AGGGTGTTTCGATAATTTTACAAATCGAG-GGTATTTCAATAATTTTACAAAT-T
** *
60730193 AGGGTACTTCGGTAATTTTACAAA
1 AGGGTGTTTCGATAATTTTACAAA
60730217 CTAGGGGTAG
Statistics
Matches: 329, Mismatches: 58, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
52 42 0.13
53 52 0.16
54 228 0.69
55 7 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (53 bp):
AGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTCAATAATTTTACAAATT
Found at i:60729849 original size:81 final size:80
Alignment explanation
Indices: 60729764--60730222 Score: 496
Period size: 81 Copynumber: 5.7 Consensus size: 80
60729754 TTACACTACA
* * * *
60729764 AGGGTATTTTGATAATTTTAC-ACTACAAGGGTATTTCAATAATTTTACAAATTAGGGTTGTTTC
1 AGGGTATTTCGATAATTTTACAAAT-CGAGGGTATTTCAGTAATTTTACAAATTAGGG-TGTTTC
60729828 GATAATTTTACAAATCG
64 GATAATTTTACAAATCG
* * * * *
60729845 AGGGTATTCCGATAATTTGACAAATCGAGGGTATTTCACTAACTTTACAAATTGAGGGTGTTTTG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATT-AGGGTGTTTCG
* *
60729910 GTAATTTTATAAATCG
65 ATAATTTTACAAATCG
* * * * * * * *
60729926 AGTGTGTTTCGATAATTTTACAAATCGAGGGTGTTTCAATAATTTCA-AAAATCGGGTGTTTTGA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGTGTTTCGA
60729990 TAATTTTACAAATCG
66 TAATTTTACAAATCG
* * * * *
60730005 AGGGTGTTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATTAAGGGTGTTTCA
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATT-AGGGTGTTTCG
* **
60730070 ATAATTTCACAAATTA
65 ATAATTTTACAAATCG
** * * * *
60730086 AGGGTATTTC-AGTAATTTTACAAATTAAGGGTAATTCAGTAATTTCAC-AATCGAGGGTATTTC
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAT-TAGGGTGTTTC
60730149 GATAATTTTACAAATCG
64 GATAATTTTACAAATCG
* * *
60730166 -GAGGTATTTCGATAATTTTACAAATCGAGGGTACTTCGGTAATTTTACAAACTAGGG
1 AG-GGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTAGGG
60730223 GTAGTTTGGT
Statistics
Matches: 314, Mismatches: 55, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
79 67 0.21
80 77 0.25
81 164 0.52
82 6 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATTAGGGTGTTTCGA
TAATTTTACAAATCG
Found at i:60730623 original size:28 final size:28
Alignment explanation
Indices: 60730588--60730707 Score: 159
Period size: 28 Copynumber: 4.3 Consensus size: 28
60730578 TGGCCCCTTT
* * *
60730588 AGGCCCAATCTCGTTCACATGGCCCATT
1 AGGCCCAATCTCATTCATATGGCCCATC
*
60730616 AGGCCCAATCGCATTCATATGGCCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
* ** *
60730644 AGGCCCATTCAGATTCATATGGCCTATC
1 AGGCCCAATCTCATTCATATGGCCCATC
*
60730672 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
60730700 AGGCCCAA
1 AGGCCCAA
60730708 CTACGTCCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCTCATTCATATGGCCCATC
Found at i:60730666 original size:56 final size:56
Alignment explanation
Indices: 60730601--60730706 Score: 176
Period size: 56 Copynumber: 1.9 Consensus size: 56
60730591 CCCAATCTCG
* *
60730601 TTCACATGGCCCATTAGGCCCAATCGCATTCATATGGCCCATCAGGCCCATTCAGA
1 TTCACATGGCCCATCAGGCCCAATCACATTCATATGGCCCATCAGGCCCATTCAGA
* *
60730657 TTCATATGGCCTATCAGGCCCAATCACATTCATATGGCCCATCAGGCCCA
1 TTCACATGGCCCATCAGGCCCAATCACATTCATATGGCCCATCAGGCCCA
60730707 ACTACGTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (56 bp):
TTCACATGGCCCATCAGGCCCAATCACATTCATATGGCCCATCAGGCCCATTCAGA
Found at i:60733591 original size:27 final size:27
Alignment explanation
Indices: 60733551--60733997 Score: 448
Period size: 27 Copynumber: 16.6 Consensus size: 27
60733541 ACACTACAAT
* * **
60733551 GGTATGTCGATAATTTTACAAATTAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
60733578 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
60733605 GGTATTTCGATAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
60733632 GGTGTTTCAGTAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
60733659 GGTGTTTCGGTAATTTTAAAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
60733686 GGTATTTTGGTAATTTCATAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
60733713 GGTATTTTGGTAATTTCACGAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* ***
60733740 GGTGTTTTAATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
60733767 GGTGTTTTGGCAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * * *
60733794 GGTGTTTCGATAATTTTAAAAATCGAA
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
60733821 GGTGTTTCGATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
** *
60733848 GGTATTTTAGTAATTTCAC-AATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
60733874 GGTATTTCAGTAATTTTACAAATTGGG
1 GGTATTTCGGTAATTTTACAAATCGAG
***
60733901 GGTATTTCGGTAATTTTACAAATTTTG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
60733928 GGTATTTCGATAATTTTAAAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
60733955 GGTACTTCGATAATTTTACAAAT-TAGG
1 GGTATTTCGGTAATTTTACAAATCGA-G
*
60733982 GGTATTTTGGTAATTT
1 GGTATTTCGGTAATTT
60733998 CTCTTTATTA
Statistics
Matches: 356, Mismatches: 62, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 25 0.07
27 331 0.93
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:60734355 original size:28 final size:28
Alignment explanation
Indices: 60734318--60734381 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
60734308 TGGCCCCTTT
* *
60734318 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* * *
60734346 AGGCCCAATCACATTCATATGGCCCGTT
1 AGGCCCAATCACATTCACATGGCCCATC
60734374 AGGCCCAA
1 AGGCCCAA
60734382 CTACTTCTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:60743083 original size:20 final size:20
Alignment explanation
Indices: 60743046--60743090 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
60743036 CTGTTTTGTT
*
60743046 ATGGG-CCAGCTGTATTGAA
1 ATGGGCCCAACTGTATTGAA
* *
60743065 ATGGGCCCAACTGTGTTGAT
1 ATGGGCCCAACTGTATTGAA
60743085 ATGGGC
1 ATGGGC
60743091 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTGAA
Found at i:60743183 original size:60 final size:60
Alignment explanation
Indices: 60743081--60743221 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 60
60743071 CCAACTGTGT
* * *
60743081 TGATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTATGGAAAAGATTGATAC
1 TGATATGGGCTAGGCCCAGTATATCTCGACTTGTAATAGGGCTATGGAAAAGATTAATAC
* *** *
60743141 TGATATGGGCTAGGCCCAGTAT-TCTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAGTATATCTC-GACT--TGTAATAGGGCTATGGAAAAGATTAATAC
60743201 TGATATGGGCTAAGGCCCAGT
1 TGATATGGGCT-AGGCCCAGT
60743222 TAACTCTGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
59 5 0.07
60 50 0.72
61 14 0.20
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (60 bp):
TGATATGGGCTAGGCCCAGTATATCTCGACTTGTAATAGGGCTATGGAAAAGATTAATAC
Found at i:60751092 original size:11 final size:11
Alignment explanation
Indices: 60751076--60751101 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
60751066 CGAAGCCCAC
60751076 ATCACAATAAT
1 ATCACAATAAT
60751087 ATCACAATAAT
1 ATCACAATAAT
60751098 ATCA
1 ATCA
60751102 TACACGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:60751617 original size:27 final size:26
Alignment explanation
Indices: 60751587--60752047 Score: 291
Period size: 27 Copynumber: 17.2 Consensus size: 26
60751577 TATGTCAGTC
*
60751587 ATTTTACATTATAAGGGTATTTTGGTA
1 ATTTTACA-AATAAGGGTATTTTGGTA
* * * * *
60751614 ATTTTATACTACAAGGGTATTTCGATA
1 ATTTTACA-AATAAGGGTATTTTGGTA
* * *
60751641 ATTTTACAAAT-CGGGTGTGTTTCAGTA
1 ATTTTACAAATAAGGGTAT-TTT-GGTA
* *
60751668 ATTTTACAAATTGAGGGTATTTCGGTA
1 ATTTTACAAA-TAAGGGTATTTTGGTA
* *
60751695 ATTTTACAAATCGAGGGTATTTTGATA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* * *
60751722 ATTTTACAAATCGAGGGTATTTCGATA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* * *
60751749 ATTTTACAAATCAAGGTTGTTTCGGTA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* *
60751776 ATTTTACAAATCGAGGGTGTTTTGGTA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* *
60751803 ATTTTATAAATCAAGGCTATTTTGGTA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* *
60751830 ATTTTACAAATTAAGGGTGTTTTGATA
1 ATTTTACAAA-TAAGGGTATTTTGGTA
* **
60751857 ATTTCACAAATTGGGGGTATTTTGGTA
1 ATTTTACAAA-TAAGGGTATTTTGGTA
* **
60751884 ATTTTACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* * **
60751911 ATTTCAC-AATCGAGGGTATTTCAGTA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
* **
60751937 ATTTTACAAATTGAGGGTATTTCAGTA
1 ATTTTACAAA-TAAGGGTATTTTGGTA
* * *
60751964 ATTTAAC-AATCGAGGGT-TTTTCGATA
1 ATTTTACAAAT-AAGGGTATTTT-GGTA
** *
60751990 ATTTTACAAATTGGGGGTATTTCGGTA
1 ATTTTACAAA-TAAGGGTATTTTGGTA
* * * *
60752017 ATTTTGCAAATCGAGGGTACTTTAGTA
1 ATTTTACAAAT-AAGGGTATTTTGGTA
60752044 ATTT
1 ATTT
60752048 CTCTTTATTA
Statistics
Matches: 360, Mismatches: 59, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
25 9 0.03
26 47 0.13
27 290 0.81
28 9 0.03
29 5 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTACAAATAAGGGTATTTTGGTA
Found at i:60751645 original size:54 final size:52
Alignment explanation
Indices: 60751600--60752047 Score: 361
Period size: 54 Copynumber: 8.3 Consensus size: 52
60751590 TTACATTATA
* * *
60751600 AGGGTATTTTGGTAATTTTA-TACTACAAGGGTATTTCGATAATTTTACAAAT
1 AGGGTATTTTGGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAAT
