Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 13 of 54
Found at i:6017715 original size:31 final size:31
Alignment explanation
Indices: 6017636--6017743 Score: 191
Period size: 31 Copynumber: 3.5 Consensus size: 31
6017626 TTTGTCAGTC
*
6017636 ATGTTGTAACACGCCATGCATATAATGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
6017667 ATGTTG-AACACGTCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
6017697 ATGTTGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
6017728 ATGTTGTAACACGCCA
1 ATGTTGTAACACGCCA
6017744 ACGCCGACAC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
30 28 0.38
31 45 0.62
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:6019269 original size:13 final size:13
Alignment explanation
Indices: 6019251--6019275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6019241 TACAAGATAA
6019251 TTAGAGAGAGAAT
1 TTAGAGAGAGAAT
6019264 TTAGAGAGAGAA
1 TTAGAGAGAGAA
6019276 GCTCTCAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.20
Consensus pattern (13 bp):
TTAGAGAGAGAAT
Found at i:6019528 original size:29 final size:29
Alignment explanation
Indices: 6019495--6019564 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
6019485 AGAAAAGAGG
6019495 TGTACAAGAATAGGTACAAGAGAATAAGC
1 TGTACAAGAATAGGTACAAGAGAATAAGC
* *
6019524 TGTACGAGAATAGGTATAAGAGAATAAGC
1 TGTACAAGAATAGGTACAAGAGAATAAGC
*
6019553 TGTACATGAATA
1 TGTACAAGAATA
6019565 AGTATACGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.46, C:0.09, G:0.24, T:0.21
Consensus pattern (29 bp):
TGTACAAGAATAGGTACAAGAGAATAAGC
Found at i:6019534 original size:15 final size:15
Alignment explanation
Indices: 6019514--6019576 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
6019504 ATAGGTACAA
*
6019514 GAGAATAAGCTGTAC
1 GAGAATAAGCTATAC
* *
6019529 GAGAAT-AGGTATAA
1 GAGAATAAGCTATAC
*
6019543 GAGAATAAGCTGTAC
1 GAGAATAAGCTATAC
6019558 -ATGAATAAG-TATAC
1 GA-GAATAAGCTATAC
6019572 GAGAA
1 GAGAA
6019577 CAAGGTAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
14 19 0.50
15 19 0.50
ACGTcount: A:0.46, C:0.08, G:0.25, T:0.21
Consensus pattern (15 bp):
GAGAATAAGCTATAC
Found at i:6019569 original size:29 final size:28
Alignment explanation
Indices: 6019495--6019576 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 28
6019485 AGAAAAGAGG
*
6019495 TGTACAAGAATAGGTACAAGAGAATAAGC
1 TGTAC-AGAATAGGTATAAGAGAATAAGC
6019524 TGTACGAGAATAGGTATAAGAGAATAAGC
1 TGTAC-AGAATAGGTATAAGAGAATAAGC
* *
6019553 TGTACATGAATAAGTATACGAGAA
1 TGTACA-GAATAGGTATAAGAGAA
6019577 CAAGGTAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.02
29 47 0.98
ACGTcount: A:0.46, C:0.09, G:0.24, T:0.21
Consensus pattern (28 bp):
TGTACAGAATAGGTATAAGAGAATAAGC
Found at i:6022307 original size:18 final size:16
Alignment explanation
Indices: 6022275--6022317 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
6022265 ATTTTTTATT
6022275 TATTTTTATAAAAATCAAA
1 TATTTTT-TAAAAAT--AA
*
6022294 TATTTTTTATAAATAA
1 TATTTTTTAAAAATAA
6022310 TATTTTTT
1 TATTTTTT
6022318 TAATATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTTTAAAAATAA
Found at i:6026760 original size:45 final size:46
Alignment explanation
Indices: 6026705--6026793 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
6026695 AATCATTAGT
* *
6026705 TTTATTAACTAATCACG-TAATGAC-TAAAAATTAGTCACGCAATAC
1 TTTATCAACTAATCACGCT-ATGACTTAAAAATCAGTCACGCAATAC
* * *
6026750 TTTATCAACTAGTCATGCTATGTCTTAAAAATCAGTCACGCAAT
1 TTTATCAACTAATCACGCTATGACTTAAAAATCAGTCACGCAAT
6026794 GACTAAAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
45 18 0.49
46 19 0.51
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (46 bp):
TTTATCAACTAATCACGCTATGACTTAAAAATCAGTCACGCAATAC
Found at i:6033740 original size:33 final size:33
Alignment explanation
Indices: 6033678--6033750 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
6033668 TATTAATTTA
* *
6033678 ATATATTAATATATTATAATTAATAATAATGTG
1 ATATATTAATATATTATAAATAATAATAATGTC
*
6033711 ATATATT-A-ATATTATAAAATAATATATAATTTC
1 ATATATTAATATATTAT-AAATAATA-ATAATGTC
6033744 ATATATT
1 ATATATT
6033751 TTTTAACTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.20
32 8 0.23
33 20 0.57
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
ATATATTAATATATTATAAATAATAATAATGTC
Found at i:6050227 original size:19 final size:20
Alignment explanation
Indices: 6050182--6050227 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
6050172 TGAGAGGGAG
*
6050182 AAAGCTCATAAAAGTCACTC
1 AAAGCTCAAAAAAGTCACTC
6050202 AAA-CTCAAAAAAGCTCA-T-
1 AAAGCTCAAAAAAG-TCACTC
6050220 AAAGCTCA
1 AAAGCTCA
6050228 TAATATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (20 bp):
AAAGCTCAAAAAAGTCACTC
Found at i:6050908 original size:26 final size:26
