Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 50 of 444
Found at i:12010151 original size:21 final size:21
Alignment explanation
Indices: 12010125--12010171 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
12010115 TATTTTTCTT
12010125 CTTCTTCTTT-TC-CTTTCTTCC
1 CTTCTTCTTTCTCTCTTT-TT-C
12010146 CTTCTTCTTTCTCTCTTTTTC
1 CTTCTTCTTTCTCTCTTTTTC
12010167 CTTCT
1 CTTCT
12010172 GCTAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 16 0.67
22 4 0.17
23 4 0.17
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (21 bp):
CTTCTTCTTTCTCTCTTTTTC
Found at i:12010338 original size:27 final size:27
Alignment explanation
Indices: 12010280--12010338 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
12010270 TCCTACCTGA
* *
12010280 TAGGCGCGACATGTTGAGCCTGTCAGG
1 TAGGCGCGACATGTCGAGCCTCTCAGG
*
12010307 TAGGCGCGACATGTCGTGCCTACTCAGG
1 TAGGCGCGACATGTCGAGCCT-CTCAGG
12010335 -AGGC
1 TAGGC
12010339 TCAACCCGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.20
Consensus pattern (27 bp):
TAGGCGCGACATGTCGAGCCTCTCAGG
Found at i:12010947 original size:7 final size:7
Alignment explanation
Indices: 12010945--12010990 Score: 53
Period size: 6 Copynumber: 6.9 Consensus size: 7
12010935 TTTTTCTTCT
12010945 TTCTTTC
1 TTCTTTC
12010952 TTCTTTC
1 TTCTTTC
12010959 TT-TTTC
1 TTCTTTC
12010965 TTC-TTC
1 TTCTTTC
*
12010971 TTTTTTC
1 TTCTTTC
12010978 TT-TTTC
1 TTCTTTC
12010984 TCTCTTT
1 T-TCTTT
12010991 ACTCCTGGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
6 16 0.47
7 15 0.44
8 3 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTCTTTC
Found at i:12010966 original size:13 final size:13
Alignment explanation
Indices: 12010935--12010984 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
12010925 AATTACTAAT
12010935 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
12010948 --TTTCTTCTTTC
1 TTTTTCTTCTTTC
12010959 TTTTTCTTC-TTC
1 TTTTTCTTCTTTC
12010971 TTTTTTCTT-TTTC
1 -TTTTTCTTCTTTC
12010984 T
1 T
12010985 CTCTTTACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 11 0.33
12 4 0.12
13 18 0.55
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:12010984 original size:16 final size:16
Alignment explanation
Indices: 12010937--12010990 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
12010927 TTACTAATTT
12010937 TTTCTTCTTTCTTTCTTC
1 TTTCTT-TTT-TTTCTTC
*
12010955 TTTCTTTTTCTTCTTC
1 TTTCTTTTTTTTCTTC
12010971 TTT-TTTCTTTTTCTCTC
1 TTTCTTT-TTTTTCT-TC
12010988 TTT
1 TTT
12010991 ACTCCTGGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 3 0.09
16 15 0.47
17 8 0.25
18 6 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTC
Found at i:12013833 original size:4 final size:4
Alignment explanation
Indices: 12013803--12013842 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
12013793 ATCAAATACT
* * *
12013803 TAAA AAAA TAAA CAAA TAAA CAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
12013843 CCTCCTCGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (4 bp):
TAAA
Found at i:12015698 original size:14 final size:15
Alignment explanation
Indices: 12015674--12015702 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12015664 TTGGACTTAT
12015674 ATTTAATATTATTAA
1 ATTTAATATTATTAA
12015689 ATTT-ATATTATTAA
1 ATTTAATATTATTAA
12015703 TTACTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATATTATTAA
Found at i:12017216 original size:7 final size:7
Alignment explanation
Indices: 12017206--12017286 Score: 135
Period size: 7 Copynumber: 11.6 Consensus size: 7
12017196 CTTCAATCCC
12017206 CAATTTT
1 CAATTTT
12017213 CAATTTT
1 CAATTTT
12017220 CAATTTT
1 CAATTTT
12017227 CAATTTT
1 CAATTTT
12017234 CAATTTT
1 CAATTTT
12017241 CAATTTT
1 CAATTTT
*
12017248 CAATCTT
1 CAATTTT
*
12017255 CAAATTT
1 CAATTTT
12017262 CAATTTT
1 CAATTTT
12017269 CAATTTT
1 CAATTTT
*
12017276 AAATTTT
1 CAATTTT
12017283 CAAT
1 CAAT
12017287 CATCAAATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.53
Consensus pattern (7 bp):
CAATTTT
Found at i:12020920 original size:50 final size:50
Alignment explanation
Indices: 12020866--12021297 Score: 212
Period size: 50 Copynumber: 9.1 Consensus size: 50
12020856 AGTTGGTCGA
*
12020866 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTATAGTGGAGCAG
1 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAG
* * * ***
12020916 ATTG-A---ACC-TA-CAAATCTTATAC-CCCTGAAGTTGCAGTAGG-TTTG
1 ATTGAATCTACCATAGCGAATCTTAT-CTCACTGAAGTTGTAGT-GGAGCAG
* *
12020960 ATTGAATCTACCATAGCGAATCTTATCTTC-CTGAAATTGTAGTGGAACAG
1 ATTGAATCTACCATAGCGAATCTTATC-TCACTGAAGTTGTAGTGGAGCAG
* * * * *
12021010 ATTGAAGCTA-C--A---AATCCTATAC-CCCTGAAGTTGCAATGG-GTCAG
1 ATTGAATCTACCATAGCGAATCTTAT-CTCACTGAAGTTGTAGTGGAG-CAG
* * * * *
12021054 ATTGAATTTACCATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAA
1 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAG
* * * *
12021104 ATTGAAGCTA-C--A---AATCTTATAC-CTCTGAAGTTGTAATGG-GTCGG
1 ATTGAATCTACCATAGCGAATCTTAT-CTCACTGAAGTTGTAGTGGAG-CAG
* * *
12021148 ATTAAATTTACCATAGCGAATCTTATCTCACTAAAGTTGTAGTGGAGCAG
1 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAG
* * * * * *
12021198 ATT-AA---AAC-TA-CAAATCTTATAC-CCCTGAAGTTGCAATGG-GTCAA
1 ATTGAATCTACCATAGCGAATCTTAT-CTCACTGAAGTTGTAGTGGAG-CAG
* * * *
12021242 ATTGATTCTACTATAGCGAATCTTATCTC-CTTGAAGTTGCAGTGGAGTAG
1 ATTGAATCTACCATAGCGAATCTTATCTCAC-TGAAGTTGTAGTGGAGCAG
12021292 ATTGAA
1 ATTGAA
12021298 GCTGCAAATC
Statistics
Matches: 286, Mismatches: 53, Indels: 86
0.67 0.12 0.20
Matches are distributed among these distances:
43 3 0.01
44 114 0.40
45 14 0.05
46 5 0.02
47 4 0.01
48 4 0.01
49 16 0.06
50 122 0.43
51 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (50 bp):
ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAG
Found at i:12020994 original size:94 final size:94
Alignment explanation
Indices: 12020866--12021323 Score: 623
Period size: 94 Copynumber: 4.9 Consensus size: 94
12020856 AGTTGGTCGA
* *
12020866 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTATAGTGGAGCAGATTGAACCTACAAAT
1 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
* * **
12020931 CTTATACCCCTGAAGTTGCAGTAGGTTTG
66 CTTATACCCCTGAAGTTGCAATGGGTCAG
* *
12020960 ATTGAATCTACCATAGCGAATCTTATCTTC-CTGAAATTGTAGTGGAACAGATTGAAGCTACAAA
1 ATTGAATCTACCATAGCGAATCTTATC-TCACTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAA
*
12021024 TCCTATACCCCTGAAGTTGCAATGGGTCAG
65 TCTTATACCCCTGAAGTTGCAATGGGTCAG
* * * * *
12021054 ATTGAATTTACCATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGCTACAAAT
1 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
* * *
12021119 CTTATACCTCTGAAGTTGTAATGGGTCGG
66 CTTATACCCCTGAAGTTGCAATGGGTCAG
* * * * *
12021148 ATTAAATTTACCATAGCGAATCTTATCTCACTAAAGTTGTAGTGGAGCAGATTAAAACTACAAAT
1 ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
*
12021213 CTTATACCCCTGAAGTTGCAATGGGTCAA
66 CTTATACCCCTGAAGTTGCAATGGGTCAG
* * * * *
12021242 ATTGATTCTACTATAGCGAATCTTATCTC-CTTGAAGTTGCAGTGGAGTAGATTGAAGCTGCAAA
1 ATTGAATCTACCATAGCGAATCTTATCTCAC-TGAAGTTGTAGTGGAGCAGATTGAAGCTACAAA
*
12021306 TCTTATACTCCTGAAGTT
65 TCTTATACCCCTGAAGTT
12021324 ACAGTAGATT
Statistics
Matches: 319, Mismatches: 42, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
93 3 0.01
94 314 0.98
95 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (94 bp):
ATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAAT
CTTATACCCCTGAAGTTGCAATGGGTCAG
Found at i:12021339 original size:94 final size:93
Alignment explanation
Indices: 12020864--12021384 Score: 578
Period size: 94 Copynumber: 5.5 Consensus size: 93
12020854 TTAGTTGGTC
** *
12020864 GAATTGAATCTACCATAGCGAATCTTATCTCACTGAAGTTATAGTGGAGCAGATTGAACCTACAA
1 GAATTGAATCTACCATAGCGAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
*
12020929 ATCTTATACCCCTGAAGTTGCAGTAGGTTT
65 ATCTTATACCCCTGAAGTTGCAATAGG-TT
* * *
12020959 G-ATTGAATCTACCATAGCGAATCTTATCTTCCTGAAATTGTAGTGGAACAGATTGAAGCTACAA
1 GAATTGAATCTACCATAGCGAATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
* *
12021023 ATCCTATACCCCTGAAGTTGCAAT-GGGT
65 ATCTTATACCCCTGAAGTTGCAATAGGTT
* * * *
12021051 CAGATTGAATTTACCATAGCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGCTACA
1 GA-ATTGAATCTACCATAGCGAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
12021116 AATCTTATACCTCTGAAGTTGTAATGGGTC
64 AATCTTATACCCCTGAAGTTGCAATAGGTT
* * * * * * *
12021146 GGATTAAATTTACCATAGCGAATCTTATCTCACTAAAGTTGTAGTGGAGCAGATTAAAACTACAA
1 GAATTGAATCTACCATAGCGAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
* *
12021211 ATCTTATACCCCTGAAGTTGCAATGGGTC
65 ATCTTATACCCCTGAAGTTGCAATAGGTT
* * * * *
12021240 AAATTGATTCTACTATAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTGCAA
1 GAATTGAATCTACCATAGCGAATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGCTACAA
* * * *
12021305 ATCTTATACTCCTGAAGTTACAGTAGATT
65 ATCTTATACCCCTGAAGTTGCAATAGGTT
* * * * * * *
12021334 GAATTGAAACTACAAAAACAAATCTTATTTCCTTGAAGTTGCAATGGAGCA
1 GAATTGAATCTACCATAGCGAATCTTATCTCC-TGAAGTTGCAGTGGAGCA
12021385 AGATGAAATT
Statistics
Matches: 361, Mismatches: 59, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
92 1 0.00
93 5 0.01
94 350 0.97
95 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (93 bp):
GAATTGAATCTACCATAGCGAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
TCTTATACCCCTGAAGTTGCAATAGGTT
Found at i:12021358 original size:282 final size:282