* * * * *
60751652 CGGGTGTGTTTCAGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAAT
1 AGGGTAT-TTT-GGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
*
60751706 CGAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
1 --AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
* * * * *
60751760 CAAGGT-TGTTTCGGTAATTTTACAAATCGAGGGTGTTTTGGTAATTTTATAAAT
1 -AGGGTAT-TTT-GGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
* ** * * *
60751814 CAAGGCTATTTTGGTAATTTTACAAATTAAGGGTGTTTTGATAATTTCACAAATT
1 --AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAA-T
* *
60751869 GGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC-AGTAATTTCAC-AAT
1 -AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAAT
** * *
60751921 CGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTC-AGTAATTTAAC-AAT
1 --AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAAT
* * * * *
60751974 CGAGGGT-TTTTCGATAATTTTACAAATTGGGGGTATTTCGGTAATTTTGCAAAT
1 --AGGGTATTTT-GGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
* *
60752028 CGAGGGTACTTTAGTAATTT
1 --AGGGTATTTTGGTAATTT
60752048 CTCTTTATTA
Statistics
Matches: 329, Mismatches: 51, Indels: 30
0.80 0.12 0.07
Matches are distributed among these distances:
52 10 0.03
53 98 0.30
54 200 0.61
55 15 0.05
56 6 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (52 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAAAT
Found at i:60751685 original size:81 final size:80
Alignment explanation
Indices: 60751600--60752035 Score: 468
Period size: 81 Copynumber: 5.4 Consensus size: 80
60751590 TTACATTATA
* * * * * *
60751600 AGGGTATTTTGGTAATTTTA-TACTACAAGGGTATTTCGATAATTTTACAAATCG-GGTGTGTTT
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTGATAATTTTACAAATCGAGG-GTATTT
60751663 CAGTAATTTTACAAATTG
64 C-GTAATTTTACAAATTG
60751681 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCG
**
60751746 ATAATTTTACAAATCA
66 -TAATTTTACAAATTG
* * * * * * * *
60751762 AGGTTGTTTCGGTAATTTTACAAATCGAGGGTGTTTTGGTAATTTTATAAATCAAGGCTATTTTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTA-TTTC
*
60751827 GTAATTTTACAAATTA
65 GTAATTTTACAAATTG
* * * * * * *
60751843 AGGGTGTTTTGATAATTTCACAAATTGGGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTC-
* *
60751908 GTAATTTCAC-AATCG
65 GTAATTTTACAAATTG
* * * * *
60751923 AGGGTATTTCAGTAATTTTACAAATTGAGGGTA-TTTCAGTAATTTAAC-AATCGAGGGTTTTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGA-TAATTTTACAAATCGAGGGTATTTC
60751986 GATAATTTTACAAATTG
65 G-TAATTTTACAAATTG
* *
60752003 GGGGTATTTCGGTAATTTTGCAAATCGAGGGTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTA
60752036 CTTTAGTAAT
Statistics
Matches: 300, Mismatches: 47, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.00
79 25 0.08
80 75 0.25
81 191 0.64
82 8 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTATTTCG
TAATTTTACAAATTG
Found at i:60759409 original size:4 final size:4
Alignment explanation
Indices: 60759400--60759428 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
60759390 AAAAAAATTA
60759400 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
60759429 TACATACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:60765691 original size:18 final size:18
Alignment explanation
Indices: 60765668--60765708 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
60765658 CAACATCGTG
60765668 AGTCATATATTTTGATAC
1 AGTCATATATTTTGATAC
60765686 AGTCATATATTTTGATAC
1 AGTCATATATTTTGATAC
60765704 AGTCA
1 AGTCA
60765709 AAATGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
AGTCATATATTTTGATAC
Found at i:60766414 original size:67 final size:67
Alignment explanation
Indices: 60766341--60766553 Score: 166
Period size: 67 Copynumber: 3.1 Consensus size: 67
60766331 TTGATTCATA
*
60766341 CAAAATATTAATTGTATATATTTTACCTAATTTATTAATATAAACAATTATATTAATTAATTTTG
1 CAAAATATTAATTGTATATATTTTACCTAATTTATTAATATAAATAATTATATTAATTAATTTTG
60766406 GT
66 GT
* ** * * ** * *
60766408 CAAAATATAAAAGGCATAGAAATTA-AT-ATTCTTTTGGAA-ATAATATAATTAATATATGAATT
1 CAAAATATTAATTGTATATATTTTACCTAATT-TATT--AATATAA-ATAATT-ATAT-T-AA-T
* * *
60766470 TGATTCAT--A
58 TAATT-TTGGT
* * *
60766479 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAGTAGTTATATTAATTAATTTTG
1 CAAAATATTAATTGTATATATTTTACCTAATTTATTAATATAAATAATTATATTAATTAATTTTG
60766544 GT
66 GT
60766546 CAAAATAT
1 CAAAATAT
60766554 AAAAGGCATA
Statistics
Matches: 104, Mismatches: 28, Indels: 28
0.65 0.17 0.17
Matches are distributed among these distances:
65 4 0.04
66 9 0.09
67 32 0.31
68 8 0.08
69 8 0.08
70 7 0.07
71 24 0.23
72 8 0.08
73 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.43
Consensus pattern (67 bp):
CAAAATATTAATTGTATATATTTTACCTAATTTATTAATATAAATAATTATATTAATTAATTTTG
GT
Found at i:60766560 original size:138 final size:138
Alignment explanation
Indices: 60766312--60766595 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 138
60766302 GAGAACATAG
*
60766312 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCTAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
60766377 AATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGGCATAGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGGCATAGAAATTAATATTCTTT
*
60766442 TGGAAATA
131 TGGAAAGA
60766450 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
** *
60766515 AATATAAGTAGTTATATTAATTAATTTTGGTCAAAATATAAAAGGCATAGAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGGCATAGAAATTAATATTCTTT
60766580 TGGAAAGA
131 TGGAAAGA
60766588 ATATAATT
1 ATATAATT
60766596 CCTTTTTCTA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 141 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.42
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAATTATATTAATTAATTTTGGTCAAAATATAAAAGGCATAGAAATTAATATTCTTT
TGGAAAGA
Found at i:60774690 original size:75 final size:76
Alignment explanation
Indices: 60774561--60774700 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 76
60774551 ATTAATTATC
* * * *
60774561 TTTTGGAAAGAATATAATTCTTTTTTTGTAACTTTTCATTTGTCTTCTATATTAATAAGGGAATA
1 TTTTGGAAAGAATATAATTCTCTTTTTCTAACTTTTCATTTGCCTTCTATATTAATAAAGGAATA
60774626 CTCATTTATTT
66 CTCATTTATTT
* *
60774637 TTTTGGAAAGAATATAATTC-CTTTTTCTAACTTTTCGTTTGCCTTCTCTATTAATAAAGGAATA
1 TTTTGGAAAGAATATAATTCTCTTTTTCTAACTTTTCATTTGCCTTCTATATTAATAAAGGAATA
60774701 ATCTTGATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
75 38 0.66
76 20 0.34
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (76 bp):
TTTTGGAAAGAATATAATTCTCTTTTTCTAACTTTTCATTTGCCTTCTATATTAATAAAGGAATA
CTCATTTATTT
Found at i:60775867 original size:23 final size:24
Alignment explanation
Indices: 60775823--60775867 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
60775813 CAAGTCCTAC
* *
60775823 CCATCCAGCCTCTACTCACCATCT
1 CCATCCAACCTCTACACACCATCT
*
60775847 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
60775868 GTGGGGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.24, C:0.51, G:0.02, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:60778879 original size:13 final size:13
Alignment explanation
Indices: 60778861--60778885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60778851 GAGATCGATT
60778861 TCAAAATTGAAAC
1 TCAAAATTGAAAC
60778874 TCAAAATTGAAA
1 TCAAAATTGAAA
60778886 GTTATGACAA
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:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (13 bp):
TCAAAATTGAAAC
Found at i:60783082 original size:40 final size:40
Alignment explanation
Indices: 60783022--60783232 Score: 284
Period size: 40 Copynumber: 5.3 Consensus size: 40
60783012 CCTTCGGGGT
* * *
60783022 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTTGAGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGAGAC
* *
60783061 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
* *
60783101 TTAGCCCAGTTATAGTAACTCGCACAATTGCCTTCGAGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
* * *
60783141 TTGGCCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
* *
60783181 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCG-GGC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
60783220 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
60783233 CAATCCGAAT
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 19 0.12
40 134 0.88
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGAC
Found at i:60791907 original size:27 final size:27
Alignment explanation
Indices: 60791869--60791976 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
60791859 GAGGAAGCGT
*
60791869 TCTGGTGGCTCTGCCACAAATATCT-AA
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
60791896 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
60791924 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
60791951 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
60791977 TCTAGTAGCC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
27 58 0.77
28 17 0.23
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:60791954 original size:55 final size:54
Alignment explanation
Indices: 60791868--60791977 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 54
