Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 33 of 50
Found at i:14838661 original size:60 final size:60
Alignment explanation
Indices: 14838568--14838699 Score: 192
Period size: 60 Copynumber: 2.2 Consensus size: 60
14838558 AAGAAAAACC
* * * * * * *
14838568 TTTGAATATTTTGAGCATTTTGGAGTGGTTTTTGATATATGAAGAAAAACTTTTTAGTAT
1 TTTGAGTATTTTAAGCATTTTGGAGTAGTTTTTGATAAATAAAGAAAAACTTTTGAGCAT
*
14838628 TTTGAGTATTTTAAGCATTTTTGAGTAGTTTTTGATAAATAAAGAAAAACTTTTGAGCAT
1 TTTGAGTATTTTAAGCATTTTGGAGTAGTTTTTGATAAATAAAGAAAAACTTTTGAGCAT
14838688 TTTGAGTATTTT
1 TTTGAGTATTTT
14838700 TTGTCAAGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 64 1.00
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (60 bp):
TTTGAGTATTTTAAGCATTTTGGAGTAGTTTTTGATAAATAAAGAAAAACTTTTGAGCAT
Found at i:14838856 original size:22 final size:22
Alignment explanation
Indices: 14838800--14838877 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
14838790 GTTTTGGTGG
* *
14838800 TTTTTAGGCATTGTGTAACTAA
1 TTTTTAAGCATTGCGTAACTAA
** * * *
14838822 TTTTTAAATATTGCGTGATTAG
1 TTTTTAAGCATTGCGTAACTAA
* *
14838844 TTTTTAAGCATTGCCTTACTAA
1 TTTTTAAGCATTGCGTAACTAA
14838866 TTTTTAAGCATT
1 TTTTTAAGCATT
14838878 ACTAACTGGT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (22 bp):
TTTTTAAGCATTGCGTAACTAA
Found at i:14839123 original size:22 final size:22
Alignment explanation
Indices: 14839075--14839125 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
14839065 AACTAGTCTC
* **
14839075 ACAATATTTAAAAACCAGTGAT
1 ACAATACTTAAAAACCAGAAAT
* *
14839097 GCAATACTTAAAAATCAGAAAT
1 ACAATACTTAAAAACCAGAAAT
14839119 ACAATAC
1 ACAATAC
14839126 CTAATAACTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (22 bp):
ACAATACTTAAAAACCAGAAAT
Found at i:14852747 original size:133 final size:133
Alignment explanation
Indices: 14852509--14852773 Score: 449
Period size: 133 Copynumber: 2.0 Consensus size: 133
14852499 TAATAACAAT
*
14852509 TATTCCCAATTGAAATATCTATTAGCTAAAGTGTACAATTTTTGCAGTTTAGACAAGGTTGCCCA
1 TATTCCCAATTGAAATATCTATTAGCTAAAGAGTACAATTTTTGCAGTTTAGACAAGGTTGCCCA
*** * *
14852574 AATAATTAAAATATTGTGTATAATTACACTTAATGCAAACCGGAATGTCAAGGAGTGAATCTCTG
66 AATAATTAAAATATCACGTATAATTACACTTAAGGCAAACCAGAATGTCAAGGAGTGAATCTCTG
14852639 TAC
131 TAC
* *
14852642 TATTCCCAATTGAAATATCTATTAGCTAAAGAGTACAATTTTTGCAGTTTCGACCAGGTTGCCCA
1 TATTCCCAATTGAAATATCTATTAGCTAAAGAGTACAATTTTTGCAGTTTAGACAAGGTTGCCCA
*
14852707 AATAATTAAAATATCACGTATAATTACACTTAAGGCAAACCAGAATGTCAAGGAGTGACTCTCTG
66 AATAATTAAAATATCACGTATAATTACACTTAAGGCAAACCAGAATGTCAAGGAGTGAATCTCTG
14852772 TA
131 TA
14852774 ACATATACCA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 123 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (133 bp):
TATTCCCAATTGAAATATCTATTAGCTAAAGAGTACAATTTTTGCAGTTTAGACAAGGTTGCCCA
AATAATTAAAATATCACGTATAATTACACTTAAGGCAAACCAGAATGTCAAGGAGTGAATCTCTG
TAC
Found at i:14861785 original size:2 final size:2
Alignment explanation
Indices: 14861778--14861858 Score: 110
Period size: 2 Copynumber: 39.0 Consensus size: 2
14861768 TCATTCAGTC
*
14861778 AT AT AT AT AT AT AT AT AT AT AT AT NAT AT AT AT CAGT CAA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT -A-T -AT AT AT
14861822 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14861859 GACACCATCA
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
1 1 0.01
2 66 0.90
3 3 0.04
4 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:14861823 original size:38 final size:38
Alignment explanation
Indices: 14861772--14861848 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 38
14861762 ATGGTTTCAT
*
14861772 TCAGTCATATATATATATATATATATAT-ATNATATATA
1 TCAGTCAAATATATATATATATATATATAAT-ATATATA
14861810 TCAGTCAAATATATATATATATATATATAATATATATA
1 TCAGTCAAATATATATATATATATATATAATATATATA
14861848 T
1 T
14861849 ATATATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (38 bp):
TCAGTCAAATATATATATATATATATATAATATATATA
Found at i:14871175 original size:16 final size:15
Alignment explanation
Indices: 14871154--14871183 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14871144 TCAAAAAGTG
14871154 ACATTATAATATTCTA
1 ACATTATAAT-TTCTA
14871170 ACATTATAATTTCT
1 ACATTATAATTTCT
14871184 CCTTTCCAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
ACATTATAATTTCTA
Found at i:14871436 original size:4 final size:4
Alignment explanation
Indices: 14871427--14871457 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
14871417 TTATTAGCCG
14871427 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATT
14871458 TTATCATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:14871661 original size:22 final size:21
Alignment explanation
Indices: 14871620--14871667 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
14871610 GTTTACTTAA
*
14871620 TATGAAAATATTATCTATATT
1 TATGAAAATATTATCAATATT
14871641 CTATGAAAATATTAAT-AATATT
1 -TATGAAAATATT-ATCAATATT
14871663 TATGA
1 TATGA
14871668 TTTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
TATGAAAATATTATCAATATT
Found at i:14874683 original size:542 final size:541
Alignment explanation
Indices: 14873656--14874714 Score: 2030
Period size: 542 Copynumber: 2.0 Consensus size: 541
14873646 CATTCTTTAC
14873656 TTTTTCTTTTTATCTTTTCTCTAAAGAATTTACATCCTAAACAAGCAAAGGATCAAAGAAAAATA
1 TTTTTCTTTTTATCTTTTCTCTAAAGAATTTACATCCTAAACAAGCAAAGGATCAAAGAAAAATA
14873721 AACAAGGGTCTGTTTCTTGTACATTCAAAAGTAAGGAATTTGAATACTTACTATGTAAGGGTCTT
66 AACAAGGGTCTGTTTCTTGTACATTCAAAAGTAAGGAATTTGAATACTTACTATGTAAGGGTCTT
14873786 AACTTACATTGTGTCCAAGACCTAAGAAGAAGTATAACAAAGAAAAATATTTTATTTTATAACGT
131 AACTTACATTGTGTCCAAGACCTAAGAAGAAGTATAACAAAGAAAAATATTTTATTTTATAACGT
14873851 GTAAGTTTGGAAACTCAACCATTCGTGATTGCAGGTATAAACAAGAGTTTTCGGAATTTAAACTA
196 GTAAGTTTGGAAACTCAACCATTCGTGATTGCAGGTATAAACAAGAGTTTTCGGAATTTAAACTA
14873916 TTTGGTAAGATTGTGAATAACCCATACATTCATTAGCTAGTTAATTAATAAATTAATTAGTTTTA
261 TTTGGTAAGATTGTGAATAACCCATACATTCATTAGCTAGTTAATTAATAAATTAATTAGTTTTA
14873981 TCATAGATAAGCCAATTAATAATAATCAACATCCAATTTGAAATTTAAAAAATATGTTTTCTCCA
326 TCATAGATAAGCCAATTAATAATAATCAACATCCAATTTGAAATTTAAAAAATATGTTTTCTCCA
14874046 TTCAATTTACTTAGTCAACTTAATAAGGTATATTATCAAAGAAAATCAAATTGTTCGGACCACCT
391 TTCAATTTACTTAGTCAACTTAATAAGGTATATTATCAAAGAAAATCAAATTGTTCGGACCACCT
* *
14874111 TCAACTTGACAAAGAGGAACAAGTAAAGAATTTTACTTTACTTCATTTGCTTTTCAGAAAAAGAC
456 TCAACTTGACAAAGAGGAACAAGTAAAGAATTTTACTTTACTTCATTTGCTATTCAAAAAAAGAC
14874176 AAAAAGAATTTTACNTTTTTTG
521 AAAAAGAATTTTAC-TTTTTTG
14874198 TTTTT-TTTTTATCTTTTCTCTAAAGAATTTACATCCTAAACAAGCAAAGGATCAAAGAAAAATA
1 TTTTTCTTTTTATCTTTTCTCTAAAGAATTTACATCCTAAACAAGCAAAGGATCAAAGAAAAATA
14874262 AACAAGGGTCTGTTTCTTGTACATTCAAAAGTAAGGAATTTGAATACTTACTATGTAAGGGTCTT
66 AACAAGGGTCTGTTTCTTGTACATTCAAAAGTAAGGAATTTGAATACTTACTATGTAAGGGTCTT
* * *
14874327 AATTTACATTGTGTTCGAGACCTAAGAAAGAAGTATAACAAAGAAAAATATTTTATTTTATAACG
131 AACTTACATTGTGTCCAAGACCTAAG-AAGAAGTATAACAAAGAAAAATATTTTATTTTATAACG
14874392 TGTAAGTTTGGAAACTCAACCATTCGTGATTGCAGGTATAAACAAGAGTTTTCGGAATTTAAACT
195 TGTAAGTTTGGAAACTCAACCATTCGTGATTGCAGGTATAAACAAGAGTTTTCGGAATTTAAACT
14874457 ATTTGGTAAGATTGTGAATAACCCATACATTCATTAGCTAGTTAATTAATAAATTAATTAGTTTT
260 ATTTGGTAAGATTGTGAATAACCCATACATTCATTAGCTAGTTAATTAATAAATTAATTAGTTTT
14874522 ATCATAGATAAGCCAATTAATAATAATCAACATCCAATTTGAAATTTAAAAAATATGTTTTCTCC
325 ATCATAGATAAGCCAATTAATAATAATCAACATCCAATTTGAAATTTAAAAAATATGTTTTCTCC
14874587 ATTCAATTTACTTAGTCAACTTAATAAGGTATATTATCAAAGAAAATCAAATTGTTCGGACCACC
390 ATTCAATTTACTTAGTCAACTTAATAAGGTATATTATCAAAGAAAATCAAATTGTTCGGACCACC
**
14874652 TTCAACTTGACAAAGAGGAACAAGTAAAGAATTTTACTTTACTTTGTTTGCTATTCAAAAAAA
455 TTCAACTTGACAAAGAGGAACAAGTAAAGAATTTTACTTTACTTCATTTGCTATTCAAAAAAA
14874715 AAAAAATGAC
Statistics
Matches: 509, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
541 147 0.29
542 362 0.71
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (541 bp):
TTTTTCTTTTTATCTTTTCTCTAAAGAATTTACATCCTAAACAAGCAAAGGATCAAAGAAAAATA
AACAAGGGTCTGTTTCTTGTACATTCAAAAGTAAGGAATTTGAATACTTACTATGTAAGGGTCTT
AACTTACATTGTGTCCAAGACCTAAGAAGAAGTATAACAAAGAAAAATATTTTATTTTATAACGT
GTAAGTTTGGAAACTCAACCATTCGTGATTGCAGGTATAAACAAGAGTTTTCGGAATTTAAACTA
TTTGGTAAGATTGTGAATAACCCATACATTCATTAGCTAGTTAATTAATAAATTAATTAGTTTTA
TCATAGATAAGCCAATTAATAATAATCAACATCCAATTTGAAATTTAAAAAATATGTTTTCTCCA
TTCAATTTACTTAGTCAACTTAATAAGGTATATTATCAAAGAAAATCAAATTGTTCGGACCACCT
TCAACTTGACAAAGAGGAACAAGTAAAGAATTTTACTTTACTTCATTTGCTATTCAAAAAAAGAC
AAAAAGAATTTTACTTTTTTG
Found at i:14875917 original size:19 final size:19
Alignment explanation
Indices: 14875908--14875959 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
14875898 AAATTTTTAA
14875908 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
14875927 AATAAAATAATATTTTATT
1 AATAAAATAATATTTTATT
14875946 AATAAAATAATATT
1 AATAAAATAATATT
14875960 AAAATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAAAATAATATTTTATT
Found at i:14877635 original size:13 final size:13
Alignment explanation
Indices: 14877617--14877641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14877607 AGAGAAATTG
14877617 TGATTTTATAAAA
1 TGATTTTATAAAA
14877630 TGATTTTATAAA
1 TGATTTTATAAA
14877642 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:14887175 original size:16 final size:16
Alignment explanation
Indices: 14887154--14887188 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14887144 GAGAGAAAAA
14887154 TTGAGACCAGTCTCAT
1 TTGAGACCAGTCTCAT
* *
14887170 TTGAGATCAGTCTCTT
1 TTGAGACCAGTCTCAT