Alignment explanation
Indices: 12020831--12021385 Score: 713
Period size: 282 Copynumber: 2.0 Consensus size: 282
12020821 CAATGAAACC
* * * *
12020831 ACAAATCTTATACCATTAAAGTTTTAGTTGGTCGAATTGAATCTACCATAGCGAATCTTATCTCA
1 ACAAATCTTATACCATTAAAGTTGTAATGGGTCGAATTAAATCTACCATAGCGAATCTTATCTCA
* * * * ***
12020896 CTGAAGTTATAGTGGAGCAGATTGAACCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTTTGA
66 CTAAAGTTATAGTGGAGCAGATTAAAACTACAAATCTTATACCCCTGAAGTTGCAATAGGTCAAA
*
12020961 TTGAATCTACCATAGCGAATCTTATCTTCCTGAAATTGTAGTGGAACAGATTGAAGCTACAAATC
131 TTGAATCTACCATAGCGAATCTTATCTTCCTGAAATTGCAGTGGAACAGATTGAAGCTACAAATC
* * ** * * *
12021026 CTATACCCCTGAAGTTGCAATGGGTCAGATTGAATTTACCATAGCAAATCTTATCT-CTCTGAAG
196 CTATACCCCTGAAGTTACAATGAGTCAGATTGAAACTACAAAAACAAATCTTATCTCCT-TGAAG
*
12021090 TTGCAGTGGAGCAAATTGAAGCT
260 TTGCAATGGAGCAAATTGAAGCT
* * *
12021113 ACAAATCTTATACC-TCTGAAGTTGTAATGGGTCGGATTAAATTTACCATAGCGAATCTTATCTC
1 ACAAATCTTATACCAT-TAAAGTTGTAATGGGTCGAATTAAATCTACCATAGCGAATCTTATCTC
* *
12021177 ACTAAAGTTGTAGTGGAGCAGATTAAAACTACAAATCTTATACCCCTGAAGTTGCAATGGGTCAA
65 ACTAAAGTTATAGTGGAGCAGATTAAAACTACAAATCTTATACCCCTGAAGTTGCAATAGGTCAA
* * * ** *
12021242 ATTGATTCTACTATAGCGAATCTTATC-TCCTTGAAGTTGCAGTGGAGTAGATTGAAGCTGCAAA
130 ATTGAATCTACCATAGCGAATCTTATCTTCC-TGAAATTGCAGTGGAACAGATTGAAGCTACAAA
* * * * * *
12021306 TCTTATACTCCTGAAGTTACAGTAGATTGA-ATTGAAACTACAAAAACAAATCTTATTTCCTTGA
194 TCCTATACCCCTGAAGTTACAAT-GAGTCAGATTGAAACTACAAAAACAAATCTTATCTCCTTGA
12021370 AGTTGCAATGGAGCAA
258 AGTTGCAATGGAGCAA
12021386 GATGAAATTA
Statistics
Matches: 232, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
281 4 0.02
282 223 0.96
283 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (282 bp):
ACAAATCTTATACCATTAAAGTTGTAATGGGTCGAATTAAATCTACCATAGCGAATCTTATCTCA
CTAAAGTTATAGTGGAGCAGATTAAAACTACAAATCTTATACCCCTGAAGTTGCAATAGGTCAAA
TTGAATCTACCATAGCGAATCTTATCTTCCTGAAATTGCAGTGGAACAGATTGAAGCTACAAATC
CTATACCCCTGAAGTTACAATGAGTCAGATTGAAACTACAAAAACAAATCTTATCTCCTTGAAGT
TGCAATGGAGCAAATTGAAGCT
Found at i:12021676 original size:15 final size:15
Alignment explanation
Indices: 12021656--12021686 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12021646 TAAAAATAAT
12021656 AAAAGTCCATTAACA
1 AAAAGTCCATTAACA
*
12021671 AAAAGTCCATTTACA
1 AAAAGTCCATTAACA
12021686 A
1 A
12021687 GCCCAAAACA
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:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAGTCCATTAACA
Found at i:12029785 original size:20 final size:20
Alignment explanation
Indices: 12029736--12029787 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
12029726 TAAATAATTA
*
12029736 TTAAATAATTATAGAAGAATCT
1 TTAAA-AATTAT-TAAGAATCT
12029758 TTAAAAATTATTAAGAA-CT
1 TTAAAAATTATTAAGAATCT
12029777 TTAAGAAATTA
1 TTAA-AAATTA
12029788 GAAATACTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
21 6 0.21
22 5 0.18
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.37
Consensus pattern (20 bp):
TTAAAAATTATTAAGAATCT
Found at i:12032162 original size:2 final size:2
Alignment explanation
Indices: 12032155--12032197 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
12032145 TTAAAACTTA
12032155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
12032198 GATTAGACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12032469 original size:38 final size:38
Alignment explanation
Indices: 12032421--12032493 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
12032411 AGCATACCTA
* *
12032421 AATCTATTGTTGGAGATTGCCTATAAGATTTTAATTTG
1 AATCCATTGTTGGAGATTGCCTAAAAGATTTTAATTTG
*
12032459 AATCCATTGTTGGAGATTGCCTAAAAGGTTTTAAT
1 AATCCATTGTTGGAGATTGCCTAAAAGATTTTAAT
12032494 CTTCCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (38 bp):
AATCCATTGTTGGAGATTGCCTAAAAGATTTTAATTTG
Found at i:12034828 original size:37 final size:36
Alignment explanation
Indices: 12034764--12034834 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
12034754 ATTCCAAAAA
12034764 TAATATTATTTTAATAGATTTAATATTAAATTAAATT
1 TAATATTATTTTAATAGATTT-ATATTAAATTAAATT
*
12034801 TAATACTTATTTTAATAGCATTT-TATTAATTTAA
1 TAATA-TTATTTTAATAG-ATTTATATTAAATTAA
12034835 TATTAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 15 0.48
38 12 0.39
39 4 0.13
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (36 bp):
TAATATTATTTTAATAGATTTATATTAAATTAAATT
Found at i:12039040 original size:26 final size:26
Alignment explanation
Indices: 12039011--12039118 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12039001 TGGTACAAAT
*
12039011 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
12039037 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
12039063 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
12039089 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
12039115 TGAT
1 TGAT
12039119 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:12040757 original size:27 final size:27
Alignment explanation
Indices: 12040717--12040826 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
12040707 AGGAAGCGTC
12040717 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* *
12040744 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
*
12040770 CCTGGTGGCTATACCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
*
12040798 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
12040825 CT
1 CT
12040827 AGTGACTTCG
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.13
27 59 0.83
28 3 0.04
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:12040796 original size:54 final size:53
Alignment explanation
Indices: 12040714--12040822 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 53
12040704 TGGAGGAAGC
* *
12040714 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACA-ATATCT
12040768 GTCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACAATATCT
1 GTCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACAATATCT
12040821 GT
1 GT
12040823 ATCTAGTGAC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 8 0.15
54 45 0.85
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (53 bp):
GTCCTGGTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACAATATCT
Found at i:12043980 original size:38 final size:38
Alignment explanation
Indices: 12043929--12044003 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
12043919 AACATACTAG
* * *
12043929 AATCCATTGTTGGAGATTGCGCAGAAGGTTTTAATCTA
1 AATCCATTGTTGGAGATTACCCAAAAGGTTTTAATCTA
12043967 AATCCATTGTTGGAGATTACCCAAAAGGTTTTAATCT
1 AATCCATTGTTGGAGATTACCCAAAAGGTTTTAATCT
12044004 TCCAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (38 bp):
AATCCATTGTTGGAGATTACCCAAAAGGTTTTAATCTA
Found at i:12044861 original size:30 final size:32
Alignment explanation
Indices: 12044809--12044872 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
12044799 ACATTAAAAA
*
12044809 ATTAAGAAAACTAACATCACAAA-AAAAATCC
1 ATTAAGAAAACTAACATAACAAACAAAAATCC
*
12044840 ATTAA-AAAATTAACATAACAAACAAAAATCC
1 ATTAAGAAAACTAACATAACAAACAAAAATCC
12044871 AT
1 AT
12044873 CAATCTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.62, C:0.17, G:0.02, T:0.19
Consensus pattern (32 bp):
ATTAAGAAAACTAACATAACAAACAAAAATCC
Found at i:12045507 original size:19 final size:19
Alignment explanation
Indices: 12045456--12045499 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
12045446 TGGAACGAGA
12045456 AAAGAAAATGAAAGGGAAAGGG
1 AAAGAAAA--AAA-GGAAAGGG
*
12045478 AAAGAATAAAAGGAAAGGG
1 AAAGAAAAAAAGGAAAGGG
12045497 AAA
1 AAA
12045500 AAGAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 3 0.14
22 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.05
Consensus pattern (19 bp):
AAAGAAAAAAAGGAAAGGG
Found at i:12047383 original size:26 final size:26
Alignment explanation
Indices: 12047329--12047409 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
12047319 AATTTCAGAA
* * *
12047329 AAATAATATGTAAAACAATATTAAAAT
1 AAATAATATATAAGACACT-TTAAAAT
12047356 AAATAATATACTAAGTA-A-TTTAAAAT
1 AAATAATATA-TAAG-ACACTTTAAAAT
*
12047382 AAATAATGTATAAGACACTTTAAAAT
1 AAATAATATATAAGACACTTTAAAAT
12047408 AA
1 AA
12047410 CATATAAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.02
25 5 0.11
26 26 0.55
27 10 0.21
28 4 0.09
29 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (26 bp):
AAATAATATATAAGACACTTTAAAAT
Found at i:12047736 original size:50 final size:49
Alignment explanation
Indices: 12047560--12047843 Score: 145
Period size: 50 Copynumber: 5.8 Consensus size: 49
12047550 AAAAGAGAAG
** * * * ** *
12047560 TTAAAATAGTTAACATATAAAATCGTAT-AACTAAATAACATGTAGAAAT
1 TTAAAATAAATAACATATAAAATAGTTTAAAAT-AATAACATAAAAAAAT
*
12047609 TTAAAATAGATAACACATATAAAAATAG-TTAAAA-AATAACATAAAAAAATAT
1 TTAAAATAAAT-A-ACATAT-AAAATAGTTTAAAATAATAACAT-AAAAAA-AT
* ** * *
12047661 TTAAACTAAAT-A-ATGCAAAACAGTTTAAAATAACTAACATAAAAAAGT
1 TTAAAATAAATAACATATAAAATAGTTTAAAATAA-TAACATAAAAAAAT
* * ** * *
12047709 TTAAAATAAATAACATATAAAATAGTTTAAACTACATCATGTATATAAAT
1 TTAAAATAAATAACATATAAAATAGTTTAAAATA-ATAACATAAAAAAAT
* * * * * * *
12047759 TTAAAATATATAATATGT-AAA-AGTTTAAAACAAATAATGTATATAAAAAC
1 TTAAAATAAATAACATATAAAATAGTTTAAAA-TAATAA--CATAAAAAAAT
* *
12047809 TTAAAATAAATAATATGTAAAATAG-TTAAAA-AATA
1 TTAAAATAAATAACATATAAAATAGTTTAAAATAATA
12047844 TATAACGAAA
Statistics
Matches: 184, Mismatches: 34, Indels: 34
0.73 0.13 0.13
Matches are distributed among these distances:
47 6 0.03