60791858 GGAGGAAGCG
*
60791868 TTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTGCCAC-AATATCTGT
* *
60791923 TTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCT-AATCTGGTGACTCTGCCACAATATCTGT
60791977 T
1 T
60791978 CTAGTAGCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 17 0.33
55 34 0.67
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATCTAATCTGGTGACTCTGCCACAATATCTGT
Found at i:60794689 original size:40 final size:41
Alignment explanation
Indices: 60794645--60794828 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 41
60794635 GCTCCTCGTT
*
60794645 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCA
* *
60794685 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCA
60794725 CAAATGCCTTCGGG-CTTAGCCCGGAATTAT--T-ATATCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTATAGTAAT-TCGCA
* * * *
60794764 CAAATGCCTTC-GAATCTTAGTCCGGATGT-T-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TATAGT-AATTCGCA
60794805 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60794829 CATCATTCAA
Statistics
Matches: 122, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
38 2 0.02
39 45 0.37
40 66 0.54
41 8 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCA
Found at i:60794789 original size:79 final size:82
Alignment explanation
Indices: 60794645--60794828 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 82
60794635 GCTCCTCGTT
* *
60794645 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCACAAATGCCTTCGGAACTTAACCCG
*
60794709 GAT-TTAGTAAC-TCGCA
66 GATGTT-GTAACTTAGCA
**
60794725 CAAATGCCTTCGGG-CTTAGCCCGGAATTAT--T-ATATCGCACAAATGCCTTC-GAATCTTAGT
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTATAGTAAT-TCGCACAAATGCCTTCGGAA-CTTAAC
*
60794785 CCGGATGTTGTCACTTAGCA
63 CCGGATGTTGTAACTTAGCA
60794805 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60794829 CATCATTCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 16
0.81 0.05 0.14
Matches are distributed among these distances:
78 14 0.15
79 52 0.57
80 21 0.23
81 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAATTCGCACAAATGCCTTCGGAACTTAACCCG
GATGTTGTAACTTAGCA
Found at i:60800607 original size:95 final size:95
Alignment explanation
Indices: 60800444--60800728 Score: 552
Period size: 95 Copynumber: 3.0 Consensus size: 95
60800434 CTAAGCGAGT
* *
60800444 AGGTCCTGTGGCTTACCAAGTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
1 AGGTCCTATGGCTTACCAATTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
60800509 TCTCCATGTTAAGGCGATATCGTTCTGACC
66 TCTCCATGTTAAGGCGATATCGTTCTGACC
60800539 AGGTCCTATGGCTTACCAATTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
1 AGGTCCTATGGCTTACCAATTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
60800604 TCTCCATGTTAAGGCGATATCGTTCTGACC
66 TCTCCATGTTAAGGCGATATCGTTCTGACC
60800634 AGGTCCTATGGCTTACCAATTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
1 AGGTCCTATGGCTTACCAATTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
60800699 TCTCCATGTTAAGGCGATATCGTTCTGACC
66 TCTCCATGTTAAGGCGATATCGTTCTGACC
60800729 CTACTCATGT
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 188 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (95 bp):
AGGTCCTATGGCTTACCAATTGAAATTACCTCCGGCGTTTGACAGGATTCACGATGTTTTCGACG
TCTCCATGTTAAGGCGATATCGTTCTGACC
Found at i:60802836 original size:27 final size:27
Alignment explanation
Indices: 60802787--60802873 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
60802777 GGAGGAAATG
60802787 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
60802815 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * * *
60802842 ATCTGGTGACTCTGTCACAGTATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
60802868 TTCTGG
1 TTCTGG
60802874 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.09
27 31 0.57
28 18 0.33
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:60806046 original size:16 final size:17
Alignment explanation
Indices: 60806022--60806055 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
60806012 TAATAACAAG
*
60806022 ATTCGTCTTAGGT-TTT
1 ATTCCTCTTAGGTATTT
60806038 ATTCCTCTTAGGTATTT
1 ATTCCTCTTAGGTATTT
60806055 A
1 A
60806056 GGGGGTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
ATTCCTCTTAGGTATTT
Found at i:60815662 original size:29 final size:29
Alignment explanation
Indices: 60815599--60815666 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
60815589 TAATCAACCG
60815599 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
60815628 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
60815657 CGCACACTTA
1 CGCACACTTA
60815667 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:60815779 original size:174 final size:174
Alignment explanation
Indices: 60815488--60815815 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
60815478 AACTCAAGGT
* *
60815488 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
60815553 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
60815618 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
60815662 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
60815727 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
60815792 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
60815816 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:60815807 original size:29 final size:30
Alignment explanation
Indices: 60815768--60815846 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
60815758 CTTAATAATC
60815768 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
60815798 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
60815827 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
60815847 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:60823795 original size:28 final size:28
Alignment explanation
Indices: 60823732--60823882 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
60823722 ATATTAAGTC
* *
60823732 CGCACACTCAGTGCTATACAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
60823759 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
60823787 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
60823815 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
60823843 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
60823872 CGCACACTTAG
1 CGCACACTTAG
60823883 CGCCAATCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 21 0.18
28 77 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:60828305 original size:14 final size:14
Alignment explanation
Indices: 60828286--60828314 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
60828276 GATGAGTAAG
60828286 TTTAAATAATTTGA
1 TTTAAATAATTTGA
60828300 TTTAAATAATTTGA
1 TTTAAATAATTTGA
60828314 T
1 T
60828315 GTAATGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTAAATAATTTGA
Found at i:60837870 original size:9 final size:9
Alignment explanation
Indices: 60837856--60837880 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60837846 CCACATTAGG
60837856 AGCCACGCC
1 AGCCACGCC
60837865 AGCCACGCC
1 AGCCACGCC
60837874 AGCCACG
1 AGCCACG
60837881 TCCTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.52, G:0.24, T:0.00
Consensus pattern (9 bp):
AGCCACGCC
Found at i:60839675 original size:29 final size:30
Alignment explanation
Indices: 60839621--60839724 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 30
60839611 ATATGGCCCG
** * *
60839621 CTAGGCCC-AATTTTATTCAAATGGCCCAT
1 CTAGGCCCAAATCATATTCATAGGGCCCAT
* * *
60839650 CT-GGCCCAGATCATATTCTTAGGGCCTA-
1 CTAGGCCCAAATCATATTCATAGGGCCCAT
** * *
60839678 CTAGGCCCACTTCACATTCATATGGCCCAT
1 CTAGGCCCAAATCATATTCATAGGGCCCAT
60839708 -TAGGCCCAAATCATATT
1 CTAGGCCCAAATCATATT
60839725 ATATTCATGT
Statistics
Matches: 56, Mismatches: 16, Indels: 6
0.72 0.21 0.08
Matches are distributed among these distances:
28 7 0.12
29 49 0.88
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (30 bp):
CTAGGCCCAAATCATATTCATAGGGCCCAT
Found at i:60839830 original size:19 final size:18
Alignment explanation
Indices: 60839797--60839833 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
60839787 TGGGCCCAAC
60839797 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
60839815 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
60839834 GGCCAATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:60841217 original size:16 final size:16
Alignment explanation
Indices: 60841196--60841228 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
60841186 AAATATTTAA
60841196 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
*
60841212 GATTTCGGGATTTTTG
1 GATTTCAGGATTTTTG
60841228 G
1 G
60841229 GGCGTTACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.30, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:60841311 original size:43 final size:41
Alignment explanation
Indices: 60841249--60841402 Score: 191
Period size: 42 Copynumber: 3.7 Consensus size: 41
60841239 TAGCATACCA
* *
60841249 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCTTATTG
1 ATGCCATATCCCAGATATGGTCTTACAAG-AATCTCATATTG
* * * *