Alignment explanation
Indices: 6050879--6050933 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
6050869 TGAAAATTAA
*
6050879 AAAATTAAAAAATAATTATA-AAATAT
1 AAAA-TAAAAAATAATAATATAAATAT
*
6050905 AAAATAAAAATTAATAATATAAATAT
1 AAAATAAAAAATAATAATATAAATAT
6050931 AAA
1 AAA
6050934 TTTTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAATAAAAAATAATAATATAAATAT
Found at i:6065221 original size:9 final size:9
Alignment explanation
Indices: 6065207--6065248 Score: 75
Period size: 9 Copynumber: 4.6 Consensus size: 9
6065197 AAATTTAAAA
6065207 ATAATATAT
1 ATAATATAT
6065216 ATAATATAT
1 ATAATATAT
6065225 ATTAATATAT
1 A-TAATATAT
6065235 ATAATATAT
1 ATAATATAT
6065244 ATAAT
1 ATAAT
6065249 TTGATGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
ATAATATAT
Found at i:6065232 original size:19 final size:19
Alignment explanation
Indices: 6065208--6065245 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
6065198 AATTTAAAAA
6065208 TAATATATATAATATATAT
1 TAATATATATAATATATAT
6065227 TAATATATATAATATATAT
1 TAATATATATAATATATAT
6065246 AATTTGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATATATATAATATATAT
Found at i:6077380 original size:68 final size:68
Alignment explanation
Indices: 6077303--6077440 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
6077293 ATTTTACTTT
6077303 TAGAACTGTTTGCTGGCCAATCTTGGGGAGAAAATTAGAAGCTGAAGTGTTTAGTAACATGTTTG
1 TAGAACTGTTTGCTGGCCAATCTTGGGGAGAAAATTAGAAGCTGAAGTGTTTAGTAACATGTTTG
6077368 ATG
66 ATG
6077371 TAGAACTGTTTGCTGGCCAATCTTGGGGAGAAAATTAGAAGCTGAAGTGTTTAGTAACATGTTTG
1 TAGAACTGTTTGCTGGCCAATCTTGGGGAGAAAATTAGAAGCTGAAGTGTTTAGTAACATGTTTG
6077436 ATG
66 ATG
6077439 TA
1 TA
6077441 TGATTTTAAG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.30, C:0.10, G:0.28, T:0.33
Consensus pattern (68 bp):
TAGAACTGTTTGCTGGCCAATCTTGGGGAGAAAATTAGAAGCTGAAGTGTTTAGTAACATGTTTG
ATG
Found at i:6080670 original size:2 final size:2
Alignment explanation
Indices: 6080665--6080693 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6080655 CATTTGATAC
6080665 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6080694 ATGTATGCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6098379 original size:21 final size:24
Alignment explanation
Indices: 6098336--6098382 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
6098326 AAATAAAAAT
*
6098336 TTTATTTAATTTTTTCTATTTATA
1 TTTATTTAATTTTTTCTAATTATA
6098360 TTTATTT-A-TTTTT-TAATTATA
1 TTTATTTAATTTTTTCTAATTATA
6098381 TT
1 TT
6098383 CNTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 9 0.41
22 5 0.23
23 1 0.05
24 7 0.32
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTTAATTTTTTCTAATTATA
Found at i:6098392 original size:21 final size:21
Alignment explanation
Indices: 6098345--6098394 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6098335 TTTTATTTAA
* * *
6098345 TTTTTTCTATTTATATTTATT
1 TTTTTTTTAATTATATTCATT
* *
6098366 TATTTTTTAATTATATTCNTT
1 TTTTTTTTAATTATATTCATT
6098387 TTTTTTTT
1 TTTTTTTT
6098395 TAAATTTTTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTTTAATTATATTCATT
Found at i:6098507 original size:15 final size:16
Alignment explanation
Indices: 6098471--6098514 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
6098461 CATGGTTTCT
*
6098471 TTTTACTTTTATATGAA
1 TTTTAATTTTA-ATGAA
*
6098488 TTTTATTTTTAATG-A
1 TTTTAATTTTAATGAA
6098503 TTTTAATTTTAA
1 TTTTAATTTTAA
6098515 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 3 0.12
17 10 0.40
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTAATTTTAATGAA
Found at i:6100899 original size:21 final size:20
Alignment explanation
Indices: 6100871--6100919 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
6100861 TTTAAAGTTC
6100871 TTTTATTTTT-TTAATTTATA
1 TTTTATTTTTGTT-ATTTATA
*
6100891 TTGTTATTTTTGTTATTTTTA
1 TT-TTATTTTTGTTATTTATA
6100912 TTTTATTT
1 TTTTATTT
6100920 ACTTATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTATTTTTGTTATTTATA
Found at i:6107137 original size:21 final size:21
Alignment explanation
Indices: 6107113--6107179 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
6107103 TAAAGGTTTG
6107113 AATATGCTGTATTGATTGGTC
1 AATATGCTGTATTGATTGGTC
* * *
6107134 AATATAGTTAATATT-ATT--AC
1 AATAT-GCT-GTATTGATTGGTC
*
6107154 CATATGCTGTATTGATTGGTC
1 AATATGCTGTATTGATTGGTC
6107175 AATAT
1 AATAT
6107180 AGTTAATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
18 4 0.12
19 5 0.15
20 5 0.15
21 10 0.30
22 5 0.15
23 4 0.12
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (21 bp):
AATATGCTGTATTGATTGGTC
Found at i:6107171 original size:41 final size:41
Alignment explanation
Indices: 6107114--6107197 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