48 30 0.16
49 28 0.15
50 79 0.43
51 20 0.11
52 21 0.11
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (49 bp):
TTAAAATAAATAACATATAAAATAGTTTAAAATAATAACATAAAAAAAT
Found at i:12047762 original size:74 final size:73
Alignment explanation
Indices: 12047627--12047795 Score: 170
Period size: 74 Copynumber: 2.3 Consensus size: 73
12047617 GATAACACAT
12047627 ATAAAAATAG-TT-AAAAAATAACATAAAAAAATATTTAAACTAAATAATGCAAAACAGTTTAAA
1 ATAAAAA-AGTTTAAAAAAATAACATAAAAAAATATTTAAACTAAATAATGCAAAACAGTTTAAA
12047690 ATA-ACTAAC
65 ATATA-TAAC
* * * *
12047699 ATAAAAAAGTTTAAAATAAATAACAT-ATAAAATAGTTTAAACTACATCATGTATATAA-A-TTT
1 ATAAAAAAGTTTAAAA-AAATAACATAAAAAAATA-TTTAAACTAAATAATGCA-A-AACAGTTT
*
12047761 AAAATATATAAT
62 AAAATATATAAC
**
12047773 ATGTAAAAGTTTAAAACAAATAA
1 ATAAAAAAGTTTAAAA-AAATAA
12047796 TGTATATAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
71 2 0.02
72 9 0.11
73 10 0.12
74 56 0.68
75 3 0.04
76 2 0.02
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.29
Consensus pattern (73 bp):
ATAAAAAAGTTTAAAAAAATAACATAAAAAAATATTTAAACTAAATAATGCAAAACAGTTTAAAA
TATATAAC
Found at i:12047776 original size:26 final size:25
Alignment explanation
Indices: 12047747--12047827 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 25
12047737 AAACTACATC
*
12047747 ATGTATATAAATTTAAAATATATAAT
1 ATGTATA-AAATTTAAAATAAATAAT
* *
12047773 ATGTA-AAAGTTTAAAACAAATAAT
1 ATGTATAAAATTTAAAATAAATAAT
* * *
12047797 GTATATAAAAACTTAAAATAAATAAT
1 ATGTAT-AAAATTTAAAATAAATAAT
12047823 ATGTA
1 ATGTA
12047828 AAATAGTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 18 0.42
25 1 0.02
26 24 0.56
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
ATGTATAAAATTTAAAATAAATAAT
Found at i:12047840 original size:26 final size:26
Alignment explanation
Indices: 12047625--12047867 Score: 121
Period size: 24 Copynumber: 9.9 Consensus size: 26
12047615 TAGATAACAC
12047625 ATATA-AAAATAG-TT-AAA-AAATA
1 ATATATAAAATAGTTTAAAATAAATA
* * *
12047647 ACATAAAAAAATA-TTTAAACTAAAT-
1 ATAT-ATAAAATAGTTTAAAATAAATA
** * *
12047672 A-ATGCAAAACAGTTTAAAATAACTA
1 ATATATAAAATAGTTTAAAATAAATA
*
12047697 ACATA-AAAA-AGTTTAAAATAAATA
1 ATATATAAAATAGTTTAAAATAAATA
* * * *
12047721 ACATATAAAATAGTTTAAACTACATC
1 ATATATAAAATAGTTTAAAATAAATA
* * *
12047747 ATGTATATAA-A-TTTAAAATATATA
1 ATATATAAAATAGTTTAAAATAAATA
* *
12047771 ATATGT-AAA-AGTTTAAAACAAATA
1 ATATATAAAATAGTTTAAAATAAATA
*
12047795 ATGTATATAAAA-A-CTTAAAATAAATA
1 A--TATATAAAATAGTTTAAAATAAATA
*
12047821 ATATGTAAAATAG-TT-AAA-AAAT-
1 ATATATAAAATAGTTTAAAATAAATA
*
12047843 ATATA-ACGAAACAGTTTAAAATAAA
1 ATATATA--AAATAGTTTAAAATAAA
12047868 AGGTCAATGA
Statistics
Matches: 171, Mismatches: 29, Indels: 38
0.72 0.12 0.16
Matches are distributed among these distances:
21 1 0.01
22 7 0.04
23 18 0.11
24 78 0.46
25 19 0.11
26 44 0.26
27 4 0.02
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (26 bp):
ATATATAAAATAGTTTAAAATAAATA
Found at i:12048674 original size:17 final size:16
Alignment explanation
Indices: 12048648--12048679 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12048638 AAAATAAAAT
12048648 AAAAAAAAGAAACAAG
1 AAAAAAAAGAAACAAG
12048664 AAAATAAAAGAAACAA
1 AAAA-AAAAGAAACAA
12048680 AAAGATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.81, C:0.06, G:0.09, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAACAAG
Found at i:12049739 original size:6 final size:6
Alignment explanation
Indices: 12049728--12049812 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
12049718 GATACCCTTA
* *
12049728 TCCACC TCCACC TCCACCC CCACAACC TCCACC TCCACAACC TGCACCC
1 TCCACC TCCACC TCCA-CC TC-C-ACC TCCACC T-C-C-ACC TCCA-CC
*
12049777 GCACAACC TCCACC TCCACC TCCACC TCCACC TCCA
1 TC-CA-CC TCCACC TCCACC TCCACC TCCACC TCCA
12049813 TAACGTCTGC
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
6 39 0.61
7 10 0.16
8 10 0.16
9 5 0.08
ACGTcount: A:0.22, C:0.62, G:0.02, T:0.13
Consensus pattern (6 bp):
TCCACC
Found at i:12049745 original size:12 final size:13
Alignment explanation
Indices: 12049728--12049812 Score: 68
Period size: 15 Copynumber: 6.3 Consensus size: 13
12049718 GATACCCTTA
12049728 TCCACCTC-CACC
1 TCCACCTCACACC
*
12049740 TCCACCCCCACAACC
1 TCCA-CCTCAC-ACC
12049755 TCCACCTCCACAACC
1 TCCACCT-CAC-ACC
* *
12049770 TGCACCCGCACAACC
1 TCCA-CCTCAC-ACC
12049785 TCCACCTC-CACC
1 TCCACCTCACACC
12049797 TCCACCTC-CACC
1 TCCACCTCACACC
12049809 TCCA
1 TCCA
12049813 TAACGTCTGC
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
12 23 0.37
13 4 0.06
14 6 0.10
15 27 0.44
16 2 0.03
ACGTcount: A:0.22, C:0.62, G:0.02, T:0.13
Consensus pattern (13 bp):
TCCACCTCACACC
Found at i:12049757 original size:15 final size:15
Alignment explanation
Indices: 12049737--12049795 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
12049727 ATCCACCTCC
12049737 ACCTCCACCCCCACA
1 ACCTCCACCCCCACA
*
12049752 ACCTCCACCTCCACA
1 ACCTCCACCCCCACA
* *
12049767 ACCTGCACCCGCACA
1 ACCTCCACCCCCACA
*
12049782 ACCTCCACCTCCAC
1 ACCTCCACCCCCAC
12049796 CTCCACCTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.25, C:0.61, G:0.03, T:0.10
Consensus pattern (15 bp):
ACCTCCACCCCCACA
Found at i:12049782 original size:30 final size:30
Alignment explanation
Indices: 12049737--12049795 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
12049727 ATCCACCTCC
12049737 ACCTCCACCCCCACAACCTCCACCTCCACA
1 ACCTCCACCCCCACAACCTCCACCTCCACA
* *
12049767 ACCTGCACCCGCACAACCTCCACCTCCAC
1 ACCTCCACCCCCACAACCTCCACCTCCAC
12049796 CTCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.61, G:0.03, T:0.10
Consensus pattern (30 bp):
ACCTCCACCCCCACAACCTCCACCTCCACA
Found at i:12051906 original size:16 final size:16
Alignment explanation
Indices: 12051885--12051915 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12051875 TGTTTCTTTT
*
12051885 TTTTATGTTTTATTTA
1 TTTTATATTTTATTTA
12051901 TTTTATATTTTATTT
1 TTTTATATTTTATTT
12051916 TAATAATATA
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:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTATATTTTATTTA
Found at i:12051938 original size:24 final size:22
Alignment explanation
Indices: 12051911--12051955 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
12051901 TTTTATATTT
12051911 TATTTTAATAATATAATATAATAA
1 TATTTTAATAATA-AA-ATAATAA
12051935 TATTTTAATAATAAAATAATA
1 TATTTTAATAATAAAATAATA
12051956 TTTACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTTTAATAATAAAATAATAA
Found at i:12051947 original size:19 final size:18
Alignment explanation
Indices: 12051923--12051972 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
12051913 TTTTAATAAT
12051923 ATAATATAATAATATTTTA
1 ATAATATAATAATA-TTTA
*
12051942 ATAATAAAATAATATTTA
1 ATAATATAATAATATTTA
* *
12051960 CTTATATAATAAT
1 ATAATATAATAAT
12051973 TAAATAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATATAATAATATTTA
Found at i:12052743 original size:15 final size:14
Alignment explanation
Indices: 12052712--12052768 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 14
12052702 ACCCTCATCC
12052712 ACCTCCACCCC-CA
1 ACCTCCACCCCACA
12052725 ACCTCCACCTCCACA
1 ACCTCCACC-CCACA
12052740 ACCTCCACCCGCACA
1 ACCTCCACCC-CACA
*
12052755 ACATCCACCTCCAC
1 ACCTCCACC-CCAC
12052769 CTCCACATTC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
13 9 0.23
14 3 0.08
15 26 0.67
16 1 0.03
ACGTcount: A:0.26, C:0.61, G:0.02, T:0.11
Consensus pattern (14 bp):
ACCTCCACCCCACA
Found at i:12052764 original size:30 final size:28
Alignment explanation
Indices: 12052712--12052768 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 28
12052702 ACCCTCATCC
*
12052712 ACCTCCACCCCCAACCTCCACCTCCACA
1 ACCTCCACCCCCAACATCCACCTCCACA
12052740 ACCTCCACCCGCACAACATCCACCTCCAC
1 ACCTCCACCC-C-CAACATCCACCTCCAC
12052769 CTCCACATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 10 0.38
29 1 0.04
30 15 0.58
ACGTcount: A:0.26, C:0.61, G:0.02, T:0.11
Consensus pattern (28 bp):
ACCTCCACCCCCAACATCCACCTCCACA
Found at i:12053376 original size:26 final size:26
Alignment explanation
Indices: 12053339--12053520 Score: 286
Period size: 26 Copynumber: 7.2 Consensus size: 26
12053329 TGATACAAAT
* *
12053339 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
12053365 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
12053391 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
12053417 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
12053443 TGATAAT--GTTA--TAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
12053464 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
12053490 TGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
12053515 TGATAA
1 TGATAA
12053521 GAATTTCATG
Statistics
Matches: 145, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
21 11 0.08
22 6 0.04
23 4 0.03
24 4 0.03
25 16 0.11
26 104 0.72
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:12059302 original size:26 final size:25
Alignment explanation
Indices: 12059209--12059315 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 25
12059199 TGATACAAAT
*
12059209 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
12059235 TGATAATGGTTAGGTAAATG-TTCA
1 TGATAATGGTTAGGTAAATGTTTCA
12059259 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTTCA
12059284 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
12059310 TGATAA
1 TGATAA
12059316 GAATTTCATG
