Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 51 of 204
Found at i:14892102 original size:19 final size:18
Alignment explanation
Indices: 14892064--14892103 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
14892054 CCCTGGTGGC
*
14892064 GGCGTGGCTCGGCTCGGA
1 GGCGTGGCTCGGCGCGGA
*
14892082 GGCGTGGCTTTGGCGCGGA
1 GGCGTGGC-TCGGCGCGGA
14892101 GGC
1 GGC
14892104 ACTACATGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.05, C:0.25, G:0.53, T:0.17
Consensus pattern (18 bp):
GGCGTGGCTCGGCGCGGA
Found at i:14893321 original size:21 final size:21
Alignment explanation
Indices: 14893297--14893340 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
14893287 AAAAAAAAGA
14893297 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTGGG
14893318 TTAAAAAATCTTTATTCTGGG
1 TTAAAAAATCTTTATTCTGGG
14893339 TT
1 TT
14893341 TTCGTTGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TTAAAAAATCTTTATTCTGGG
Found at i:14902531 original size:18 final size:18
Alignment explanation
Indices: 14902505--14902543 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14902495 AATCAAAATT
14902505 TAAAAATCAAAATTAAAC
1 TAAAAATCAAAATTAAAC
* **
14902523 TAAAGATCAAGTTTAAAC
1 TAAAAATCAAAATTAAAC
14902541 TAA
1 TAA
14902544 TTATAGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAATCAAAATTAAAC
Found at i:14902619 original size:37 final size:37
Alignment explanation
Indices: 14902578--14902655 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
14902568 AAATAGTTTG
* ** * *
14902578 ATCTTTATCCAACCATTTTTTAATTTTCAACCC-TTCA
1 ATCTTAATCCAACCAACTTTAAATCTTC-ACCCTTTCA
14902615 ATCTTAATCCAACCAACTTTAAATCTTCACCCTTTCA
1 ATCTTAATCCAACCAACTTTAAATCTTCACCCTTTCA
14902652 ATCT
1 ATCT
14902656 AGCCATCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 4 0.11
37 31 0.89
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (37 bp):
ATCTTAATCCAACCAACTTTAAATCTTCACCCTTTCA
Found at i:14904386 original size:21 final size:20
Alignment explanation
Indices: 14904362--14904400 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14904352 GTGTCCCCTC
*
14904362 CACATGGGTGTGTGCGACCTT
1 CACATGGGCGTGTG-GACCTT
14904383 CACATGGGCGTGTGGACC
1 CACATGGGCGTGTGGACC
14904401 CCCACACAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
CACATGGGCGTGTGGACCTT
Found at i:14905659 original size:34 final size:34
Alignment explanation
Indices: 14905616--14905685 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
14905606 TCCTAGCCCG
14905616 GGTTTTGGGGCGTTACAAGATATTTAAAGATTTT
1 GGTTTTGGGGCGTTACAAGATATTTAAAGATTTT
14905650 GGTTTTGGGGCGTTACAAGATATTTAAAGATTTT
1 GGTTTTGGGGCGTTACAAGATATTTAAAGATTTT
14905684 GG
1 GG
14905686 CATATTCCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (34 bp):
GGTTTTGGGGCGTTACAAGATATTTAAAGATTTT
Found at i:14907121 original size:24 final size:24
Alignment explanation
Indices: 14907073--14907119 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14907063 ACTGGTCATA
*
14907073 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
14907097 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
14907120 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:14907823 original size:27 final size:26
Alignment explanation
Indices: 14907787--14908088 Score: 282
Period size: 27 Copynumber: 11.3 Consensus size: 26
14907777 AGAGGTCAAT
14907787 AAATGACCGAATTACCCCCACAGGGTA
1 AAATGACCGAA-TACCCCCACAGGGTA
14907814 AAATGACCGAATA-CCCCACAGGGTA
1 AAATGACCGAATACCCCCACAGGGTA
* *
14907839 AAATAACCGAATTATCCCCACAGGGTA
1 AAATGACCGAA-TACCCCCACAGGGTA
* *
14907866 AAATGACCAAATTACCCCCACAAGGTA
1 AAATGACCGAA-TACCCCCACAGGGTA
* * **
14907893 AAATGATCGAAATAACCTTACAGGGTA
1 AAATGACCG-AATACCCCCACAGGGTA
** *
14907920 AAATGATCAAAATACCCCTACAGGGTA
1 AAATGA-CCGAATACCCCCACAGGGTA
*
14907947 AAATGACCGGAATACCCCCATAGGGTA
1 AAATGACC-GAATACCCCCACAGGGTA
* * * *
14907974 AAATGGCCGAAATACCTCCATAAGGTA
1 AAATGACCG-AATACCCCCACAGGGTA
* * * *
14908001 AAATGACTAGAATACCCCTATAAGGTA
1 AAATGAC-CGAATACCCCCACAGGGTA
* * * *
14908028 AAATGATCGGAATACCCTCATAAGGTA
1 AAATGA-CCGAATACCCCCACAGGGTA
*
14908055 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCG-AATACCCCCACAGGGTA
14908082 AAATGAC
1 AAATGAC
14908089 TATTATACCC
Statistics
Matches: 233, Mismatches: 33, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
25 22 0.09
26 8 0.03
27 199 0.85
28 4 0.02
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.18
Consensus pattern (26 bp):
AAATGACCGAATACCCCCACAGGGTA
Found at i:14908089 original size:81 final size:80
Alignment explanation
Indices: 14907787--14908101 Score: 316
Period size: 81 Copynumber: 3.9 Consensus size: 80
14907777 AGAGGTCAAT
* * * * *
14907787 AAATGACCGAATTACCCCCACAGGGTAAAATGACCG-AATA-CCCCACAGGGTAAAATAAC-CGA
1 AAATGACGGAA-TACCCCCATAAGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGACTAGA
14907849 ATTATCCCC-ACAGGGTA
65 A-TA-CCCCTACAGGGTA
** * * * ** *
14907866 AAATGACCAAATTACCCCCACAAGGTAAAATGATCGAAATAACCTTACAGGGTAAAATGA-TCAA
1 AAATGACGGAA-TACCCCCATAAGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGACT-AG
14907930 AATACCCCTACAGGGTA
64 AATACCCCTACAGGGTA
* * * * *
14907947 AAATGACCGGAATACCCCCATAGGGTAAAATGGCCGAAATACCTCCATAAGGTAAAATGACTAGA
1 AAATGA-CGGAATACCCCCATAAGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGACTAGA
* *
14908012 ATACCCCTATAAGGTA
65 ATACCCCTACAGGGTA
* * **
14908028 AAATGATCGGAATACCCTCATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTATT
1 AAATGA-CGGAATACCCCCATAAGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGACTAGA
14908093 ATACCCCTA
65 ATACCCCTA
14908102 GGAGATGAAA
Statistics
Matches: 198, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
79 33 0.17
80 8 0.04
81 151 0.76
82 6 0.03
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.18
Consensus pattern (80 bp):
AAATGACGGAATACCCCCATAAGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGACTAGAA
TACCCCTACAGGGTA
Found at i:14908281 original size:26 final size:26
Alignment explanation
Indices: 14908251--14908357 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
14908241 TGGAGGAAGT
*
14908251 ATACTGTTACTGATAGCTTTGCTGCG
1 ATACTGTTACTGACAGCTTTGCTGCG
* *
14908277 ATACTGTTACTGGCAGTTTTGCTGCG
1 ATACTGTTACTGACAGCTTTGCTGCG
* * * *
14908303 ATACTGTTATTGAGAGTTTTGTTGCG
1 ATACTGTTACTGACAGCTTTGCTGCG
* *
14908329 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGACAGCTTTGCTGCG
14908355 ATA
1 ATA
14908358 TTGGTGTGTT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (26 bp):
ATACTGTTACTGACAGCTTTGCTGCG
Found at i:14908329 original size:52 final size:52
Alignment explanation
Indices: 14908251--14908357 Score: 160
Period size: 52 Copynumber: 2.1 Consensus size: 52
14908241 TGGAGGAAGT
* * *
14908251 ATACTGTTACTGATAGCTTTGCTGCGATACTGTTACTGGCAGTTTTGCTGCG
1 ATACTGTTACTGAGAGCTTTGCTGCGATACTATTACTGGCAGCTTTGCTGCG
* * *
14908303 ATACTGTTATTGAGAGTTTTGTTGCGATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGAGAGCTTTGCTGCGATACTATTACTGGCAGCTTTGCTGCG
14908355 ATA
1 ATA
14908358 TTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (52 bp):
ATACTGTTACTGAGAGCTTTGCTGCGATACTATTACTGGCAGCTTTGCTGCG
Found at i:14911714 original size:64 final size:64
Alignment explanation
Indices: 14911603--14911791 Score: 252
Period size: 64 Copynumber: 3.0 Consensus size: 64
14911593 CATAAAGAGC
* * * *
14911603 CATATATCAAGACGCTCATAAAGAGCTGTGGTATGTCTGCAATACATGTAGGATCAATACCAAT
1 CATATATCAAGACGCTCACAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATCAATACCAAT
* * * *
14911667 CATATATCAGGACGCTCACAAAGAGCTGCGGTATGTCCACAACACATGCAGGATCAATACCGAT
1 CATATATCAAGACGCTCACAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATCAATACCAAT
* * * * * *
14911731 CATATAACATGATGCTTACAAAGAGTTGCGGTATGTCCGCAATACATGCATGATCAATACC
1 CATATATCAAGACGCTCACAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATCAATACC
14911792 GATGGGGATG
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 109 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (64 bp):
CATATATCAAGACGCTCACAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATCAATACCAAT
Found at i:14915745 original size:22 final size:22
Alignment explanation
Indices: 14915719--14915767 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
14915709 GTGTAATTAG
14915719 ATGTGAATCTGATAATTGTGCA
1 ATGTGAATCTGATAATTGTGCA
*
14915741 ATGTGAATCTGATAATTGTGCT
1 ATGTGAATCTGATAATTGTGCA
14915763 ATGTG
1 ATGTG
14915768 TACAAATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (22 bp):
ATGTGAATCTGATAATTGTGCA
Found at i:14917191 original size:31 final size:31
Alignment explanation
Indices: 14917156--14917214 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
14917146 AAGCATGTTT
*
14917156 TTAAGTTATTTATAATGTTGACTAAGGTATG
1 TTAAGTTATTTAAAATGTTGACTAAGGTATG
* *
14917187 TTAAGTTGTTTAAAATGTTGTCTAAGGT
1 TTAAGTTATTTAAAATGTTGACTAAGGT
14917215 GTTTAAGACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (31 bp):
TTAAGTTATTTAAAATGTTGACTAAGGTATG
Found at i:14918943 original size:11 final size:11
Alignment explanation
Indices: 14918927--14918951 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14918917 ATTTTTATTT
14918927 CATTATTAGTC
1 CATTATTAGTC
14918938 CATTATTAGTC
1 CATTATTAGTC
14918949 CAT
1 CAT
14918952 CTTTGTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.08, T:0.44
Consensus pattern (11 bp):
CATTATTAGTC
Found at i:14923821 original size:9 final size:9
Alignment explanation
Indices: 14923792--14923821 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
14923782 GAATTTTTAC
14923792 AATTCGAAT
1 AATTCGAAT
*
14923801 AACTCGAAT
1 AATTCGAAT
14923810 AATTCGAAT
1 AATTCGAAT
14923819 AAT