14887186 TTG
1 TTG
14887189 TTTGTACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (16 bp):
TTGAGACCAGTCTCAT
Found at i:14904963 original size:21 final size:21
Alignment explanation
Indices: 14904939--14904982 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14904929 ACTATTGAAC
*
14904939 AATTTTTGTTTACTTTATAAT
1 AATTTTTGTATACTTTATAAT
* *
14904960 AATTTTTGTATATTTTGTAAT
1 AATTTTTGTATACTTTATAAT
14904981 AA
1 AA
14904983 ATATTATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (21 bp):
AATTTTTGTATACTTTATAAT
Found at i:14908036 original size:35 final size:33
Alignment explanation
Indices: 14907978--14908093 Score: 92
Period size: 35 Copynumber: 3.4 Consensus size: 33
14907968 TTGGTTGTTG
* *
14907978 GGTTTTGGTTGATCCCG-GTAAAAACCATTATTGTA
1 GGTTGTGGTTGAGCCCGTG-AAAAACCATT-TTG-A
** *
14908013 GGTTGTGGTTGAGCCTTTGAAAAACCACTTTG-
1 GGTTGTGGTTGAGCCCGTGAAAAACCATTTTGA
* * *
14908045 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTAAA
1 GGTTGTGGTTGAGCCCGTGAAAAACCATT-TT-GA
*
14908080 GGTTGTGGCTGAGC
1 GGTTGTGGTTGAGC
14908094 TTGCGAAAAG
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
32 24 0.38
33 2 0.03
34 3 0.05
35 33 0.52
36 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (33 bp):
GGTTGTGGTTGAGCCCGTGAAAAACCATTTTGA
Found at i:14908066 original size:32 final size:33
Alignment explanation
Indices: 14907975--14908071 Score: 108
Period size: 32 Copynumber: 2.9 Consensus size: 33
14907965 AAGTTGGTTG
*
14907975 TTGGGTTTTGGTTGATCCCG-GTAAAAACCATTA
1 TTGGGTTTTGGTTGATCCCGTG-AAAAACCACTA
* * **
14908008 TTGTAGGTTGTGGTTGAGCCTTTGAAAAACCACT-
1 TTG--GGTTTTGGTTGATCCCGTGAAAAACCACTA
14908042 TTGGGTTTTGGTTGATCCCGTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCA
14908072 TTGTTAAAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
32 23 0.44
33 3 0.06
34 3 0.06
35 22 0.42
36 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (33 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCACTA
Found at i:14908102 original size:67 final size:67
Alignment explanation
Indices: 14907975--14908102 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
14907965 AAGTTGGTTG
** * *
14907975 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTATTGTAGGTTGTGGTTGAGCCTTTGAAAAACCA
1 TTGGGTTTTGGTTGATCCCGGTAAAAACCATTATTAAAGGTTGTGGCTGAGCCTTCGAAAAACCA
14908040 CT
66 CT
*
14908042 TTGGGTTTTGGTTGATCCC-GTGAAAAACCATTGTTAAAGGTTGTGGCTGAG-CTTGCGAAAA
1 TTGGGTTTTGGTTGATCCCGGT-AAAAACCATTATTAAAGGTTGTGGCTGAGCCTT-CGAAAA
14908103 GCCATTGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
66 5 0.09
67 49 0.91
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.34
Consensus pattern (67 bp):
TTGGGTTTTGGTTGATCCCGGTAAAAACCATTATTAAAGGTTGTGGCTGAGCCTTCGAAAAACCA
CT
Found at i:14913087 original size:13 final size:13
Alignment explanation
Indices: 14913069--14913093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14913059 TTTCATAAAA
14913069 TTTATAAAATCAT
1 TTTATAAAATCAT
14913082 TTTATAAAATCA
1 TTTATAAAATCA
14913094 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14918328 original size:5 final size:5
Alignment explanation
Indices: 14918320--14918352 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
14918310 ACCTAACCTG
14918320 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTT
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
14918353 GGGTCACGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ACTTA
Found at i:14918339 original size:14 final size:15
Alignment explanation
Indices: 14918320--14918352 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14918310 ACCTAACCTG
14918320 ACTTAACTTAAC-TA
1 ACTTAACTTAACTTA
14918334 ACTTAACTTAACTTA
1 ACTTAACTTAACTTA
14918349 ACTT
1 ACTT
14918353 GGGTCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTTAACTTAACTTA
Found at i:14918437 original size:15 final size:15
Alignment explanation
Indices: 14918387--14918437 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
14918377 TTCTTAAAAC
* *
14918387 AACTTTAAGACCAAA
1 AACTTTAAAATCAAA
*
14918402 AACTTTAAAATCCAA
1 AACTTTAAAATCAAA
*
14918417 AGCTTTAAAATCAAA
1 AACTTTAAAATCAAA
*
14918432 ATCTTT
1 AACTTT
14918438 GATCTTTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (15 bp):
AACTTTAAAATCAAA
Found at i:14919652 original size:13 final size:13
Alignment explanation
Indices: 14919634--14919658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14919624 TTTTAGAAAA
14919634 TTTATAAAATCAT
1 TTTATAAAATCAT
14919647 TTTATAAAATCA
1 TTTATAAAATCA
14919659 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14922313 original size:2 final size:2
Alignment explanation
Indices: 14922306--14922351 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
14922296 NNNNNNNNNN
* *
14922306 TA TA TA TA AA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14922348 -A TA T
1 TA TA T
14922352 TGGAATGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:14926976 original size:25 final size:25
Alignment explanation
Indices: 14926948--14926996 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
14926938 TCATGCATTT
*
14926948 TTATAATTAGTTTTGTTTTGTTTTG
1 TTATAATCAGTTTTGTTTTGTTTTG
* *
14926973 TTATTATCATTTTTGTTTTGTTTT
1 TTATAATCAGTTTTGTTTTGTTTT
14926997 TTTTTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.71
Consensus pattern (25 bp):
TTATAATCAGTTTTGTTTTGTTTTG
Found at i:14928632 original size:12 final size:13
Alignment explanation
Indices: 14928606--14928707 Score: 147
Period size: 13 Copynumber: 7.8 Consensus size: 13
14928596 AAACTCTGAG
14928606 TTATAAAAACTAT
1 TTATAAAAACTAT
14928619 TTATAAAAAC-AT
1 TTATAAAAACTAT
14928631 TTATAAAAACTAT
1 TTATAAAAACTAT
*
14928644 TTATAAAAACTCTGAG
1 TTATAAAAA--CT-AT
14928660 TTATAAAAAC-AT
1 TTATAAAAACTAT
14928672 TTATAAAAA-TAT
1 TTATAAAAACTAT
14928684 TTATAAAAACTAT
1 TTATAAAAACTAT
14928697 TTATAAAAACT
1 TTATAAAAACT
14928708 CTGAGTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
12 33 0.41
13 35 0.43
14 1 0.01
15 2 0.02
16 10 0.12
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (13 bp):
TTATAAAAACTAT
Found at i:14928693 original size:53 final size:53
Alignment explanation
Indices: 14928593--14928728 Score: 254
Period size: 53 Copynumber: 2.5 Consensus size: 53
14928583 AACTCATAAT
14928593 TAAAAACTCTGAGTTATAAAAACTATTTATAAAAACATTTATAAAAACTATTTA
1 TAAAAACTCTGAGTTATAAAAAC-ATTTATAAAAACATTTATAAAAACTATTTA
*
14928647 TAAAAACTCTGAGTTATAAAAACATTTATAAAAATATTTATAAAAACTATTTA
1 TAAAAACTCTGAGTTATAAAAACATTTATAAAAACATTTATAAAAACTATTTA
14928700 TAAAAACTCTGAGTTATAAAAACATTTAT
1 TAAAAACTCTGAGTTATAAAAACATTTAT
14928729 GTTTGCTAAT
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
53 58 0.72
54 23 0.28
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.35
Consensus pattern (53 bp):
TAAAAACTCTGAGTTATAAAAACATTTATAAAAACATTTATAAAAACTATTTA
Found at i:14939284 original size:74 final size:74
Alignment explanation
Indices: 14939191--14939705 Score: 348
Period size: 74 Copynumber: 6.8 Consensus size: 74
14939181 CGTATGAGTC
* * * * * *
14939191 GTTGTAGTATTATAGGGTGAC-TCACCACTCTCTAAAGATATTGTTGACATCTTGTTATGACATG
1 GTTGCAGTATTATAAGGTGACAT-GCCACTCTCTAAAGATGTCGTTGACATCTTGTTGTGACATG
*
14939255 CCACCATGTT
65 TCACCATGTT
* * **
14939265 GTTGCAGTATTATAAGGTGACATGCCACTCTCCAAAGATGTCGTGGACATCTTGTCATGAC-TAG
1 GTTGCAGTATTATAAGGTGACATGCCACTCTCTAAAGATGTCGTTGACATCTTGTTGTGACAT-G
** *
14939329 --ATGA-GTC
65 TCACCATGTT
** *
14939336 ACTGCAGTATTATAGGGTGACATGCCA-TGCTCTAATTTTTAGATGTCGTTGACATCTTGTTGTG
1 GTTGCAGTATTATAAGGTGACATGCCACT-CTCTAA-----AGATGTCGTTGACATCTTGTTGTG
* **
14939400 ACACGTTGCCATGTT
60 ACATGTCACCATGTT
* * * * * * *
14939415 GTTGTAGTATTATAGGGTGACACGCCACACTCTAATTGTTAAATATTGTTGACATCTTGTTGTGA
1 GTTGCAGTATTATAAGGTGACATGCCACTCTCTAA-----AGATGTCGTTGACATCTTGTTGTGA
**
14939480 CATGTTGCCATGTT
61 CATGTCACCATGTT
* * * **
14939494 GTTGTAGTATTAT-AGAGTGACATGCCACTCTCTAAGGATGTCATTGACATCTTGTTGTGACACA
1 GTTGCAGTATTATAAG-GTGACATGCCACTCTCTAAAGATGTCGTTGACATCTTGTTGTGACATG
*
14939558 TCACCATATT
65 TCACCATGTT
* * * * * * * *
14939568 GTTGCAATATTATAAGGTGACATGCCACACTCCAAAGATGTTGTTGACATATTGTCGTGAGACG-
1 GTTGCAGTATTATAAGGTGACATGCCACTCTCTAAAGATGTCGTTGACATCTTGTTGTGACATGT
**
14939632 C-TGA-GTT
66 CACCATGTT
* * * *
14939639 GTTGCAGTATTATAGGGTGACACGCCACGCTTTAATTGTTAGATGTCGTTGACATCTTGTTGTGA
1 GTTGCAGTATTATAAGGTGACATGCCACTCTCTAA-----AGATGTCGTTGACATCTTGTTGTGA
14939704 CA
61 CA
14939706 CGCCATTAGT
Statistics
Matches: 351, Mismatches: 70, Indels: 38
0.76 0.15 0.08
Matches are distributed among these distances:
70 1 0.00
71 62 0.18
72 3 0.01
73 2 0.01
74 131 0.37
75 3 0.01
76 47 0.13
78 2 0.01
79 100 0.28
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (74 bp):
GTTGCAGTATTATAAGGTGACATGCCACTCTCTAAAGATGTCGTTGACATCTTGTTGTGACATGT
CACCATGTT
Found at i:14939417 original size:150 final size:149
Alignment explanation
Indices: 14939120--14939707 Score: 500
Period size: 150 Copynumber: 3.9 Consensus size: 149
14939110 CGTTGAGTCA
* * * * * * ** * *
14939120 TTGCAGTATTATAGGGAGACACGCCACGCTCTAATGATGTCATCGACAT-TATGTCGTGATACGT
1 TTGCAGTATTATAAGGTGACATGCCACACTCCAAAGATGTTGTTGACATCT-TGTCGTGACACG-
* * * * *
14939184 ATGAGTCGTTGTAGTATTATAGGGTGAC-TCACCACT-CTCTAA----AGATATTGTTGACATCT
64 ATGAGTTGTTGCAGTATTATAGGGTGACAT-GCCA-TGCTCTAATTTTAGATGTCGTTGACATCT
* * *
14939243 TGTTATGACATGCCACCATGTTG
127 TGTTGTGACACGTCACCATGTTG
* * * *
14939266 TTGCAGTATTATAAGGTGACATGCCACTCTCCAAAGATGTCGTGGACATCTTGTCATGACTA-GA