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
24 23 0.29
25 24 0.31
26 31 0.40
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:12066915 original size:15 final size:15
Alignment explanation
Indices: 12066895--12066927 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
12066885 TTAATATGGG
12066895 TATGTAATATAG-ATA
1 TATGT-ATATAGAATA
12066910 TATGTATATAGAATA
1 TATGTATATAGAATA
12066925 TAT
1 TAT
12066928 TTAAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (15 bp):
TATGTATATAGAATA
Found at i:12067015 original size:12 final size:12
Alignment explanation
Indices: 12066998--12067023 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12066988 ACACTAAATA
12066998 ACATATAATAAT
1 ACATATAATAAT
12067010 ACATATAATAAT
1 ACATATAATAAT
12067022 AC
1 AC
12067024 TAAAATCGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (12 bp):
ACATATAATAAT
Found at i:12067070 original size:4 final size:4
Alignment explanation
Indices: 12067061--12067091 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
12067051 ATAAAAAGTA
12067061 AAAT AAAT AAAT AAAT AAAT AAAT ATAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AA
12067092 CATATGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:12067496 original size:20 final size:21
Alignment explanation
Indices: 12067448--12067496 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
12067438 GGAAAAAACA
* *
12067448 ATAATAAAAAAATATGTATGC
1 ATAATATAAAAATATGTATAC
* *
12067469 ATAGTATAAAAA-ATGTATAT
1 ATAATATAAAAATATGTATAC
12067489 ATAATATA
1 ATAATATA
12067497 GTGTTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (21 bp):
ATAATATAAAAATATGTATAC
Found at i:12075507 original size:27 final size:25
Alignment explanation
Indices: 12075450--12075515 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
12075440 TACATAATAT
*
12075450 ATATACATATAATATAGTTATTAAA
1 ATATACATACAATATAGTTATTAAA
*
12075475 AAATACATACAATATTTAG-TATTAAGA
1 ATATACATACAATA--TAGTTATTAA-A
12075502 ATATAC--ACAATATA
1 ATATACATACAATATA
12075516 TATATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 2 0.06
25 18 0.51
26 6 0.17
27 9 0.26
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATACATACAATATAGTTATTAAA
Found at i:12075587 original size:48 final size:51
Alignment explanation
Indices: 12075491--12075589 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 51
12075481 ATACAATATT
* * *
12075491 TAGTATTAAGAATATACACAATATATATATATATATATGGTATTAAAAATA
1 TAGTATTAAGAATATACACAATATATACATATATATATGGAATAAAAAATA
* *
12075542 TAGTATTAA-AA-A-ACATAATATATACATATA-AGTATTGAATAAAAAATA
1 TAGTATTAAGAATATACACAATATATACATATATA-TATGGAATAAAAAATA
12075590 ATACTAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
47 1 0.02
48 29 0.69
49 1 0.02
50 2 0.05
51 9 0.21
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (51 bp):
TAGTATTAAGAATATACACAATATATACATATATATATGGAATAAAAAATA
Found at i:12075919 original size:24 final size:24
Alignment explanation
Indices: 12075876--12075937 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
12075866 TATATGATAA
*
12075876 TATAAAAATATATA-ACTAATAATA-
1 TATAAAAATGTATACA-TAAT-ATAG
* *
12075900 TTTAAGAATGTATACATAATATAG
1 TATAAAAATGTATACATAATATAG
12075924 TATAAAAATGTATA
1 TATAAAAATGTATA
12075938 TATATACGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.10
24 27 0.87
25 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (24 bp):
TATAAAAATGTATACATAATATAG
Found at i:12076761 original size:2 final size:2
Alignment explanation
Indices: 12076749--12076813 Score: 94
Period size: 2 Copynumber: 32.0 Consensus size: 2
12076739 TAGTTAAATA
* *
12076749 AT AT GAT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
12076792 AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
12076814 GGATATGTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
2 54 0.96
3 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12077227 original size:14 final size:14
Alignment explanation
Indices: 12077208--12077241 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
12077198 GTTTCGAGAT
12077208 TGGGCTAGCTTAGG
1 TGGGCTAGCTTAGG
12077222 TGGGCTAGCTTAGG
1 TGGGCTAGCTTAGG
12077236 TGGGCT
1 TGGGCT
12077242 TCTGTTGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.44, T:0.29
Consensus pattern (14 bp):
TGGGCTAGCTTAGG
Found at i:12079288 original size:14 final size:14
Alignment explanation
Indices: 12079269--12079319 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
12079259 CACCCAACAG
12079269 AACATACATCTCAT
1 AACATACATCTCAT
*
12079283 AACATACAT-TCCAG
1 AACATACATCT-CAT
12079297 AACATACATCTCAT
1 AACATACATCTCAT
*
12079311 AACTTACAT
1 AACATACAT
12079320 TCCAGACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.27
Consensus pattern (14 bp):
AACATACATCTCAT
Found at i:12079302 original size:28 final size:28
Alignment explanation
Indices: 12079266--12079332 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
12079256 ATACACCCAA
12079266 CAGAACATACATCTCATAACATACATTC
1 CAGAACATACATCTCATAACATACATTC
*
12079294 CAGAACATACATCTCATAACTTACATTC
1 CAGAACATACATCTCATAACATACATTC
12079322 CAG-ACATACAT
1 CAGAACATACAT
12079333 ATACACTCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.25
Consensus pattern (28 bp):
CAGAACATACATCTCATAACATACATTC
Found at i:12084003 original size:21 final size:21
Alignment explanation
Indices: 12083977--12084038 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
12083967 TCATCAACCT
12083977 CCACCCCCACAACCTCCACCC
1 CCACCCCCACAACCTCCACCC
12083998 CCACCCCCACAACCTCCACCC
1 CCACCCCCACAACCTCCACCC
*
12084019 CCACCACCACAACCTCCACC
1 CCACCCCCACAACCTCCACC
12084039 TTTGCCACCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.26, C:0.69, G:0.00, T:0.05
Consensus pattern (21 bp):
CCACCCCCACAACCTCCACCC
Found at i:12084022 original size:15 final size:15
Alignment explanation
Indices: 12083971--12084001 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12083961 TCATCATCAT
12083971 CAACCTCCACCCCCA
1 CAACCTCCACCCCCA
12083986 CAACCTCCACCCCCA
1 CAACCTCCACCCCCA
12084001 C
1 C
12084002 CCCCACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.68, G:0.00, T:0.06
Consensus pattern (15 bp):
CAACCTCCACCCCCA
Found at i:12084037 original size:15 final size:15
Alignment explanation
Indices: 12083971--12084038 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
12083961 TCATCATCAT
*
12083971 CAACCTCCACCCCCA
1 CAACCTCCACCACCA
12083986 CAACCTCCACC-CC-
1 CAACCTCCACCACCA
* * *
12083999 C-ACCCCCACAACCT
1 CAACCTCCACCACCA
* *
12084013 CCACCCCCACCACCA
1 CAACCTCCACCACCA
12084028 CAACCTCCACC
1 CAACCTCCACC
12084039 TTTGCCACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
12 7 0.16
13 3 0.07
14 3 0.07
15 31 0.70
ACGTcount: A:0.26, C:0.68, G:0.00, T:0.06
Consensus pattern (15 bp):
CAACCTCCACCACCA
Found at i:12086064 original size:14 final size:15
Alignment explanation
Indices: 12086003--12086068 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
12085993 ACTATTTTAA
*
12086003 GGTTTATGGATGATG
1 GGTTTATGGTTGATG
*
12086018 GGTTTAGGGATT-ATG
1 GGTTTATGG-TTGATG
*
12086033 GGTTTAAGGGTTG--G
1 GGTTT-ATGGTTGATG
12086047 GGTTTATGGTTGAT-
1 GGTTTATGGTTGATG
12086061 GGTTTATG
1 GGTTTATG
12086069 TTTTATGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 6 0.14
14 14 0.33
15 18 0.42
16 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.42
Consensus pattern (15 bp):
GGTTTATGGTTGATG
Found at i:12086547 original size:15 final size:15
Alignment explanation
Indices: 12086513--12086570 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 15
12086503 CCCTAACCCA
*
12086513 CTAAACCCTTAAATCA
1 CTAAACCCTTAAA-CC
*
12086529 CTAAACCTTTAAACC
1 CTAAACCCTTAAACC
* *
12086544 CTAAA-TCTCAAACC
1 CTAAACCCTTAAACC
*
12086558 ATAAACCCTTAAA
1 CTAAACCCTTAAA
12086571 ACTCTAACAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 10 0.30
15 11 0.33
16 12 0.36
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (15 bp):
CTAAACCCTTAAACC
Found at i:12086620 original size:21 final size:20
Alignment explanation
Indices: 12086585--12086639 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
12086575 TAACAACTAG
12086585 ACCCATAAATCCTAACCCATTA
1 ACCC-TAAATCCTAACCC-TTA
*
12086607 ACCCTAACTCCTAACCCTTA
1 ACCCTAAATCCTAACCCTTA
12086627 ACCTCTAAA-CCTA
1 ACC-CTAAATCCTA
12086640 TAAACTATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.33
21 16 0.53
22 4 0.13
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (20 bp):
ACCCTAAATCCTAACCCTTA
Found at i:12086678 original size:21 final size:21
Alignment explanation
Indices: 12086654--12086714 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
12086644 CTATGGACCT
12086654 TAAATCCC-AAACCCTAAACTA
1 TAAA-CCCTAAACCCTAAACTA
* *
12086675 TAAACCCTAAACTCTAAACTCT
1 TAAACCCTAAACCCTAAACT-A
*
12086697 TAAACCATAAACCCTAAA
1 TAAACCCTAAACCCTAAA
12086715 ATCTTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.09
21 15 0.44
22 16 0.47
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACTA
Found at i:12086679 original size:14 final size:14
Alignment explanation
Indices: 12086662--12086714 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
12086652 CTTAAATCCC
12086662 AAACCCTAAACTAT
1 AAACCCTAAACTAT
*
12086676 AAACCCTAAACTCT
1 AAACCCTAAACTAT
* *
12086690 AAACTCTTAAACCAT
1 AAAC-CCTAAACTAT
12086705 AAACCCTAAA
1 AAACCCTAAA