1 AAT
14923822 ATATTAGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14923923 original size:21 final size:20
Alignment explanation
Indices: 14923898--14923943 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
14923888 ACAAAAATTA
*
14923898 CAAAACAATCAAAATAATTTT
1 CAAAA-AATAAAAATAATTTT
*
14923919 CAAAAATTAAAAATAATTTT
1 CAAAAAATAAAAATAATTTT
*
14923939 TAAAA
1 CAAAA
14923944 TTCAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAAAAATAAAAATAATTTT
Found at i:14923962 original size:19 final size:19
Alignment explanation
Indices: 14923906--14923971 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
14923896 TACAAAACAA
14923906 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
* *
14923926 TAAAAATAATTTTTAAAAT
1 TCAAAATAATTTTAAAAAT
14923945 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
14923964 TCTAAAAT
1 TC-AAAAT
14923972 TTGTATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.10
19 19 0.47
20 17 0.43
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:14924379 original size:21 final size:21
Alignment explanation
Indices: 14924353--14924392 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14924343 ACTTTATCTA
*
14924353 AAGTTAAAAATCAAAACTATC
1 AAGTTAAAAAGCAAAACTATC
*
14924374 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAAGCAAAACTA
14924393 CGTTGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAAGCAAAACTATC
Found at i:14931334 original size:15 final size:15
Alignment explanation
Indices: 14931309--14931343 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14931299 GACTCTATTT
*
14931309 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
14931323 TAATTAATATTAAGA
1 TAATTAATATTAAGA
14931338 TAATTA
1 TAATTA
14931344 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:14933196 original size:10 final size:10
Alignment explanation
Indices: 14933150--14933196 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
14933140 TTCCTAAAGC
*
14933150 ATAAAAA-AT
1 ATAAAAATAA
14933159 ATAAATAATAA
1 ATAAA-AATAA
*
14933170 ATAAATATAA
1 ATAAAAATAA
*
14933180 ATCAAAATAA
1 ATAAAAATAA
14933190 ATAAAAA
1 ATAAAAA
14933197 AGAAAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 5 0.16
10 20 0.65
11 6 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:14933791 original size:15 final size:15
Alignment explanation
Indices: 14933771--14933800 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14933761 TATTTTAAGT
*
14933771 ATATTAGGATAATTA
1 ATATTAAGATAATTA
14933786 ATATTAAGATAATTA
1 ATATTAAGATAATTA
14933801 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:14940169 original size:40 final size:40
Alignment explanation
Indices: 14940082--14940190 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
14940072 CTTTTCTCCT
** * *
14940082 AAATCGCGTCCACGTCAGCGCGATGTCAGGGGACGTGTCAGC
1 AAATCGCGTCCACGTCAGCGCG--GTTTGCGGACGTGGCAGC
**
14940124 AAATCGCGTCCACGTCAGCGCGGTTTGCTTACGTGGCAGC
1 AAATCGCGTCCACGTCAGCGCGGTTTGCGGACGTGGCAGC
*
14940164 AAATCGCGTCCACGTAAGCGCGGTTTG
1 AAATCGCGTCCACGTCAGCGCGGTTTG
14940191 TGTCCACGTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 38 0.63
42 22 0.37
ACGTcount: A:0.20, C:0.28, G:0.31, T:0.20
Consensus pattern (40 bp):
AAATCGCGTCCACGTCAGCGCGGTTTGCGGACGTGGCAGC
Found at i:14940442 original size:11 final size:12
Alignment explanation
Indices: 14940366--14940443 Score: 96
Period size: 11 Copynumber: 6.9 Consensus size: 12
14940356 CACAAACTAA
14940366 TCCTCTCAAATT
1 TCCTCTCAAATT
14940378 TCCTCTC-AATT
1 TCCTCTCAAATT
14940389 TCCTCT-AAATT
1 TCCTCTCAAATT
14940400 TCCTCTC-AATT
1 TCCTCTCAAATT
*
14940411 TGCTCTCAAA-T
1 TCCTCTCAAATT
14940422 TCCT-TCCAAATT
1 TCCTCT-CAAATT
14940434 T-CTCTCAAAT
1 TCCTCTCAAAT
14940444 CCATATTTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
10 1 0.02
11 45 0.78
12 12 0.21
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.42
Consensus pattern (12 bp):
TCCTCTCAAATT
Found at i:14940461 original size:51 final size:51
Alignment explanation
Indices: 14940403--14940502 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
14940393 CTAAATTTCC
14940403 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
14940454 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
14940503 TTAAATAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:14945088 original size:124 final size:125
Alignment explanation
Indices: 14944525--14945092 Score: 748
Period size: 126 Copynumber: 4.5 Consensus size: 125
14944515 CCCAAACATG
* ** * *
14944525 CTACTGTAGCAAAAGCGCGTCCACATGGGTGCGATTTCACAAATTCTTTTCATAAAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
14944590 TAGAAGCGA-TTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAAGAC
66 TTGAAGCGATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * *
14944649 CTAATGTAGCAAAAGCGCGTCCGCGAGGGCACGATTTCACAAATTCTTCTCA-AATAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * * * *
14944713 TTTGCAGCGTTGTTTTATACTATTTGCTCAGAAATGTCAACTCAAAATTATTTTTTCAGGAC
65 CTTGAAGCGAT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* *
14944775 TTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
14944840 TTGAAACGGTTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGAC
66 TTGAAGC-GATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
* * * *
14944902 CAACTGTAGCAAAAGCGCGTCCACGAGGGCACAATTTCACAAATTCTTCTCATAAAGTATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
14944967 TTGAAGC-ATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * * * * *
14945026 CTACTGTAGCAAAAGCGCGTACACGTGGGCACGACTTT-AAAAATCCTTTTGATAAATCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGA-TTTCACAAATTCTTCTCATAAAGCATCCTG
14945090 CTT
65 CTT
14945093 TGATTTTATC
Statistics
Matches: 388, Mismatches: 49, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
123 2 0.01
124 122 0.31
125 44 0.11
126 142 0.37
127 78 0.20
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGATTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:14947056 original size:15 final size:15
Alignment explanation
Indices: 14947032--14947062 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14947022 ATATATTATG
14947032 ACTTGCTATTATGCT
1 ACTTGCTATTATGCT
*
14947047 ACTTGTTATTATGCT
1 ACTTGCTATTATGCT
14947062 A
1 A
14947063 ACATGTACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (15 bp):
ACTTGCTATTATGCT
Found at i:14954062 original size:14 final size:14
Alignment explanation
Indices: 14954043--14954080 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
14954033 GTTTGCCAGT
14954043 AAAAT-ATTTTCTGG
1 AAAATAATTTT-TGG
14954057 AAAATAATTTTTGG
1 AAAATAATTTTTGG
*
14954071 AAAATGATTT
1 AAAATAATTT
14954081 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (14 bp):
AAAATAATTTTTGG
Found at i:14954093 original size:20 final size:19
Alignment explanation
Indices: 14954064--14954103 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
14954054 TGGAAAATAA
14954064 TTTTTGGAAAATGATTTAC
1 TTTTTGGAAAATGATTTAC
*
14954083 TTTTCTGGAAATTGATTTAC
1 TTTT-TGGAAAATGATTTAC
14954103 T
1 T
14954104 GTAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (19 bp):
TTTTTGGAAAATGATTTAC
Found at i:14955520 original size:32 final size:32
Alignment explanation
Indices: 14955474--14955534 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
14955464 TGTCAATCAT
14955474 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
14955506 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
14955535 CAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:14955541 original size:27 final size:30
Alignment explanation
Indices: 14955474--14955545 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
14955464 TGTCAATCAT
*
14955474 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
14955506 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
14955534 -TCAATATCTAAC
1 TTCAATATCTAAC
14955546 GAATTCAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 12 0.31
28 2 0.05
29 2 0.05
32 23 0.59
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:14984481 original size:45 final size:44
Alignment explanation
Indices: 14984416--14984509 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
14984406 GAATAGAGGC
* *
14984416 GTAATGGATTAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* * *
14984461 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
14984505 GTAAT
1 GTAAT
14984510 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 21 0.49
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:14984687 original size:16 final size:16
Alignment explanation
Indices: 14984650--14984691 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14984640 TTAATCATAT
*
14984650 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
14984666 TT-AAATATATTATAA
1 TTAAAATATATTATAA
14984681 TTAAAATATAT
1 TTAAAATATAT
14984692 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:14984698 original size:14 final size:15
Alignment explanation
Indices: 14984659--14984700 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14984649 TTTAAACATA
*
14984659 ATTATTATTAAATAT
1 ATTATAATTAAATAT
14984674 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
14984688 A-TATAATTTAATA
1 ATTATAATTAAATA
14984701 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:14984793 original size:120 final size:120
Alignment explanation
Indices: 14984653--14984995 Score: 652
Period size: 120 Copynumber: 2.9 Consensus size: 120
14984643 ATCATATTTA
14984653 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
14984718 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
14984773 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