1 TTGCAGTATTATAAGGTGACATGCCACACTCCAAAGATGTTGTTGACATCTTGTCGTGAC-ACGA
***
14939330 TGAGTCACTGCAGTATTATAGGGTGACATGCCATGCTCTAATTTTTAGATGTCGTTGACATCTTG
65 TGAGTTGTTGCAGTATTATAGGGTGACATGCCATGCTCTAA-TTTTAGATGTCGTTGACATCTTG
**
14939395 TTGTGACACGTTGCCATGTTG
129 TTGTGACACGTCACCATGTTG
* * * * * * *
14939416 TTGTAGTATTATAGGGTGACACGCCACACTCTAATTGTTAAATATTGTTGACATCTTGTTGTGAC
1 TTGCAGTATTATAAGGTGACATGCCACACTCCAA-----AGATGTTGTTGACATCTTGTCGTGAC
* * * * * *
14939481 ATGTTGCCATGTTGTTGTAGTATTATAGAGTGACATGCCACT-CTCTAA----GGATGTCATTGA
61 ACGATG--A-GTTGTTGCAGTATTATAGGGTGACATGCCA-TGCTCTAATTTTAGATGTCGTTGA
* *
14939541 CATCTTGTTGTGACACATCACCATATTG
122 CATCTTGTTGTGACACGTCACCATGTTG
* * * *
14939569 TTGCAATATTATAAGGTGACATGCCACACTCCAAAGATGTTGTTGACATATTGTCGTGAGACGCT
1 TTGCAGTATTATAAGGTGACATGCCACACTCCAAAGATGTTGTTGACATCTTGTCGTGACACGAT
* * *
14939634 GAGTTGTTGCAGTATTATAGGGTGACACGCCACGCTTTAATTGTTAGATGTCGTTGACATCTTGT
66 GAGTTGTTGCAGTATTATAGGGTGACATGCCATGCTCTAATT-TTAGATGTCGTTGACATCTTGT
14939699 TGTGACACG
130 TGTGACACG
14939708 CCATTAGTAA
Statistics
Matches: 353, Mismatches: 64, Indels: 46
0.76 0.14 0.10
Matches are distributed among these distances:
144 1 0.00
145 66 0.19
146 51 0.14
147 2 0.01
148 25 0.07
150 88 0.25
153 63 0.18
154 1 0.00
155 23 0.07
157 1 0.00
158 31 0.09
159 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TTGCAGTATTATAAGGTGACATGCCACACTCCAAAGATGTTGTTGACATCTTGTCGTGACACGAT
GAGTTGTTGCAGTATTATAGGGTGACATGCCATGCTCTAATTTTAGATGTCGTTGACATCTTGTT
GTGACACGTCACCATGTTG
Found at i:14939448 original size:79 final size:78
Alignment explanation
Indices: 14939233--14939707 Score: 394
Period size: 79 Copynumber: 6.3 Consensus size: 78
14939223 TAAAGATATT
* * *** * * *
14939233 GTTGACATCTTGTTATGACATGCCACCATGTTGTTGCAGTATTATAAGGTGACATGCCACTCTCC
1 GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTCT
14939298 AA----AGATGTC
66 AATTTTAGATGTC
* ** * *** **
14939307 GTGGACATCTTGTCATGACTA-GATG--A-GTCACTGCAGTATTATAGGGTGACATGCCATGCTC
1 GTTGACATCTTGTTGTGAC-ACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTC
14939368 TAATTTTTAGATGTC
65 TAA-TTTTAGATGTC
* *
14939383 GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGTAGTATTATAGGGTGACACGCCACACTCT
1 GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTCT
* * *
14939448 AATTGTTAAATATT
66 AATT-TTAGATGTC
* * * *
14939462 GTTGACATCTTGTTGTGACATGTTGCCATGTTGTTGTAGTATTATAGAGTGACATGCCACTCTCT
1 GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTCT
*
14939527 AA----GGATGTC
66 AATTTTAGATGTC
* * ** * * * *
14939536 ATTGACATCTTGTTGTGACACATCACCATATTGTTGCAATATTATAAGGTGACATGCCACACTCC
1 GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTCT
*
14939601 AA----AGATGTT
66 AATTTTAGATGTC
* * * * * * *
14939610 GTTGACATATTGTCGTGAGACGCTG--A-GTTGTTGCAGTATTATAGGGTGACACGCCACGCTTT
1 GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTCT
14939672 AATTGTTAGATGTC
66 AATT-TTAGATGTC
14939686 GTTGACATCTTGTTGTGACACG
1 GTTGACATCTTGTTGTGACACG
14939708 CCATTAGTAA
Statistics
Matches: 318, Mismatches: 67, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
71 62 0.19
72 2 0.01
74 98 0.31
75 2 0.01
76 51 0.16
78 3 0.01
79 100 0.31
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (78 bp):
GTTGACATCTTGTTGTGACACGTTGCCATGTTGTTGCAGTATTATAGGGTGACATGCCACACTCT
AATTTTAGATGTC
Found at i:14941130 original size:81 final size:81
Alignment explanation
Indices: 14941009--14941275 Score: 211
Period size: 81 Copynumber: 3.3 Consensus size: 81
14940999 CAAGAGTGCA
* * * * *
14941009 TTGAGGATCATGGTCTTCTTTAACCTGAACTAATTTAAGGTTTCGATCATCTCCCGTAGCTGCCT
1 TTGAGGATCATGGTCTTCTTCAACCTAAACTAATTCAAGGTTTCCATCACCTCCCGTAGCTGCCT
*
14941074 CGATAACTGCATTAGC
66 CGACAACTGCATTAGC
* * * *
14941090 TTGAGGAAT-ATGGTCTTCTTCAGCCTAAACTTATTCAAGGTTTCCATCCCCTCCCGTAGCTGTC
1 TTGAGG-ATCATGGTCTTCTTCAACCTAAACTAATTCAAGGTTTCCATCACCTCCCGTAGCTGCC
*
14941154 TCGACAACT--ATATCGAC
65 TCGACAACTGCAT-TAG-C
* * * * * * ** * *
14941171 TTGAGGAACATGGTC-TCTTTTAGCCTCAATTGATTCAAGGTCCCCATCCCCTCCCGT-GACTAC
1 TTGAGGATCATGGTCTTC-TTCAACCTAAACTAATTCAAGGTTTCCATCACCTCCCGTAG-CTGC
* * *
14941234 ATCGACAATTGCATCAGC
64 CTCGACAACTGCATTAGC
* * *
14941252 TTGAGAAACATGGTCTCCTTCAAC
1 TTGAGGATCATGGTCTTCTTCAAC
14941276 ATCAACTGAT
Statistics
Matches: 149, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 135 0.91
82 4 0.03
83 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (81 bp):
TTGAGGATCATGGTCTTCTTCAACCTAAACTAATTCAAGGTTTCCATCACCTCCCGTAGCTGCCT
CGACAACTGCATTAGC
Found at i:14941286 original size:81 final size:80
Alignment explanation
Indices: 14941059--14941303 Score: 235
Period size: 81 Copynumber: 3.0 Consensus size: 80
14941049 TTTCGATCAT
* * * * * * *
14941059 CTCCCGTAGCTGCCTCGATAACTGCATTAGCTTGAGGAATATGGTCTTCTTCAGCCTAAACTTAT
1 CTCCCGTAGCTGACTCGACAACTGCATCAGCTTGAGGAACATGGTCTCCTTCAGCCTCAACTGAT
*
14941124 TCAAGGTTTCCATCCC
66 TCAAGG-TCCCATCCC
* ** * * *
14941140 CTCCCGTAGCTGTCTCGACAACTATATC-GACTTGAGGAACATGGTCTCTTTTAGCCTCAATTGA
1 CTCCCGTAGCTGACTCGACAACTGCATCAG-CTTGAGGAACATGGTCTCCTTCAGCCTCAACTGA
14941204 TTCAAGGTCCCCATCCC
65 TTCAAGGT-CCCATCCC
* * * *
14941221 CTCCCGT-GACT-ACATCGACAATTGCATCAGCTTGAGAAACATGGTCTCCTTCAACATCAACTG
1 CTCCCGTAG-CTGAC-TCGACAACTGCATCAGCTTGAGGAACATGGTCTCCTTCAGCCTCAACTG
* *
14941284 ATTGAATGGTCACATCCC
64 ATTCAA-GGTCCCATCCC
14941302 CT
1 CT
14941304 ACCACATCAT
Statistics
Matches: 133, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
80 4 0.03
81 125 0.94
82 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (80 bp):
CTCCCGTAGCTGACTCGACAACTGCATCAGCTTGAGGAACATGGTCTCCTTCAGCCTCAACTGAT
TCAAGGTCCCATCCC
Found at i:14942057 original size:151 final size:151
Alignment explanation
Indices: 14941779--14942291 Score: 561
Period size: 151 Copynumber: 3.4 Consensus size: 151
14941769 GGTCAACTAC
* * *
14941779 AATAACAAATATTACTATGTTATTCGATAATCAAACATGGAATTGTTGAACATAAACCATAAGAA
1 AATAACAAATATTACTATGTTATTCGATAATCAAATATGGAATTATTGAACATAAACCATAAAAA
* * * * * * * * *
14941844 CCGTCCTTACTAG-CGAATCATTACCACTATGTGTCTGAGCAGATCTTATCAATCATTGAGGAGT
66 CCATCCTTACTAGTAG-ATCATTACCACTATGCGTCTAAACAGGTCATGTCAGTCATTGAGGAGT
* *
14941908 TGTCTTCGCATGAGTTAATTGT
130 TGTCTTCGCATGGGTCAATTGT
* * *
14941930 AATAACAGATATTACTATGTTATTTGATAATCATATATGGAATTATTGAACATAAACCATAAAAA
1 AATAACAAATATTACTATGTTATTCGATAATCAAATATGGAATTATTGAACATAAACCATAAAAA
* * *
14941995 CCAT-CTTCACTAGTAGTTCATTACCACTATGCATCTAAACAGGTCATGTCAGTCATTAAGGAGT
66 CCATCCTT-ACTAGTAGATCATTACCACTATGCGTCTAAACAGGTCATGTCAGTCATTGAGGAGT
* *
14942059 TGT-TGTCACATGGGTCAATTGC
130 TGTCT-TCGCATGGGTCAATTGT
* * * * * *
14942081 AATAACATATATTACTGTGTTATTCGATAATCATATATGGAATTGTTGAACATAAACCATTATAA
1 AATAACAAATATTACTATGTTATTCGATAATCAAATATGGAATTATTGAACATAAACCATAAAAA
* * * * * * * *
14942146 CCATCCTTA-TCGGTAGCTCGTTACCACTGTACGTCTAAATAGGTCCTGTCAGTCATTGAGGAGA
66 CCATCCTTACT-AGTAGATCATTACCACTATGCGTCTAAACAGGTCATGTCAGTCATTGAGGAGT
14942210 TGTCGTT-GCATGGGTCAATT-T
130 TGTC-TTCGCATGGGTCAATTGT
* * * * *
14942231 CAATAACAAATATTACTGTATTATTTGATAATCAAATATGAAATTATTAAACATAAACCAT
1 -AATAACAAATATTACTATGTTATTCGATAATCAAATATGGAATTATTGAACATAAACCAT
14942292 TAGAACTGTT
Statistics
Matches: 307, Mismatches: 47, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
150 5 0.02
151 296 0.96
152 5 0.02
153 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (151 bp):
AATAACAAATATTACTATGTTATTCGATAATCAAATATGGAATTATTGAACATAAACCATAAAAA
CCATCCTTACTAGTAGATCATTACCACTATGCGTCTAAACAGGTCATGTCAGTCATTGAGGAGTT
GTCTTCGCATGGGTCAATTGT
Found at i:14943830 original size:31 final size:31
Alignment explanation
Indices: 14943756--14943830 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
14943746 AAAGAAATAT
* *
14943756 ATGTTGTTACACGTTATGAATACCAAGTAAA
1 ATGTTGTTACACGCTATGAAGACCAAGTAAA
* *
14943787 ATGTTCTTACACGCTATGCAGACCAAGTAAA
1 ATGTTGTTACACGCTATGAAGACCAAGTAAA
*
14943818 ATGTTGTAACACG
1 ATGTTGTTACACG
14943831 GCAACCCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (31 bp):
ATGTTGTTACACGCTATGAAGACCAAGTAAA
Found at i:14944754 original size:23 final size:23
Alignment explanation
Indices: 14944724--14945101 Score: 239
Period size: 23 Copynumber: 16.4 Consensus size: 23
14944714 TGTCACATAT
* *
14944724 ATTCTCACCATGTCGTGTCACAA
1 ATTCTCACCATGCCGTGTCACAC
14944747 ATTCTCACCAT-CTCGTGTCACAC
1 ATTCTCACCATGC-CGTGTCACAC
* * *
14944770 ATTCTCACCATGCCATCTCACAA
1 ATTCTCACCATGCCGTGTCACAC
** *
14944793 ATTCTCACCATAACGTGTCACAT
1 ATTCTCACCATGCCGTGTCACAC
* * *
14944816 ATTCACATCATGACGTGT--CAC
1 ATTCTCACCATGCCGTGTCACAC
* * * *
14944837 ATTCTCA-CACCGGCATGTCACAT
1 ATTCTCACCA-TGCCGTGTCACAC
***
14944860 ATTCTCACCATGCCACATCACAC
1 ATTCTCACCATGCCGTGTCACAC
* * * * *
14944883 -TTCCCACCATGCCATGTGATAT
1 ATTCTCACCATGCCGTGTCACAC
*
14944905 ATTCTCACCATGCCGTGTAACAC
1 ATTCTCACCATGCCGTGTCACAC
* *
14944928 ATTATCACCATGCCGTCTCACAC
1 ATTCTCACCATGCCGTGTCACAC
*
14944951 ATTCTCACCATGCTGTGTCACAC
1 ATTCTCACCATGCCGTGTCACAC
* *
14944974 ATTCCCACCATGTCGTGTCATGATCCAAC
1 ATTCTCACCATGCCGTGTC---A--C-AC
** * * *
14945003 CGTGTCA-CA-GCCATGTCACAT
1 ATTCTCACCATGCCGTGTCACAC
* **
14945024 ATTCTCATCATGTTGTGTCACAC
1 ATTCTCACCATGCCGTGTCACAC
* * *
14945047 GTTCTCACCATGCCATGTCACAA
1 ATTCTCACCATGCCGTGTCACAC
* * *
14945070 ATTCTCATCATGTCGTGTGACAC
1 ATTCTCACCATGCCGTGTCACAC
*
14945093 ATTCCCACC
1 ATTCTCACC
14945102 GTGGCATGTC
Statistics
Matches: 268, Mismatches: 72, Indels: 30
0.72 0.19 0.08
Matches are distributed among these distances:
20 2 0.01
21 18 0.07