60841291 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAAG-AATCTCATATTG
* **
60841334 ATGCCATATCCCAAATATTATCTTACAAGAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACAAGAA-TCTCATATTG
60841376 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
60841403 CATAGACTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.02
42 56 0.60
43 36 0.38
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAATCTCATATTG
Found at i:60844609 original size:42 final size:42
Alignment explanation
Indices: 60844497--60844610 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
60844487 TACCATACCA
* * * *
60844497 ATGCCATATCCCAGATATAGTCTTACATATAATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
* * * * * *
60844539 ATGACAATAGCTCGGCTATGGTATTACACAAAATCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
60844582 ATGCCATATCCCAGATATGGTCTTACACA
1 ATGCCATATCCCAGATATGGTCTTACACA
60844611 TAGACTTGGT
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
42 23 0.42
43 32 0.58
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACAAAATCTCATATCG
Found at i:60852795 original size:97 final size:97
Alignment explanation
Indices: 60852675--60853546 Score: 1707
Period size: 97 Copynumber: 9.0 Consensus size: 97
60852665 AATAATTTAT
60852675 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60852740 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60852772 TTTATTGATTCAATTAAAC--AAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60852835 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60852867 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60852932 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60852964 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60853029 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60853061 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60853126 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60853158 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60853223 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60853255 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60853320 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60853352 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60853417 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
*
60853449 TTTATTGATTCAATTAAAC--AAAAAAATATTTGTTTATGATGTGTTTTTATTCCTTATGTATGT
1 TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
60853512 AAATATTTTTATTTATTTAAAATTATTATAAA
66 AAATATTTTTATTTATTTAAAATTATTATAAA
60853544 TTT
1 TTT
60853547 TACAACTTTT
Statistics
Matches: 772, Mismatches: 1, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
95 173 0.22
97 599 0.78
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (97 bp):
TTTATTGATTCAATTAAACAAAAAAAAATATTTGTTTATGATGTGTTTTTATTCCTAATGTATGT
AAATATTTTTATTTATTTAAAATTATTATAAA
Found at i:60856473 original size:40 final size:39
Alignment explanation
Indices: 60856436--60856613 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
60856426 ATATCCGGAC
60856436 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
60856476 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
60856516 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
60856556 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
60856595 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
60856614 AACGAGAAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:60856526 original size:80 final size:79
Alignment explanation
Indices: 60856442--60856613 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
60856432 GGACTAAGAT
*
60856442 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
60856506 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
60856522 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
60856587 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
60856601 CCGAAGGCATTTG
1 CCGAAGGCATTTG
60856614 AACGAGAAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:60856631 original size:79 final size:80
Alignment explanation
Indices: 60856469--60856646 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
60856459 AGATACAAAT
* * * *
60856469 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
60856534 GTGCGAGTTATTAAA
66 GAACGAGTAACTAAA
* * * *
60856549 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
60856613 GAACGAG-AAGCTATA
66 GAACGAGTAA-CTAAA
*
60856628 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60856647 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTAACTAAA
Found at i:60864834 original size:20 final size:22
Alignment explanation
Indices: 60864793--60864834 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60864783 GAAAATTCAA
60864793 TCAAGGGTCTCGAGACATATGGG
1 TCAAGGGTCTCGAGA-ATATGGG
60864816 TCAA-GGTCTCGAG-ATATGG
1 TCAAGGGTCTCGAGAATATGG
60864835 TCCCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (22 bp):
TCAAGGGTCTCGAGAATATGGG
Found at i:60869955 original size:19 final size:20
Alignment explanation
Indices: 60869920--60869960 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
60869910 ATATTTTTTT
60869920 TTATTTTTTAAAATAAA-AA
1 TTATTTTTTAAAATAAATAA
* *
60869939 TTATTTTTTCAATTAAATAA
1 TTATTTTTTAAAATAAATAA
60869959 TT
1 TT
60869961 TTCTTATCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATTTTTTAAAATAAATAA
Found at i:60875956 original size:27 final size:26
Alignment explanation
Indices: 60875917--60876199 Score: 207
Period size: 27 Copynumber: 10.7 Consensus size: 26
60875907 AAAAGTTGTT
* *
60875917 AAATGATCATAATACCCCTGTATGGTA
1 AAATGACCGTAATACCCCTGTA-GGTA
* *
60875944 AAATGACCGTAATATCCCTATAGGTTA
1 AAATGACCGTAATACCCCTGTAGG-TA
* *
60875971 CAATGACCGTAATGCCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTA-GGTA
* * *
60875998 AAATGACTGTATTACCCCCTGTAGCGAA
1 AAATGACCGTAATA-CCCCTGTAG-GTA
* **
60876026 AAATGA-TGTAATACCCCTGTAAGAAA
1 AAATGACCGTAATACCCCTGT-AGGTA
** *
60876052 AAATGATTGTAATACCCATGTAGGGTA
1 AAATGACCGTAATACCCCTGTA-GGTA
* * *
60876079 AAATTACCGTAATAACCCTATAAGGTA
1 AAATGACCGTAATACCCCTGT-AGGTA
*
60876106 AAATGACC---ATGCCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTA-GGTA
* * *
60876130 AAATGATCGTAATGCCCCTATAGGATA
1 AAATGACCGTAATACCCCTGTAGG-TA
* * *
60876157 AAATGACCATAAT-GCCCTGAAGGATA
1 AAATGACCGTAATACCCCTGTAGG-TA
60876183 AAATGACCGTAATACCC
1 AAATGACCGTAATACCC
60876200 TCGAGGTCAT
Statistics
Matches: 205, Mismatches: 37, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.00
24 18 0.09
26 42 0.20
27 125 0.61
28 19 0.09
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (26 bp):
AAATGACCGTAATACCCCTGTAGGTA
Found at i:60876133 original size:51 final size:50
Alignment explanation
Indices: 60876070--60876200 Score: 149
Period size: 51 Copynumber: 2.5 Consensus size: 50
60876060 GTAATACCCA
*
60876070 TGTAGGGTAAAATTACCGTAATAACCCTATAAGG-TAAAATGACC-ATGCCCC
1 TGTAGGGTAAAATGACCGTAAT-ACCCTAT-AGGATAAAATGACCAATG-CCC
* *
60876121 TGTAGGGTAAAATGATCGTAATGCCCCTATAGGATAAAATGACCATAATGCCC
1 TGTAGGGTAAAATGACCGTAAT-ACCCTATAGGATAAAATGACC--AATGCCC
* *
60876174 TGAAGGATAAAATGACCGTAATACCCT
1 TGTAGGGTAAAATGACCGTAATACCCT
60876201 CGAGGTCATA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.04
51 36 0.53
52 4 0.06
53 22 0.32
54 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (50 bp):
TGTAGGGTAAAATGACCGTAATACCCTATAGGATAAAATGACCAATGCCC
Found at i:60876550 original size:32 final size:32
Alignment explanation
Indices: 60876462--60876600 Score: 138
Period size: 32 Copynumber: 4.4 Consensus size: 32
60876452 ACTGCGATGC
*
60876462 TACTGATGGCTTTGTGCCGATCATATTATCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*** *
60876494 TACTGATCATTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
60876526 TACTGATGGCTGTT-TGCCGGTCATATCACTGC
1 TACTGATGGCT-TTGTGCCGATCATATTACCGT
** *
60876558 TACTGATGGCTTTGTGCTAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
60876589 TACTTATGGCTT
1 TACTGATGGCTT
60876601 GTAATCATTC
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
31 13 0.15
32 72 0.83
33 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:60876563 original size:64 final size:63
Alignment explanation
Indices: 60876462--60876600 Score: 156
Period size: 64 Copynumber: 2.2 Consensus size: 63
60876452 ACTGCGATGC
* * *
60876462 TACTGATGGCTTTGTGCCGATCATATTATCGTTACTGATCATTTTGTGCCAATCATATTACCG
1 TACTGATGGCTTTGTGCCGATCATATCATCGCTACTGATCACTTTGTGCCAATCATATTACCG
* ** * *
60876525 TTACTGATGGCTGTT-TGCCGGTCATATCA-CTGCTACTGATGGCTTTGTGCTAATCATATTACT
1 -TACTGATGGCT-TTGTGCCGATCATATCATC-GCTACTGATCACTTTGTGCCAATCATATTACC
60876588 G
63 G
*
60876589 TACTTATGGCTT
1 TACTGATGGCTT
60876601 GTAATCATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
62 1 0.02
63 11 0.17
64 50 0.78
65 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (63 bp):
TACTGATGGCTTTGTGCCGATCATATCATCGCTACTGATCACTTTGTGCCAATCATATTACCG
Found at i:60877868 original size:14 final size:13
Alignment explanation
Indices: 60877846--60877898 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
60877836 AAATTATTAT
*
60877846 TTAATTAATTATAA
1 TTAAATAATTA-AA
60877860 TTAAATAATTAAA