6107104 AAAGGTTTGA
6107114 ATATGCTGTATTGATTGGTCAATATAGTTAATATTATTACC
1 ATATGCTGTATTGATTGGTCAATATAGTTAATATTATTACC
6107155 ATATGCTGTATTGATTGGTCAATATAGTTAATATTATTACC
1 ATATGCTGTATTGATTGGTCAATATAGTTAATATTATTACC
6107196 AT
1 AT
6107198 GACTAGTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (41 bp):
ATATGCTGTATTGATTGGTCAATATAGTTAATATTATTACC
Found at i:6109182 original size:34 final size:33
Alignment explanation
Indices: 6109144--6109226 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
6109134 TAAAAATTAT
* * *
6109144 TAAATATAATTTTTTAATAGTTGTATTATGAAAG
1 TAAATA-AATTTTTTAAGAATTATATTATGAAAG
* * *
6109178 TAAATAACTATTTAAAGAATTATATTATGAAAG
1 TAAATAAATTTTTTAAGAATTATATTATGAAAG
*
6109211 GAAATAAATCTTTTTA
1 TAAATAAAT-TTTTTA
6109227 TTGCATTTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 28 0.74
34 10 0.26
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (33 bp):
TAAATAAATTTTTTAAGAATTATATTATGAAAG
Found at i:6118923 original size:28 final size:27
Alignment explanation
Indices: 6118874--6118929 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
6118864 TTGAGTTTAA
6118874 AAATGTTTAAATTAAAAGTAAAATATTT
1 AAATGTTTAAATTAAAAGTAAAAT-TTT
* ** *
6118902 AAATTTTTAAATTTTAATTAAAATTTT
1 AAATGTTTAAATTAAAAGTAAAATTTT
6118929 A
1 A
6118930 TATAAATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (27 bp):
AAATGTTTAAATTAAAAGTAAAATTTT
Found at i:6121818 original size:21 final size:21
Alignment explanation
Indices: 6121762--6121819 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
6121752 TCATGGGTTT
6121762 GTGCCTCTTTAGGGGCAA-TA
1 GTGCCTCTTTAGGGGCAATTA
* *
6121782 G-G-CTCTTCT-GGAGCAATTC
1 GTGCCTCTT-TAGGGGCAATTA
6121801 GTGCCTCTTTAGGGGCAAT
1 GTGCCTCTTTAGGGGCAAT
6121820 GGGCTATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
18 11 0.37
19 4 0.13
20 3 0.10
21 12 0.40
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.31
Consensus pattern (21 bp):
GTGCCTCTTTAGGGGCAATTA
Found at i:6126755 original size:25 final size:26
Alignment explanation
Indices: 6126699--6126755 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
6126689 TTAAGAAAAT
6126699 ATCTTTAAATGTGAAAAAATAAACTA
1 ATCTTTAAATGTGAAAAAATAAACTA
6126725 ATCTTTAAATGTGAAAAAATAAACTA
1 ATCTTTAAATGTGAAAAAATAAACTA
6126751 A-CTTT
1 ATCTTT
6126756 GAATTAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCTTTAAATGTGAAAAAATAAACTA
Found at i:6130137 original size:67 final size:67
Alignment explanation
Indices: 6130056--6130182 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
6130046 TGCTATGTTC
* * ** *
6130056 TTTTTAGAGAAAATTGTGAGAAATAACCTTTGTAATAAAGTCACTTCAAAAATGATCTTCGCTAT
1 TTTTAAGAGAAAATTGTAAGAAATAACCTTCATAATAAAGTCACTTCAAAAATGACCTTCGCTAT
6130121 AA
66 AA
*
6130123 TTTTAAGAGAAAATTGTAAGAAATAATCTTCATAATAAAGTCACTTCAAAAATGACCTTC
1 TTTTAAGAGAAAATTGTAAGAAATAACCTTCATAATAAAGTCACTTCAAAAATGACCTTC
6130183 ACTCTTCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (67 bp):
TTTTAAGAGAAAATTGTAAGAAATAACCTTCATAATAAAGTCACTTCAAAAATGACCTTCGCTAT
AA
Found at i:6134404 original size:916 final size:912
Alignment explanation
Indices: 6132417--6134436 Score: 2669
Period size: 913 Copynumber: 2.2 Consensus size: 912
6132407 TCATATTATG
* * *
6132417 TTGAAGAATTTGATCTCAATCTGGTAGAATTAATTTCGAC-TTAAGTCTTTAATGGAATTTGACG
1 TTGAAGAATTTGATCACAATCTGGTAGAATTAATTTCAACTTTAA--CTTTAATGGAATTTGGCG
* *
6132481 GGAACAAACAACTTTAAAAGAGGAAGAAGAAGCAGTCACGTGGAGGCTACACGTGTTCACTATAA
64 GGAACAAACAACTTCAAAGGAGGAAGAAGAAGCAGTCACGTGGAGGCTACACGTGTTCACTATAA
* * *
6132546 CTTTTCCAATCCATTTATTAGTTTTTTATTTCAGTTTATAGCTTTAGTGAAACGCTGAATTTGGT
129 CTTTACCAATCCATTTATTAGTTTTTTATTTCAATTTATAGCTTTAGTGAAACCCTGAATTTGGT
* * **
6132611 GTCGTCTAGCTCATGGTTTCCGTTTTACTTAAATGCTAGTGTCCATGTCGTTTTAGTTACAAAAT
194 GTCGTCTAGCTCATAGTTGCCGTTTTACTTAAACACTAGTGTCCATGTCGTTTTAGTTACAAAAT
* * * ** *
6132676 TGTTAAATGGTTGTTAATGCCACGTGTTGAGCAGACATAATATTTGCAACAAGTCTTTAATCCAA
259 TATTAAATGGCTGTTAAAGCCACGTGTCAACCAGACATAATATTTGCAACAAGTCTTTAATCCAA
* * * *
6132741 GTTAATGCAATCTCCATCAATGTTGCATTTCACAACTGCAAAACGTATTCTTAAGTACATCAAAG
324 GTTAATGCAATCTCCATCAATGTTGCATTTCACAACTACAAAACGTATTCTCAAATACATCAAAA
* *
6132806 GTACCTTGAACTTTGGCTTGAGGTACAGTAAGAAAGAAAGCAGTGAACTTCAGGGATATAGTGAT
389 GAACCTTGAACTTTGGCTTGAGGTACAGTAAGAAAGAAAGCAGTGAACTTCACGGATATAGTGAT
* * * * * * * *
6132871 GGTGATTGGGTAGGTTTAATTGGTGTTTCAAAAAGCACAAGTAGATTCTATTTCTCGTTTGATAA
454 AGTGATTAGGCAAGTTCAATTGATGATTCAAAAAGCACAAGTAGATTCTATTTCTCCTTTGATAA
* * * * * **
6132936 TGCAGTTTTTTCTTTCAAAAAAGCAAGCAGTAATAGCCCAATCGTCAGCTAAGGTTAAATATATT
519 TGCAGTTTTTTCTTTAAAAAAAACAAGAAGTAATAGCCCAATCATCAACTAAGGCCAAATATATT
* ** *
6133001 GCTATTGTTTTAACTGCTAACCATGCTCAATGGCGAAGAAAGATTTTGTCTAATTTAAGCTTCAA