22 19 0.07
23 210 0.78
24 4 0.01
26 1 0.00
27 6 0.02
28 3 0.01
29 5 0.02
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.29
Consensus pattern (23 bp):
ATTCTCACCATGCCGTGTCACAC
Found at i:14945112 original size:119 final size:119
Alignment explanation
Indices: 14944893--14945113 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 119
14944883 TTCCCACCAT
* * * *
14944893 GCCATGTGATATATTCTCACCATGCCGTGTAACACATTATCACCATGCCGTCTCACACATTCTCA
1 GCCATGTCACATATTCTCACCATGCCGTGTAACACATTATCACCATGCCATCTCACAAATTCTCA
* *
14944958 CCATGCTGTGTCACACATTCCCACCATGTCGTGTCATGATCCAACCGTGTCACA
66 CCATGCTGTGTCACACATTCCCACCATGGCATGTCATGATCCAACCGTGTCACA
* ** * * * *
14945012 GCCATGTCACATATTCTCATCATGTTGTGTCACACGTTCTCACCATGCCATGTCACAAATTCTCA
1 GCCATGTCACATATTCTCACCATGCCGTGTAACACATTATCACCATGCCATCTCACAAATTCTCA
* * *
14945077 TCATG-TCGTGTGACACATTCCCACCGTGGCATGTCAT
66 CCATGCT-GTGTCACACATTCCCACCATGGCATGTCAT
14945114 TTACTCTAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
118 1 0.01
119 84 0.99
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (119 bp):
GCCATGTCACATATTCTCACCATGCCGTGTAACACATTATCACCATGCCATCTCACAAATTCTCA
CCATGCTGTGTCACACATTCCCACCATGGCATGTCATGATCCAACCGTGTCACA
Found at i:14945168 original size:23 final size:23
Alignment explanation
Indices: 14945142--14945218 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
14945132 TATCACAATT
*
14945142 GTGTCACAGATTCTCACCAT-TCC
1 GTGTCACACATTCTCACCATGT-C
*
14945165 GTGTCACACATTCTCACCATGTT
1 GTGTCACACATTCTCACCATGTC
* * *
14945188 GTGTCACATATTTTCACCATGGC
1 GTGTCACACATTCTCACCATGTC
*
14945211 ATGTCACA
1 GTGTCACA
14945219 AACTCTAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (23 bp):
GTGTCACACATTCTCACCATGTC
Found at i:14945242 original size:104 final size:104
Alignment explanation
Indices: 14945036--14945230 Score: 257
Period size: 104 Copynumber: 1.9 Consensus size: 104
14945026 TCTCATCATG
* *
14945036 TTGTGTCACACGTTCTCACCATGCCATGTCACAAATTCTCATCATGTCGTGTGACACATTCCCAC
1 TTGTGTCACACGTTCTCACCATGCCATGTCACAAATTCTCACCATGTCGTGTCACACATTCCCAC
* ***
14945101 CGTGGCATGTCATTTACTCTAAACCCTACCATATCACAA
66 CATGGCATGTCACAAACTCTAAACCCTACCATATCACAA
* * * * * **
14945140 TTGTGTCACA-GATTCTCACCATTCCGTGTCACACATTCTCACCATGTTGTGTCACATATTTTCA
1 TTGTGTCACACG-TTCTCACCATGCCATGTCACAAATTCTCACCATGTCGTGTCACACATTCCCA
14945204 CCATGGCATGTCACAAACTCTAAACCC
65 CCATGGCATGTCACAAACTCTAAACCC
14945231 AGCCATGTCA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
103 1 0.01
104 76 0.99
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (104 bp):
TTGTGTCACACGTTCTCACCATGCCATGTCACAAATTCTCACCATGTCGTGTCACACATTCCCAC
CATGGCATGTCACAAACTCTAAACCCTACCATATCACAA
Found at i:14959436 original size:22 final size:21
Alignment explanation
Indices: 14959395--14959442 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
14959385 GTTTACTTAA
*
14959395 TATGAAAATATTATCTATATT
1 TATGAAAATATTATCAATATT
14959416 CTATGAAAATATTAAT-AATATT
1 -TATGAAAATATT-ATCAATATT
14959438 TATGA
1 TATGA
14959443 TTTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
TATGAAAATATTATCAATATT
Found at i:14960027 original size:2 final size:2
Alignment explanation
Indices: 14960020--14960062 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
14960010 TGNTCTATTT
14960020 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14960060 TA T
1 TA T
14960063 CTCAAGAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14960044 original size:19 final size:19
Alignment explanation
Indices: 14960020--14960062 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
14960010 TGNTCTATTT
14960020 TATATATATATATATATAA
1 TATATATATATATATATAA
*
14960039 TATATATATATATATATAT
1 TATATATATATATATATAA
14960058 TATAT
1 TATAT
14960063 CTCAAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATATATATATATATAA
Found at i:14972475 original size:21 final size:21
Alignment explanation
Indices: 14972450--14972494 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
14972440 AGTTTTATGT
*
14972450 TTTCAAAC-AAAATTTGCATGG
1 TTTCAAACTAAAA-TAGCATGG
14972471 TTTCAAACTAAAATAGCATGG
1 TTTCAAACTAAAATAGCATGG
14972492 TTT
1 TTT
14972495 ATTAAATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTCAAACTAAAATAGCATGG
Found at i:14975205 original size:2 final size:2
Alignment explanation
Indices: 14975198--14975232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14975188 TTGCATAAAT
14975198 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14975233 TATATAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14975379 original size:37 final size:37
Alignment explanation
Indices: 14975309--14975380 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
14975299 CTAGAGTCAT
* *
14975309 CGTGTGCATCCCCCACATCATGCAGAGCTAATATCGG
1 CGTGTGCATCCCCCACATCACGCACAGCTAATATCGG
**
14975346 CGTGTGCATCCCCCACATTGCGCACAGGC-AATATC
1 CGTGTGCATCCCCCACATCACGCACA-GCTAATATC
14975381 ATCATCCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.93
38 2 0.07
ACGTcount: A:0.24, C:0.35, G:0.21, T:0.21
Consensus pattern (37 bp):
CGTGTGCATCCCCCACATCACGCACAGCTAATATCGG
Found at i:14975977 original size:20 final size:20
Alignment explanation
Indices: 14975952--14975993 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
14975942 GGAAGAAGAA
14975952 GAAGAAGCTGCTGGAAAAAT
1 GAAGAAGCTGCTGGAAAAAT
*
14975972 GAAGAAGCTGCTGGAGAAAT
1 GAAGAAGCTGCTGGAAAAAT
14975992 GA
1 GA
14975994 GATACTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.33, T:0.14
Consensus pattern (20 bp):
GAAGAAGCTGCTGGAAAAAT
Found at i:14990652 original size:27 final size:28
Alignment explanation
Indices: 14990621--14990679 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
14990611 AGAGATTTTA
* * *
14990621 AAATATATGAGTAAATAGAATAA-AAAT
1 AAATAAATGAATAAAAAGAATAATAAAT
*
14990648 AAATAAATGAATAAAAATAATAATAAAT
1 AAATAAATGAATAAAAAGAATAATAAAT
14990676 AAAT
1 AAAT
14990680 TGAAAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (28 bp):
AAATAAATGAATAAAAAGAATAATAAAT
Found at i:14990661 original size:18 final size:19
Alignment explanation
Indices: 14990632--14990678 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
14990622 AATATATGAG
14990632 TAAATAGAATAAAAATAAA
1 TAAATAGAATAAAAATAAA
14990651 TAAAT-GAATAAAAAT-AA
1 TAAATAGAATAAAAATAAA
14990668 T-AATA-AATAAA
1 TAAATAGAATAAA
14990679 TTGAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 10 0.37
19 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
TAAATAGAATAAAAATAAA
Found at i:14991257 original size:14 final size:14
Alignment explanation
Indices: 14991238--14991265 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14991228 CTATGAAAAT
14991238 ATTACTAATATTTA
1 ATTACTAATATTTA
14991252 ATTACTAATATTTA
1 ATTACTAATATTTA
14991266 TTGAATTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTACTAATATTTA
Found at i:14995454 original size:21 final size:21
Alignment explanation
Indices: 14995429--14995473 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
14995419 AGTTTTATGT
*
14995429 TTTCAAAC-AAAATTTGCATGG
1 TTTCAAACTAAAA-TAGCATGG
14995450 TTTCAAACTAAAATAGCATGG
1 TTTCAAACTAAAATAGCATGG
14995471 TTT
1 TTT
14995474 ATTAAATACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (21 bp):
TTTCAAACTAAAATAGCATGG
Found at i:15005752 original size:16 final size:15
Alignment explanation
Indices: 15005731--15005764 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15005721 GAAGAGAGAG
15005731 AGAAAGAAACAAGAAA
1 AGAAAGAAACAA-AAA
*
15005747 AGAAAGAAAGAAAAA
1 AGAAAGAAACAAAAA
15005762 AGA
1 AGA
15005765 GTGGGCATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAGAAACAAAAA
Found at i:15006143 original size:2 final size:2
Alignment explanation
Indices: 15006131--15006170 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
15006121 ATCGTTTTGA
*
15006131 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15006171 GTTTATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15012925 original size:28 final size:28
Alignment explanation
Indices: 15012873--15012927 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
15012863 AGACAAGTGT
**
15012873 CCTGGTGGTGGAAAATTACTGTTTTGCC
1 CCTGGTGGTGGAAAATTACCATTTTGCC
15012901 CCTGG-GGTGGTAAAATTACCATTTTGC
1 CCTGGTGGTGG-AAAATTACCATTTTGC
15012928 TCCTATGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACCATTTTGCC
Found at i:15018319 original size:5 final size:5
Alignment explanation
Indices: 15018315--15018344 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
15018305 CTATTCAACC
*
15018315 TAACC TAACT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT
15018345 AGGGGCCACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
TAACT
Found at i:15018422 original size:22 final size:22
Alignment explanation
Indices: 15018379--15018422 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15018369 TTTAAAATAA
* *
15018379 CTTTAAAACTAAAAACTTTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
15018401 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
15018423 ACCAATCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:15020337 original size:28 final size:28
Alignment explanation
Indices: 15020284--15020337 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15020274 TGGACAAGTG
**
15020284 TCCTAGTGGTGGAAAATTACTGTTTTAC
1 TCCTAGTGGTGGAAAATTACCATTTTAC
15020312 TCCTAG-GGTGGCAAAATTACCATTTT
1 TCCTAGTGGTGG-AAAATTACCATTTT
15020338 GGCCCTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (28 bp):