1 TTAAATAATTAAA
60877873 TTTCAAA-AATTAAA
1 -TT-AAATAATTAAA
60877887 TTAAATCAATTA
1 TTAAAT-AATTA
60877899 GTCATTATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 24 0.71
15 3 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAAATAATTAAA
Found at i:60881003 original size:20 final size:20
Alignment explanation
Indices: 60880978--60881016 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
60880968 ATATTAGTCG
60880978 GAGACATGATGATTAAGGTA
1 GAGACATGATGATTAAGGTA
60880998 GAGACATGATGATTAAGGT
1 GAGACATGATGATTAAGGT
60881017 TTTTCCTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.31, T:0.26
Consensus pattern (20 bp):
GAGACATGATGATTAAGGTA
Found at i:60904127 original size:20 final size:20
Alignment explanation
Indices: 60904093--60904134 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60904083 AACTATTTAA
** *
60904093 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
60904113 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
60904133 AT
1 AT
60904135 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:60909220 original size:20 final size:20
Alignment explanation
Indices: 60909186--60909227 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60909176 AACTATTTAA
** *
60909186 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
60909206 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
60909226 AT
1 AT
60909228 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:60914842 original size:24 final size:25
Alignment explanation
Indices: 60914815--60914864 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
60914805 CTGGTCTTAA
* *
60914815 AGAGAATTGAGGAG-GGATATTTGG
1 AGAGAATTGAAGAGAGAATATTTGG
*
60914839 AGAGATTTGAAGAGAGAATATTTGG
1 AGAGAATTGAAGAGAGAATATTTGG
60914864 A
1 A
60914865 TTTGGGGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
AGAGAATTGAAGAGAGAATATTTGG
Found at i:60915930 original size:26 final size:27
Alignment explanation
Indices: 60915909--60916079 Score: 185
Period size: 27 Copynumber: 6.4 Consensus size: 27
60915899 ACCCCAAATA
60915909 GGTAAAATGACTC-AAATACCC-ATAG
1 GGTAAAATGACTCGAAATACCCTATAG
60915934 GGTAAAATGAC-CGAAATACCCTATAG
1 GGTAAAATGACTCGAAATACCCTATAG
* *
60915960 GGTAAAATAAC-CGAAATACCCCTATAA
1 GGTAAAATGACTCGAAATA-CCCTATAG
* * *
60915987 GGTAAAATAACT-AAAATACCCTCATAA
1 GGTAAAATGACTCGAAATACCCT-ATAG
*
60916014 GGTAGAATGACT-GAAATACCCCTATAG
1 GGTAAAATGACTCGAAATA-CCCTATAG
* *
60916041 GGTAAAATGAC-CAAAATATCCCCATAG
1 GGTAAAATGACTCGAAATA-CCCTATAG
60916068 GGTAAAATGACT
1 GGTAAAATGACT
60916080 GTTATACCCC
Statistics
Matches: 127, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
24 1 0.01
25 19 0.15
26 25 0.20
27 78 0.61
28 4 0.03
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTCGAAATACCCTATAG
Found at i:60916045 original size:54 final size:54
Alignment explanation
Indices: 60915908--60916091 Score: 223
Period size: 54 Copynumber: 3.5 Consensus size: 54
60915898 GACCCCAAAT
* *
60915908 AGGTAAAATGACTCAAATA-CCC-ATAGGGTAAAATGACCGAAATACCCT-ATA
1 AGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCTCATA
* * * * * *
60915959 GGGTAAAATAACCGAAATACCCCTATAAGGTAAAATAACTAAAATACCCTCATA
1 AGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCTCATA
*
60916013 AGGTAGAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATATCCC-CATA
1 AGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATA-CCCTCATA
* **
60916067 GGGTAAAATGACTGTTATACCCCTA
1 AGGTAAAATGACTGAAATACCCCTA
60916092 GGAGATGAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 15 0.14
52 3 0.03
53 22 0.20
54 67 0.61
55 3 0.03
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.21
Consensus pattern (54 bp):
AGGTAAAATGACTGAAATACCCCTATAGGGTAAAATGACCAAAATACCCTCATA
Found at i:60916088 original size:81 final size:80
Alignment explanation
Indices: 60915908--60916075 Score: 225
Period size: 81 Copynumber: 2.1 Consensus size: 80
60915898 GACCCCAAAT
* * *
60915908 AGGTAAAATGACTCAAATA-CC-CATAGGGTAAAATGACCGAAATACCCTATAGGGTAAAATAAC
1 AGGTAAAATAACTAAAATACCCTCATAAGGTAAAATGACCGAAATACCCTATAGGGTAAAATAAC
*
60915971 CGAAATACCCCTATA
66 CAAAATACCCCTATA
* * *
60915986 AGGTAAAATAACTAAAATACCCTCATAAGGTAGAATGACTGAAATACCCCTATAGGGTAAAATGA
1 AGGTAAAATAACTAAAATACCCTCATAAGGTAAAATGACCGAAATA-CCCTATAGGGTAAAATAA
60916051 CCAAAATATCCCC-ATA
65 CCAAAATA-CCCCTATA
*
60916067 GGGTAAAAT
1 AGGTAAAAT
60916076 GACTGTTATA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 17 0.22
79 2 0.03
80 20 0.26
81 35 0.45
82 4 0.05
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.20
Consensus pattern (80 bp):
AGGTAAAATAACTAAAATACCCTCATAAGGTAAAATGACCGAAATACCCTATAGGGTAAAATAAC
CAAAATACCCCTATA
Found at i:60917092 original size:18 final size:18
Alignment explanation
Indices: 60917051--60917092 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
60917041 ATAACAAAAA
60917051 GTTTTGAAATTGAATAAC
1 GTTTTGAAATTGAATAAC
* *
60917069 GATTTGTAAA-TGAATAAT
1 GTTTTG-AAATTGAATAAC
60917087 GTTTTG
1 GTTTTG
60917093 GAAACGAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (18 bp):
GTTTTGAAATTGAATAAC
Found at i:60918863 original size:36 final size:36
Alignment explanation
Indices: 60918817--60918890 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
60918807 GGAGGAGCAC
*
60918817 ATCAATCAGAATAGA-CTTAAAAGGCTGCTAAACTGA
1 ATCAATCAGAATAGATC-CAAAAGGCTGCTAAACTGA
* *
60918853 ATCAGTCAGAATAGATCCAAAAGGTTGCTAAACTGA
1 ATCAATCAGAATAGATCCAAAAGGCTGCTAAACTGA
60918889 AT
1 AT
60918891 AGAGTTTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (36 bp):
ATCAATCAGAATAGATCCAAAAGGCTGCTAAACTGA
Found at i:60918948 original size:18 final size:18
Alignment explanation
Indices: 60918927--60918965 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
60918917 TATTTTGATT
60918927 ATGTTTTCAATTAATATC
1 ATGTTTTCAATTAATATC
60918945 ATGTTTTCAATTAATATC
1 ATGTTTTCAATTAATATC
60918963 ATG
1 ATG
60918966 ATGGATTTCA
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:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (18 bp):
ATGTTTTCAATTAATATC
Found at i:60921121 original size:57 final size:60
Alignment explanation
Indices: 60921006--60921128 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 60
60920996 AATTGACGGT
*
60921006 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCTTGAAGAATATGTGTG
1 AAAAAGGATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCTGAAGAATATGTG-G
60921069 AAAAA-GATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCT-AAGAATATGTGG
1 AAAAAGGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCT-CCTGAAGAATATGTGG
60921125 AAAA
1 AAAA
60921129 TGAATTTAGC
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
56 5 0.09
57 23 0.40
58 2 0.03
59 1 0.02
61 1 0.02
62 21 0.36
63 5 0.09
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (60 bp):
AAAAAGGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCTGAAGAATATGTGG
Found at i:60921389 original size:67 final size:67
Alignment explanation
Indices: 60921280--60921406 Score: 202
Period size: 67 Copynumber: 1.9 Consensus size: 67
60921270 TATTATAGGG
* * *
60921280 GATTTAGCCTGGACTGGTAATCTCGCTGTAAGGAATAGGGTTCGCGAGAGTGTGCTCTCTTGCAG
1 GATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATAGGGTTCGCGAGAGTGTGCTCTCTTGCAG
60921345 GA
66 GA
*
60921347 GATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAAT-GAGGTTCGCGGGAGTGTGCTCTCT
1 GATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATAG-GGTTCGCGAGAGTGTGCTCTCT
60921407 GAATTGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 1 0.02
67 54 0.98
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (67 bp):
GATTTAGCCTAGACTGGTAATCCCGCTGTAAGAAATAGGGTTCGCGAGAGTGTGCTCTCTTGCAG
GA
Found at i:60929536 original size:14 final size:15
Alignment explanation
Indices: 60929512--60929552 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
60929502 TATATATTTG
60929512 TATTAACATTAATAA
1 TATTAACATTAATAA
*
60929527 -ATTAATATTAATAA
1 TATTAACATTAATAA
60929541 TATTAAACATTA
1 TATT-AACATTA
60929553 CTTAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 13 0.59
15 3 0.14
16 6 0.27
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTAACATTAATAA
Found at i:60932279 original size:29 final size:29
Alignment explanation
Indices: 60932246--60932303 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
60932236 TCCTTCACTC
* * *
60932246 TATCTCCTTTCAGCAACTTACTACATACA
1 TATCTCCTTCCAACAACTCACTACATACA
60932275 TATCTCCTTCCAACAACTCACTACATACA
1 TATCTCCTTCCAACAACTCACTACATACA
60932304 ATACGTGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.34, G:0.02, T:0.31
Consensus pattern (29 bp):
TATCTCCTTCCAACAACTCACTACATACA
Found at i:60938819 original size:13 final size:13
Alignment explanation
Indices: 60938801--60938853 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
60938791 TAGTTGGCAA
60938801 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
*
60938814 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
* *
60938827 TGCTGTGAAAAAG
1 TGCTTTTAAAAAG
* *
60938840 TGTTTTTGAAAAG
1 TGCTTTTAAAAAG
60938853 T
1 T
60938854 TTAGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:60946127 original size:3 final size:3