584 GCTACTGACTTAACTGCGAACCATGCTCAATGGCGAAGAAAGATTTTGTCTAATTTAAGCTTCAA
* * *
6133066 TCAAGACAAAGACGCACTGTTGAAGGTTGATAATCAACTGACTATAGCAATAACCAAAAACCCTA
649 TCAAGACAAAGACACACTATTAAAGGTTGATAATCAACTGACTATAGCAATAACCAAAAACCCTA
* * * * * *
6133131 TGCAGCATGGTCGAACTAAACACATCCATATCAAATTCCATGCCTTAAGAGAAGCAGTAAAGGAA
714 CGCAGCACGATCAAACTAAACACATCCATATCAAATTCCATACCTTAAGAGAAGCAATAAAGGAA
* * * *
6133196 TGGGAAATTCAGCTTCAATATTGTCATACTGATCTTCAATTGGCAAACATCCTTACTAAAGGCTC
779 TGGGAAATTCAACTTCAATACTGTCATACTAATCTTCAATTGGCAAACATCCTTACTAAAGACTC
* * *
6133261 AAGCAGGGAAAGGTTTGAATTTTTTAGAACTAAACTGAGAGTCTACAAGACAGAGACCAAGGAGG
844 AAGCAAGGAAAGGTTTGAATTTCTAAGAACTAAACTGAGAGTCTACAAGACAGAGACCAAGGAGG
*
6133326 TGTG
909 TGTA
* *
6133330 TTGAAGAATTTGATCACAATCTGGTAGAA-CAATTTCAACTTTAGTCTTTAATGGAATTTGGCGG
1 TTGAAGAATTTGATCACAATCTGGTAGAATTAATTTCAACTTTA-ACTTTAATGGAATTTGGCGG
* * * * * * * * *
6133394 GAACAATCAACCTCAACGGAGGAAGAAAAAACAATCACGTGGGGGCTACACATGTTCATTATAAC
65 GAACAAACAACTTCAAAGGAGGAAGAAGAAGCAGTCACGTGGAGGCTACACGTGTTCACTATAAC
* *
6133459 TTTACTAATCCATTTATTAGTTTTTTTATTTCAATTTATAGCTTTAGTGAACCCCTGAATTTGGT
130 TTTACCAATCCATTTATTAG-TTTTTTATTTCAATTTATAGCTTTAGTGAAACCCTGAATTTGGT
* * * *
6133524 GTCGTCTAGCTCATAGTTGCTGTTTTACTTATACACTGGTGTCCATGTCGTTTTAGTTACAAAGT
194 GTCGTCTAGCTCATAGTTGCCGTTTTACTTAAACACTAGTGTCCATGTCGTTTTAGTTACAAAAT
* *
6133589 TATTGAATGGCTGTTAAAGCCACGTGTCAACCAGACATAATGTTTGCAACAAGTCTGTT-ATCCA
259 TATTAAATGGCTGTTAAAGCCACGTGTCAACCAGACATAATATTTGCAACAAGTCT-TTAATCCA
* * * * *
6133653 AGTTCATGCAATCTCCATCAGTGTTGCATTTCACCACTACACAACGTGTTCTCAAATACATCAAA
323 AGTTAATGCAATCTCCATCAATGTTGCATTTCACAACTACAAAACGTATTCTCAAATACATCAAA
* *
6133718 AGAACCTTGAACTTTGGCTTGAGGTATAGTAAGAAAGAAAGCAGTGAACTTCACGGATATAGTTA
388 AGAACCTTGAACTTTGGCTTGAGGTACAGTAAGAAAGAAAGCAGTGAACTTCACGGATATAGTGA
** * *
6133783 TAGTGATTAGGCAAGTTCAATTGATGATTCATGAAGCATAAGTGGATTCTATTTCTCCTTT-AGT
453 TAGTGATTAGGCAAGTTCAATTGATGATTCAAAAAGCACAAGTAGATTCTATTTCTCCTTTGA-T
* ** * *
6133847 AGA-GCAGTTTTTTCTTAGAATTAAAAAAAACAAGAAGTAGTAGTTCAATCATCAACTGAGGCCG
517 A-ATGCAGTTTTTTC-T----TTAAAAAAAACAAGAAGTAATAGCCCAATCATCAACTAAGGCCA
* * **
6133911 AATATATTGCTACT-ACTT-CCTGCGAACTATGCTCAATGGCTG-AGAAAGATTTTGTCTGGTTT
576 AATATATTGCTACTGACTTAACTGCGAACCATGCTCAATGGC-GAAGAAAGATTTTGTCTAATTT
* * * *
6133973 AAGCTTCAATCAAGGCAAAGACACACTATTAAAGGTTGATAATC-AGTCGGCTATAGTAATAACC
640 AAGCTTCAATCAAGACAAAGACACACTATTAAAGGTTGATAATCAACT-GACTATAGCAATAACC
* * *
6134037 AAAAACCCTACGCAGCACGATCAAACTAAACACATCCGTGTCAAATTCCATACTTTAAGAGAAGC
704 AAAAACCCTACGCAGCACGATCAAACTAAACACATCCATATCAAATTCCATACCTTAAGAGAAGC
* *
6134102 AATAAAGGAA-GGTGAAATTCAACTTGAATACTGTCATACTAATCTTCAATTGGCAGACATCCTT
769 AATAAAGGAATGG-GAAATTCAACTTCAATACTGTCATACTAATCTTCAATTGGCAAACATCCTT
* * * * * * *
6134166 ACTAAAGATTTAAGCAAGGAAAGGTTTGAATTTCTAAGAACTAGATTGGGAGTTTACCAA-ATAG
833 ACTAAAGACTCAAGCAAGGAAAGGTTTGAATTTCTAAGAACTAAACTGAGAGTCTA-CAAGACAG
*
6134230 AGACCGAGGAGGTGTA
897 AGACCAAGGAGGTGTA
* * *
6134246 TTGAAGAATTTGATCCCAATCTGGTAGAATTAATTTCAACTTTAACTTTCAATGGAATTTGGTGA
1 TTGAAGAATTTGATCACAATCTGGTAGAATTAATTTCAACTTTAACTTT-AATGGAATTTGGCGG
*
6134311 GAACAAACAACTTCAAAGGAGGAAGAAGAAGCAGTCACTTGGAGGCTACACGTGTTCACTATAAC
65 GAACAAACAACTTCAAAGGAGGAAGAAGAAGCAGTCACGTGGAGGCTACACGTGTTCACTATAAC
* * * * *
6134376 TTTACCAATTCATTTATTAGTTTTTTATTTCAGTTCAT-GACTTCAGTGAAACTCTGAATTT
130 TTTACCAATCCATTTATTAGTTTTTTATTTCAATTTATAG-CTTTAGTGAAACCCTGAATTT
6134437 AAAATAGAAA
Statistics
Matches: 951, Mismatches: 138, Indels: 33
0.85 0.12 0.03
Matches are distributed among these distances:
912 99 0.10
913 361 0.38
914 4 0.00
915 5 0.01
916 332 0.35
917 105 0.11
918 45 0.05
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (912 bp):
TTGAAGAATTTGATCACAATCTGGTAGAATTAATTTCAACTTTAACTTTAATGGAATTTGGCGGG
AACAAACAACTTCAAAGGAGGAAGAAGAAGCAGTCACGTGGAGGCTACACGTGTTCACTATAACT
TTACCAATCCATTTATTAGTTTTTTATTTCAATTTATAGCTTTAGTGAAACCCTGAATTTGGTGT
CGTCTAGCTCATAGTTGCCGTTTTACTTAAACACTAGTGTCCATGTCGTTTTAGTTACAAAATTA
TTAAATGGCTGTTAAAGCCACGTGTCAACCAGACATAATATTTGCAACAAGTCTTTAATCCAAGT
TAATGCAATCTCCATCAATGTTGCATTTCACAACTACAAAACGTATTCTCAAATACATCAAAAGA
ACCTTGAACTTTGGCTTGAGGTACAGTAAGAAAGAAAGCAGTGAACTTCACGGATATAGTGATAG
TGATTAGGCAAGTTCAATTGATGATTCAAAAAGCACAAGTAGATTCTATTTCTCCTTTGATAATG
CAGTTTTTTCTTTAAAAAAAACAAGAAGTAATAGCCCAATCATCAACTAAGGCCAAATATATTGC
TACTGACTTAACTGCGAACCATGCTCAATGGCGAAGAAAGATTTTGTCTAATTTAAGCTTCAATC
AAGACAAAGACACACTATTAAAGGTTGATAATCAACTGACTATAGCAATAACCAAAAACCCTACG
CAGCACGATCAAACTAAACACATCCATATCAAATTCCATACCTTAAGAGAAGCAATAAAGGAATG
GGAAATTCAACTTCAATACTGTCATACTAATCTTCAATTGGCAAACATCCTTACTAAAGACTCAA
GCAAGGAAAGGTTTGAATTTCTAAGAACTAAACTGAGAGTCTACAAGACAGAGACCAAGGAGGTG
TA
Found at i:6134500 original size:3 final size:3