TCCTAGTGGTGGAAAATTACCATTTTAC
Found at i:15022061 original size:16 final size:16
Alignment explanation
Indices: 15022040--15022078 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15022030 ATTTAGAGAG
*
15022040 AATAAAATAAATAA-AT
1 AATAAAAT-AATAAGAA
15022056 AATAAAATAATAAGAA
1 AATAAAATAATAAGAA
15022072 AATAAAA
1 AATAAAA
15022079 GAATTGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AATAAAATAATAAGAA
Found at i:15028334 original size:21 final size:21
Alignment explanation
Indices: 15028308--15028350 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15028298 TTAATTATTG
15028308 AATAATTTTAGTATATTTTAT
1 AATAATTTTAGTATATTTTAT
*
15028329 AATAATTTTTGTATATTTTAT
1 AATAATTTTAGTATATTTTAT
15028350 A
1 A
15028351 GCAAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (21 bp):
AATAATTTTAGTATATTTTAT
Found at i:15028658 original size:76 final size:77
Alignment explanation
Indices: 15028530--15028677 Score: 219
Period size: 76 Copynumber: 1.9 Consensus size: 77
15028520 TTCAAGGAAA
*
15028530 AAAATAAATTAGATTTATGGTTCCTATCCTAAATCATTGGGGTTTCAAGATTACGTTTAAATGTA
1 AAAATAAATTAGATTTATGGTTCATATCCTAAATCATTGGGGTTTCAAGATTAC-TTTAAATGTA
15028595 AACATTTTACGTT
65 AACATTTTACGTT
** * * *
15028608 AAAA-AAA-TAGATTTATGGTTCATATTTTGAATCATTGGGGTTTCAAGATTACTTTTAATGTAG
1 AAAATAAATTAGATTTATGGTTCATATCCTAAATCATTGGGGTTTCAAGATTACTTTAAATGTAA
15028671 ACATTTT
66 ACATTTT
15028678 GCTATTAGTT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
75 16 0.25
76 41 0.64
77 3 0.05
78 4 0.06
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.41
Consensus pattern (77 bp):
AAAATAAATTAGATTTATGGTTCATATCCTAAATCATTGGGGTTTCAAGATTACTTTAAATGTAA
ACATTTTACGTT
Found at i:15037243 original size:15 final size:15
Alignment explanation
Indices: 15037216--15037261 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
15037206 TGATAGGCAA
15037216 TACGTGACTGAATAT
1 TACGTGACTGAATAT
** *
15037231 TGGGTGCCTGAATAT
1 TACGTGACTGAATAT
15037246 TACGTGACTGAATAT
1 TACGTGACTGAATAT
15037261 T
1 T
15037262 TATTGAGAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (15 bp):
TACGTGACTGAATAT
Found at i:15037323 original size:118 final size:118
Alignment explanation
Indices: 15037115--15037349 Score: 359
Period size: 118 Copynumber: 2.0 Consensus size: 118
15037105 TTTGGCATTA
* *
15037115 GGTGCCTGAATATTACGTGACTAGATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACG
1 GGTGCCTGAATATTACGTGACTAGATATTTATTGAGAATTGCGTGAGTTCTTTATAGGCATTACG
* *
15037180 TTACTAAATATTTGTTGAGCGTTGCGTGATAGGCA-AT-ACGTGACTGAATATTG
66 TGACTAAATATTTGTTGAGCGTTGCGTGACA-G-ATATAACGTGACTGAATATTG
*
15037233 GGTGCCTGAATATTACGTGACT-GAATATTTATTGAGAATTGTGTGAGTTCTTTATAGGCATTAC
1 GGTGCCTGAATATTACGTGACTAG-ATATTTATTGAGAATTGCGTGAGTTCTTTATAGGCATTAC
* *
15037297 GTGATTGAATATTTGTTGAGCGTTGCGTGACAGATATAACGTGACTGAATATT
65 GTGACTAAATATTTGTTGAGCGTTGCGTGACAGATATAACGTGACTGAATATT
15037350 TGTTGAGCAT
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
116 1 0.01
117 4 0.04
118 102 0.95
ACGTcount: A:0.26, C:0.11, G:0.25, T:0.37
Consensus pattern (118 bp):
GGTGCCTGAATATTACGTGACTAGATATTTATTGAGAATTGCGTGAGTTCTTTATAGGCATTACG
TGACTAAATATTTGTTGAGCGTTGCGTGACAGATATAACGTGACTGAATATTG
Found at i:15039124 original size:118 final size:116
Alignment explanation
Indices: 15038729--15039092 Score: 517
Period size: 118 Copynumber: 3.1 Consensus size: 116
15038719 GCGGTGCGTG
* *
15038729 ACTGACTTGTGCAATTCATATGTTATTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGA
1 ACTGACTTGTGCAATTCATATGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGTGTGA
*
15038794 CTGGTTTTTATATATTGCGTTACCTGTTG----TA--GCGAGAGTGGTGGC
66 CTGGTTTTTATATATTGCGTGACCTGTTGTTATTATTGCGAGAGTGGTGGC
* * *
15038839 ACGTGACTTGTGCAATTCATATGTTGTTTTGAGGCTTTTATTCAGTAGTTTTTTAGACCTGTGTG
1 AC-TGACTTGTGCAATTCATATGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGTGTG
15038904 ACTGGTTTTTATATATTGCGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGC
65 ACTGGTTTTTATATATTGCGTGACCTGTTGTTAT-TATTGCGAGAGTGGTGGC
* *
15038957 ACGTGACTTGTGTAATTCATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGTGTG
1 AC-TGACTTGTGCAATTCATATGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGTGTG
* * * *
15039022 ACTGGTTTTTATATATTACATGACCTGTTGTTATATATTGCGAGAGTTGTGATGT
65 ACTGGTTTTTATATATTGCGTGACCTGTTGTTAT-TATTGCGAGAGTGGTG--GC
15039077 A-TGACTTGTGCAATTC
1 ACTGACTTGTGCAATTC
15039093 GCCTTTTGTT
Statistics
Matches: 227, Mismatches: 17, Indels: 12
0.89 0.07 0.05
Matches are distributed among these distances:
110 2 0.01
111 86 0.38
116 2 0.01
118 135 0.59
120 2 0.01
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.45
Consensus pattern (116 bp):
ACTGACTTGTGCAATTCATATGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGTGTGA
CTGGTTTTTATATATTGCGTGACCTGTTGTTATTATTGCGAGAGTGGTGGC
Found at i:15045543 original size:23 final size:23
Alignment explanation
Indices: 15045513--15045569 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
15045503 ACAATAGGTG
* *
15045513 AGTCACGCGATGCAAGCTCAACT
1 AGTCACGCGATCCAAGATCAACT
* * *
15045536 AGTCACGCGATCCCATATCATCT
1 AGTCACGCGATCCAAGATCAACT
15045559 AGTCACGCGAT
1 AGTCACGCGAT
15045570 TCAATAAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (23 bp):
AGTCACGCGATCCAAGATCAACT
Found at i:15046065 original size:92 final size:92
Alignment explanation
Indices: 15045931--15046217 Score: 432
Period size: 92 Copynumber: 3.1 Consensus size: 92
15045921 ATGTGGATTA
* * *
15045931 GTGACGCGATTCCATATTAACTAACGACGTGATTCAAAATTTAGTACTCGCGTGACTACATAACA
1 GTGACGCGATTCCATATTAACTACCGACGTGATTCAACATTTAGTACTCGCGTGACTCCATAACA
*
15045996 AATACTCTTGCGAATCAATATCAACTG
66 AATACTCTCGCGAATCAATATCAACTG
* *
15046023 GTGACGCAATTCCATATTAACTACCGATGTGATTCAACATTTAGTACTCGCGTGACTCCATAACA
1 GTGACGCGATTCCATATTAACTACCGACGTGATTCAACATTTAGTACTCGCGTGACTCCATAACA
* * *
15046088 AATACTCCCGTGAATCAATATCAATTG
66 AATACTCTCGCGAATCAATATCAACTG
* * *
15046115 GTGACGCGTTTCCATGTTAACTACCGACGTGATTCAACATTTAGTACTCGCATGACTCCATAACA
1 GTGACGCGATTCCATATTAACTACCGACGTGATTCAACATTTAGTACTCGCGTGACTCCATAACA
*
15046180 AATACT-TCCACGAATCAATATCAACTG
66 AATACTCT-CGCGAATCAATATCAACTG
*
15046207 GTGACGTGATT
1 GTGACGCGATT
15046218 TCATTCCCAC
Statistics
Matches: 174, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
92 174 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (92 bp):
GTGACGCGATTCCATATTAACTACCGACGTGATTCAACATTTAGTACTCGCGTGACTCCATAACA
AATACTCTCGCGAATCAATATCAACTG
Found at i:15046437 original size:23 final size:23
Alignment explanation
Indices: 15046405--15046470 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
15046395 TTATCACATG
*
15046405 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
15046429 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
15046455 AATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
15046471 GTTAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.21
23 4 0.11
24 4 0.11
26 22 0.58
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.23
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:15046443 original size:26 final size:26
Alignment explanation
Indices: 15046412--15046463 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15046402 ATGAATGAAT
*
15046412 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
15046438 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
15046464 GAATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:15048166 original size:69 final size:69
Alignment explanation
Indices: 15048065--15048223 Score: 210
Period size: 69 Copynumber: 2.3 Consensus size: 69
15048055 GCTCATGTAA
* * *
15048065 TGACTGCATATGCATCTGCATCGCCCGCTGGATCTCCAACTGCATTAACTGTTGGATCTCCAACT
1 TGACTGCATCTGCATCTGCATCGCCCGCTGGATCTCCAACTGCATTAACTGCTGGATCTCAAACT
*
15048130 ACAT
66 ACAC
* * * * *
15048134 TGACTACATCTGCATCTGCATCTCCCGTTGGATCTTCAACTGCATTGACTGCTGGATCTCAAACT
1 TGACTGCATCTGCATCTGCATCGCCCGCTGGATCTCCAACTGCATTAACTGCTGGATCTCAAACT
*
15048199 GCAC
66 ACAC
* *
15048203 TGACTGTATCTGCATGTGCAT
1 TGACTGCATCTGCATCTGCAT
15048224 ATTCGTCTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
69 77 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (69 bp):
TGACTGCATCTGCATCTGCATCGCCCGCTGGATCTCCAACTGCATTAACTGCTGGATCTCAAACT
ACAC
Found at i:15048189 original size:24 final size:24
Alignment explanation
Indices: 15048091--15048208 Score: 91
Period size: 24 Copynumber: 5.0 Consensus size: 24
15048081 TGCATCGCCC
*
15048091 GCTGGATCTCCAACTGCATTAACT
1 GCTGGATCTCCAACTGCATTGACT
* *
15048115 GTTGGATCTCCAACTACATTGACT
1 GCTGGATCTCCAACTGCATTGACT
* * * * *
15048139 AC---ATCTGCATCTGCATCT-CCC
1 GCTGGATCTCCAACTGCAT-TGACT
* *
15048160 GTTGGATCTTCAACTGCATTGACT
1 GCTGGATCTCCAACTGCATTGACT
* *
15048184 GCTGGATCTCAAACTGCACTGACT
1 GCTGGATCTCCAACTGCATTGACT
15048208 G
1 G
15048209 TATCTGCATG
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
21 12 0.17
22 1 0.01
23 1 0.01
24 55 0.80
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.31
Consensus pattern (24 bp):
GCTGGATCTCCAACTGCATTGACT
Found at i:15054709 original size:11 final size:11
Alignment explanation
Indices: 15054692--15054735 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
15054682 TATGGCCGGC
15054692 CAAAGGAA-AA
1 CAAAGGAAGAA
15054702 CAAAAGGAAGAA
1 C-AAAGGAAGAA
15054714 CAAAGGAAG-A
1 CAAAGGAAGAA
15054724 -AAA-GAAGAA
1 CAAAGGAAGAA
15054733 CAA
1 CAA
15054736 GAACCCTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 4 0.13
9 4 0.13