14984838 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
14984893 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
14984958 TATTATTATATGAATTTACTCAAATCATAATATA-GATA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATA
14984996 ATTTAACATA
Statistics
Matches: 219, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 4 0.02
120 215 0.98
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:14984818 original size:14 final size:15
Alignment explanation
Indices: 14984769--14984820 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14984759 ATAAAATATA
14984769 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
14984784 TATTAAATATATTAT
1 AATTAAATATATTAT
14984799 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
14984812 AATTTAATA
1 AATTAAATA
14984821 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:14984929 original size:16 final size:16
Alignment explanation
Indices: 14984885--14984931 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
14984875 TACTATAAAA
*
14984885 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
14984901 TATTATT-AAATATAT
1 TATAATTAAAATATAT
14984916 TATAATTAAAATATAT
1 TATAATTAAAATATAT
14984932 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:14991128 original size:42 final size:42
Alignment explanation
Indices: 14991069--14991158 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
14991059 AGAGATACAG
14991069 TTATTTAATTTGAGCATCAATTTATCATTCATCACTCAACAA
1 TTATTTAATTTGAGCATCAATTTATCATTCATCACTCAACAA
*
14991111 TTATTTAATTTGAGCATCAATTTATCATTCATCACTCAATAA
1 TTATTTAATTTGAGCATCAATTTATCATTCATCACTCAACAA
14991153 TTATTT
1 TTATTT
14991159 TCCCACAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.44
Consensus pattern (42 bp):
TTATTTAATTTGAGCATCAATTTATCATTCATCACTCAACAA
Found at i:14992978 original size:42 final size:41
Alignment explanation
Indices: 14992824--14992979 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
14992814 TATGTTATCG
*
14992824 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
14992866 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
14992910 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
14992952 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
14992980 TGTCGATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:15000306 original size:42 final size:41
Alignment explanation
Indices: 15000152--15000307 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
15000142 TATGTTATCG
*
15000152 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
15000194 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
15000238 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
15000280 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
15000308 TGTCCGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:15007795 original size:14 final size:14
Alignment explanation
Indices: 15007776--15007805 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
15007766 TAGAAGTATA
15007776 AACCAATCTTAAAT
1 AACCAATCTTAAAT
15007790 AACCAATCTTAAAT
1 AACCAATCTTAAAT
15007804 AA
1 AA
15007806 ATTACGATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (14 bp):
AACCAATCTTAAAT
Found at i:15019668 original size:3 final size:3
Alignment explanation
Indices: 15019660--15019684 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15019650 CTTTTCCTTT
15019660 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
15019685 CCAGATTCAT
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):
TTA
Found at i:15028728 original size:60 final size:60
Alignment explanation
Indices: 15028644--15028775 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 60
15028634 CTATCGATCT
* *
15028644 ATGAAAAGGGATGGCTTTGGCTATCAAATTATGAAAAGGGATGATG-A-CGACCATCGAACA
1 ATGAAAAGGGATGGCTATGGCTATCAAATTATGAAAAAGGAT-A-GCACCGACCATCGAACA
* * * * *
15028704 ATGAAAAGGGATGG-TGATGTCTATCAAATTGTGAAAAAGGATAGCACCGACTATCGAGCT
1 ATGAAAAGGGATGGCT-ATGGCTATCAAATTATGAAAAAGGATAGCACCGACCATCGAACA
15028764 ATGAAAAGGGAT
1 ATGAAAAGGGAT
15028776 AACTTTAGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 1 0.02
59 3 0.05
60 58 0.94
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (60 bp):
ATGAAAAGGGATGGCTATGGCTATCAAATTATGAAAAAGGATAGCACCGACCATCGAACA
Found at i:15028739 original size:30 final size:30
Alignment explanation
Indices: 15028515--15028745 Score: 159
Period size: 30 Copynumber: 7.7 Consensus size: 30
15028505 ATAGCTTCGG
**
15028515 CTATC-AATTATGAAAAGGGATGGTGACAA
1 CTATCAAATTATGAAAAGGGATGGTGATGA
*
15028544 CCATCAAATTATGAAAAGGGATGGTGATGA
1 CTATCAAATTATGAAAAGGGATGGTGATGA
* *
15028574 CCATCAAATTATGAAAAGGGATGGCT--TCA
1 CTATCAAATTATGAAAAGGGATGG-TGATGA
* ** * * * *
15028603 GGTATCGTACTATGAAAAGAGATGGCT-TTGG
1 -CTATCAAATTATGAAAAGGGATGG-TGATGA
* * *
15028634 CTATC-GATCTATGAAAAGGGATGGCT-TTGG
1 CTATCAAAT-TATGAAAAGGGATGG-TGATGA
* *
15028664 CTATCAAATTATGAAAAGGGATGATGACGA
1 CTATCAAATTATGAAAAGGGATGGTGATGA
* * ** *
15028694 CCATCGAACAATGAAAAGGGATGGTGATGT
1 CTATCAAATTATGAAAAGGGATGGTGATGA
* *
15028724 CTATCAAATTGTGAAAAAGGAT
1 CTATCAAATTATGAAAAGGGAT
15028746 AGCACCGACT
Statistics
Matches: 161, Mismatches: 34, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
29 8 0.05
30 149 0.93
31 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
CTATCAAATTATGAAAAGGGATGGTGATGA
Found at i:15034922 original size:20 final size:18
Alignment explanation
Indices: 15034879--15034922 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
15034869 AAACACATAC
15034879 TAATATAATTTATTAAAT
1 TAATATAATTTATTAAAT
*
15034897 TAAATATATATTTTTTAAAT
1 T-AATATA-ATTTATTAAAT
15034917 ATAATA
1 -TAATA
15034923 AGAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 6 0.27
20 14 0.64
21 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATAATTTATTAAAT
Found at i:15035140 original size:16 final size:16
Alignment explanation
Indices: 15035119--15035149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15035109 GTTTGCATTA
*
15035119 TTTTAATATTAAATAC
1 TTTTAAAATTAAATAC
15035135 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
15035150 ATATTCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAAATTAAATAC
Found at i:15035258 original size:23 final size:23
Alignment explanation
Indices: 15035210--15035259 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
15035200 TAATTACATT
* * *
15035210 AATTTTTTAATAATTTTTAAATA
1 AATTTATTAATAAATTTTAAAAA
15035233 AATTTATTAA-AAATTTTAAACAA
1 AATTTATTAATAAATTTTAAA-AA
15035256 AATT
1 AATT
15035260 AATGTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTTATTAATAAATTTTAAAAA
Found at i:15038472 original size:18 final size:18
Alignment explanation
Indices: 15038451--15038498 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
15038441 TATAAACTAT
15038451 TTAAAAAAT-TTAAAAATG
1 TTAAAAAATATTAAAAA-G
*
15038469 TT-AAAATTATTAAAAAG
1 TTAAAAAATATTAAAAAG
15038486 TCTAAAAAATATT
1 T-TAAAAAATATT
15038499 TTTTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 7 0.28
18 10 0.40
19 8 0.32
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
TTAAAAAATATTAAAAAG
Found at i:15040707 original size:14 final size:14
Alignment explanation
Indices: 15040688--15040714 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15040678 ATTTAAGATG
15040688 GAAATTAAACTAAT
1 GAAATTAAACTAAT
15040702 GAAATTAAACTAA
1 GAAATTAAACTAA
15040715 ACCTAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (14 bp):
GAAATTAAACTAAT
Found at i:15044830 original size:23 final size:23
Alignment explanation
Indices: 15044782--15044930 Score: 109
Period size: 23 Copynumber: 6.5 Consensus size: 23
15044772 CCCCAAAGAG
* * * *
15044782 ATTACAGCATACGCCATAAATGC
1 ATTACAGAATATGCCACAAAGGC
* *
15044805 ATTACAGAATATGCCACATAGAC
1 ATTACAGAATATGCCACAAAGGC
** *
15044828 ATTACCTAATACGCCACAAAGGC
1 ATTACAGAATATGCCACAAAGGC
* * *
15044851 ATTAAAAAATATGCCACAAAGCC
1 ATTACAGAATATGCCACAAAGGC
* * * *
15044874 ATTATAGTATACGCCACATAGGC
1 ATTACAGAATATGCCACAAAGGC
* * * *
15044897 ATTTCATAATATGCCATAAGGGC
1 ATTACAGAATATGCCACAAAGGC
*
15044920 ATTGCAGAATA
1 ATTACAGAATA
15044931 CGTAACATAG
Statistics
Matches: 94, Mismatches: 32, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (23 bp):
ATTACAGAATATGCCACAAAGGC
Found at i:15044932 original size:46 final size:46
Alignment explanation
Indices: 15044782--15044954 Score: 139
Period size: 46 Copynumber: 3.8 Consensus size: 46
15044772 CCCCAAAGAG
* * * * * * * *
15044782 ATTACAGCATACGCCATAAATGCATTACAGAATATGCCACATAGAC
1 ATTACAGAATACGCCACATAGGCATTTCAAAATATGCCACAAAGCC
** * **
15044828 ATTACCTAATACGCCACAAAGGCATTAAAAAATATGCCACAAAGCC
1 ATTACAGAATACGCCACATAGGCATTTCAAAATATGCCACAAAGCC
* * * * * *
15044874 ATTATAGTATACGCCACATAGGCATTTCATAATATGCCATAAGGGC
1 ATTACAGAATACGCCACATAGGCATTTCAAAATATGCCACAAAGCC
* ** *
15044920 ATTGCAGAATACGTAACATAGGTATTTCAAAATAT
1 ATTACAGAATACGCCACATAGGCATTTCAAAATAT
15044955 CTTGCATAAA
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
46 100 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (46 bp):
ATTACAGAATACGCCACATAGGCATTTCAAAATATGCCACAAAGCC
Found at i:15066684 original size:17 final size:17
Alignment explanation
Indices: 15066662--15066695 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15066652 TTTTTAAAAG
15066662 TATTTAGTA-ATTTTTTA
1 TATTTA-TATATTTTTTA
15066679 TATTTATATATTTTTTA
1 TATTTATATATTTTTTA
15066696 AGTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TATTTATATATTTTTTA
Found at i:15066729 original size:25 final size:25
Alignment explanation
Indices: 15066673--15066730 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
15066663 ATTTAGTAAT
* *