Alignment explanation
Indices: 6134492--6134525 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
6134482 TTTTGACTAA
6134492 TCT TCT TCT TCT TCT TCT TCT TCT TCAT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT
6134526 CTGTTCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:6138499 original size:14 final size:15
Alignment explanation
Indices: 6138474--6138503 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6138464 GATAATCATC
6138474 AAAATGTAAAATTTT
1 AAAATGTAAAATTTT
6138489 AAAAT-TAAAATTTT
1 AAAATGTAAAATTTT
6138503 A
1 A
6138504 TATGAGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAAATGTAAAATTTT
Found at i:6139379 original size:2 final size:2
Alignment explanation
Indices: 6139374--6139403 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6139364 TTACACACAC
6139374 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
6139404 GACGGGTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6141588 original size:8 final size:8
Alignment explanation
Indices: 6141553--6141587 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
6141543 CCCTTTATTA
6141553 AAAATTTT
1 AAAATTTT
6141561 AAAATTATT
1 AAAATT-TT
6141570 AAAATTTT
1 AAAATTTT
*
6141578 AATATTTT
1 AAAATTTT
6141586 AA
1 AA
6141588 TCATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
AAAATTTT
Found at i:6141610 original size:17 final size:17
Alignment explanation
Indices: 6141577--6141610 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6141567 ATTAAAATTT
*
6141577 TAATATTTTAATCATAA
1 TAATATTTAAATCATAA
*
6141594 TAATATTTAAATTATAA
1 TAATATTTAAATCATAA
6141611 ATAAAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTAAATCATAA
Found at i:6141932 original size:16 final size:17
Alignment explanation
Indices: 6141899--6141933 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6141889 AATTATAAAT
6141899 AAAATATTAATATCTTA
1 AAAATATTAATATCTTA
*
6141916 AAAATGTTAATAT-TTA
1 AAAATATTAATATCTTA
6141932 AA
1 AA
6141934 TGATCAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (17 bp):
AAAATATTAATATCTTA
Found at i:6141993 original size:20 final size:20
Alignment explanation
Indices: 6141961--6142000 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6141951 TATTATTTAA
6141961 ATTATAAATAAATATTAAAT
1 ATTATAAATAAATATTAAAT
6141981 ATTA-AAATAAAATATTAAAT
1 ATTATAAAT-AAATATTAAAT
6142001 TATATTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTATAAATAAATATTAAAT
Found at i:6142061 original size:27 final size:27
Alignment explanation
Indices: 6142008--6142061 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6141998 AATTATATTC
* *
6142008 TATTAATATTTTAAATAAATTATAAAT
1 TATTAATATTTTAAATAAAATAAAAAT
*
6142035 TATTCATATTTTAAATAAAATAAAAAT
1 TATTAATATTTTAAATAAAATAAAAAT
6142062 AAATAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAATATTTTAAATAAAATAAAAAT
Found at i:6150646 original size:20 final size:20
Alignment explanation
Indices: 6150616--6150680 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
6150606 TATAATTGTG
6150616 TTTATAATTATTAATTTTATA
1 TTTA-AATTATTAATTTTATA
**
6150637 TTTAAATTA-TAAAATTATA
1 TTTAAATTATTAATTTTATA
* *
6150656 TTT-AATTATAAATATTTTTA
1 TTTAAATTATTAAT-TTTATA
6150676 TTTAA
1 TTTAA
6150681 TCATATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 5 0.14
19 13 0.37
20 12 0.34
21 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAAATTATTAATTTTATA
Found at i:6150681 original size:20 final size:20
Alignment explanation
Indices: 6150620--6150681 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
6150610 ATTGTGTTTA
*
6150620 TAATTATTAAT-TTTATATT
1 TAATTATAAATATTTATATT
6150639 TAAATTATAAA-A-TTATATT
1 T-AATTATAAATATTTATATT
*
6150658 TAATTATAAATATTTTTATT
1 TAATTATAAATATTTATATT
6150678 TAAT
1 TAAT
6150682 CATATTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 9 0.24
19 10 0.27
20 18 0.49
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTATAAATATTTATATT
Found at i:6154885 original size:27 final size:26
Alignment explanation
Indices: 6154837--6154890 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
6154827 TACAAATTTG
*
6154837 TAGAGAAAACCCAAGATATAAAGCTT
1 TAGAGAAAACCCAAGATATAAAACTT
*
6154863 TAGAGAAACACCCAA-ATCCTAAAACTT
1 TAGAGAAA-ACCCAAGAT-ATAAAACTT
6154890 T
1 T
6154891 GTCATATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.20
Consensus pattern (26 bp):
TAGAGAAAACCCAAGATATAAAACTT
Found at i:6169731 original size:6 final size:6
Alignment explanation
Indices: 6169720--6169759 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
6169710 CAAAAGAATT
6169720 AAAGAA AAAGAA AAAGAAAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAG--AA AAAGAA AAAGAA AAAGAA AA