10 4 0.13
11 15 0.50
12 3 0.10
ACGTcount: A:0.68, C:0.09, G:0.23, T:0.00
Consensus pattern (11 bp):
CAAAGGAAGAA
Found at i:15063759 original size:27 final size:29
Alignment explanation
Indices: 15063714--15063777 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
15063704 CAATTTTTAA
*
15063714 TTATAATTTACTTA-TTTTTAGTT-GTT-T
1 TTATAA-TTACTTACTTTTAAGTTAGTTAT
15063741 TTATAATTACGTTACTTTTAAGTTAGTTAT
1 TTATAATTAC-TTACTTTTAAGTTAGTTAT
15063771 TT-TAATT
1 TTATAATT
15063778 TTATGTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 4 0.12
27 9 0.28
28 8 0.25
29 8 0.25
30 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.08, T:0.61
Consensus pattern (29 bp):
TTATAATTACTTACTTTTAAGTTAGTTAT
Found at i:15063785 original size:20 final size:20
Alignment explanation
Indices: 15063751--15063798 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
15063741 TTATAATTAC
*
15063751 GTTACTTTTAAGTTAGTT-AT
1 GTTAATTTTAAGTTA-TTCAT
* *
15063771 TTTAATTTTATGTTATTCAT
1 GTTAATTTTAAGTTATTCAT
15063791 GTTAATTT
1 GTTAATTT
15063799 GGTTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.60
Consensus pattern (20 bp):
GTTAATTTTAAGTTATTCAT
Found at i:15068428 original size:12 final size:12
Alignment explanation
Indices: 15068408--15068441 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
15068398 ACTTGGATTT
15068408 TTTTTATTTTAA
1 TTTTTATTTTAA
*
15068420 TTTTAATTTTAA
1 TTTTTATTTTAA
15068432 TTTTTATTTT
1 TTTTTATTTT
15068442 TTGTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:15068442 original size:6 final size:6
Alignment explanation
Indices: 15068408--15068441 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15068398 ACTTGGATTT
* *
15068408 TTTTTA TTTTAA TTTTAA TTTTAA TTTTTA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
15068442 TTGTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAA
Found at i:15068769 original size:19 final size:20
Alignment explanation
Indices: 15068719--15068762 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
15068709 TTTGGGGGAG
15068719 TAGTTATATTTTGCATGTTT
1 TAGTTATATTTTGCATGTTT
*
15068739 TATTTATATTTTGCATG-TT
1 TAGTTATATTTTGCATGTTT
15068758 TAGTT
1 TAGTT
15068763 GTGTTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.20, C:0.05, G:0.14, T:0.61
Consensus pattern (20 bp):
TAGTTATATTTTGCATGTTT
Found at i:15070080 original size:20 final size:20
Alignment explanation
Indices: 15070046--15070093 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
15070036 TAATAATTAG
*
15070046 GTTACTTTTAAGTTAGTT-AT
1 GTTAATTTTAAGTTA-TTCAT
* *
15070066 TTTAATTTTATGTTATTCAT
1 GTTAATTTTAAGTTATTCAT
15070086 GTTAATTT
1 GTTAATTT
15070094 GGTTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.60
Consensus pattern (20 bp):
GTTAATTTTAAGTTATTCAT
Found at i:15075025 original size:49 final size:51
Alignment explanation
Indices: 15074958--15075054 Score: 137
Period size: 50 Copynumber: 1.9 Consensus size: 51
15074948 TGGCCATTCT
* * *
15074958 AAAATTTTTAG-AAGTTTTTATTTATTATATATTTTTTAATGG-TCCCTTTC
1 AAAATTTATAGAAATTTTTTATTTACTATATA-TTTTTAATGGTTCCCTTTC
15075008 AAAATTTAT-GAAATTTTTTATTTACTATATATTTTTAATGGTTCCCT
1 AAAATTTATAGAAATTTTTTATTTACTATATATTTTTAATGGTTCCCT
15075055 CAAAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 11 0.26
50 31 0.74
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (51 bp):
AAAATTTATAGAAATTTTTTATTTACTATATATTTTTAATGGTTCCCTTTC
Found at i:15075430 original size:7 final size:7
Alignment explanation
Indices: 15075420--15075464 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
15075410 TATTTAACTA
15075420 TTTATAT
1 TTTATAT
15075427 TTTATAT
1 TTTATAT
*
15075434 ATTATAGT
1 TTTATA-T
15075442 TTTATAT
1 TTTATAT
*
15075449 TTAATAT
1 TTTATAT
*
15075456 TTTAAAT
1 TTTATAT
15075463 TT
1 TT
15075465 AAATAGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (7 bp):
TTTATAT
Found at i:15075435 original size:28 final size:29
Alignment explanation
Indices: 15075403--15075459 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
15075393 TAAAATCTTG
*
15075403 TATATTGTA-TTTAACTATTT-ATATTTTA
1 TATATTATAGTTTAA-TATTTAATATTTTA
*
15075431 TATATTATAGTTTTATATTTAATATTTTA
1 TATATTATAGTTTAATATTTAATATTTTA
15075460 AATTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (29 bp):
TATATTATAGTTTAATATTTAATATTTTA
Found at i:15075436 original size:15 final size:15
Alignment explanation
Indices: 15075418--15075459 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15075408 TGTATTTAAC
15075418 TATTTATATTTTATA
1 TATTTATATTTTATA
15075433 TA-TTATAGTTTTATA
1 TATTTATA-TTTTATA
*
15075448 T-TTAATATTTTA
1 TATTTATATTTTA
15075460 AATTTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTATATTTTATA
Found at i:15075466 original size:14 final size:13
Alignment explanation
Indices: 15075418--15075465 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
15075408 TGTATTTAAC
15075418 TATTTATATTTTA
1 TATTTATATTTTA
15075431 TATATTATAGTTTTA
1 TAT-TTATA-TTTTA
15075446 TATTTAATATTTTA
1 TATTT-ATATTTTA
*
15075460 AATTTA
1 TATTTA
15075466 AATAGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:15092363 original size:22 final size:22
Alignment explanation
Indices: 15092338--15092381 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15092328 TTTAAGATAA
*
15092338 CTTTAAACCCAAAAACTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
*
15092360 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAACTCTGAT
15092382 ACCAACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTGAT
Found at i:15098444 original size:72 final size:72
Alignment explanation
Indices: 15098365--15098509 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 72
15098355 ATCAAGAGTA
* *
15098365 TGACAATTTCAATTCACACTACTTTCTCTCTACCAGATACCATTAGTGATCCATTAATTAGAATA
1 TGACAATTTCAATTCACACTACTTTATCTCTACCAAATACCATTAGTGATCCATTAATTAGAATA
15098430 AATAAGG
66 AATAAGG
* * *
15098437 TGACAATTTCAATTCACGCTACTTTATCTCTACCAAATAGCATTAGTGATCCGTTAATTAGAATA
1 TGACAATTTCAATTCACACTACTTTATCTCTACCAAATACCATTAGTGATCCATTAATTAGAATA
*
15098502 GATAAGG
66 AATAAGG
15098509 T
1 T
15098510 CTTCATTGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (72 bp):
TGACAATTTCAATTCACACTACTTTATCTCTACCAAATACCATTAGTGATCCATTAATTAGAATA
AATAAGG
Found at i:15100053 original size:37 final size:37
Alignment explanation
Indices: 15099976--15100059 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 37
15099966 TTGTGCTTGG
* * * * *
15099976 TCCTTAAAACGCATTTGGTTGTGAAAGTTGTGTTTGA
1 TCCTTAAAAGGCATTTAGTTGTGAAAGTTGGGCTTAA
* *
15100013 TCCTTAAAAGGCATTTAGTTGTGGAGGTTGGGCTTAA
1 TCCTTAAAAGGCATTTAGTTGTGAAAGTTGGGCTTAA
*
15100050 TCCTTTAAAG
1 TCCTTAAAAG
15100060 ATAGTGACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (37 bp):
TCCTTAAAAGGCATTTAGTTGTGAAAGTTGGGCTTAA
Found at i:15105163 original size:3 final size:3
Alignment explanation
Indices: 15105155--15105179 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15105145 ATTGAATGAC
15105155 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
15105180 GAAAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15106791 original size:2 final size:2
Alignment explanation
Indices: 15106784--15106812 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15106774 AATTGTAAAT
15106784 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15106813 AAGGTAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15119584 original size:21 final size:21
Alignment explanation
Indices: 15119560--15119615 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
15119550 AGGAAGAGTG
15119560 ATCTTTCACAGTGAAAAAGAA
1 ATCTTTCACAGTGAAAAAGAA
15119581 ATCTTTCACAGTGAAAAAGAA
1 ATCTTTCACAGTGAAAAAGAA
15119602 ATCTTTCACAGTGA
1 ATCTTTCACAGTGA
15119616 TTTCATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (21 bp):
ATCTTTCACAGTGAAAAAGAA
Found at i:15121665 original size:28 final size:29
Alignment explanation
Indices: 15121624--15121683 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
15121614 GTCTATGGGC
*
15121624 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
15121652 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
15121682 AA
1 AA
15121684 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:15125254 original size:18 final size:18
Alignment explanation
Indices: 15125224--15125258 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15125214 CATTTCTGTT
15125224 TTCTTTTCTTTTCTTTTC
1 TTCTTTTCTTTTCTTTTC
15125242 TTCTTCTTC-TTTCTTTT
1 TTCTT-TTCTTTTCTTTT
15125259 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCTTTTCTTTTCTTTTC
Found at i:15125322 original size:3 final size:3
Alignment explanation
Indices: 15125314--15125344 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
15125304 TTTTAGGTTT
15125314 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15125345 TTGGTGAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15125850 original size:49 final size:48
Alignment explanation
Indices: 15125765--15126001 Score: 188
Period size: 49 Copynumber: 5.0 Consensus size: 48
15125755 ACAACTTTGG
*
15125765 GAAAAACTCC-TCATCTCTAAATGAGGCTATGCAACTTTGAAAATAATT
1 GAAAAACTCCTTCATCTCTAAACGAGGCTATGCAACTTT-AAAATAATT
* * * * *
15125813 GAAAAAGCTCCTT-ATCTTTAAACGAGGTTATGTAAC-TTAACATGATT
1 GAAAAA-CTCCTTCATCTCTAAACGAGGCTATGCAACTTTAAAATAATT
* * * *
15125860 GGAAAAACT-CTTCATCTTTAAACGAAGCTATGCAACTTTTAAAAAAAAT
1 -GAAAAACTCCTTCATCTCTAAACGAGGCTATGCAAC-TTTAAAATAATT
* ** * * *