15066673 TTTTTATATTTATATATTTTTTAAGT
1 TTTTTA-ATTTATAGATTTTTTAAGA
*
15066699 TTTTTAATTTTTAGATTTTTTGAA-A
1 TTTTTAATTTATAGATTTTTT-AAGA
15066724 TTTTTAA
1 TTTTTAA
15066731 ATAATTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (25 bp):
TTTTTAATTTATAGATTTTTTAAGA
Found at i:15068433 original size:41 final size:41
Alignment explanation
Indices: 15068372--15068483 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 41
15068362 TATGTGTTGT
*
15068372 CGTGTAAGACCACGTTTGGGACGTTGGCATC-T-TGTGATTTA
1 CGTGTAAGACCACGTCTGGGACG-TGGCATCATATGTGA-TTA
*
15068413 TGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTGGCATC-ATATGTGATTA
*
15068456 CATGTAAGACCACGTCTGGGACGATGGC
1 CGTGTAAGACCACGTCTGGGACG-TGGC
15068484 GTTGTATGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
40 1 0.02
41 25 0.42
42 2 0.03
43 26 0.43
44 6 0.10
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (41 bp):
CGTGTAAGACCACGTCTGGGACGTGGCATCATATGTGATTA
Found at i:15071267 original size:30 final size:30
Alignment explanation
Indices: 15071201--15071268 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
15071191 AAATAAATAA
* *
15071201 ATAACTTTAAATGGTTTAGTGACTTAAATG
1 ATAACTTTAAATGGTTTAGTAACTCAAATG
* *
15071231 AAAACTTTCAAATGGTTTAGTAAC-CAAATT
1 ATAACTTT-AAATGGTTTAGTAACTCAAATG
15071261 ATAACTTT
1 ATAACTTT
15071269 TTTAGTTAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 18 0.56
31 14 0.44
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (30 bp):
ATAACTTTAAATGGTTTAGTAACTCAAATG
Found at i:15076265 original size:29 final size:28
Alignment explanation
Indices: 15076201--15076256 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
15076191 GAGAAGGAAG
*
15076201 AAATAATAATGTGTTTCTTTTTCTTTTGGT
1 AAAT-ATAATGTGTTTCTTTTTATTTT-GT
15076231 AAATATAATGTGTTTCTTTTTATTTT
1 AAATATAATGTGTTTCTTTTTATTTT
15076257 TACTTATATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (28 bp):
AAATATAATGTGTTTCTTTTTATTTTGT
Found at i:15084580 original size:22 final size:22
Alignment explanation
Indices: 15084555--15084597 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15084545 CAATTTCAAG
15084555 TTTAAATT-TGTACTAACTATTC
1 TTTAAATTATGT-CTAACTATTC
**
15084577 TTTATTTTATGTCTAACTATT
1 TTTAAATTATGTCTAACTATT
15084598 GTAATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAAATTATGTCTAACTATTC
Found at i:15089008 original size:19 final size:19
Alignment explanation
Indices: 15088984--15089021 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15088974 AGTTTTAGGT
15088984 TCTCAGGCCCAATTTTCAA
1 TCTCAGGCCCAATTTTCAA
* *
15089003 TCTCAGGTCTAATTTTCAA
1 TCTCAGGCCCAATTTTCAA
15089022 GTTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTCAGGCCCAATTTTCAA
Found at i:15089179 original size:17 final size:17
Alignment explanation
Indices: 15089157--15089195 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
15089147 GAGATTTTTC
15089157 AAATTAATTTTTAAAAA
1 AAATTAATTTTTAAAAA
*
15089174 AAATTAATTTTTAAAGA
1 AAATTAATTTTTAAAAA
15089191 AAATT
1 AAATT
15089196 CTTTAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATTAATTTTTAAAAA
Found at i:15090775 original size:26 final size:26
Alignment explanation
Indices: 15090739--15090789 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
15090729 AGTACCCATC
15090739 CAACCCTACACACCAATTAGTGTCGA
1 CAACCCTACACACCAATTAGTGTCGA
15090765 CAACCCTACACACCAATTAGTGTCG
1 CAACCCTACACACCAATTAGTGTCG
15090790 GTATGACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (26 bp):
CAACCCTACACACCAATTAGTGTCGA
Found at i:15091416 original size:62 final size:63
Alignment explanation
Indices: 15091286--15091441 Score: 176
Period size: 62 Copynumber: 2.5 Consensus size: 63
15091276 TCACACGGCC
* * *
15091286 TGGACACACGC-CTGTGTCCCT-GACCCATGTGACCCTAAATACCAAATAGTAAGTTACACACCT
1 TGGACACAAGCTC-GTGTCCCTAG-CCCATGTGACCCTAAATACCAAACAATAAGTTACACACCT
* * **
15091349 TGGACATAAGCTCGTGTCCCTAGCCCATGTGA-CCTAAAGTA-CAAACAATGAGTTACACGGCT
1 TGGACACAAGCTCGTGTCCCTAGCCCATGTGACCCTAAA-TACCAAACAATAAGTTACACACCT
* *
15091411 TGGACACACGCTCGTGTCCCTAGTCCATGTG
1 TGGACACAAGCTCGTGTCCCTAGCCCATGTG
15091442 CCTCTAATTC
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
62 50 0.62
63 28 0.35
64 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (63 bp):
TGGACACAAGCTCGTGTCCCTAGCCCATGTGACCCTAAATACCAAACAATAAGTTACACACCT
Found at i:15091666 original size:20 final size:20
Alignment explanation
Indices: 15091628--15091666 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15091618 AGATATCAAT
*
15091628 TAATATTATAAATTCAAATG
1 TAATATTATAAAATCAAATG
* *
15091648 TAATATTTTAAAATGAAAT
1 TAATATTATAAAATCAAAT
15091667 ACAAACTTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATATTATAAAATCAAATG
Found at i:15102336 original size:16 final size:17
Alignment explanation
Indices: 15102317--15102351 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15102307 TTGTTATTCA
*
15102317 AAATTT-AAATTATTTT
1 AAATTTCAAACTATTTT
15102333 AAATTTCAAACTATTTT
1 AAATTTCAAACTATTTT
15102350 AA
1 AA
15102352 TTGAGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTTCAAACTATTTT
Found at i:15105096 original size:15 final size:15
Alignment explanation
Indices: 15105078--15105112 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15105068 CTGTTATTAT
15105078 TTTATTTTATATTTG
1 TTTATTTTATATTTG
* *
15105093 TTTATTTTATTTTTT
1 TTTATTTTATATTTG
15105108 TTTAT
1 TTTAT
15105113 CAACTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTATTTTATATTTG
Found at i:15105870 original size:19 final size:19
Alignment explanation
Indices: 15105843--15105879 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15105833 TAAAAATAAA
15105843 TTAACTTATATAAATATGG
1 TTAACTTATATAAATATGG
* *
15105862 TTAATTTATGTAAATATG
1 TTAACTTATATAAATATG
15105880 TTGCAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (19 bp):
TTAACTTATATAAATATGG
Found at i:15111727 original size:102 final size:101
Alignment explanation
Indices: 15111547--15111890 Score: 458
Period size: 102 Copynumber: 3.4 Consensus size: 101
15111537 TATCGATGAA
*
15111547 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
15111612 TAAGTGAATGCTACAATGTGTATCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
15111649 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
15111714 TAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACC-GAAAGCTTTGGT
* * *** * *
15111751 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * * *
15111815 TATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* *
15111851 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
15111891 ATGATAAAAG
Statistics
Matches: 215, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
100 39 0.18
101 45 0.21
102 130 0.60
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:15111817 original size:50 final size:50
Alignment explanation
Indices: 15111547--15111884 Score: 356
Period size: 51 Copynumber: 6.7 Consensus size: 50
15111537 TATCGATGAA
* * ***
15111547 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * * * * *
15111598 CACATGTGTAGTACTAAGTGAATGCTACAATGTGTATCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * * ***
15111649 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * *
15111700 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACC-AAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
* *
15111751 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
15111801 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
15111851 CACATGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
15111885 TATCGAATGA
Statistics
Matches: 241, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
49 4 0.02
50 88 0.37
51 142 0.59
52 6 0.02
53 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:15112151 original size:37 final size:38
Alignment explanation
Indices: 15112082--15112154 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
15112072 ATGTGTGGAA
* **
15112082 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
15112120 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
15112155 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:15121647 original size:14 final size:14
Alignment explanation
Indices: 15121628--15121657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15121618 AATTTGAATT
15121628 TCGAGTTAAACGAA
1 TCGAGTTAAACGAA
*
15121642 TCGAGTTATACGAA
1 TCGAGTTAAACGAA
15121656 TC
1 TC
15121658 AACTCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (14 bp):
TCGAGTTAAACGAA
Found at i:15121745 original size:9 final size:9
Alignment explanation
Indices: 15121712--15121737 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
15121702 GTTTTCGAAT
15121712 TCGAATAAC
1 TCGAATAAC
15121721 TCGAATAAC
1 TCGAATAAC
15121730 TCGAATAA
1 TCGAATAA
15121738 TTCAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15123295 original size:14 final size:14
Alignment explanation
Indices: 15123273--15123366 Score: 80
Period size: 14 Copynumber: 6.7 Consensus size: 14
15123263 AAAAATTGGG
*
15123273 AATTTAGAATAAAA
1 AATTGAGAATAAAA
* *
15123287 AATTGAGAATAGAC
1 AATTGAGAATAAAA
*
15123301 GATTGAGAATAAAA
1 AATTGAGAATAAAA
* * **
15123315 AATCGAGAACAAGC
1 AATTGAGAATAAAA
15123329 AATTGAGAATAAAA
1 AATTGAGAATAAAA
* ** *
15123343 AATCGAGAGCAAGA
1 AATTGAGAATAAAA
15123357 AATTGAGAAT
1 AATTGAGAAT
15123367 CAAATTGTGA
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
14 58 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (14 bp):
AATTGAGAATAAAA
Found at i:15123309 original size:28 final size:28
Alignment explanation
Indices: 15123273--15123366 Score: 118
Period size: 28 Copynumber: 3.4 Consensus size: 28