12086715 ATCTTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAAACTAT
Found at i:12086709 original size:7 final size:7
Alignment explanation
Indices: 12086662--12086714 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
12086652 CTTAAATCCC
12086662 AAACCCT
1 AAACCCT
**
12086669 AAACTAT
1 AAACCCT
12086676 AAACCCT
1 AAACCCT
*
12086683 AAACTCT
1 AAACCCT
*
12086690 AAACTCTT
1 AAAC-CCT
*
12086698 AAACCAT
1 AAACCCT
12086705 AAACCCT
1 AAACCCT
12086712 AAA
1 AAA
12086715 ATCTTAAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:12087165 original size:73 final size:74
Alignment explanation
Indices: 12087088--12087239 Score: 198
Period size: 74 Copynumber: 2.1 Consensus size: 74
12087078 ATAGCCTTTA
* * *
12087088 GCAAATATGTTTTAAAAGTGTGCAAAATGCTTTC-GTTTTTTCTGACTATTAGTGGCATTTTTAA
1 GCAAATATGTTTTAAAAGTGTGCAAAACGCTGTCTGTTTTTTCTAACTATTAGTGGCATTTTTAA
12087152 GAAAACACC
66 GAAAACACC
** * * * *
12087161 GCAAATATGTTTTAAGCGTGTGGAAAACGCTGTCTTTTTTTTCTAACTATTAGTGGCGTTTTTTA
1 GCAAATATGTTTTAAAAGTGTGCAAAACGCTGTCTGTTTTTTCTAACTATTAGTGGCATTTTTAA
* *
12087226 GTAAACGCC
66 GAAAACACC
12087235 GCAAA
1 GCAAA
12087240 AAGAAGCTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
73 29 0.43
74 38 0.57
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (74 bp):
GCAAATATGTTTTAAAAGTGTGCAAAACGCTGTCTGTTTTTTCTAACTATTAGTGGCATTTTTAA
GAAAACACC
Found at i:12087336 original size:115 final size:115
Alignment explanation
Indices: 12087136--12087417 Score: 327
Period size: 115 Copynumber: 2.5 Consensus size: 115
12087126 TTTCTGACTA
* * * * * * * *
12087136 TTAGTGGCATTTT-TAAGAAAACACCGCAAATATGTTTTAAGCGTGTGGAAAACGCTGTCTTTTT
1 TTAGTGGCGTTTTCTCATAAAACACCACAAAAATGTTTTAAGAGTGTGCAAAACGCTGTCGTTTT
* * *
12087200 TTTCTAACTATTAGTGGCGTTTTTTAGT-AAACGCCGCAAAAAGA-AGCTT
66 TGTCTAACTATTAGTGGCG-TTTTTACTAAAACGCCGCAAAAAGATAGCCT
* * * *
12087249 TTAGTGGCGTTTTCTCATTAAACGCCACGAAAAATGTTTTAAGAGTGTGCAAAAGGTTGTCGTTT
1 TTAGTGGCGTTTTCTCATAAAACACCAC-AAAAATGTTTTAAGAGTGTGCAAAACGCTGTCGTTT
** * *
12087314 TTGTCTGCCTATTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATCCT
65 TTGTCTAACTATTAGTGGCGTTTTTACTAAAACGCCGCAAAAAGATAGCCT
* * *
12087365 TTAGTGGCGTTTTCTCATAAAACACCGCAAAAATGTTTTACGATTGTGCAAAA
1 TTAGTGGCGTTTTCTCATAAAACACCACAAAAATGTTTTAAGAGTGTGCAAAA
12087418 TGTTTAAAAC
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
113 12 0.09
114 16 0.11
115 85 0.60
116 28 0.20
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (115 bp):
TTAGTGGCGTTTTCTCATAAAACACCACAAAAATGTTTTAAGAGTGTGCAAAACGCTGTCGTTTT
TGTCTAACTATTAGTGGCGTTTTTACTAAAACGCCGCAAAAAGATAGCCT
Found at i:12097406 original size:21 final size:21
Alignment explanation
Indices: 12097381--12097428 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
12097371 GAGCGGATGC
*
12097381 AGCAGCGAAGGAGGCAGCGGT
1 AGCAGCGAAGGAGGCAGAGGT
*
12097402 AGCAGCGAGGGAGGCAGAGGT
1 AGCAGCGAAGGAGGCAGAGGT
12097423 AGCAGC
1 AGCAGC
12097429 CATGGCAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.48, T:0.04
Consensus pattern (21 bp):
AGCAGCGAAGGAGGCAGAGGT
Found at i:12098419 original size:91 final size:91
Alignment explanation
Indices: 12098259--12098437 Score: 313
Period size: 91 Copynumber: 2.0 Consensus size: 91
12098249 AAACGAATAA
* * * *
12098259 AATCTCAAAATGTATATTTTATTCTTTTTCAATGACAATGAGTTTCCCATTTTCATGGTAGTAAT
1 AATCCCAAAATGTACATTTTATTCTTTTTCAATGACAAAGAGTTTCCCATTTTCATGGTAGTAAG
12098324 CTTCAAGCATGGTTCATCTTCAATTG
66 CTTCAAGCATGGTTCATCTTCAATTG
*
12098350 AATCCCAAAATGTACATTTTCTTCTTTTTCAATGACAAAGAGTTTCCCATTTTCATGGTAGTAAG
1 AATCCCAAAATGTACATTTTATTCTTTTTCAATGACAAAGAGTTTCCCATTTTCATGGTAGTAAG
12098415 CTTCAAGCATGGTTCATCTTCAA
66 CTTCAAGCATGGTTCATCTTCAA
12098438 GTGCTGCTCA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (91 bp):
AATCCCAAAATGTACATTTTATTCTTTTTCAATGACAAAGAGTTTCCCATTTTCATGGTAGTAAG
CTTCAAGCATGGTTCATCTTCAATTG
Found at i:12105866 original size:27 final size:23
Alignment explanation
Indices: 12105801--12105875 Score: 89
Period size: 23 Copynumber: 3.1 Consensus size: 23
12105791 GGCTTTGCCG
*
12105801 ATCAGGCATTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
12105824 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
12105847 CAGGCTTCAGGCA-TTTATGTGTCGTAT
1 -A----TCAGGCACTTTATGTGTCGTAT
12105874 AT
1 AT
12105876 TGATCAGGCA
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
22 1 0.02
23 22 0.48
24 1 0.02
26 1 0.02
27 14 0.30
28 7 0.15
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:12114919 original size:51 final size:51
Alignment explanation
Indices: 12114838--12114954 Score: 207
Period size: 51 Copynumber: 2.3 Consensus size: 51
12114828 ACTTCTGGTC
*
12114838 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGGGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* *
12114889 AGTGACAAGTGATAAGGGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGGGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
12114940 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
12114955 ATGTGATCCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGGGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:12121318 original size:91 final size:92
Alignment explanation
Indices: 12121189--12121447 Score: 378
Period size: 91 Copynumber: 2.8 Consensus size: 92
12121179 GCTTTCTGAA
*
12121189 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATACGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAATGAGTAAGACCAT
* *
12121254 GGATGAAAGATACCA-GGCAACATGA-T
65 GGTTGAAAGATACCATGGCAACATGACG
* *
12121280 ATGAAATGTGTAAGACCATGGGTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAATGAGTAAGACCAT
*
12121345 GGTTGAAAGATGCCATGGCAACATGACG
65 GGTTGAAAGATACCATGGCAACATGACG
** **
12121373 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAG-AAATGAGTAAGACCAT
*
12121438 AGTTGAAAGA
65 GGTTGAAAGA
12121448 CGCTATGGCA
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
91 74 0.49
92 11 0.07
93 66 0.44
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (92 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAATGAGTAAGACCATG
GTTGAAAGATACCATGGCAACATGACG
Found at i:12121417 original size:93 final size:91
Alignment explanation
Indices: 12121199--12121462 Score: 359
Period size: 93 Copynumber: 2.9 Consensus size: 91
12121189 ATGAAATGTG
* *
12121199 TAAGACCATGGTTGAAAGATACCATGGCAACATGATACGAAATGTGTAAGACCATGGATGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAATGAGTAAGACCATGGTTGAAAGA
* * * **
12121264 TACCA-GGCAACATGATATGAAATGTG
65 TGCCATGGCAACATGAGAGGAAATGAA
* *
12121290 TAAGACCATGGGTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAATGAGTAAGACCATGGTTGAAAGA
*
12121355 TGCCATGGCAACATGACGGGGAAATGAA
65 TGCCATGGCAACATGA-GAGGAAATGAA
*
12121383 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATGAGTAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAG-AAATGAGTAAGACCATGGTTGAAAGA
* * *
12121448 CGCTATGGCATCATG
65 TGCCATGGCAACATG
12121463 TTAAAGATAA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
91 64 0.42
92 11 0.07
93 78 0.51
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAATGAGTAAGACCATGGTTGAAAGAT
GCCATGGCAACATGAGAGGAAATGAA
Found at i:12121457 original size:46 final size:46
Alignment explanation
Indices: 12121189--12121447 Score: 369
Period size: 46 Copynumber: 5.6 Consensus size: 46
12121179 GCTTTCTGAA
*
12121189 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
12121235 ACGAAATGTGTAAGACCATGGATGAAAGATACCA-GGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
12121280 ATGAAATGTGTAAGACCATGGGTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
12121326 ATGAAATGAATAAGACCATGGTTGAAAGATGCCATGGCAACATGACG
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-T
** *
12121373 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
12121419 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
12121448 CGCTATGGCA
Statistics
Matches: 194, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 44 0.23
46 108 0.56
47 42 0.22
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:12123238 original size:35 final size:35
Alignment explanation
Indices: 12123199--12123363 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
12123189 TCCATGGCAA
*
12123199 AGTTGTGAAATGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAATGTAGGTATGGTATTATCCATACTG
* * * *
12123234 AGTTGAGAAATATAGGTACGGTATTAACCATACTG
1 AGTTGTGAAATGTAGGTATGGTATTATCCATACTG
*
12123269 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
1 AGTTGTGAAATGTAGGTATGGTATTATCCATACTG
** **
12123304 AGTTAAGAAATGTAGGTATGGTATT-TCCCATACCA
1 AGTTGTGAAATGTAGGTATGGTATTAT-CCATACTG
*
12123339 AGTTGTAAAATGTAGGTATGGTATT
1 AGTTGTGAAATGTAGGTATGGTATT
12123364 TCAATGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
34 1 0.01
35 110 0.99
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.33
Consensus pattern (35 bp):
AGTTGTGAAATGTAGGTATGGTATTATCCATACTG
Found at i:12123313 original size:70 final size:70
Alignment explanation
Indices: 12123198--12123363 Score: 242
Period size: 70 Copynumber: 2.4 Consensus size: 70
12123188 ATCCATGGCA
* *
12123198 AAGTTGTGAAATGTAGGTATGGTATCATCCATACTGAGTTGAGAAATATAGGTACGGTATTAACC
1 AAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTAAGAAATATAGGTACGGTATTAACC
*
12123263 ATACT
66 ATACC
* * * * **
12123268 GAGTTGTGAAACGTAGGTATGGTATTATCCATACTGAGTTAAGAAATGTAGGTATGGTATTTCCC