15125909 GGAAATGTTCTTCATCTCTAAACGAGGTTATGCAATTTTAAAA-AGATT
1 GAAAAACTCCTTCATCTCTAAACGAGGCTATGCAACTTTAAAATA-ATT
* * *
15125957 -AAAAA-ACC--CATCTCTAAATGAGGCTATGCAAC-TTAAAATGATT
1 GAAAAACTCCTTCATCTCTAAACGAGGCTATGCAACTTTAAAATAATT
15126000 GA
1 GA
15126002 GAATTTTCCT
Statistics
Matches: 150, Mismatches: 29, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
43 9 0.06
44 22 0.15
46 4 0.03
47 33 0.22
48 28 0.19
49 53 0.35
50 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (48 bp):
GAAAAACTCCTTCATCTCTAAACGAGGCTATGCAACTTTAAAATAATT
Found at i:15125931 original size:96 final size:96
Alignment explanation
Indices: 15125764--15125990 Score: 239
Period size: 96 Copynumber: 2.4 Consensus size: 96
15125754 CACAACTTTG
* * * *
15125764 GGAAAAACTCCTCATCTCTAAATGAGGCTATGCAACTTTGAAAATAATTGAAAAAGCTCCTTATC
1 GGAAAAACTCCTCATCTCTAAACGAAGCTATGCAACTTTGAAAAAAAATGAAAAAGCTCCTTATC
*
15125829 TTTAAACGAGGTTATGTAACTTAACATGATT
66 TCTAAACGAGGTTATGTAACTTAACATGATT
* * * * * *
15125860 GGAAAAACTCTTCATCTTTAAACGAAGCTATGCAACTTTTAAAAAAAATGGAAATG-TTCTTCAT
1 GGAAAAACTCCTCATCTCTAAACGAAGCTATGCAACTTTGAAAAAAAATGAAAAAGCTCCTT-AT
* * * *
15125924 CTCTAAACGAGGTTATGCAATTTTAAAAAGATT
65 CTCTAAACGAGGTTATGTAA-CTTAACATGATT
* * *
15125957 --AAAAA-ACC-CATCTCTAAATGAGGCTATGCAACTT
1 GGAAAAACTCCTCATCTCTAAACGAAGCTATGCAACTT
15125991 AAAATGATTG
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
93 23 0.21
94 1 0.01
95 9 0.08
96 67 0.61
97 9 0.08
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (96 bp):
GGAAAAACTCCTCATCTCTAAACGAAGCTATGCAACTTTGAAAAAAAATGAAAAAGCTCCTTATC
TCTAAACGAGGTTATGTAACTTAACATGATT
Found at i:15127460 original size:15 final size:16
Alignment explanation
Indices: 15127440--15127470 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
15127430 AGGATGGTTA
15127440 TTTTCTTTTT-TTTTC
1 TTTTCTTTTTATTTTC
15127455 TTTTCTTTTTATTTTC
1 TTTTCTTTTTATTTTC
15127471 CTGCATCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTCTTTTTATTTTC
Found at i:15129409 original size:19 final size:19
Alignment explanation
Indices: 15129387--15129424 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15129377 CCATCTAATT
*
15129387 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
15129406 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
15129425 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:15130813 original size:13 final size:13
Alignment explanation
Indices: 15130795--15130819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15130785 AAAGAAATTG
15130795 TGATTTTATAAAA
1 TGATTTTATAAAA
15130808 TGATTTTATAAA
1 TGATTTTATAAA
15130820 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:15133811 original size:32 final size:32
Alignment explanation
Indices: 15133737--15133811 Score: 75
Period size: 32 Copynumber: 2.3 Consensus size: 32
15133727 TTACAAATAA
*
15133737 TTATGAATTTTAATTAATTTAATTTATTATTTT
1 TTAT-AATTTTAATTAATTTAATTTATAATTTT
*
15133770 TTCCT-ATTTTAATT-ATTT-ATTTATAAATATTT
1 TT-ATAATTTTAATTAATTTAATTTAT-AAT-TTT
15133802 TTATAATTTT
1 TTATAATTTT
15133812 TACATAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
30 6 0.17
31 7 0.20
32 19 0.54
33 2 0.06
34 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (32 bp):
TTATAATTTTAATTAATTTAATTTATAATTTT
Found at i:15134084 original size:2 final size:2
Alignment explanation
Indices: 15134077--15134104 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15134067 GGCCTGAAAG
15134077 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15134105 TTTATTGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15134256 original size:21 final size:19
Alignment explanation
Indices: 15134230--15134268 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
15134220 TCTCTCCCTA
15134230 AAAATCTCCCTTTGTCTCTCT
1 AAAATC-CCCTTT-TCTCTCT
*
15134251 AAAATCCTCTTTTCTCTC
1 AAAATCCCCTTTTCTCTC
15134269 CTTTTTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.21, C:0.33, G:0.03, T:0.44
Consensus pattern (19 bp):
AAAATCCCCTTTTCTCTCT
Found at i:15134786 original size:3 final size:3
Alignment explanation
Indices: 15134778--15134820 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
15134768 TTCTCTAGTT
*
15134778 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15134821 GGTGAGACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15138359 original size:19 final size:19
Alignment explanation
Indices: 15138335--15138372 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15138325 CAATTTGACT
15138335 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
15138354 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
15138373 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:15138454 original size:28 final size:27
Alignment explanation
Indices: 15138417--15138469 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
15138407 TTGGAGTATA
*
15138417 GGGGCGAAATGATAATTTTGCCACCCAG
1 GGGGCAAAATGATAATTTTG-CACCCAG
*
15138445 GGGGCAAAATGGTAATTTTGCACCC
1 GGGGCAAAATGATAATTTTGCACCC
15138470 CCAGAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (27 bp):
GGGGCAAAATGATAATTTTGCACCCAG
Found at i:15139476 original size:21 final size:18
Alignment explanation
Indices: 15139452--15139496 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
15139442 GTTTAAATTA
15139452 TAAAATATTATGTTTTTCAAT
1 TAAAATATT-T-TTTTT-AAT
15139473 TAAAATATTTTTTTTAAT
1 TAAAATATTTTTTTTAAT
*
15139491 AAAAAT
1 TAAAAT
15139497 GAGATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 1 0.04
21 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TAAAATATTTTTTTTAAT
Found at i:15139495 original size:18 final size:21
Alignment explanation
Indices: 15139453--15139496 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
15139443 TTTAAATTAT
*
15139453 AAAATATTATGTTTTTCAATT
1 AAAATATTATGTTTTTCAATA
15139474 AAAATATT-T-TTTTT-AATA
1 AAAATATTATGTTTTTCAATA
15139492 AAAAT
1 AAAAT
15139497 GAGATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 5 0.23
20 1 0.05
21 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AAAATATTATGTTTTTCAATA
Found at i:15142853 original size:363 final size:360
Alignment explanation
Indices: 15142174--15142858 Score: 955
Period size: 363 Copynumber: 1.9 Consensus size: 360
15142164 TCACTTATAA
* * * *
15142174 TATACTCAATTTTTCAATTTAATAGTTGCGACATAGCTGATAACCTTGTGTGCTTAATGCAACCT
1 TATACTAAAATTTTCAATTTAATAATTGCGACATAGCTGATAACCTTGAGTGCTTAATGCAACCT
** *
15142239 GACCACAACAGTTCATTTGCATCATTCAAAAAGGAGAAGTTTGCTACTTTTGAGTTTAGACATTC
66 GACCACAACAGTTCATCCGCATCATTCAAAAAGGAGAAGTTTGCTACTTTCGAGTTTAGACATTC
* * * *
15142304 CATTTCACACCTTGACTCATTTTCATGATTGGCATTAAATTCACAATATAGAAATACAACGTCTT
131 CATCTCACACATTGACTCATTTTCATGATTGGCATTAAATTCAAAATATAGAAATACAACATCTT
* * *
15142369 TAACCATTATAACATAGGGATTTATGAAATCCTCATAACATATAGTTTGAATTTCAGCTTTGCTT
196 TAACCATCATAACATAGGGATTTATGAAATCCTCATAACATATAGTTTGAACTTCAGCTTTACTT
* * * * *
15142434 TTTGAAGATTGTTCAACTTTATAGTTTCCGTATATATCTCATATCATGTTAGCACTAATGAAACC
261 CTAGAAGATTGTTCAACTTTATAGTTTCCATATACATCTCATATCATGTAAGCACTAATGAAACC
15142499 CCTAATAATAAAGGTGCCGATAAACCTTATCATAT
326 CCTAATAATAAAGGTGCCGATAAACCTTATCATAT
* * *
15142534 TATACTAAAATTTTCAATTTAATAATTGTGACATAGTTGATAACCTTGAGTGCTTAGTGCAACCT
1 TATACTAAAATTTTCAATTTAATAATTGCGACATAGCTGATAACCTTGAGTGCTTAATGCAACCT
* *
15142599 GACCACAACGGTTCATCCGCATCATTCAAAAAAGAGTAGAAGTTTGCTACTTTCGAGTTTGGATC
66 GACCACAACAGTTCATCCGCATCATTC-AAAAAG-G-AGAAGTTTGCTACTTTCGAGTTTAGA-C
* *
15142664 -TTCTATCTCACGCATTGACTCATTTTCATGATTGGCATTAAATTCAAAATAT-GAAAATACAAC
127 ATTCCATCTCACACATTGACTCATTTTCATGATTGGCATTAAATTCAAAATATAG-AAATACAAC
* * * * *
15142727 ATCTTTAACCATCCTAGCTTATGGATTTATGAAATCCTCATGAA-ATATAGTTTGAACTTCATCT
191 ATCTTTAACCATCATAACATAGGGATTTATGAAATCCTCAT-AACATATAGTTTGAACTTCAGCT
* * ** *
15142791 TTACTTCTAGATGATTGTTCAACTTTATA-TTCTCCATGTACATCTCATATTGTGTAAGCACTAC
255 TTACTTCTAGAAGATTGTTCAACTTTATAGTT-TCCATATACATCTCATATCATGTAAGCACTAA
15142855 TGAA
319 TGAA
15142859 GCCTTATAAC
Statistics
Matches: 282, Mismatches: 36, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
360 82 0.29
361 6 0.02
362 4 0.01
363 187 0.66
364 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (360 bp):
TATACTAAAATTTTCAATTTAATAATTGCGACATAGCTGATAACCTTGAGTGCTTAATGCAACCT
GACCACAACAGTTCATCCGCATCATTCAAAAAGGAGAAGTTTGCTACTTTCGAGTTTAGACATTC
CATCTCACACATTGACTCATTTTCATGATTGGCATTAAATTCAAAATATAGAAATACAACATCTT
TAACCATCATAACATAGGGATTTATGAAATCCTCATAACATATAGTTTGAACTTCAGCTTTACTT
CTAGAAGATTGTTCAACTTTATAGTTTCCATATACATCTCATATCATGTAAGCACTAATGAAACC
CCTAATAATAAAGGTGCCGATAAACCTTATCATAT
Found at i:15145854 original size:29 final size:30
Alignment explanation
Indices: 15145820--15145880 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
15145810 GAATGACTCT
*
15145820 CTTTGGGATCC-TTAGGTAATGTTTTGCTA
1 CTTTGGGATCCTTTAGGTAATGTTTTACTA
*
15145849 CTTTGGGGTCCTTTAGGTAATGTTTTACTA
1 CTTTGGGATCCTTTAGGTAATGTTTTACTA
15145879 CT
1 CT
15145881 AAGTACTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.16, C:0.15, G:0.23, T:0.46
Consensus pattern (30 bp):
CTTTGGGATCCTTTAGGTAATGTTTTACTA
Found at i:15149553 original size:59 final size:59
Alignment explanation
Indices: 15149461--15149578 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
15149451 GAGGATTTTG
* * *
15149461 GATAATATCTTTTTTTCCAAATCCATTTTATCCCAATTTGACGTTGAATAATTTTTCAA
1 GATAATATCTTTTTGTCCAAATCCATTTTATCCCAATTTAACATTGAATAATTTTTCAA
*
15149520 GATAATATCTTTTTGTCCAAATCCATTTTATCCCAGTTTAACATTGAATAATTTTTCAA