6169760 TTTTCTTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:6169736 original size:20 final size:20
Alignment explanation
Indices: 6169720--6169759 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6169710 CAAAAGAATT
6169720 AAAGAAAAAGAAAAAGAAAA
1 AAAGAAAAAGAAAAAGAAAA
6169740 AAAGAAAAAGAAAAAGAAAA
1 AAAGAAAAAGAAAAAGAAAA
6169760 TTTTCTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGAAAA
Found at i:6170600 original size:33 final size:33
Alignment explanation
Indices: 6170549--6170633 Score: 93
Period size: 33 Copynumber: 2.5 Consensus size: 33
6170539 AAAAGAAATT
*
6170549 GAAAT-AAAATATATAATATA-AAAATTATATTAAA
1 GAAATGAAAATA-A-AATATATAAAATTATAAT-AA
* * *
6170583 TAAATGTAAATAAAATATATAAGATTATAATAA
1 GAAATGAAAATAAAATATATAAAATTATAATAA
6170616 GAAATGAAAATAAAATAT
1 GAAATGAAAATAAAATAT
6170634 GTGACATTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 24 0.56
34 14 0.33
35 5 0.12
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (33 bp):
GAAATGAAAATAAAATATATAAAATTATAATAA
Found at i:6170869 original size:15 final size:15
Alignment explanation
Indices: 6170849--6170902 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
6170839 GTTATTTTCT
*
6170849 TTGCAATTACATTAC
1 TTGCAATCACATTAC
6170864 TTGCAATCACATTAC
1 TTGCAATCACATTAC
* * *
6170879 ATACAATCACGTTAC
1 TTGCAATCACATTAC
*
6170894 TTGTAATCA
1 TTGCAATCA
6170903 TATTGTATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.35
Consensus pattern (15 bp):
TTGCAATCACATTAC
Found at i:6171070 original size:16 final size:17
Alignment explanation
Indices: 6171049--6171105 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
6171039 TCCTTACAAA
6171049 AATTTTA-AAATTTTTT
1 AATTTTATAAATTTTTT
*
6171065 AATTTTATAACTTTTTTT
1 AATTTTATAA-ATTTTTT
* *
6171083 ATATTTTTTCAAATTTTAT
1 A-ATTTTAT-AAATTTTTT
6171102 AATT
1 AATT
6171106 GTACATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.21
17 2 0.06
18 10 0.30
19 12 0.36
20 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTTTATAAATTTTTT
Found at i:6171099 original size:20 final size:18
Alignment explanation
Indices: 6171049--6171099 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
6171039 TCCTTACAAA
6171049 AATTTTA-AAA-TTTTTT
1 AATTTTATAAATTTTTTT
*
6171065 AATTTTATAACTTTTTTT
1 AATTTTATAAATTTTTTT
*
6171083 ATATTTTTTCAAATTTT
1 A-ATTTTAT-AAATTTT
6171100 ATAATTGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 7 0.25
17 2 0.07
18 7 0.25
19 6 0.21
20 6 0.21
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTTTATAAATTTTTTT
Found at i:6178872 original size:2 final size:2
Alignment explanation
Indices: 6178865--6178919 Score: 58
Period size: 2 Copynumber: 26.5 Consensus size: 2
6178855 TAACATCATC
**
6178865 CT CT CT CT CT CT CT CT CT CT CT NA CT ACAT ACT C- CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT -C-T -CT CT CT CT CT CT
6178907 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
6178920 ATCCCCCTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
1 1 0.02
2 40 0.87
3 2 0.04
4 3 0.07
ACGTcount: A:0.07, C:0.47, G:0.00, T:0.44
Consensus pattern (2 bp):
CT
Found at i:6188120 original size:15 final size:15
Alignment explanation
Indices: 6188100--6188133 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6188090 CTAAACGCAG
*
6188100 AACATGAATTTAAAA
1 AACATGAATGTAAAA
6188115 AACATGAATGTAAAA
1 AACATGAATGTAAAA
6188130 AACA
1 AACA
6188134 AAAGAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.21
Consensus pattern (15 bp):
AACATGAATGTAAAA
Found at i:6192006 original size:2 final size:2
Alignment explanation
Indices: 6191999--6192072 Score: 82
Period size: 2 Copynumber: 38.0 Consensus size: 2
6191989 AAAATAAATA
* * * *
6191999 AT AT AT AT AT AT AT NT AT CAA AT AT A- AA AT -T AA AT A- AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
6192039 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
6192073 GTGTGTGTGT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
1 3 0.05
2 57 0.93
3 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6193517 original size:63 final size:64
Alignment explanation
Indices: 6193416--6193538 Score: 185
Period size: 63 Copynumber: 1.9 Consensus size: 64
6193406 AAAATACAAC
* *
6193416 ATTTTATGTTAATTCTTATACATTTAGATTAAGAATATACAAATTCAAATTAAAAATATGATAT
1 ATTTTACGTTAATTCTTATACATTTACATTAAGAATATACAAATTCAAATTAAAAATATGATAT
* * * *
6193480 ATTTTACGTTAATTC-TATACATTTACATTAATAATATATAAATTTAAATTAAACATATG
1 ATTTTACGTTAATTCTTATACATTTACATTAAGAATATACAAATTCAAATTAAAAATATG
6193539 TGATAAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 39 0.74
64 14 0.26
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (64 bp):
ATTTTACGTTAATTCTTATACATTTACATTAAGAATATACAAATTCAAATTAAAAATATGATAT