1 AAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTAAGAAATATAGGTACGGTATTAACC
12123333 ATACC
66 ATACC
*
12123338 AAGTTGTAAAATGTAGGTATGGTATT
1 AAGTTGTGAAATGTAGGTATGGTATT
12123364 TCAATGAGGA
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 84 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (70 bp):
AAGTTGTGAAATGTAGGTATGGTATTATCCATACTGAGTTAAGAAATATAGGTACGGTATTAACC
ATACC
Found at i:12128199 original size:12 final size:12
Alignment explanation
Indices: 12128182--12128207 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12128172 CTGGAAACGA
12128182 ATGTAACATCTT
1 ATGTAACATCTT
12128194 ATGTAACATCTT
1 ATGTAACATCTT
12128206 AT
1 AT
12128208 AGTTTGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (12 bp):
ATGTAACATCTT
Found at i:12129972 original size:21 final size:21
Alignment explanation
Indices: 12129946--12129987 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
12129936 CCGTTCGTCC
*
12129946 CCTAGCCCAAATCTAAATAAA
1 CCTAGCCCAAACCTAAATAAA
12129967 CCTAGCCCAAACCTAAATAAA
1 CCTAGCCCAAACCTAAATAAA
12129988 TCTAACCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.31, G:0.05, T:0.17
Consensus pattern (21 bp):
CCTAGCCCAAACCTAAATAAA
Found at i:12130942 original size:26 final size:26
Alignment explanation
Indices: 12130903--12131038 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
12130893 TGATACAAAT
* *
12130903 TGATAATAGGTTAGGTAAATGTTCCT
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12130929 TGATAATAGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12130955 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12130981 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12131007 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12131033 TGATAA
1 TGATAA
12131039 GAATTTCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12143608 original size:55 final size:55
Alignment explanation
Indices: 12143524--12143698 Score: 332
Period size: 55 Copynumber: 3.2 Consensus size: 55
12143514 TCTGGGGCAC
*
12143524 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTATGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
*
12143579 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTTACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
12143634 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
1 CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
12143689 CTATTCCCTT
1 CTATTCCCTT
12143699 CAAATTTTGT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
55 117 1.00
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (55 bp):
CTATTCCCTTTTTATTCATTTTGTATTCCAGCAATGTTTGTTGACTGTGATTAAT
Found at i:12144348 original size:44 final size:43
Alignment explanation
Indices: 12144214--12144358 Score: 143
Period size: 44 Copynumber: 3.3 Consensus size: 43
12144204 ACCTTAACCA
*
12144214 CCTAAGCAGTAGGGTAACAGGCTGAAGATATAGATCTTATCAC
1 CCTAAGCAGTAGGGTAACAAGCTGAAGATATAGATCTTATCAC
* * ** * * *
12144257 CCTAAGCAGTAGGG-AA-ATAGATCAAAGGCA-ACGAGCTTTAACCC
1 CCTAAGCAGTAGGGTAACA-AGCT-GAAGATATA-GATC-TTATCAC
*
12144301 CCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATCTTATCAC
1 CCTAAGCAGTAGGGTAACAAGCTGAAG-ATATAGATCTTATCAC
12144345 CCTAAGCAGTAGGG
1 CCTAAGCAGTAGGG
12144359 AAGCAGATCA
Statistics
Matches: 79, Mismatches: 15, Indels: 15
0.72 0.14 0.14
Matches are distributed among these distances:
41 1 0.01
42 5 0.06
43 21 0.27
44 41 0.52
45 9 0.11
46 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (43 bp):
CCTAAGCAGTAGGGTAACAAGCTGAAGATATAGATCTTATCAC
Found at i:12144367 original size:88 final size:87
Alignment explanation
Indices: 12144207--12144370 Score: 274
Period size: 88 Copynumber: 1.9 Consensus size: 87
12144197 TCACCAGACC
*
12144207 TTAACCACCTAAGCAGTAGGGTAACAGGCTGAAGATATAGATCTTATCACCCTAAGCAGTAGGGA
1 TTAACCACCTAAGCAGTAGGGTAACAAGCTGAAGATATAGATCTTATCACCCTAAGCAGTAGGGA
*
12144272 AATAGATCAAAGGCAACGAGCT
66 AACAGATCAAAGGCAACGAGCT
* *
12144294 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGG
1 TTAACCACCTAAGCAGTAGGGTAACAAGCTGAAG-ATATAGATCTTATCACCCTAAGCAGTAGGG
*
12144359 AAGCAGATCAAA
65 AAACAGATCAAA
12144371 AGATGGCGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
87 32 0.45
88 39 0.55
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (87 bp):
TTAACCACCTAAGCAGTAGGGTAACAAGCTGAAGATATAGATCTTATCACCCTAAGCAGTAGGGA
AACAGATCAAAGGCAACGAGCT
Found at i:12144800 original size:43 final size:42
Alignment explanation
Indices: 12144742--12144847 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
12144732 GGGCTTCAAC
* * *
12144742 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACTTTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAA-TCTAAA
* *** *
12144785 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAATCTAAA
*
12144827 CCCCTAAGCAGTAGGGAAACA
1 CCCCTAAGCAGTAGGGTAACA
12144848 GAGCAATGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (42 bp):
CCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAATCTAAA
Found at i:12146858 original size:15 final size:15
Alignment explanation
Indices: 12146838--12146881 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
12146828 ATATTGTAAA
12146838 TATCATATTATGTTT
1 TATCATATTATGTTT
*
12146853 TATCATGTATATGTTT
1 TATCATAT-TATGTTT
12146869 TAAT-ATATTATGT
1 T-ATCATATTATGT
12146882 GTATATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 12 0.48
16 11 0.44
17 2 0.08
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.57
Consensus pattern (15 bp):
TATCATATTATGTTT
Found at i:12146961 original size:24 final size:24
Alignment explanation
Indices: 12146906--12146961 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
12146896 GTATGTTATG
* *
12146906 TATATATTATGTATATGCTTTTAA
1 TATATATTATATATATACTTTTAA
* *
12146930 -ATATTATTATATATCTATTTTTAA
1 TATA-TATTATATATATACTTTTAA
12146954 TATATATT
1 TATATATT
12146962 TATGTAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 20 0.77
25 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATATTATATATATACTTTTAA
Found at i:12147137 original size:2 final size:2
Alignment explanation
Indices: 12147093--12147120 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12147083 TATTATTATC
12147093 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
12147121 CTATTTCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12148381 original size:23 final size:23
Alignment explanation
Indices: 12148343--12148399 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
12148333 ACACATTATA
*
12148343 TATAATATAGATATTTTAAATGAC
1 TATAAT-TAAATATTTTAAATGAC
12148367 TATAATTAAATATTTTAAATGAC
1 TATAATTAAATATTTTAAATGAC
12148390 TATAATTAAA
1 TATAATTAAA
12148400 ACTAAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 26 0.81
24 6 0.19
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (23 bp):
TATAATTAAATATTTTAAATGAC
Found at i:12149568 original size:2 final size:2
Alignment explanation
Indices: 12149563--12149600 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
12149553 TTGTGTGTTA
12149563 AT AT 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
12149601 TTAAAATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12150206 original size:21 final size:21
Alignment explanation
Indices: 12150165--12150206 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
12150155 AATAATTTAT
* *
12150165 TTATTATTATATTAATTATTG
1 TTATAATTATATTAATGATTG
12150186 TTATAATTATAATT-ATGATTG
1 TTATAATTAT-ATTAATGATTG
12150207 GTGTTGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATAATTATATTAATGATTG
Found at i:12171962 original size:20 final size:19
Alignment explanation
Indices: 12171924--12171969 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
12171914 CTAGGGTTTG
* *
12171924 AGGAGAGGAGAATCTAAAA
1 AGGAGAGGAGAAGCAAAAA
*
12171943 GGGAGAGAGAGAAGCAAAAA
1 AGGAGAG-GAGAAGCAAAAA
12171963 AGGAGAG
1 AGGAGAG
12171970 TAAATTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.52, C:0.04, G:0.39, T:0.04
Consensus pattern (19 bp):
AGGAGAGGAGAAGCAAAAA
Found at i:12173040 original size:14 final size:14
Alignment explanation
Indices: 12173021--12173048 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12173011 TAATCAACAC
12173021 TTAATCAAAATTAT
1 TTAATCAAAATTAT
12173035 TTAATCAAAATTAT
1 TTAATCAAAATTAT
12173049 ACTTTTTCGA
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATCAAAATTAT
Found at i:12181539 original size:25 final size:25
Alignment explanation
Indices: 12181511--12181575 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
12181501 CTATTCCCAG
*
12181511 CTCGTATGAGCTTACCAAATCACAA
1 CTCGTATGAGCATACCAAATCACAA
* * * *
12181536 CTCGTGA-GAGCATACCGATTTATAA
1 CTCGT-ATGAGCATACCAAATCACAA
12181561 CTCGTATGAGCATAC
1 CTCGTATGAGCATAC
12181576 ATGTTTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (25 bp):
CTCGTATGAGCATACCAAATCACAA
Found at i:12182882 original size:9 final size:9
Alignment explanation
Indices: 12182868--12182896 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
12182858 TTATATGATA
12182868 TGAAATGTT
1 TGAAATGTT
12182877 TGAAATGTT
1 TGAAATGTT
12182886 TGAAATGTT
1 TGAAATGTT
12182895 TG
1 TG
12182897 TTTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (9 bp):
TGAAATGTT
Found at i:12183259 original size:18 final size:19
Alignment explanation
Indices: 12183223--12183259 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12183213 GATTATTAAA