1 GATAATATCTTTTTGTCCAAATCCATTTTATCCCAATTTAACATTGAATAATTTTTCAA
15149579 TACATCTTCA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (59 bp):
GATAATATCTTTTTGTCCAAATCCATTTTATCCCAATTTAACATTGAATAATTTTTCAA
Found at i:15151361 original size:14 final size:14
Alignment explanation
Indices: 15151330--15151371 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
15151320 AAAGTTATAA
*
15151330 AAATAATAAAAACTT
1 AAATAATAAAAA-AT
*
15151345 AAATAACAAAAAAT
1 AAATAATAAAAAAT
15151359 AAATAATAAAAAA
1 AAATAATAAAAAA
15151372 ATCATCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAATAAAAAAT
Found at i:15151372 original size:15 final size:15
Alignment explanation
Indices: 15151330--15151373 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
15151320 AAAGTTATAA
**
15151330 AAATAATAAAAACTT
1 AAATAATAAAAAAAT
*
15151345 AAATAA-CAAAAAAT
1 AAATAATAAAAAAAT
15151359 AAATAATAAAAAAAT
1 AAATAATAAAAAAAT
15151374 CATCAATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAAAAT
Found at i:15156651 original size:2 final size:2
Alignment explanation
Indices: 15156644--15156669 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15156634 AAAGTTTTAA
15156644 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
15156670 TTGGAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15161062 original size:61 final size:61
Alignment explanation
Indices: 15160910--15161163 Score: 325
Period size: 61 Copynumber: 4.2 Consensus size: 61
15160900 AAGGTCGATC
* * * *
15160910 CTTCCAGGATGGGAAATATGTCCTGTTTGGAACCATTTTTTGCTGCTGTTCCTTAACACTT
1 CTTCCAGGATGGGAAATCTGTCCTGTTTGGAACCAATTCTTGCTGCTGTTCCTTAACACCT
* * * * *
15160971 GTT-CAGGATGGGAAATCTGTCC-GATTTGGAACTAATTCTTGCTGCCGTTCCTTGACACTT
1 CTTCCAGGATGGGAAATCTGTCCTG-TTTGGAACCAATTCTTGCTGCTGTTCCTTAACACCT
* * * **
15161031 GTTCCAGGATGGGAAATCTGTCTTGTTTGGAACC-ATTCTTTGCTTCTGTTCCCCAACACCT
1 CTTCCAGGATGGGAAATCTGTCCTGTTTGGAACCAATTC-TTGCTGCTGTTCCTTAACACCT
* *
15161092 CTTCCAGGATGGGAAATCTGTCCTGTTTGGAACCATTTTTTGCTGCTGTTCCTTAACACCT
1 CTTCCAGGATGGGAAATCTGTCCTGTTTGGAACCAATTCTTGCTGCTGTTCCTTAACACCT
15161153 CTTCCAGGATG
1 CTTCCAGGATG
15161164 TTTGTTTCGG
Statistics
Matches: 166, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.01
60 56 0.34
61 106 0.64
62 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.37
Consensus pattern (61 bp):
CTTCCAGGATGGGAAATCTGTCCTGTTTGGAACCAATTCTTGCTGCTGTTCCTTAACACCT
Found at i:15174718 original size:28 final size:30
Alignment explanation
Indices: 15174655--15174719 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
15174645 GTAAATTTTT
15174655 AAAAATTACACTTTTACCCCCATAAAAGTG
1 AAAAATTACACTTTTACCCCCATAAAAGTG
* *
15174685 AAAAATTACATTTTTA-CCCCA-AAAATTG
1 AAAAATTACACTTTTACCCCCATAAAAGTG
15174713 AAAAATT
1 AAAAATT
15174720 GCCAAAATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 13 0.39
29 5 0.15
30 15 0.45
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (30 bp):
AAAAATTACACTTTTACCCCCATAAAAGTG
Found at i:15176385 original size:26 final size:25
Alignment explanation
Indices: 15176354--15176403 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
15176344 TTGAATTTTT
15176354 CAAGGAGCACTAGATCTGGTGCTCCC
1 CAAGGAGCACTAGATCT-GTGCTCCC
* *
15176380 CAAGGAGCATTGGATCTGTGCTCC
1 CAAGGAGCACTAGATCTGTGCTCC
15176404 ATGGAGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (25 bp):
CAAGGAGCACTAGATCTGTGCTCCC
Found at i:15177823 original size:14 final size:11
Alignment explanation
Indices: 15177788--15177816 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
15177778 AATAAATTGT
15177788 GATGAAAATTA
1 GATGAAAATTA
15177799 GATGAAAATTA
1 GATGAAAATTA
15177810 GATGAAA
1 GATGAAA
15177817 TAAATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (11 bp):
GATGAAAATTA
Found at i:15178741 original size:21 final size:21
Alignment explanation
Indices: 15178711--15178755 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
15178701 CAGTGTAGGG
* *
15178711 AATAGTAGCATTCATTTTCTA
1 AATAGCAGCATTCAATTTCTA
15178732 AATAGCAGCATTCAATTTCTA
1 AATAGCAGCATTCAATTTCTA
15178753 AAT
1 AAT
15178756 TATTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
AATAGCAGCATTCAATTTCTA
Found at i:15178800 original size:21 final size:19
Alignment explanation
Indices: 15178752--15178801 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 19
15178742 TTCAATTTCT
15178752 AAATTATTATTTTTCAGTA
1 AAATTATTATTTTTCAGTA
*
15178771 AGAATTTATTATTTTTCTTGATA
1 A-AA-TTATTATTTTTC-AG-TA
15178794 AAATTATT
1 AAATTATT
15178802 CATAATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 17 0.65
22 3 0.12
23 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (19 bp):
AAATTATTATTTTTCAGTA
Found at i:15189950 original size:2 final size:2
Alignment explanation
Indices: 15189943--15189972 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15189933 TGTACGTATC
15189943 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
15189973 GGCAAGTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15192993 original size:2 final size:2
Alignment explanation
Indices: 15192986--15193019 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15192976 CGTGTTCAAA
15192986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15193020 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15194252 original size:21 final size:21
Alignment explanation
Indices: 15194226--15194271 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
15194216 TGTGACTAAT
* * *
15194226 TTTTAGTCATTACGTTATTGG
1 TTTTAGGCATTACGTGATTAG
15194247 TTTTAGGCATTACGTGATTAG
1 TTTTAGGCATTACGTGATTAG
15194268 TTTT
1 TTTT
15194272 TATATATTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.20, T:0.52
Consensus pattern (21 bp):
TTTTAGGCATTACGTGATTAG
Found at i:15194334 original size:23 final size:23
Alignment explanation
Indices: 15194307--15194504 Score: 111
Period size: 23 Copynumber: 8.5 Consensus size: 23
15194297 GCAATGCCTA
*
15194307 AGTCACACAATGCCTTACGACCT
1 AGTCACACAATGCCTTACGAACT
* **
15194330 AGTCACGCAATATCTTACGAACT
1 AGTCACACAATGCCTTACGAACT
* * *
15194353 AGTCACTCAATGCCTTACTAACA
1 AGTCACACAATGCCTTACGAACT
* * *
15194376 AGTCACACAAT-AC-T-CAAAGTT
1 AGTCACACAATGCCTTACGAA-CT
*
15194397 AATCACACAATGCC-TATC-AACT
1 AGTCACACAATGCCTTA-CGAACT
* *
15194419 AGTCACACAATACCTTATTAGAAACT
1 AGTCACACAATGCCTTA--CG-AACT
* * **
15194445 AGTCACGCAATG-TTTATTAACT
1 AGTCACACAATGCCTTACGAACT
*
15194467 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACACAATGCCTTA-C-G-AACT
*
15194493 AGTCACGCAATG
1 AGTCACACAATG
15194505 TCTAAAAACT
Statistics
Matches: 135, Mismatches: 28, Indels: 21
0.73 0.15 0.11
Matches are distributed among these distances:
20 3 0.02
21 11 0.08
22 32 0.24
23 54 0.40
24 2 0.01
25 3 0.02
26 30 0.22
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (23 bp):
AGTCACACAATGCCTTACGAACT
Found at i:15194427 original size:22 final size:23
Alignment explanation
Indices: 15194399--15194504 Score: 90
Period size: 26 Copynumber: 4.4 Consensus size: 23
15194389 TCAAAGTTAA
*
15194399 TCACACAATGCC-TATCAACTAG
1 TCACGCAATGCCTTATCAACTAG
* * *
15194421 TCACACAATACCTTATTAGAAACTAG
1 TCACGCAATGCCTTA-T--CAACTAG
* *
15194447 TCACGCAATG-TTTATTAACTAG
1 TCACGCAATGCCTTATCAACTAG
15194469 TCACGCAATGCCTTATCAGAAACTAG
1 TCACGCAATGCCTTATC---AACTAG
15194495 TCACGCAATG
1 TCACGCAATG
15194505 TCTAAAAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
22 27 0.40
23 6 0.09
24 2 0.03
25 3 0.04
26 30 0.44
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.26
Consensus pattern (23 bp):
TCACGCAATGCCTTATCAACTAG
Found at i:15194504 original size:26 final size:25
Alignment explanation
Indices: 15194415--15194504 Score: 105
Period size: 26 Copynumber: 3.6 Consensus size: 25
15194405 AATGCCTATC
* *
15194415 AACTAGTCACACAATACCTTATTAGA
1 AACTAGTCACGCAATGCCTTA-TAGA
**
15194441 AACTAGTCACGCAATG--TT-TATT
1 AACTAGTCACGCAATGCCTTATAGA
15194463 AACTAGTCACGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTAT-AGA
15194489 AACTAGTCACGCAATG
1 AACTAGTCACGCAATG
15194505 TCTAAAAACT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.33
24 4 0.07
25 1 0.02
26 31 0.57
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (25 bp):
AACTAGTCACGCAATGCCTTATAGA
Found at i:15194515 original size:48 final size:48
Alignment explanation
Indices: 15194415--15194521 Score: 151
Period size: 48 Copynumber: 2.2 Consensus size: 48
15194405 AATGCCTATC
* * **
15194415 AACTAGTCACACAATACCTTATTAGAAACTAGTCACGCAATGTTTATT
1 AACTAGTCACACAATACCTTATCAGAAACTAGTCACGCAATGTCTAAA
* *
15194463 AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGTCTAAA
1 AACTAGTCACACAATACCTTATCAGAAACTAGTCACGCAATGTCTAAA
*
15194511 AACTAATCACA
1 AACTAGTCACA
15194522 TAATTTTCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.26
Consensus pattern (48 bp):
AACTAGTCACACAATACCTTATCAGAAACTAGTCACGCAATGTCTAAA
Found at i:15194520 original size:22 final size:22
Alignment explanation
Indices: 15194440--15194520 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
15194430 ACCTTATTAG
* *
15194440 AAACTAGTCACGCAATGTTTAT
1 AAACTAGTCACGCAATGTCTAA
* *
15194462 TAACTAGTCACGCAATGCCTTATCA
1 AAACTAGTCACGCAATGTC-TA--A
15194487 GAAACTAGTCACGCAATGTCTAA
1 -AAACTAGTCACGCAATGTCTAA
*
15194510 AAACTAATCAC
1 AAACTAGTCAC
15194521 ATAATTTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
22 26 0.54
23 3 0.06
25 2 0.04
26 17 0.35
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (22 bp):
AAACTAGTCACGCAATGTCTAA
Done.