15123263 AAAAATTGGG
* * *
15123273 AATTTAGAATAAAAAATTGAGAA-TAGAC
1 AATTGAGAATAAAAAATCGAGAACAAG-C
*
15123301 GATTGAGAATAAAAAATCGAGAACAAGC
1 AATTGAGAATAAAAAATCGAGAACAAGC
* *
15123329 AATTGAGAATAAAAAATCGAGAGCAAGA
1 AATTGAGAATAAAAAATCGAGAACAAGC
15123357 AATTGAGAAT
1 AATTGAGAAT
15123367 CAAATTGTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 56 0.97
29 2 0.03
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (28 bp):
AATTGAGAATAAAAAATCGAGAACAAGC
Found at i:15126790 original size:3 final size:3
Alignment explanation
Indices: 15126766--15126812 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
15126756 ATGTAGGTAC
*
15126766 AAT AAT GAT ATAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15126811 AA
1 AA
15126813 AATTGATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:15127282 original size:21 final size:19
Alignment explanation
Indices: 15127245--15127319 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
15127235 AATCATATCT
15127245 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15127264 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
15127285 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15127304 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
15127320 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15127919 original size:44 final size:44
Alignment explanation
Indices: 15127751--15127920 Score: 223
Period size: 44 Copynumber: 3.8 Consensus size: 44
15127741 ATCAGATGCG
* * * * *
15127751 ATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCAC-A
* * * * *
15127796 ATCTTAAACCTATTCTATTGCTGACCAGGGAGATAAGATTCGCA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA
* *
15127840 ATCTTTAACCTATTCCACTGCTGTCGAGGGAGATAGGATTCACA
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA
15127884 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
1 ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGG
15127921 GCTGGGGTAA
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 73 0.68
45 35 0.32
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTTTAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACA
Found at i:15128053 original size:44 final size:43
Alignment explanation
Indices: 15128003--15128490 Score: 112
Period size: 44 Copynumber: 11.1 Consensus size: 43
15127993 CAACCCAGAG
*
15128003 AGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGA
1 AGGCAAGGCTGGTGT-TTCGATCTGCTTCGCTGTCAGTGCAGGA
** * * ** * * * *** *
15128047 AGGCAAGATTTGCTATTTTTAGCCTGCTCCACTGT-AACCCAATGA
1 AGGCAAG-GCTGGTGTTTCGA-TCTGCTTCGCTGTCAGTGC-AGGA
* *
15128092 -GGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGA
1 AGGCAAGGCTGGTGT-TTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * * *** *
15128135 AGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTTTCGA-TCTGCTTCGCTGTCAGTGCAGGA
*
15128179 AGGCAAGGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGT-TTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * * * * *
15128223 AGGCAAGATCTGCTATTTTTTTAGCCTACTCCGCTG-CAATCCAAGG-
1 AGGCAAG-GCTG--GTGTTTCGA-TCTGCTTCGCTGTCAGTGC-AGGA
* ** *
15128269 -GGCAAGGCAGGTGTCTTCGATCTGCTTCGCTGTTGGTGTAGGA
1 AGGCAAGGCTGGTGT-TTCGATCTGCTTCGCTGTCAGTGCAGGA
* * * ** * *** *
15128312 AGGCAAGATCTGCTATTTTTAGCCTGC-TCAGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTTTCGA-TCTGCTTC-GCTGTCAGTGCAGGA
* *
15128356 AGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGT-TTCGATCTGCTTCGCTGTCAGTGCAGGA
* ** * * ** * *** *
15128400 AGGAAAGATTTGCTATTTTTAGCCTGCTTCGCTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTTTCGA-TCTGCTTCGCTGTCAGTGCAGGA
* *
15128444 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGA
1 AGGCAAGGCTGGTGT-TTCGATCTGCTTCGCTGTCAGTGCAGGA
15128488 AGG
1 AGG
15128491 TAAGATCTGT
Statistics
Matches: 287, Mismatches: 128, Indels: 58
0.61 0.27 0.12
Matches are distributed among these distances:
42 14 0.05
43 64 0.22
44 120 0.42
45 69 0.24
46 6 0.02
47 14 0.05
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (43 bp):
AGGCAAGGCTGGTGTTTCGATCTGCTTCGCTGTCAGTGCAGGA
Found at i:15128103 original size:88 final size:88
Alignment explanation
Indices: 15127931--15128597 Score: 985
Period size: 88 Copynumber: 7.5 Consensus size: 88
15127921 GCTGGGGTAA
* * * * *
15127931 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACCTGCTCCACTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTAGCCTGCTCCGCTGCAA
*
15127996 CCCAGAGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * * *
15128020 TCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATTTGCTATTTTTAGCCTGCTCCACTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
**
15128085 CCAATGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
15128108 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
*
15128173 CCAGGGAGGCAAGGCTGGTGTAT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
15128196 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTTAGCCTACTCCGCTGCA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA--TTTTTAGCCTGCTCCGCTGCA
* * *
15128261 ATCCAAGG-GGCAAGGCAGGTGTCT
64 ACCCAGGGAGGCAAGGCTGGTGTCT
* * *
15128285 TCGATCTGCTTCGCTGTTGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCAGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
15128350 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
15128373 TCAATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATTTGCTATTTTTAGCCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
15128438 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
15128461 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGTAAGATCTGTTATTTTTTAGCTTGCTCTGCTGCAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTAGCCTGCTCCGCTGCAA
* *
15128526 CCCAGGGAGGTAAGGCTGGTGTCC
65 CCCAGGGAGGCAAGGCTGGTGTCT
*
15128550 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCTATTTTTA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTA
15128598 CCGATCTGCT
Statistics
Matches: 522, Mismatches: 52, Indels: 9
0.90 0.09 0.02
Matches are distributed among these distances:
87 25 0.05
88 300 0.57
89 171 0.33
90 26 0.05
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:15128284 original size:177 final size:176
Alignment explanation
Indices: 15127931--15128597 Score: 987
Period size: 177 Copynumber: 3.8 Consensus size: 176
15127921 GCTGGGGTAA
* * * * * *
15127931 TCGATCTACTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACCTGCTCCACTACAA
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTTAGCCTGCTCCGCTGCAA
* * * * *
15127996 CCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGGCAAGATTTGCT
66 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCT
* * *
15128061 ATTTTTAGCCTGCTCCACTGTAACCCAATGAGGCAAGGCTGGTGTCT
131 ATTTTTAGCCTGCTCCGCTGCAACCCAA-GGGGCAAGGCTGGTGTCT
15128108 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTA-TTTTTAGCCTGCTCCGCTGCAA
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTTAGCCTGCTCCGCTGCAA
* *
15128172 CCCAGGGAGGCAAGGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
66 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCT
* * *
15128237 ATTTTTTTAGCCTACTCCGCTGCAATCCAAGGGGCAAGGCAGGTGTCT
131 A--TTTTTAGCCTGCTCCGCTGCAACCCAAGGGGCAAGGCTGGTGTCT
* * * *
15128285 TCGATCTGCTTCGCTGTTGGTGTAGGAAGGCAAGATCTGCTA-TTTTTAGCCTGCTCAGCTGCAA
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTTAGCCTGCTCCGCTGCAA
* *
15128349 CCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATTTGCT
66 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCT
* *
15128414 ATTTTTAGCCTGCTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCT
131 ATTTTTAGCCTGCTCCGCTGCAACCCAAGG-GGCAAGGCTGGTGTCT
* * * *
15128461 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGTAAGATCTGTTATTTTTTAGCTTGCTCTGCTGCAA
1 TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTTAGCCTGCTCCGCTGCAA
* *
15128526 CCCAGGGAGGTAAGGCTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCT
66 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCT
15128591 ATTTTTA
131 ATTTTTA
15128598 CCGATCTGCT
Statistics
Matches: 445, Mismatches: 41, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
175 25 0.06
176 132 0.30
177 265 0.60
178 23 0.05
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (176 bp):
TCGATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTTAGCCTGCTCCGCTGCAA
CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGAAAGATCTGCT
ATTTTTAGCCTGCTCCGCTGCAACCCAAGGGGCAAGGCTGGTGTCT
Found at i:15128382 original size:265 final size:264
Alignment explanation
Indices: 15127920--15128597 Score: 1007
Period size: 265 Copynumber: 2.6 Consensus size: 264
15127910 AGGGAGATAG
* * * * *
15127920 GGCTGGGGTAATCGATCTACTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACCTG
1 GGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTG
* * * * *
15127985 CTCCACTACAACCCAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTGCAGGAAGG
66 CTCCGCTGCAACCCA-AGGGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
* * * *
15128050 CAAGATTTGCTATTTTTAGCCTGCTCCACTGTAACCCAATGAGGCAAGGCTGGTGTCTTCGATCT
130 CAAGATCTGCTATTTTTAGCCTGCTCCACTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCAATCT
*
15128115 GCTTCGCTGTCGGTGCAAGAAGGCAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGA
195 GCTTCGCTGTCGGTGCAAGAAGGAAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGA
15128180 GGCAA
260 GGCAA
15128185 GGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTTAGCCT
1 GGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA-TTTTTTAGCCT
* * * * *
15128250 ACTCCGCTGCAATCCAAGGGGCAAGGCAGGTGTCTTCGATCTGCTTCGCTGTTGGTGTAGGAAGG
65 GCTCCGCTGCAACCCAAGGGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
*
15128315 CAAGATCTGCTATTTTTAGCCTGCT-CAGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATC
130 CAAGATCTGCTATTTTTAGCCTGCTCCA-CTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCAATC
* * *
15128379 TGCTTCGCTGTCGGTGCAGGAAGGAAAGATTTGCTATTTTTAGCCTGCTTCGCTGCAACCCAGGG
194 TGCTTCGCTGTCGGTGCAAGAAGGAAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGG
15128444 AGGCAA
259 AGGCAA
* * * * *
15128450 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAAGAAGGTAAGATCTGTTATTTTTTAGCTTG
1 GGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTG
* * * *
15128515 CTCTGCTGCAACCCAGGGAGGTAAGGCTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
66 CTCCGCTGCAACCCAAGG-GGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGG
*
15128580 AAAGATCTGCTATTTTTA
130 CAAGATCTGCTATTTTTA
15128598 CCGATCTGCT
Statistics
Matches: 371, Mismatches: 39, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
264 27 0.07
265 322 0.87
266 22 0.06
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (264 bp):
GGCTGGTGTATTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAGCCTG
CTCCGCTGCAACCCAAGGGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
AAGATCTGCTATTTTTAGCCTGCTCCACTGCAACCCAAGGAGGCAAGGCTGGTGTCTTCAATCTG
CTTCGCTGTCGGTGCAAGAAGGAAAGATCTGCTATTTTTAGCCTGCTCCGCTGCAACCCAGGGAG
GCAA
Found at i:15128476 original size:43 final size:43
Alignment explanation
Indices: 15128342--15128476 Score: 117
Period size: 44 Copynumber: 3.1 Consensus size: 43
15128332 AGCCTGCTCA
15128342 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTC
1 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTC
**** * * ** * * * * **
15128385 GCTGTCGGTGCAGGAAGGAAAGATTTGCTATTTTTAGCCTGCTTC
1 GCTG-CAACCCAGGGAGGCAAG-GCTGGTGTCTTCAATCTGCTTC
*
15128430 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC
1 GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTC
15128473 GCTG
1 GCTG
15128477 TCGGTGCAAG
Statistics
Matches: 61, Mismatches: 29, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 21 0.34
44 22 0.36
45 18 0.30
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.27
Consensus pattern (43 bp):
GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTC
Found at i:15129874 original size:24 final size:24
Alignment explanation
Indices: 15129830--15129876 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15129820 GGCCTCTCCT
*
15129830 TTTCTTTTTTTTTTTGGTTTTTTC
1 TTTCTTTTTTTTTTTGATTTTTTC
15129854 TTTCTTTTTATTTTTT-ATTTTTT
1 TTTCTTTTT-TTTTTTGATTTTTT
15129877 TTGAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.04, C:0.06, G:0.04, T:0.85
Consensus pattern (24 bp):
TTTCTTTTTTTTTTTGATTTTTTC
Found at i:15130038 original size:29 final size:29
Alignment explanation
Indices: 15129996--15130054 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
15129986 GAGATGAAGT
15129996 TCTTCTTGTATAGAAAGGATATTCTTCAA
1 TCTTCTTGTATAGAAAGGATATTCTTCAA
15130025 TCTTCTTGTATAGAAAGGATATTCTTCAA
1 TCTTCTTGTATAGAAAGGATATTCTTCAA
15130054 T
1 T
15130055 ATCAGGTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (29 bp):
TCTTCTTGTATAGAAAGGATATTCTTCAA
Found at i:15135675 original size:3 final size:3
Alignment explanation
Indices: 15135667--15135712 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
15135657 ATATGTAGGT
15135667 ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15135712 A
1 A
15135713 CAAAATTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:15136187 original size:21 final size:19
Alignment explanation
Indices: 15136150--15136224 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
15136140 AATCATATCT
15136150 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15136169 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
15136190 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
15136209 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15136225 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 33 0.66
21 17 0.34
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15145091 original size:113 final size:113
Alignment explanation
Indices: 15144781--15145445 Score: 868
Period size: 113 Copynumber: 5.8 Consensus size: 113
15144771 GCGTTTTCCA
* * *
15144781 GAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGTTTTGCGGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
* * * *
15144845 GGTTTTAAGAAAGCGCCGCTAATGCTCAAGTATTTAGTTGCGTTTTTGG
66 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGTGGCGTTTTT-G
* * *
15144894 GAAAGCGCCGCAAAAAAAAACCTATGCCCAACGACACTGTTTTCTGAGCTTTCGGGGATTTAGCG
1 GAAAGCGCCGC--AAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCG
* * * *
15144959 GCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGTCCTTAGCGGTGTTTTTAG
64 GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGTGGCGTTTTT-G
* * * * *
15145010 GAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGCTTACTGAGCTTTCAGCGATTTAGTGGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
* * * *
15145074 ATTTTTAAGAATA-CGCCGCTAATTCTCAGGTCTTTAGCGACGTTTTTG
66 GTTTTTAAGAA-AGCGCCGCTAATGCTCAGGTCTTTAGTGGCGTTTTTG
* * * *
15145122 GTAAAGCGCCACAAAAAAACCTAAGCCCAATGACGCCGTTTTCTGAGCTTTCAGAGATTTAGCGG
1 G-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGG
* *
15145187 CGTTTTTAAGAAAGCGCCGCTAATGCTCAAGTCTTTAGTGGTGTTTTTG
65 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGTGGCGTTTTTG
* *
15145236 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCTTTCGGGGATTTAGCGGC
1 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
* * ** *
15145301 GTCTTGTAAGAAAGCGCCGCTAATTCTCAGGGATTTAGTGGCGTTGTTG
66 GT-TTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGTGGCGTTTTTG
* * *
15145350 GTAAAGCGCCGCAAAAAAACCTAAACCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGTGG
1 G-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGG
* *
15145415 CGTTTTTAAGAATGTGCCGCTAATGCTCAGG
65 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGG
15145446 GATTTAAAAT
Statistics
Matches: 482, Mismatches: 61, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
112 2 0.00
113 164 0.34
114 154 0.32
115 63 0.13
116 99 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (113 bp):
GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
GTTTTTAAGAAAGCGCCGCTAATGCTCAGGTCTTTAGTGGCGTTTTTG
Found at i:15145423 original size:228 final size:226
Alignment explanation
Indices: 15144781--15145443 Score: 916
Period size: 227 Copynumber: 2.9 Consensus size: 226
15144771 GCGTTTTCCA
* * *
15144781 GAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGGTTTTGCGGCG
1 GAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC-
* * * *
15144846 GTTTTAAGAAAGCGCCGCTAATGCTCAAGTATTTAGTTGCGTTTTTGGGAAAGCGCCGCAAAAAA
65 GTTTTAAGAAAGCGCCGCTAATTCTCAGGTATTTAGTGGCGTTTTTGGTAAAGCGCCGC--AAAA
* * * *
15144911 AAACCTATGCCCAACGACACTGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCG
128 AAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCG
*
15144976 CCGCTAATGCTCAGGTCCTTAGCGGTGTTTTTAG
193 CCGCTAATGCTCAAGTCCTTAGCGGTGTTTTTAG
* * * * *
15145010 GAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGCTTACTGAGCTTTCAGCGATTTAGTGGCA
1 GAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC-
* * * * *
15145075 TTTTTAAGAATA-CGCCGCTAATTCTCAGGTCTTTAGCGACGTTTTTGGTAAAGCGCCACAAAAA
65 GTTTTAAGAA-AGCGCCGCTAATTCTCAGGTATTTAGTGGCGTTTTTGGTAAAGCGCCGCAAAAA
* * *
15145139 AACCTAAGCCCAATGACGCCGTTTTCTGAGCTTTCAGAGATTTAGCGGCGTTTTTAAGAAAGCGC
129 AACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGC
* *
15145204 CGCTAATGCTCAAGTCTTTAGTGGTGTTTTT-G
194 CGCTAATGCTCAAGTCCTTAGCGGTGTTTTTAG
* *
15145236 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTAAGCTTTCGGGGATTTAGCGGC
1 GAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGC
* *
15145301 GTCTTGTAAGAAAGCGCCGCTAATTCTCAGGGATTTAGTGGCGTTGTTGGTAAAGCGCCGCAAAA
65 GT-TT-TAAGAAAGCGCCGCTAATTCTCAGGTATTTAGTGGCGTTTTTGGTAAAGCGCCGCAAAA
* * * * *
15145366 AAACCTAAACCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGAATGTG
128 AAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCG
15145431 CCGCTAATGCTCA
193 CCGCTAATGCTCA
15145444 GGGATTTAAA
Statistics
Matches: 379, Mismatches: 50, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
226 13 0.03
227 140 0.37
228 121 0.32
229 104 0.27
230 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (226 bp):
GAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
TTTTAAGAAAGCGCCGCTAATTCTCAGGTATTTAGTGGCGTTTTTGGTAAAGCGCCGCAAAAAAA
CCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCG
CTAATGCTCAAGTCCTTAGCGGTGTTTTTAG
Found at i:15145688 original size:7 final size:7
Alignment explanation
Indices: 15145670--15145801 Score: 54
Period size: 7 Copynumber: 18.6 Consensus size: 7
15145660 GTGTTACCAT
*
15145670 TTTAAGG
1 TTTATGG
15145677 TTTATGG
1 TTTATGG
*
15145684 ATTATAGG
1 TTTAT-GG
*
15145692 TTTAGGG
1 TTTATGG
*
15145699 GTTATGG
1 TTTATGG
15145706 TTTATGG
1 TTTATGG
*
15145713 TTTAAAGG
1 TTT-ATGG
* **
15145721 -CTGGGG
1 TTTATGG
*
15145727 TTTAAGG
1 TTTATGG
*
15145734 TTTAAAGG
1 TTT-ATGG
*
15145742 -TTATTTG
1 TTTA-TGG
* *
15145749 TTAAGGG
1 TTTATGG
15145756 TTTATGGG
1 TTTAT-GG
*
15145764 TTTAGGG
1 TTTATGG
*
15145771 TTTA-AG
1 TTTATGG
15145777 TTTATGG
1 TTTATGG
15145784 TTTATGG
1 TTTATGG
*
15145791 TTTAAGG
1 TTTATGG
15145798 TTTA
1 TTTA
15145802 GATTAACTAG
Statistics
Matches: 92, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 8 0.09
7 64 0.70
8 20 0.22
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (7 bp):
TTTATGG
Found at i:15145692 original size:15 final size:15
Alignment explanation