12183223 GAATATTTTATATAATTGAT
1 GAATATTTTATAT-ATTGAT
12183243 GAATATTTTATAT-TTGA
1 GAATATTTTATATATTGA
12183260 AATTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
20 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
GAATATTTTATATATTGAT
Found at i:12183796 original size:18 final size:19
Alignment explanation
Indices: 12183762--12183797 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12183752 TATTTATAAA
*
12183762 AATTATACAATATTTTAAC
1 AATTATACAAAATTTTAAC
12183781 AATTATA-AAAATTTTAA
1 AATTATACAAAATTTTAA
12183798 AAAAAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTATACAAAATTTTAAC
Found at i:12186814 original size:5 final size:6
Alignment explanation
Indices: 12186796--12186820 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
12186786 GTTTTTGAGC
12186796 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
12186821 CAGAGATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:12190653 original size:12 final size:12
Alignment explanation
Indices: 12190636--12190698 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
12190626 AATAATTTTA
12190636 TATTAAAATTAT
1 TATTAAAATTAT
12190648 TATT-AAA-TAT
1 TATTAAAATTAT
12190658 TATTAATAATTA-
1 TATTAA-AATTAT
12190670 TATTAAGAA-TAT
1 TATTAA-AATTAT
12190682 TATT-AAATTAT
1 TATTAAAATTAT
12190693 ATATTA
1 -TATTA
12190699 TTTTATTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
10 9 0.21
11 10 0.23
12 22 0.51
13 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:12190777 original size:61 final size:57
Alignment explanation
Indices: 12190661--12190797 Score: 175
Period size: 61 Copynumber: 2.3 Consensus size: 57
12190651 TAAATATTAT
* * *
12190661 TAATAATTATATTAAGAATATTATTAAATTATATATTATTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
* *
12190719 TAATAATTATGTTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATTTAA
1 TAATAATTATATTAAAATATGATTAAATTA--TA-TATTA-TTTTATTAAAATATATTTAA
*
12190780 TAATAATTTTATTAAAAT
1 TAATAATTATATTAAAAT
12190798 TTAATAACAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 14 0.21
58 14 0.21
59 2 0.03
60 4 0.06
61 34 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (57 bp):
TAATAATTATATTAAAATATGATTAAATTATATATTATTTTATTAAAATATATTTAA
Found at i:12190999 original size:16 final size:16
Alignment explanation
Indices: 12190969--12191024 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
12190959 AATAATTAAA
12190969 TTATT-AATTACAACT
1 TTATTCAATTACAACT
* *
12190984 TTATTCTATTATAACT
1 TTATTCAATTACAACT
* *
12191000 CTATTCAATTACAGCT
1 TTATTCAATTACAACT
12191016 TTATTCAAT
1 TTATTCAAT
12191025 CAAATCTAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
15 5 0.15
16 28 0.85
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (16 bp):
TTATTCAATTACAACT
Found at i:12193984 original size:8 final size:8
Alignment explanation
Indices: 12193971--12194000 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12193961 CATTGCCATG
12193971 GAATGTTA
1 GAATGTTA
12193979 GAATGTTA
1 GAATGTTA
12193987 GAATGTTA
1 GAATGTTA
*
12193995 CAATGT
1 GAATGT
12194001 ATATTTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (8 bp):
GAATGTTA
Found at i:12199262 original size:24 final size:24
Alignment explanation
Indices: 12199234--12199280 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
12199224 ATTCGTAGGT
*
12199234 CAAATATATTATGCTAATAAATAC
1 CAAATATATTATACTAATAAATAC
*
12199258 CAAATATATTATACTACTAAATA
1 CAAATATATTATACTAATAAATA
12199281 TTCTAGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (24 bp):
CAAATATATTATACTAATAAATAC
Found at i:12199344 original size:35 final size:35
Alignment explanation
Indices: 12199298--12199368 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
12199288 AAGAAAATAT
*
12199298 ATTTTGTTTAACTTGACTTGCAAGCAATCTCTTAG
1 ATTTTGTTTAACTTGACATGCAAGCAATCTCTTAG
*
12199333 ATTTTGTTTAACTTGACATGCAAGTAATCTCTTAG
1 ATTTTGTTTAACTTGACATGCAAGCAATCTCTTAG
12199368 A
1 A
12199369 ATTCGGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (35 bp):
ATTTTGTTTAACTTGACATGCAAGCAATCTCTTAG
Found at i:12202242 original size:47 final size:47
Alignment explanation
Indices: 12202175--12202299 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 47
12202165 TTTACATAAT
* ** * *
12202175 GATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCACT
1 GATGCCATATCCCAAATATGGTCTTACACAGTAAT-ACATATCACACC
* * * *
12202222 GATGTCATATCCCAAATATGGTCTTATACAGTAGTATATATCACACC
1 GATGCCATATCCCAAATATGGTCTTACACAGTAATACATATCACACC
* *
12202269 GATGCCATATCCCAGATATGGTCTTATACAG
1 GATGCCATATCCCAAATATGGTCTTACACAG
12202300 AAATCACTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 62 0.94
48 4 0.06
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (47 bp):
GATGCCATATCCCAAATATGGTCTTACACAGTAATACATATCACACC
Found at i:12202315 original size:7 final size:7
Alignment explanation
Indices: 12202303--12202331 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
12202293 TATACAGAAA
12202303 TCACTTG
1 TCACTTG
12202310 TCACTTG
1 TCACTTG
12202317 TCACTTG
1 TCACTTG
12202324 TCACTTG
1 TCACTTG
12202331 T
1 T
12202332 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:12202365 original size:31 final size:31
Alignment explanation
Indices: 12202330--12202507 Score: 216
Period size: 31 Copynumber: 5.7 Consensus size: 31
12202320 CTTGTCACTT
*
12202330 GTAGCCAAAGCTACCACTATTCACTGATTAG
1 GTAGCCAAAGCTACCACTTTTCACTGATTAG
**** *
12202361 GTAGCTGGTGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATTAG
*
12202392 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCAAAGCTACCACTTTTCACTGATTAG
*
12202423 GTAG-CAGAAGCTATCACTTTTCACTGATTAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATTAG
* *
12202454 GTAGCTGAAA-CTACCACTTTTCACTGATCAG
1 GTAGC-CAAAGCTACCACTTTTCACTGATTAG
**
12202485 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCAAAGCTACCACTTTTCA
12202508 GTTGTCATTT
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
30 3 0.02
31 120 0.95
32 2 0.02
33 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATTAG
Found at i:12202415 original size:62 final size:62
Alignment explanation
Indices: 12202330--12202507 Score: 266
Period size: 62 Copynumber: 2.9 Consensus size: 62
12202320 CTTGTCACTT
* * **
12202330 GTAGCCAAAGCTACCACTATTCACTGATTAGGTAGCTGGTGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTGATCAG
* * *
12202392 GTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCAGAAGCTATCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTGATCAG
* * *
12202454 GTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCA
12202508 GTTGTCATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 104 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:12202489 original size:93 final size:93
Alignment explanation
Indices: 12202337--12202507 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
12202327 CTTGTAGCCA
***
12202337 AAGCTACCACTATTCACTGATTAGGTAGCTGGTGCTACCACTTTTCACTGATCAGGTAGCCGAAG
1 AAGCTACCACTATTCACTGATTAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCCGAAG
12202402 CTACCACTTTTCACTGATTAGGTAGCAG
66 CTACCACTTTTCACTGATTAGGTAGCAG
* * *
12202430 AAGCTATCACTTTTCACTGATTAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCTGAAG
1 AAGCTACCACTATTCACTGATTAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCCGAAG
12202495 CTACCACTTTTCA
66 CTACCACTTTTCA
12202508 GTTGTCATTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (93 bp):
AAGCTACCACTATTCACTGATTAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCCGAAG
CTACCACTTTTCACTGATTAGGTAGCAG
Found at i:12202591 original size:50 final size:50
Alignment explanation
Indices: 12202485--12202661 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
12202475 CACTGATCAG
* * * *
12202485 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
12202536 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
12202586 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
12202636 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
12202662 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:12209912 original size:46 final size:46
Alignment explanation
Indices: 12209831--12209947 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
12209821 AAGTCAAAGC
* *
12209831 CATGTCCTAGACATAGTCTTACACTGACTATCATCTCGTA-GCTGACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGACG
* * *
12209878 CATGTCCCAGACATGTTTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCGACG
12209924 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
12209948 AGCACTTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 47 0.76
47 13 0.21
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGACG
Found at i:12210905 original size:41 final size:41
Alignment explanation
Indices: 12210848--12210929 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
12210838 GATGTGGCCT
12210848 TTGTTTTATTTTAAATATTAAAACTAGTCAAAATTGGTGAC
1 TTGTTTTATTTTAAATATTAAAACTAGTCAAAATTGGTGAC
12210889 TTGTTTTATTTTAAATATTAAAACTAGTCAAAATTGGTGAC
1 TTGTTTTATTTTAAATATTAAAACTAGTCAAAATTGGTGAC
12210930 CAAAACTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (41 bp):
TTGTTTTATTTTAAATATTAAAACTAGTCAAAATTGGTGAC
Found at i:12216317 original size:21 final size:22
Alignment explanation
Indices: 12216291--12216332 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12216281 CATTTGACAT
12216291 AGGGGC-ACACGCCCATGTGGA