Found at i:6193537 original size:21 final size:21
Alignment explanation
Indices: 6193432--6193531 Score: 60
Period size: 21 Copynumber: 4.8 Consensus size: 21
6193422 TGTTAATTCT
* * *
6193432 TATACATTTAGATTAAGAATA
1 TATAAATTTAAATTAATAATA
* * *
6193453 TACAAATTCAAATTAAAAATA
1 TATAAATTTAAATTAATAATA
* ** *
6193474 TGATATATTTTACGTTAAT--TC
1 T-ATA-AATTTAAATTAATAATA
* *
6193495 TATACATTTACATTAATAATA
1 TATAAATTTAAATTAATAATA
6193516 TATAAATTTAAATTAA
1 TATAAATTTAAATTAA
6193532 ACATATGTGA
Statistics
Matches: 57, Mismatches: 18, Indels: 8
0.69 0.22 0.10
Matches are distributed among these distances:
19 10 0.18
20 3 0.05
21 34 0.60
22 2 0.04
23 8 0.14
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (21 bp):
TATAAATTTAAATTAATAATA
Found at i:6195084 original size:96 final size:96
Alignment explanation
Indices: 6194977--6195166 Score: 274
Period size: 96 Copynumber: 2.0 Consensus size: 96
6194967 TGATGGCAGC
* * *
6194977 GGCGGCGGCGGCAGAGGAAGTGGATAAATGAGAGGGCCTGACCCTTTCCTGACCGGTGGCTTTGG
1 GGCGGCGGCGGCAGAGGAAGTGGATAAATGAGAGGGCCTGACCCTTCCCTGACCAGTGGCCTTGG
**
6195042 AGGTTTATGCAAT-GAATCTATTGCAGCAGAA
66 AGGTTTACCCAATGGAA-CTATTGCAGCAGAA
* * * *
6195073 GGCGGCGGCGGCGGAGGAAGTGGATTAATGTGGGGGCCTGACCCTTCCCTGACCAGTGGCCTTGG
1 GGCGGCGGCGGCAGAGGAAGTGGATAAATGAGAGGGCCTGACCCTTCCCTGACCAGTGGCCTTGG
*
6195138 AGGTTTACCCAATGGAACTATTGTAGCAG
66 AGGTTTACCCAATGGAACTATTGCAGCAG
6195167 CAGCAGCATC
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 80 0.96
97 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.22
Consensus pattern (96 bp):
GGCGGCGGCGGCAGAGGAAGTGGATAAATGAGAGGGCCTGACCCTTCCCTGACCAGTGGCCTTGG
AGGTTTACCCAATGGAACTATTGCAGCAGAA
Found at i:6196909 original size:2 final size:2
Alignment explanation
Indices: 6196902--6196972 Score: 94
Period size: 2 Copynumber: 36.0 Consensus size: 2
6196892 TATTGTGAGA
*
6196902 AT AT AT AT AT AT AT AT AT AT AT AT NCT AT AGT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT AT AT AT AT
6196946 AT AT AT A- AT AT AT AT -T AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6196973 GTAACTTTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
1 3 0.05
2 56 0.90
3 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6198461 original size:26 final size:27
Alignment explanation
Indices: 6198422--6198472 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
6198412 CCCATTTAAA
6198422 AAAAATAAAATAA-TAAAAATAAAAATT
1 AAAAATAAAATAATTAAAAA-AAAAATT
*
6198449 AAAAA-AAATTAATTAAAAAAAAAA
1 AAAAATAAAATAATTAAAAAAAAAA
6198473 GAACAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (27 bp):
AAAAATAAAATAATTAAAAAAAAAATT
Found at i:6202319 original size:15 final size:15
Alignment explanation
Indices: 6202292--6202354 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
6202282 GTTTGGTATT
6202292 TTACAATGTAATATGA
1 TTACAA-GTAATATGA
*
6202308 TTACAAGTAATATAA
1 TTACAAGTAATATGA
* *
6202323 TTGCAAGTAATGTGA
1 TTACAAGTAATATGA
* * *
6202338 TTGCAAGCAATGTGA
1 TTACAAGTAATATGA
6202353 TT
1 TT
6202355 GTAGGGAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
15 36 0.86
16 6 0.14
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (15 bp):
TTACAAGTAATATGA
Found at i:6207225 original size:22 final size:22
Alignment explanation
Indices: 6207165--6207233 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
6207155 GGTCGTGACA
*
6207165 AACAAGTCACGGAATGCCTCAAT-
1 AACAAGTCACGCAATGCCT--ATC
*
6207188 AACAAGTCACACAATGCCTATC
1 AACAAGTCACGCAATGCCTATC
* *
6207210 AACTAGTCACGTAATGCCTTATC
1 AACAAGTCACGCAATGCC-TATC
6207233 A
1 A
6207234 GAAACTAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 2 0.05
22 15 0.38
23 22 0.56
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.22
Consensus pattern (22 bp):
AACAAGTCACGCAATGCCTATC
Found at i:6207240 original size:26 final size:25
Alignment explanation
Indices: 6207183--6207440 Score: 144
Period size: 26 Copynumber: 10.8 Consensus size: 25
6207173 ACGGAATGCC
* *
6207183 TCAATAACAAGTCACACAATGCC-TA
1 TCAA-AACTAGTCACGCAATGCCTTA
*
6207208 TC--AACTAGTCACGTAATGCCTTA
1 TCAAAACTAGTCACGCAATGCCTTA
** *
6207231 TCAGAAACTAACCACGTAATGCCTTA
1 TCA-AAACTAGTCACGCAATGCCTTA
*
6207257 TTAAAAACTAGTCACGCAAT---TT-
1 -TCAAAACTAGTCACGCAATGCCTTA
* *
6207279 TC-AAAGTCAGTCACGTAAT---TT-
1 TCAAAACT-AGTCACGCAATGCCTTA
* *
6207300 TC-AAAGTAAGTCACGCAATGCTTTA
1 TCAAAACT-AGTCACGCAATGCCTTA
*
6207325 TCAAAAACTAGTCACGTAATGCC---
1 TC-AAAACTAGTCACGCAATGCCTTA
*
6207348 -C-AAAGTCAGTCACGCAATGCC-TA
1 TCAAAACT-AGTCACGCAATGCCTTA
6207371 TC--AACTAGTCACGCAATGCCTTA
1 TCAAAACTAGTCACGCAATGCCTTA
* * *
6207394 TCAGAAACTAGTCATGTAATGACTTA
1 TCA-AAACTAGTCACGCAATGCCTTA
6207420 TCAAAAACTAGTCACGCAATG