Indices: 15145674--15145712 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15145664 TACCATTTTA
15145674 AGGTTTATGGATTAT
1 AGGTTTATGGATTAT
* *
15145689 AGGTTTAGGGGTTAT
1 AGGTTTATGGATTAT
15145704 -GGTTTATGG
1 AGGTTTATGG
15145713 TTTAAAGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (15 bp):
AGGTTTATGGATTAT
Found at i:15145695 original size:22 final size:21
Alignment explanation
Indices: 15145670--15145717 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
15145660 GTGTTACCAT
*
15145670 TTTAAGGTTTATGGATTATAGG
1 TTTAAGGGTTATGGATTAT-GG
* *
15145692 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
15145713 TTTAA
1 TTTAA
15145718 AGGCTGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:15145781 original size:21 final size:21
Alignment explanation
Indices: 15145749--15145801 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
15145739 AGGTTATTTG
15145749 TTAAGGGTTTATGGGTTTAGGGT
1 TTAA-GGTTTAT-GGTTTAGGGT
*
15145772 TTAA-GTTTATGGTTTATGGT
1 TTAAGGTTTATGGTTTAGGGT
15145792 TTAAGGTTTA
1 TTAAGGTTTA
15145802 GATTAACTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.46
21 11 0.39
23 4 0.14
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (21 bp):
TTAAGGTTTATGGTTTAGGGT
Found at i:15146129 original size:14 final size:14
Alignment explanation
Indices: 15146069--15146132 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
15146059 GGATTTAAGG
*
15146069 TTTAGGGGTTAGTA
1 TTTAGGGGTTAGGA
* *
15146083 GTTAGGGGTTAAGA
1 TTTAGGGGTTAGGA
* * *
15146097 GTTAAGAGTTAGTGA
1 TTTAGGGGTTAG-GA
15146112 TTTAGGGGTTAGGA
1 TTTAGGGGTTAGGA
15146126 TTTAGGG
1 TTTAGGG
15146133 ATTTAAGGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 29 0.73
15 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (14 bp):
TTTAGGGGTTAGGA
Found at i:15146806 original size:20 final size:19
Alignment explanation
Indices: 15146768--15146810 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
15146758 GGATATGATC
15146768 AAAATATAAGAAAAAATAA
1 AAAATATAAGAAAAAATAA
15146787 AAAATATAA-AAATGAAATAA
1 AAAATATAAGAAA--AAATAA
15146807 AAAA
1 AAAA
15146811 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 9 0.41
20 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAATATAAGAAAAAATAA
Found at i:15147621 original size:24 final size:24
Alignment explanation
Indices: 15147584--15147632 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 24
15147574 GAAAAAACTC
15147584 TTTTCTCCCTAAAAATTCCCTCCAAA
1 TTTTCTCCCTAAAAA-TCCC-CCAAA
15147610 TTTTC-CCC-AAAAATCCCCCAAA
1 TTTTCTCCCTAAAAATCCCCCAAA
15147632 T
1 T
15147633 CTAGAACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.26
23 4 0.17
24 5 0.22
25 3 0.13
26 5 0.22
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTTCTCCCTAAAAATCCCCCAAA
Found at i:15150676 original size:21 final size:21
Alignment explanation
Indices: 15150647--15150690 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
15150637 CTTAAAGCAG
*
15150647 AGGCGGCAGCGAGGGAAACAA
1 AGGCGGCAGCGAGAGAAACAA
* *
15150668 AGGCTGCAGCGAGAGAAGCAA
1 AGGCGGCAGCGAGAGAAACAA
15150689 AG
1 AG
15150691 CAGAGCAAAA
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:0.39, C:0.18, G:0.41, T:0.02
Consensus pattern (21 bp):
AGGCGGCAGCGAGAGAAACAA
Found at i:15152435 original size:20 final size:20
Alignment explanation
Indices: 15152412--15152457 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15152402 TGTTAATATT
*
15152412 TTGTTATTTATTCAAATAGG
1 TTGTTACTTATTCAAATAGG
*
15152432 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAATAGG
15152452 TTGTTA
1 TTGTTA
15152458 AGCTTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTCAAATAGG
Found at i:15156931 original size:20 final size:20
Alignment explanation
Indices: 15156908--15156953 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
15156898 TGTTAATATT
*
15156908 TTGTTATTTATTCAAATAGG
1 TTGTTACTTATTCAAATAGG
*
15156928 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAATAGG
15156948 TTGTTA
1 TTGTTA
15156954 AGCTTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTCAAATAGG
Found at i:15162337 original size:43 final size:42
Alignment explanation
Indices: 15162275--15162381 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
15162265 TACAATGCCA
* *
15162275 ATGTCCTAGAC-GTGGTCTTACAAGTAATCAAATATCGATGAC-
1 ATGTCCCAGACAG-GGTCTTACAAGAAATCAAATA-CGATGACG
* ** *
15162317 ACTGTCCCAGACAGGGTCTTACACGAAATCGTATACGATGCCG
1 A-TGTCCCAGACAGGGTCTTACAAGAAATCAAATACGATGACG
*
15162360 ATGTCCCAGACATGGTCTTACA
1 ATGTCCCAGACAGGGTCTTACA
15162382 CATAAATCTC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
42 27 0.49
43 27 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (42 bp):
ATGTCCCAGACAGGGTCTTACAAGAAATCAAATACGATGACG
Found at i:15163450 original size:13 final size:13
Alignment explanation
Indices: 15163432--15163458 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15163422 CACAAACGAT
15163432 AAAATTTTCACAC
1 AAAATTTTCACAC
15163445 AAAATTTTCACAC
1 AAAATTTTCACAC
15163458 A
1 A
15163459 TATTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:15170363 original size:4 final size:4
Alignment explanation
Indices: 15170356--15170412 Score: 114
Period size: 4 Copynumber: 14.2 Consensus size: 4
15170346 CCATTTTTTT
15170356 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
15170404 TATG TATG T
1 TATG TATG T
15170413 TTCTGATTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:15178351 original size:21 final size:20
Alignment explanation
Indices: 15178322--15178381 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
15178312 AAAAGCTACA
15178322 GAATTCTATCGGTAGAATTGG
1 GAATTCTATCGGTAGAATT-G
* * * *
15178343 GAGTTCTATTGATACAACTTG
1 GAATTCTATCGGTAGAA-TTG
15178364 GAATTCTATCGGTAGAAT
1 GAATTCTATCGGTAGAAT
15178382 GTACTCCAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.03
21 27 0.90
22 2 0.07
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (20 bp):
GAATTCTATCGGTAGAATTG
Found at i:15181315 original size:42 final size:42
Alignment explanation
Indices: 15181243--15181435 Score: 201
Period size: 42 Copynumber: 4.6 Consensus size: 42
15181233 TCGAAAGCTG
* * ** * *
15181243 AACAGAAGCTCATGAGAGCT-AAATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTGAACGA-AAACCCATAAGAGTTA
* *
15181285 AACAGAAGCTCGTAAAAGCTGAACGAAAACCCATATGAGTTA
1 AACAGAAGCTCATAAAAGCTGAACGAAAACCCATAAGAGTTA
* *
15181327 AACAGAAGCTCATAAAAGCTGAACAAAAACTCATAAGAGTTA
1 AACAGAAGCTCATAAAAGCTGAACGAAAACCCATAAGAGTTA
* * * *
15181369 AACAGAAGCTTA-AAAGAGCTGAATGAAAACTCATATGAGTTA
1 AACAGAAGCTCATAAA-AGCTGAACGAAAACCCATAAGAGTTA
* * *
15181411 AATAGAAGCTCATAAGAGCTAAACG
1 AACAGAAGCTCATAAAAGCTGAACG
15181436 GAAAGTAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
41 3 0.02
42 119 0.94
43 5 0.04
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (42 bp):
AACAGAAGCTCATAAAAGCTGAACGAAAACCCATAAGAGTTA
Found at i:15181389 original size:84 final size:83
Alignment explanation
Indices: 15181243--15181434 Score: 251
Period size: 84 Copynumber: 2.3 Consensus size: 83
15181233 TCGAAAGCTG
* * * * *
15181243 AACAGAAGCTCATGAGAGCTAAATAGAAACCCATAAGGGTTGAACAGAAGCTCGTAAAAGCTGAA
1 AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTAAACAGAAGCTC-TAAAAGCTGAA
15181308 CGAAAACCCATATGAGTTA
65 CGAAAACCCATATGAGTTA
* * *
15181327 AACAGAAGCTCATAAAAGCTGAACAAAAACTCATAAGAGTTAAACAGAAGCT-TAAAAGAGCTGA
1 AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTAAACAGAAGCTCT-AAA-AGCTGA
* *
15181391 ATGAAAACTCATATGAGTTA
64 ACGAAAACCCATATGAGTTA
*
15181411 AATAGAAGCTCATAAGAGCTAAAC
1 AACAGAAGCTCATAAGAGCTAAAC
15181435 GGAAAGTAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
82 1 0.01
83 3 0.03
84 89 0.96
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (83 bp):
AACAGAAGCTCATAAGAGCTAAACAAAAACCCATAAGAGTTAAACAGAAGCTCTAAAAGCTGAAC
GAAAACCCATATGAGTTA
Found at i:15181424 original size:21 final size:21
Alignment explanation
Indices: 15181224--15181434 Score: 115
Period size: 21 Copynumber: 10.1 Consensus size: 21
15181214 GTACATCGTT
* *
15181224 AACAGAAGCTC-GAA-AGCTG
1 AACAGAAGCTCATAAGAGCTA
*
15181243 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * * *
15181264 AATAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* * *
15181285 AACAGAAGCTCGTAAAAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * *
15181306 AAC-GAAAACCCATATGAGTTA
1 AACAG-AAGCTCATAAGAGCTA
* *
15181327 AACAGAAGCTCATAAAAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * *
15181348 AACAAAAACTCATAAGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* * *
15181369 AACAGAAGCTTAAAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * *
15181390 AA-TGAAAACTCATATGAGTTA
1 AACAG-AAGCTCATAAGAGCTA
*
15181411 AATAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
15181432 AAC
1 AAC
15181435 GGAAAGTAAA
Statistics
Matches: 133, Mismatches: 53, Indels: 10
0.68 0.27 0.05
Matches are distributed among these distances:
19 11 0.08
20 3 0.02
21 117 0.88
22 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:15183275 original size:232 final size:232
Alignment explanation
Indices: 15182869--15183324 Score: 786
Period size: 232 Copynumber: 2.0 Consensus size: 232
15182859 GGTTGTTACA
* *
15182869 CTCTTGGTGTATTTCGATCTTAACAATTGGTATCGGAGCTAGAACTCTAGAGACAATTTTACCAC
1 CTCTTGGTGTATTTCGATCTTAACAATTGGTATCGAAACTAGAACTCTAGAGACAATTTTACCAC
* * * *
15182934 CAAGAGAGAAGATATTCAAGATATCAAGATGGAAGCCATAAGTTAAGAAATTTGCTTCATGGCAT
66 CAAGAGAGAAGATACTCAAGATATCAAAATGGAAGCCATAAGTCAAGAAATTTACTTCATGGCAT
*
15182999 TGGAGCAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