1 AGGGGCAACACGCCCATGTGGA
*
12216312 AGGGGCAACACGCCCGTGTGG
1 AGGGGCAACACGCCCATGTGG
12216333 TCAATTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.29, G:0.40, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGA
Found at i:12219512 original size:46 final size:46
Alignment explanation
Indices: 12219445--12219660 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
12219435 GGCAACCTGA
12219445 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
12219491 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
12219537 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
12219583 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
12219629 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
12219661 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:12219640 original size:138 final size:130
Alignment explanation
Indices: 12219395--12219660 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
12219385 AGTGTGCTCT
*
12219395 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
12219460 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
12219525 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
12219590 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
12219655 ATGGCA
123 ATGGCA
12219661 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:12221096 original size:46 final size:47
Alignment explanation
Indices: 12221016--12221135 Score: 120
Period size: 46 Copynumber: 2.6 Consensus size: 47
12221006 TAGCCGACGT
* * *
12221016 ATGTCCTAGACATGTCTTACACT-GGATTAAGTCTCGAGGCCGATG-C
1 ATGTCCCAGACATGTCTTACACTAGCATT-AGTCTCAAGGCCGATGCC
* * *
12221062 ATGTTCCAGACATGTCTTACACTAGCACTT-GTCTCAATGCCGGTGCC
1 ATGTCCCAGACATGTCTTACACTAGCA-TTAGTCTCAAGGCCGATGCC
* *
12221109 ATGTCCCAAACATGGTCTTACATTAGC
1 ATGTCCCAGACAT-GTCTTACACTAGC
12221136 TCACACAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
46 33 0.54
47 14 0.23
48 14 0.23
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTAGCATTAGTCTCAAGGCCGATGCC
Found at i:12223024 original size:21 final size:22
Alignment explanation
Indices: 12222998--12223038 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12222988 TATTTGACAT
12222998 AGGGGC-ACACGCCCGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
12223019 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
12223039 ATCAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:12224269 original size:46 final size:47
Alignment explanation
Indices: 12224181--12224308 Score: 143
Period size: 46 Copynumber: 2.7 Consensus size: 47
12224171 TTATCTTGTA
* *
12224181 GCCGATGCATGTCCCAGACATGTCTTACACT-GGAATACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAATACGTCTCAAG
* * * *
12224227 GCCGATGCATGTTCCAGACATGTCTTACACTAGCACT-TGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAATACGTCTCAAG
* * *
12224273 GCCGGTGCCATGTCCCAAACATGGTCTTACATTAGC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
12224309 TCACACAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 42 0.61
47 15 0.22
48 12 0.17
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCAATACGTCTCAAG
Found at i:12232756 original size:108 final size:109
Alignment explanation
Indices: 12232564--12232777 Score: 385
Period size: 108 Copynumber: 2.0 Consensus size: 109
12232554 ATTGGACATG
12232564 AGCAAAGCTTACGATAGGGTTAAATAGAGTTTCATAAAGGAAATAATGATTCGCATAGGTTTTGC
1 AGCAAAGCTTACGATAGGGTTAAATAGAGTTTCATAAAGGAAATAATGATTCGCATAGGTTTTGC
12232629 TACAAAATGGGTTGAGGGGATTATGAAATGCATTACTTCTGTTT
66 TACAAAATGGGTTGAGGGGATTATGAAATGCATTACTTCTGTTT
* * *
12232673 AGCAAAGCTTACGATAGGGTTAAATAGAGTTTCATAAAGG-AATAATGATTTGCATGGGTTTTTC
1 AGCAAAGCTTACGATAGGGTTAAATAGAGTTTCATAAAGGAAATAATGATTCGCATAGGTTTTGC
*
12232737 TACAAAATGGGTTGAGGGGATTATGAAATGCATTATTTCTG
66 TACAAAATGGGTTGAGGGGATTATGAAATGCATTACTTCTG
12232778 CTTCTTATTC
Statistics
Matches: 101, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 61 0.60
109 40 0.40
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (109 bp):
AGCAAAGCTTACGATAGGGTTAAATAGAGTTTCATAAAGGAAATAATGATTCGCATAGGTTTTGC
TACAAAATGGGTTGAGGGGATTATGAAATGCATTACTTCTGTTT
Found at i:12235577 original size:46 final size:45
Alignment explanation
Indices: 12235518--12235693 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 45
12235508 TCATTTGTGT
*
12235518 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCACATTATGA
* * *
12235564 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACACAGGTATGTGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGCCACA--T-TATGA
* ** * * * *
12235614 GTGTTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-AACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCCAC-ATTATG-A
12235661 -AGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
12235694 GCTACGAGAT
Statistics
Matches: 104, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 41 0.39
47 20 0.19
48 10 0.10
49 17 0.16
50 15 0.14
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCCACATTATGA
Found at i:12235694 original size:46 final size:44
Alignment explanation
Indices: 12235619--12235730 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
12235609 TGTGAGTGTT
*
12235619 AGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAAACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAAA--TAAGCC
* * *
12235665 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAATAAGCC
12235709 AGTGTAAGACCATGTCTGGGAC
1 AGTGTAAGA-CATGTCTGGGAC
12235731 TTAAAATCGG
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
44 13 0.22
45 14 0.23
46 33 0.55
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAAATAAGCC
Found at i:12235707 original size:96 final size:96
Alignment explanation
Indices: 12235522--12235713 Score: 239
Period size: 96 Copynumber: 2.0 Consensus size: 96
12235512 TTGTGTGAGC
* * *
12235522 TAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTG
1 TAGTGTAAGACATGTCTAGGACATGCATCAGCCACATAACGAGAGCCAATGTAAGACCATGTCTG
* *
12235587 GGACATGGCATCGACACAGGTATGTGAGTGT
66 GGACATGGCATCGACACAGATATGTCAGTGT
* * *
12235618 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-AACGTA-AGCCAGTGTAAGA-CATGTC
1 TAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATAACG-AGAGCCAATGTAAGACCATGTC
*
12235680 TGGGACAT-GCATCGGCTACGAGATATGTCAGTGT
64 TGGGACATGGCATCGAC-AC-AGATATGTCAGTGT
12235714 AAGACCATGT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
94 7 0.08
95 16 0.19
96 58 0.70
97 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
TAGTGTAAGACATGTCTAGGACATGCATCAGCCACATAACGAGAGCCAATGTAAGACCATGTCTG
GGACATGGCATCGACACAGATATGTCAGTGT
Found at i:12235794 original size:142 final size:142
Alignment explanation
Indices: 12235523--12235797 Score: 340
Period size: 140 Copynumber: 1.9 Consensus size: 142
12235513 TGTGTGAGCT
*
12235523 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAATGTAAGACCATGTCTGG
*** * * * *
12235588 GACATGGCATCGACACAGGTATGTGAGTGTTAGTGTAAGACATGTCTAGGACATGCATCGGCCTC
66 GACATAAAATCGACACAGATATGTGAGAGCTAGTGTAAGACATGTCCAGGACATGCATCGGCCTC
12235653 GAAACGTAAGCC
131 GAAACGTAAGCC
* * * * *
12235665 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-A-TGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAATGTAAGACCATGTCTG
* ** * *
12235727 GGACTTAAAATCGGTACATATATGTGAGAGCTAGTGTAAGACCATGTCCGGGACATGGCATCGGC
65 GGACATAAAATCGACACAGATATGTGAGAGCTAGTGTAAGA-CATGTCCAGGACAT-GCATCGGC
12235792 CTCGAA
128 CTCGAA
12235798 GATGATATCC
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
140 50 0.45
141 13 0.12
142 48 0.43
143 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (142 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAATGTAAGACCATGTCTGG
GACATAAAATCGACACAGATATGTGAGAGCTAGTGTAAGACATGTCCAGGACATGCATCGGCCTC
GAAACGTAAGCC
Found at i:12243380 original size:16 final size:16
Alignment explanation
Indices: 12243359--12243390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12243349 CTCGGGTTTG
12243359 GATTGTTACAGACTCA
1 GATTGTTACAGACTCA
*
12243375 GATTGTTTCAGACTCA
1 GATTGTTACAGACTCA
12243391 ATGATTGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (16 bp):
GATTGTTACAGACTCA
Found at i:12244098 original size:16 final size:17
Alignment explanation
Indices: 12244077--12244108 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12244067 TTGATAATTT
12244077 TTTTATATT-TGTAATA
1 TTTTATATTATGTAATA
12244093 TTTTATATTATGTAAT
1 TTTTATATTATGTAAT
12244109 TTATAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TTTTATATTATGTAATA
Found at i:12244239 original size:14 final size:16
Alignment explanation
Indices: 12244208--12244241 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
12244198 TTGAATAATT
12244208 AATATATAAATTACTA
1 AATATATAAATTACTA
12244224 AATAT-TAAATTA-TA
1 AATATATAAATTACTA
12244238 AATA
1 AATA
12244242 AAATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 7 0.39
16 5 0.28
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATATAAATTACTA
Found at i:12247883 original size:19 final size:21
Alignment explanation
Indices: 12247852--12247890 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12247842 TGATGAATAA
12247852 AAGAAACAGGGAA-AAGTTTG
1 AAGAAACAGGGAAGAAGTTTG
12247872 AAGAAA-AGGGAAGAAGTTT
1 AAGAAACAGGGAAGAAGTTT
12247891 CGGCAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.51, C:0.03, G:0.31, T:0.15
Consensus pattern (21 bp):
AAGAAACAGGGAAGAAGTTTG
Done.