Alignment explanation
Indices: 60946112--60946210 Score: 108
Period size: 3 Copynumber: 33.0 Consensus size: 3
60946102 TTTAAGATTT
* * ** *
60946112 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
60946160 TTA CCA TTA TTA TTA TTA TTA ATA TCA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60946208 TTA
1 TTA
60946211 AATTGTTTTA
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:60946210 original size:21 final size:21
Alignment explanation
Indices: 60946123--60946210 Score: 122
Period size: 21 Copynumber: 4.2 Consensus size: 21
60946113 TATTATTGTT
* *
60946123 ATTATTATTATTAATACCATC
1 ATTATTATTATTATTACTATC
* *
60946144 ATTATTATTATTATTATTACC
1 ATTATTATTATTATTACTATC
*
60946165 ATTATTATTATTATTAATATC
1 ATTATTATTATTATTACTATC
*
60946186 ATTATTATTATTATTACTATT
1 ATTATTATTATTATTACTATC
60946207 ATTA
1 ATTA
60946211 AATTGTTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTATTATTATTACTATC
Found at i:60950531 original size:17 final size:18
Alignment explanation
Indices: 60950506--60950539 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60950496 CGACCGCGAC
60950506 AAACCCGAC-GCGACCGA
1 AAACCCGACTGCGACCGA
*
60950523 AAACGCGACTGCGACCG
1 AAACCCGACTGCGACCG
60950540 CAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.38, G:0.26, T:0.03
Consensus pattern (18 bp):
AAACCCGACTGCGACCGA
Found at i:60959153 original size:11 final size:11
Alignment explanation
Indices: 60959137--60959164 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
60959127 AGTTAAAAAA
60959137 TATTTTAATAT
1 TATTTTAATAT
60959148 TATTTTAATAT
1 TATTTTAATAT
60959159 TATTTT
1 TATTTT
60959165 CTATGCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTTTAATAT
Found at i:60960760 original size:21 final size:21
Alignment explanation
Indices: 60960736--60960775 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
60960726 ATGCTTGAGT
60960736 TATATAT-TTTTGGTCATGATA
1 TATATATGTTTTGG-CATGATA
60960757 TATATATGTTTTGGCATGA
1 TATATATGTTTTGGCATGA
60960776 AGTAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.28, C:0.05, G:0.17, T:0.50
Consensus pattern (21 bp):
TATATATGTTTTGGCATGATA
Found at i:60965176 original size:20 final size:20
Alignment explanation
Indices: 60965127--60965182 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
60965117 CATTTATGCT
* * *
60965127 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
60965147 AAGTAAATGGAATGGTGAGA
1 AAGTAAATGGAATGGTAAGA
*
60965167 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
60965183 TCAAAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:60968601 original size:40 final size:40
Alignment explanation
Indices: 60968556--60968640 Score: 161
Period size: 40 Copynumber: 2.1 Consensus size: 40
60968546 TATGCCACTT
*
60968556 ATAAATCTCAACCATTTGATACCCAAAATATCGATTCAAA
1 ATAAATCTCAACCATTTGATACCCAAAATACCGATTCAAA
60968596 ATAAATCTCAACCATTTGATACCCAAAATACCGATTCAAA
1 ATAAATCTCAACCATTTGATACCCAAAATACCGATTCAAA
60968636 ATAAA
1 ATAAA
60968641 GACATTCACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.26
Consensus pattern (40 bp):
ATAAATCTCAACCATTTGATACCCAAAATACCGATTCAAA
Found at i:60969347 original size:25 final size:26
Alignment explanation
Indices: 60969287--60969374 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 26
60969277 GTACATGTAG
* *
60969287 GCTCATACGAG-GGATAAA-CAGTAA
1 GCTCATACGAGCTGACAAATCAGTAA
* * *
60969311 GCTC-TTCTGAGCTGA-ATATCGGTAA
1 GCTCATAC-GAGCTGACAAATCAGTAA
*
60969336 GCTCCTACGAGCT-ACAAATCAGTAA
1 GCTCATACGAGCTGACAAATCAGTAA
60969361 GCTCATACGAGCTG
1 GCTCATACGAGCTG
60969375 TGGTGAGTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
25 36 0.72
26 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (26 bp):
GCTCATACGAGCTGACAAATCAGTAA
Found at i:60971750 original size:45 final size:45
Alignment explanation
Indices: 60971677--60971797 Score: 120
Period size: 45 Copynumber: 2.7 Consensus size: 45
60971667 TTGTTTAGAG
* * * * *
60971677 GATGCCGTTGTATCTTCCAACCACGGTCTTACACATT-TCCGAAGT
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACATTGT-CGAAGT
** *
60971722 GATGCCATAGTATCTTTCAACTATGGTCTTATTCATTGTCGACGT
1 GATGCCATAGTATCTTTCAACTATGGTCTTACACATTGTCGAAGT
* *
60971767 -ATTGCCATAGCATCTTTCAACTATAGTCTTA
1 GA-TGCCATAGTATCTTTCAACTATGGTCTTA
60971798 TTCGTATCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.02
45 62 0.97
46 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (45 bp):
GATGCCATAGTATCTTTCAACTATGGTCTTACACATTGTCGAAGT
Found at i:60971818 original size:45 final size:45
Alignment explanation
Indices: 60971723--60971835 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 45
60971713 TTCCGAAGTG
* * * *
60971723 ATGCCATAGTATCTTTCAACTATGGTCTTATTCATTGTCGACGTA
1 ATGCCATAGCATCTTTCAACTATAGTCTTATTCAGTATCGACGTA
* * **
60971768 TTGCCATAGCATCTTTCAACTATAGTCTTATTC-GTATCATATTTA
1 ATGCCATAGCATCTTTCAACTATAGTCTTATTCAGTATC-GACGTA
60971813 ATGCCATAGTC-TCTTTCAACTAT
1 ATGCCATAG-CATCTTTCAACTAT
60971836 GATATTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
44 3 0.05
45 53 0.93
46 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (45 bp):
ATGCCATAGCATCTTTCAACTATAGTCTTATTCAGTATCGACGTA
Found at i:60979556 original size:29 final size:31
Alignment explanation
Indices: 60979495--60979555 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 31
60979485 GAAAGAGAAG
60979495 AAGTATAAACATATTGGGCCATTTATGTAAA
1 AAGTATAAACATATTGGGCCATTTATGTAAA
*
60979526 AAGTA-AAA-ATATTGGGTCATTTAT-TAAA
1 AAGTATAAACATATTGGGCCATTTATGTAAA
60979554 AA
1 AA
60979556 ATAGAAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 15 0.52
30 3 0.10
31 5 0.17
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.33
Consensus pattern (31 bp):
AAGTATAAACATATTGGGCCATTTATGTAAA
Found at i:60979563 original size:29 final size:29
Alignment explanation
Indices: 60979499--60979563 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
60979489 GAGAAGAAGT
*
60979499 ATAAACATATTGGGCCATTTATGTAAAAA
1 ATAAAAATATTGGGCCATTTATGTAAAAA
* *
60979528 GTAAAAATATTGGGTCATTTAT-TAAAAA
1 ATAAAAATATTGGGCCATTTATGTAAAAA
60979556 ATAGAAAA
1 ATA-AAAA
60979564 GAAAGGACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (29 bp):
ATAAAAATATTGGGCCATTTATGTAAAAA
Found at i:60979842 original size:32 final size:32
Alignment explanation
Indices: 60979801--60979901 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 32
60979791 GTAATTTACC
60979801 TTTTTTTATTCAACATTAAAATTTTGATTTTA
1 TTTTTTTATTCAACATTAAAATTTTGATTTTA
* * * **
60979833 TTTTTTTATTCAACATT-AAA--GTAACTTCG
1 TTTTTTTATTCAACATTAAAATTTTGATTTTA
*
60979862 TTTTTTTATTCAACATTAAAATTTTGTTTTTAA
1 TTTTTTTATTCAACATTAAAATTTTGATTTT-A
60979895 TTTTTTT
1 TTTTTTT
60979902 TCACACTAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
29 21 0.39
30 3 0.06
31 3 0.06
32 20 0.37
33 7 0.13
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (32 bp):
TTTTTTTATTCAACATTAAAATTTTGATTTTA
Found at i:60980604 original size:13 final size:13
Alignment explanation
Indices: 60980586--60980610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60980576 TTCCCCCCAT
60980586 TTTTTTCTCTTCC
1 TTTTTTCTCTTCC
60980599 TTTTTTCTCTTC
1 TTTTTTCTCTTC
60980611 AGTAGCACAC
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTCTCTTCC
Found at i:60982304 original size:115 final size:115
Alignment explanation
Indices: 60981916--60982304 Score: 382
Period size: 115 Copynumber: 3.4 Consensus size: 115
60981906 GTGGCGTTTG
* * * * *
60981916 GAGAAGCGCCGCTAAATTTCTTAACCAAAACTCAGC-GTTTTGGTCTTGATGTATACTATAGTTA
1 GAGAAGCGCCGCAAAATATCTTAACCAAAACGCA-CAGTTTTGGTCTTGATGTATACTAGAATTA
* * * * **
60981980 GTGGCGCTTACTAGAAAACGCCGCTAAA-TA-ATAATTAGTGGCGCTTTGA
65 GTGGCGCTTACGAGAAAACGCCGCTAAAGCATATTATTAGCGGCGCTTTTT
* * * * ** *
60982029 GATAAGCGCCGTAAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTTGGGGTATATTAGAATT
1 GAGAAGCGCCGCAAAATAT-CTTA-ACCAAAACGCACAGTTTTGGTCTTGATGTATACTAGAATT
* * *
60982091 AGTGGCGCTTATG-GATAAACGCCGCAAAAGCATACTATTAGCGGCGCGTTTTT
64 AGTGGCGCTTACGAGA-AAACGCCGCTAAAGCATATTATTAGCGGCGC-TTTTT
* *** ** * *
60982144 -AGAAGCGCCGCAAAATATATTAACCAAAACGCTGTGTTTAAGTCTTGATATATACTGGAATTAG
1 GAGAAGCGCCGCAAAATATCTTAACCAAAACGCACAGTTTTGGTCTTGATGTATACTAGAATTAG
*
60982208 TGGCG-TTCACGAGAAATCGCCGCTAAAGCATATTATTAGCGGCGCTTTTT
66 TGGCGCTT-ACGAGAAAACGCCGCTAAAGCATATTATTAGCGGCGCTTTTT
*
60982258 GGGAAGCGCCGCAAAATATCTTAACCAAAACGCACAGTTTTGGTCTT
1 GAGAAGCGCCGCAAAATATCTTAACCAAAACGCACAGTTTTGGTCTT
60982305 AACCATGCAT
Statistics
Matches: 218, Mismatches: 45, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
111 2 0.01
112 44 0.20
113 26 0.12
114 46 0.21
115 98 0.45
116 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (115 bp):
GAGAAGCGCCGCAAAATATCTTAACCAAAACGCACAGTTTTGGTCTTGATGTATACTAGAATTAG
TGGCGCTTACGAGAAAACGCCGCTAAAGCATATTATTAGCGGCGCTTTTT
Found at i:60982554 original size:7 final size:7
Alignment explanation
Indices: 60982542--60982568 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
60982532 GTGAATATTA
60982542 GAGTTTT
1 GAGTTTT
60982549 GAGTTTT
1 GAGTTTT
60982556 GAGTTTT