131 TGGAGAAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
* *
15183064 ACCAACTACTTATATTGGAGAACAAGAATTTACCCCT
196 ACCAACTACTCATATTAGAGAACAAGAATTTACCCCT
**
15183101 CTCTTGGTGTATTTCGATCTTAACAATTGGTATCGAAACTAGAACTCTAGAGACGGTTTTACCAC
1 CTCTTGGTGTATTTCGATCTTAACAATTGGTATCGAAACTAGAACTCTAGAGACAATTTTACCAC
* *
15183166 CAAGAGAGAAGATCCTCAAGATATCAAAATGGAAGCTATAAGTCAAGAAATTTACTTCATGGCAT
66 CAAGAGAGAAGATACTCAAGATATCAAAATGGAAGCCATAAGTCAAGAAATTTACTTCATGGCAT
15183231 TGGAGAAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
131 TGGAGAAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
*
15183296 ATCAACTACTCATATTAGAGAACAAGAAT
196 ACCAACTACTCATATTAGAGAACAAGAAT
15183325 AAAGTTATTC
Statistics
Matches: 210, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
232 210 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (232 bp):
CTCTTGGTGTATTTCGATCTTAACAATTGGTATCGAAACTAGAACTCTAGAGACAATTTTACCAC
CAAGAGAGAAGATACTCAAGATATCAAAATGGAAGCCATAAGTCAAGAAATTTACTTCATGGCAT
TGGAGAAAAATTCCACCATATTAGGAGAAGGGCATTCCACCATGAGGCCTCATTTATTCAATGGC
ACCAACTACTCATATTAGAGAACAAGAATTTACCCCT
Found at i:15189235 original size:22 final size:22
Alignment explanation
Indices: 15189204--15189247 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15189194 GATATGCAAT
15189204 CTTAGAAGATATAATTTCGTAAA
1 CTTAGAAGATATAATTT-GTAAA
*
15189227 CTTAG-AGATTTAATTTGTAAA
1 CTTAGAAGATATAATTTGTAAA
15189248 TACCCTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
CTTAGAAGATATAATTTGTAAA
Found at i:15189480 original size:23 final size:23
Alignment explanation
Indices: 15189436--15189480 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15189426 TCTTATTTTG
* *
15189436 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
15189459 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
15189481 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:15189841 original size:36 final size:37
Alignment explanation
Indices: 15189766--15189841 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
15189756 CATACATACG
* *
15189766 TTTTATAATATATACATATACATACACATTTTTTAAT
1 TTTTATAATATATACATATACACACACATTTTATAAT
* *
15189803 TTTTATAA-ATATATATATACACATAC-TTTTATATAT
1 TTTTATAATATATACATATACACACACATTTTATA-AT
15189839 TTT
1 TTT
15189842 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.18
36 20 0.59
37 8 0.24
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.51
Consensus pattern (37 bp):
TTTTATAATATATACATATACACACACATTTTATAAT
Found at i:15189889 original size:23 final size:23
Alignment explanation
Indices: 15189873--15189917 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15189863 ACATACTTAT
15189873 ATATATATATTTTACATATTAAA
1 ATATATATATTTTACATATTAAA
* *
15189896 ATATGTATATTTATATATATTA
1 ATATATATATTT-TACATATTA
15189918 TTTTTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATATATTTTACATATTAAA
Found at i:15200912 original size:29 final size:30
Alignment explanation
Indices: 15200849--15200916 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
15200839 AATAGACTTG
*
15200849 AATTTTAAAATATAAAAAGTAAAAAGACTA
1 AATTCTAAAATATAAAAAGTAAAAAGACTA
*
15200879 AATTCCTAAAA-ATAAAAA-TACAAAA-ACTT
1 AATT-CTAAAATATAAAAAGTA-AAAAGACTA
15200908 AATTCTAAA
1 AATTCTAAA
15200917 TTTACAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.15
29 9 0.26
30 15 0.44
31 5 0.15
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (30 bp):
AATTCTAAAATATAAAAAGTAAAAAGACTA
Found at i:15201621 original size:21 final size:19
Alignment explanation
Indices: 15201596--15201635 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
15201586 GAAATAGAAG
15201596 AGAATGAAAAAAAAAGTTAAA
1 AGAAT-AAAAAAAAA-TTAAA
*
15201617 AGAATATAAAAAAATTAAA
1 AGAATAAAAAAAAATTAAA
15201636 TTGCTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (19 bp):
AGAATAAAAAAAAATTAAA
Found at i:15219295 original size:16 final size:16
Alignment explanation
Indices: 15219274--15219306 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15219264 TTCGCTGTAT
15219274 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
15219290 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
15219306 T
1 T
15219307 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:15219560 original size:18 final size:17
Alignment explanation
Indices: 15219539--15219573 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15219529 TTATTATTAA
*
15219539 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
15219557 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
15219574 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:15219665 original size:120 final size:120
Alignment explanation
Indices: 15219519--15220036 Score: 840
Period size: 120 Copynumber: 4.3 Consensus size: 120
15219509 TTAATCATAT
*
15219519 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
15219584 GAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
15219639 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
15219704 CAATATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
15219759 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
15219824 AAATATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * *
15219879 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATATT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
15219944 AAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 -AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
15220000 TCTAAAATAATTATTATTAAATATAATTTAA-TAAAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAAT
15220037 TCTTAATATT
Statistics
Matches: 378, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
120 295 0.78
121 83 0.22
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:15219680 original size:18 final size:17
Alignment explanation
Indices: 15219657--15219693 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
15219647 AATTATTATT
15219657 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
15219673 AAATATATGATTTAATA
1 AAATATATGATTTAATA
15219690 AAAT
1 AAAT
15219694 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:15219800 original size:18 final size:17
Alignment explanation
Indices: 15219777--15219813 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
15219767 AATTATTATT
15219777 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
15219793 AAATATATGATTTAATA
1 AAATATATGATTTAATA
15219810 AAAT
1 AAAT
15219814 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:15219922 original size:18 final size:18
Alignment explanation
Indices: 15219899--15219945 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
15219889 TTATTATTAA
15219899 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
15219917 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
15219935 AT-TAATATTAA
1 ATATAAT-TTAA
15219946 AATATTCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:15220075 original size:102 final size:103
Alignment explanation
Indices: 15219917--15220113 Score: 378
Period size: 102 Copynumber: 1.9 Consensus size: 103
15219907 TAATAAAAAT
15219917 ATATAATTTAATAAAATTATTAATATTAAAATATTCTTATATGAATTTACTAAAATCATAATATA
1 ATATAATTTAATAAAATTATTAATATTAAAATATTCTTATATGAATTTACTAAAATCATAATATA
15219982 TAATACTATAAAATATAATCTAAAATAATTATTATTAA
66 TAATACTATAAAATATAATCTAAAATAATTATTATTAA
*
15220020 ATATAATTTAATAAAATTCTTAATATT-AAATATTCTTATATGAATTTACTAAAATCATAATATA
1 ATATAATTTAATAAAATTATTAATATTAAAATATTCTTATATGAATTTACTAAAATCATAATATA
15220084 TAATACTATAAAATATAATCTAAAATAATT
66 TAATACTATAAAATATAATCTAAAATAATT
15220114 GATTTTGTGG
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
102 67 0.72
103 26 0.28
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.42
Consensus pattern (103 bp):
ATATAATTTAATAAAATTATTAATATTAAAATATTCTTATATGAATTTACTAAAATCATAATATA
TAATACTATAAAATATAATCTAAAATAATTATTATTAA
Found at i:15223894 original size:45 final size:45
Alignment explanation
Indices: 15223837--15223930 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
15223827 AACAGATACT
* *
15223837 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATAATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
* *
15223882 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
15223927 CGGT
1 CGGT
15223931 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
Found at i:15224027 original size:51 final size:50
Alignment explanation
Indices: 15223936--15224121 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 50
15223926 TCGGTTCACA
* * * * * *
15223936 TAGTAGCCTGCGCATAGCACTACACATGTGGCCATTACTATTCGATGCACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCA-AACTATTCGATGCACG
* *
15223987 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATTCGGTATGCA--
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCAAACTATTC-G-ATGCACG
* * * * * *
15224038 TAGTAGCCTACACATAGTACTACACATGCGACCTATC-ATTCCGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCAAACTATT-CGATGCACG
15224088 TAGTAGCCTACACATAGTACTACACACGTGACCA
1 TAGTAGCCTACACATAGTACTACACACGTGACCA
15224122 TCACTTTCAC
Statistics
Matches: 112, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
48 3 0.03
49 4 0.04
50 35 0.31
51 62 0.55
52 3 0.03
53 5 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCAAACTATTCGATGCACG
Found at i:15226382 original size:20 final size:19
Alignment explanation
Indices: 15226332--15226382 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
15226322 AATAGTTCTG
*
15226332 TCTCTTGATGAACAGTTGTA
1 TCTCTTG-TGAACAATTGTA
15226352 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
15226369 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
15226383 GATTCATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Done.