1 GAGTTTT
60982563 GAGTTT
1 GAGTTT
60982569 AGGGTTAATT
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:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (7 bp):
GAGTTTT
Found at i:60982603 original size:7 final size:7
Alignment explanation
Indices: 60982589--60982643 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
60982579 ATTATGGTGT
60982589 TTTA-GG
1 TTTAGGG
60982595 TTTAGGG
1 TTTAGGG
60982602 TTTAGGAG
1 TTTAGG-G
60982610 TTT-GGTG
1 TTTAGG-G
* *
60982617 TTTAAGA
1 TTTAGGG
60982624 TTTAGGG
1 TTTAGGG
*
60982631 TTTGGGG
1 TTTAGGG
60982638 TTTAGG
1 TTTAGG
60982644 CCGCTTTAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
6 4 0.10
7 30 0.77
8 5 0.13
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:60983887 original size:44 final size:44
Alignment explanation
Indices: 60983824--60983914 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
60983814 GTTGAATAAT
60983824 CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
1 CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
* * *
60983868 CTTCTTGTCGAATTTCTTGAAATCCCAAATCCCTAAATCGCCTC
1 CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
60983912 CTT
1 CTT
60983915 TCTCCTTCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.34
Consensus pattern (44 bp):
CTTCTTGCCCAATTTCTTGAAATACCAAATCCCTAAATCGCCTC
Found at i:60985607 original size:9 final size:9
Alignment explanation
Indices: 60985586--60985642 Score: 66
Period size: 9 Copynumber: 6.7 Consensus size: 9
60985576 TTAAAGTTCA
60985586 AATTT-CAT
1 AATTTACAT
*
60985594 AATTTACGT
1 AATTTACAT
60985603 AATTTACAT
1 AATTTACAT
*
60985612 AACTTACAT
1 AATTTACAT
60985621 AA-TT-CAT
1 AATTTACAT
*
60985628 AACTTACAT
1 AATTTACAT
60985637 AATTTA
1 AATTTA
60985643 AATTTATAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
7 5 0.12
8 9 0.21
9 28 0.67
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (9 bp):
AATTTACAT
Found at i:60985630 original size:16 final size:16
Alignment explanation
Indices: 60985589--60985640 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
60985579 AAGTTCAAAT
* *
60985589 TTCATAATTTACGTAA
1 TTCATAACTTACATAA
60985605 TTTACATAACTTACATAA
1 -TT-CATAACTTACATAA
60985623 TTCATAACTTACATAA
1 TTCATAACTTACATAA
60985639 TT
1 TT
60985641 TAAATTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 16 0.50
17 4 0.12
18 12 0.38
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.42
Consensus pattern (16 bp):
TTCATAACTTACATAA
Found at i:60985710 original size:20 final size:21
Alignment explanation
Indices: 60985680--60985720 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
60985670 TTATATATAG
60985680 TTTTAATATATATATTTAAAA
1 TTTTAATATATATATTTAAAA
60985701 TTTT-ATATATATATTTAAAA
1 TTTTAATATATATATTTAAAA
60985721 ATTGATACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTAATATATATATTTAAAA
Found at i:60985713 original size:22 final size:20
Alignment explanation
Indices: 60985680--60985723 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
60985670 TTATATATAG
*
60985680 TTTTAATATATATATTTAAAA
1 TTTTAATATATAT-TTAAAAA
60985701 TTTTATATATATATTTAAAAA
1 TTTTA-ATATATATTTAAAAA
60985722 TT
1 TT
60985724 GATACATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATATATATTTAAAAA
Found at i:60985775 original size:23 final size:22
Alignment explanation
Indices: 60985725--60985777 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
60985715 TTAAAAATTG
60985725 ATACATTACATAACTTACATAAC
1 ATACA-TACATAACTTACATAAC
*
60985748 CTACATACATAAACTTACATATA-
1 ATACATACAT-AACTTACATA-AC
60985771 ATACATA
1 ATACATA
60985778 ACTTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 20 0.77
24 1 0.04
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (22 bp):
ATACATACATAACTTACATAAC
Found at i:60985873 original size:12 final size:12
Alignment explanation
Indices: 60985856--60986660 Score: 183
Period size: 12 Copynumber: 67.8 Consensus size: 12
60985846 TACATAACCA
*
60985856 ACATAATGACTT
1 ACATAATAACTT
*
60985868 ACATAATAACAT
1 ACATAATAACTT
*
60985880 ACATAATAACTG
1 ACATAATAACTT
60985892 ACATAATAA--T
1 ACATAATAACTT
* *
60985902 ACATAACATACAT
1 ACATAATA-ACTT
* *
60985915 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60985929 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60985942 AAACAAAAACTT
1 ACATAATAACTT
60985954 AC---ATAACTT
1 ACATAATAACTT
*
60985963 ACATAATATCTT
1 ACATAATAACTT
60985975 ACATAATAACTT
1 ACATAATAACTT
60985987 ACATAATAA--T
1 ACATAATAACTT
* *
60985997 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986010 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986024 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986037 AAACAAAAACTT
1 ACATAATAACTT
60986049 AC---ATAACTT
1 ACATAATAACTT
*
60986058 ACATAATATCTT
1 ACATAATAACTT
60986070 ACATAATAACTT
1 ACATAATAACTT
60986082 ACATAATAA--T
1 ACATAATAACTT
* *
60986092 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986105 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986119 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986132 AAACAAAAACTT
1 ACATAATAACTT
60986144 AC---ATAACTT
1 ACATAATAACTT
*
60986153 ACATAATATCTT
1 ACATAATAACTT
60986165 ACATAATAACTT
1 ACATAATAACTT
60986177 ACATAATAA--T
1 ACATAATAACTT
* *
60986187 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986200 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986214 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986227 AAACAAAAACTT
1 ACATAATAACTT
60986239 AC---ATAACTT
1 ACATAATAACTT
*
60986248 ACATAATATCTT
1 ACATAATAACTT
60986260 ACATAATAACTT
1 ACATAATAACTT
60986272 ACATAATAA--T
1 ACATAATAACTT
* *
60986282 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986295 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986309 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986322 AAACAAAAACTT
1 ACATAATAACTT
60986334 AC---ATAACTT
1 ACATAATAACTT
*
60986343 ACATAATATCTT
1 ACATAATAACTT
60986355 ACATAATAACTT
1 ACATAATAACTT
60986367 ACATAATAA--T
1 ACATAATAACTT
* *
60986377 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986390 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986404 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986417 AAACAAAAACTT
1 ACATAATAACTT
60986429 AC---ATAACTT
1 ACATAATAACTT
*
60986438 ACATAATATCTT
1 ACATAATAACTT
60986450 ACATAATAACTT
1 ACATAATAACTT
60986462 ACATAATAA--T
1 ACATAATAACTT
* *
60986472 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986485 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986499 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986512 AAACAAAAACTT
1 ACATAATAACTT
60986524 AC---ATAACTT
1 ACATAATAACTT
*
60986533 ACATAATATCTT
1 ACATAATAACTT
60986545 ACATAATAACTT
1 ACATAATAACTT
60986557 ACATAATAA--T
1 ACATAATAACTT
* *
60986567 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
60986580 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
60986594 ACATAATACACAA
1 ACATAATA-ACTT
* * *
60986607 AAACAAAAACTT
1 ACATAATAACTT
60986619 AC---ATAACTT
1 ACATAATAACTT
*
60986628 ACATAATATCTT
1 ACATAATAACTT
60986640 ACATAATAACTT
1 ACATAATAACTT
60986652 ACATAATAA
1 ACATAATAA
60986661 TACATACCCT
Statistics
Matches: 558, Mismatches: 149, Indels: 172
0.63 0.17 0.20
Matches are distributed among these distances:
9 64 0.11
10 49 0.09
11 8 0.01
12 300 0.54
13 87 0.16
14 40 0.07
15 10 0.02
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:60985908 original size:95 final size:95
Alignment explanation
Indices: 60985864--60986730 Score: 1689
Period size: 95 Copynumber: 9.1 Consensus size: 95
60985854 CAACATAATG
* * * * *
60985864 ACTTACATAATAACATACATAATAACTGACATAATAATACATAACATACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60985929 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60985959 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986024 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986054 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986119 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986149 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986214 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986244 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986309 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986339 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986404 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986434 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986499 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986529 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986594 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986624 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
60986689 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
60986719 ACTTACATAATA
1 ACTTACATAATA
60986731 CATAACTTAC
Statistics
Matches: 767, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 767 1.00
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (95 bp):
ACTTACATAATATCTTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
ACATAATACACAAAAACAAAAACTTACATA
Found at i:60986823 original size:49 final size:49
Alignment explanation
Indices: 60986712--60987270 Score: 836
Period size: 49 Copynumber: 11.3 Consensus size: 49
60986702 AAACAAAAAC
* *** ** * * *
60986712 TTACATAACTTACATAATACATAACTTACATAACCTACTTAATACATAAC
1 TTACATAACTTACATAATACACAACTTACAT-GTGTAAGTAACACACAAT
* * * *
60986762 TTGCATAACTTACATAATACACAACTTATATGTGTAAATAATACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60986811 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60986860 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60986909 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60986958 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60987007 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60987056 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
60987105 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
1 TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
* * *
60987154 TTACATAACTTACATAATACACAACTTACATAACT-TACA-TAATACATAAT
1 TTACATAACTTACATAATACACAACTTACAT--GTGTA-AGTAACACACAAT
* * * * * *
60987204 TTACATAACTTACATAAGACATAACTTACATAAGTTTCA-TAATACACAAC
1 TTACATAACTTACATAATACACAACTTACAT--GTGTAAGTAACACACAAT
*
60987254 TTACACAACTTACATAA
1 TTACATAACTTACATAA
60987271 GTTTCATAAT
Statistics
Matches: 481, Mismatches: 24, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
49 381 0.79
50 97 0.20
51 3 0.01
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (49 bp):
TTACATAACTTACATAATACACAACTTACATGTGTAAGTAACACACAAT
Found at i:60987214 original size:34 final size:35
Alignment explanation
Indices: 60986712--60987331 Score: 158
Period size: 33 Copynumber: 18.7 Consensus size: 35
60986702 AAACAAAAAC
*
60986712 TTACATAACTTACATAA--TACATAACTTACATAAC
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
* * *
60986746 CTACTTAA--TACATAACTTGCATAACTTACATAA-
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
* ** * *
60986779 -TACACAACTT--ATATGTGTAAATAA-TACACAAT
1 TTACATAACTTACATAACT-TACATAACTACATAAT
* *
60986811 TTACATAACTTACATAA--TACACAACTTACAT-GT
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
* * *
60986844 GTA-AGTAAC--ACACAATTTACATAACTTACATAA-
1 TTACA-TAACTTACATAACTTACATAAC-TACATAAT
* * *
60986877 -TACACAACTTACAT--GTGTA-AGTAAC-ACACAAT
1 TTACATAACTTACATAACT-TACA-TAACTACATAAT
* *
60986909 TTACATAACTTACATAA--TACACAACTTACAT-GT
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
* * *
60986942 GTA-AGTAAC--ACACAATTTACATAACTTACATAA-
1 TTACA-TAACTTACATAACTTACATAAC-TACATAAT
* * *
60986975 -TACACAACTTACAT--GTGTA-AGTAAC-ACACAAT
1 TTACATAACTTACATAACT-TACA-TAACTACATAAT
* *
60987007 TTACATAACTTACATAA--TACACAACTTACAT-GT
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
* * *
60987040 GTA-AGTAAC--ACACAATTTACATAACTTACATAA-
1 TTACA-TAACTTACATAACTTACATAAC-TACATAAT
* * *
60987073 -TACACAACTTACAT--GTGTA-AGTAAC-ACACAAT
1 TTACATAACTTACATAACT-TACA-TAACTACATAAT
* *
60987105 TTACATAACTTACATAA--TACACAACTTACAT-GT
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
* * *
60987138 GTA-AGTAAC--ACACAATTTACATAACTTACATAA-
1 TTACA-TAACTTACATAACTTACATAAC-TACATAAT
*
60987171 -TACACAACTTACATAACTTACATAA-TACATAAT
1 TTACATAACTTACATAACTTACATAACTACATAAT
*
60987204 TTACATAACTTACATAA--GACATAACTTACATAAGT
1 TTACATAACTTACATAACTTACATAAC-TACATAA-T
* *
60987239 TT-CATAA--TACACAACTTACACAACTTACATAAGT
1 TTACATAACTTACATAACTTACATAAC-TACATAA-T
* * * *
60987273 TT-CATAA--TACACAACTTACACAACTTACACAAC
1 TTACATAACTTACATAACTTACATAAC-TACATAAT
60987306 TTACATAACTTACATAACTTACATAA
1 TTACATAACTTACATAACTTACATAA
60987332 TGTATAACTT
Statistics
Matches: 442, Mismatches: 68, Indels: 150
0.67 0.10 0.23
Matches are distributed among these distances:
31 41 0.09
32 85 0.19
33 160 0.36
34 136 0.31
35 6 0.01
36 14 0.03
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (35 bp):
TTACATAACTTACATAACTTACATAACTACATAAT
Found at i:60992822 original size:21 final size:21
Alignment explanation
Indices: 60992792--60992841 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
60992782 CTACAACTTA
* *
60992792 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
60992813 AAGTAGAGGCTGCAACGAGAG
1 AAGCAGAGGCGGCAACGAGAG
60992834 AAGCAGAG
1 AAGCAGAG
60992842 CAGACCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:60993219 original size:38 final size:39
Alignment explanation
Indices: 60993158--60993253 Score: 149
Period size: 38 Copynumber: 2.5 Consensus size: 39
60993148 ATTTTTGTAT
* * *
60993158 AAAAGCGCCGCTAAAGAATTCTTTAGCGGCGCTT-AGAA
1 AAAAACGCCGCTAAAGAACTCTTTAGCGACGCTTAAGAA
*
60993196 AAAAACGCCGCTAAAGAACTCTTTAGCGACGCTTAAGGA
1 AAAAACGCCGCTAAAGAACTCTTTAGCGACGCTTAAGAA
60993235 AAAAACGCCGCTAAAGAAC
1 AAAAACGCCGCTAAAGAAC
60993254 ATGATCTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 31 0.58
39 22 0.42
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGAACTCTTTAGCGACGCTTAAGAA
Found at i:60993295 original size:42 final size:42
Alignment explanation
Indices: 60993240--60993358 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
60993230 AAGGAAAAAA
* *
60993240 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTCTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
* *
60993282 CGCCTCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
*
60993324 CGCCACTAAAGAACATGGTCTTTAGCGGTGTTTTT
1 CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTT
60993359 GTTTGTAAAC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
CGCCACTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAG
Found at i:60993715 original size:17 final size:17
Alignment explanation
Indices: 60993679--60993726 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
60993669 ATGTATTTAG
*
60993679 ATAATATATATTTAAAA
1 ATAATATATATATAAAA
60993696 ATAATATATA-ATAAATA
1 ATAATATATATATAAA-A
* *
60993713 ATAAGATAGATATA
1 ATAATATATATATA
60993727 CAATTAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 19 0.73
18 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAATATATATATAAAA
Found at i:60994192 original size:43 final size:43
Alignment explanation
Indices: 60994131--60994224 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
60994121 CTTTTGAAAG
* * * *
60994131 CGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGCAAC
1 CGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTCTCCCACAAA
*
60994174 CGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTCTCCCACAAA
1 CGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTCTCCCACAAA
60994217 CGCCGCTA
1 CGCCGCTA
60994225 TTGTTTGGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTCTCCCACAAA
Found at i:60994781 original size:25 final size:26
Alignment explanation
Indices: 60994730--60994791 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
60994720 TTTTACAATG
* *
60994730 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
60994756 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
60994781 ATTAAGTTATG
1 ATTAAGTTATG
60994792 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:60994795 original size:17 final size:17
Alignment explanation
Indices: 60994730--60994801 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
60994720 TTTTACAATG
* *
60994730 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
60994747 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
60994764 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
60994781 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
60994798 ATTA
1 ATTA
60994802 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:60994916 original size:17 final size:17
Alignment explanation
Indices: 60994894--60994953 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
60994884 ATATATTTTA
*
60994894 AAATTATTAAGTTATGG
1 AAATTATTAAGTTATGT
* *
60994911 AAATTATGTGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
60994928 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
60994945 AAATTATTA
1 AAATTATTA
60994954 TGTGAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 6 0.18
17 22 0.65
18 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:60994940 original size:34 final size:37
Alignment explanation
Indices: 60994897--60994980 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 37
60994887 TATTTTAAAA
* * *
60994897 TTATTAAGTTATG-GAA-ATTATGTGAGTTGT-TAAG
1 TTATTAAGTTATGTAAATATTATGTGAATTATATAAG
60994931 TTATTAAGTTATGTAAATTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAAA-TATTATGTGAATTATATAAG
60994969 TTATTAAGTTAT
1 TTATTAAGTTAT
60994981 ATGGTATGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 13 0.30
35 2 0.05
37 12 0.28
38 16 0.37
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (37 bp):
TTATTAAGTTATGTAAATATTATGTGAATTATATAAG
Found at i:60995818 original size:16 final size:16
Alignment explanation
Indices: 60995797--60995830 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
60995787 CAATGTTCAA
60995797 CCCAAA-CATATTAAAT
1 CCCAAACCAT-TTAAAT
60995813 CCCAAACCATTTAAAT
1 CCCAAACCATTTAAAT
60995829 CC
1 CC
60995831 ATTATTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (16 bp):
CCCAAACCATTTAAAT
Done.