1 TC-AAAACTAGTCACGCAATG
6207441 TCCAAAGTCA
Statistics
Matches: 187, Mismatches: 25, Indels: 41
0.74 0.10 0.16
Matches are distributed among these distances:
20 8 0.04
21 43 0.23
22 30 0.16
23 13 0.07
24 3 0.02
25 4 0.02
26 79 0.42
27 7 0.04
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (25 bp):
TCAAAACTAGTCACGCAATGCCTTA
Found at i:6207292 original size:21 final size:21
Alignment explanation
Indices: 6207266--6207318 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
6207256 ATTAAAAACT
*
6207266 AGTCACGCAATTTTCAAAGTC
1 AGTCACGCAATTTTCAAAGTA
*
6207287 AGTCACGTAATTTTCAAAGTA
1 AGTCACGCAATTTTCAAAGTA
6207308 AGTCACGCAAT
1 AGTCACGCAAT
6207319 GCTTTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (21 bp):
AGTCACGCAATTTTCAAAGTA
Found at i:6207332 original size:68 final size:67
Alignment explanation
Indices: 6207243--6207407 Score: 188
Period size: 68 Copynumber: 2.4 Consensus size: 67
6207233 AGAAACTAAC
* * *** * * *
6207243 CACGTAATGCCTTATTAAAAACTAGTCACGCAATTTTCAAAGTCAGTCACGTAAT-TTTCAAAGT
1 CACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATCTATC-AACT
6207307 AAGT
65 -AGT
* *
6207311 CACGCAATGCTTTATCAAAAACTAGTCACGTAATGCCCAAAGTCAGTCACGCAATGCCTATCAAC
1 CACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAAT--CTATCAAC
6207376 TAGT
64 TAGT
*
6207380 CACGCAATGCCTTATCAGAAACTAGTCA
1 CACGCAATGCCTTATCAAAAACTAGTCA
6207408 TGTAATGACT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
68 47 0.57
69 29 0.35
70 3 0.04
71 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (67 bp):
CACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATCTATCAACTA
GT
Found at i:6207338 original size:47 final size:46
Alignment explanation
Indices: 6207287--6207474 Score: 159
Period size: 47 Copynumber: 4.0 Consensus size: 46
6207277 TTTCAAAGTC
* * * *
6207287 AGTCACGTAATTTTCAAAGTAAGTCACGCAATGCTTTATCAAAAACT
1 AGTCACGCAATGTCCAAAGTCAGTCACGCAATGC-TTATCAAAAACT
* * *
6207334 AGTCACGTAATGCCCAAAGTCAGTCACGCAATGCCTATC---AACT
1 AGTCACGCAATGTCCAAAGTCAGTCACGCAATGCTTATCAAAAACT
** * *
6207377 AGTCACGCAATG-CCTTATCAGAAACTAGTCATGTAATGACTTATCAAAAACT
1 AGTCACGCAATGTCC--A--A-AGTC-AGTCACGCAATG-CTTATCAAAAACT
*
6207429 AGTCACGCAATGTCCAAAGTCAGTCACACAATGCCTTATCAAAAAC
1 AGTCACGCAATGTCCAAAGTCAGTCACGCAATG-CTTATCAAAAAC
6207475 CAAGCACAAA
Statistics
Matches: 113, Mismatches: 17, Indels: 22
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 15 0.13
44 1 0.01
46 5 0.04
47 53 0.47
48 12 0.11
49 6 0.05
51 1 0.01
52 16 0.14
53 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (46 bp):
AGTCACGCAATGTCCAAAGTCAGTCACGCAATGCTTATCAAAAACT
Found at i:6207382 original size:22 final size:22
Alignment explanation
Indices: 6207330--6207396 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
6207320 CTTTATCAAA
* *
6207330 AACTAGTCACGTAATGCCCA--
1 AACTAGTCACGCAATGCCTATC
*
6207350 AAGTCAGTCACGCAATGCCTATC
1 AACT-AGTCACGCAATGCCTATC
6207373 AACTAGTCACGCAATGCCTTATC
1 AACTAGTCACGCAATGCC-TATC
6207396 A
1 A
6207397 GAAACTAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
20 3 0.08
21 14 0.36
22 14 0.36
23 8 0.21
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (22 bp):
AACTAGTCACGCAATGCCTATC
Found at i:6209401 original size:118 final size:118
Alignment explanation
Indices: 6209261--6209479 Score: 307
Period size: 118 Copynumber: 1.9 Consensus size: 118
6209251 TATTTTCCCT
* * * * *
6209261 TTTTTAATCTTTTAGTTTTA-TTTAATTAAAAATTTTAAATATTAATAATTTATAATTGATTTAT
1 TTTTTAATATTTTAATTTTATTTTAATTAAAAA-TTTAAACATTAATAATTTATAATTAAATTAT
*
6209325 TAATATGATTTTTTATTTCAATTTTTTTTA-TTTTTTCTCTATTTGTGTTTTCA
65 TAATATAATTTTTTATTTCAATTTTTTTTACTTTTTTCTCTATTTGTGTTTTCA
* * *
6209378 TTTTTAATATTTTAATTTCTATTTTCATTAAAAATTTAAACATTAATAATTTTTTATTAAATTAT
1 TTTTTAATATTTTAATTT-TATTTTAATTAAAAATTTAAACATTAATAATTTATAATTAAATTAT
* *
6209443 TAATATAATTTTTTATTTTATTTTTTTTTACTTTTTT
65 TAATATAATTTTTTATTTCAATTTTTTTTACTTTTTT
6209480 ATTTTCATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
117 16 0.18
118 55 0.62
119 17 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (118 bp):
TTTTTAATATTTTAATTTTATTTTAATTAAAAATTTAAACATTAATAATTTATAATTAAATTATT
AATATAATTTTTTATTTCAATTTTTTTTACTTTTTTCTCTATTTGTGTTTTCA
Found at i:6209469 original size:13 final size:12
Alignment explanation
Indices: 6209450--6209496 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
6209440 TATTAATATA
6209450 ATTTTTTATTTT
1 ATTTTTTATTTT
6209462 A-TTTTT-TTTT
1 ATTTTTTATTTT
6209472 ACTTTTTTATTTT
1 A-TTTTTTATTTT
6209485 CATTTTTTATTT
1 -ATTTTTTATTT
6209497 GTAAGTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 6 0.19
13 14 0.45
14 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:6209477 original size:8 final size:7
Alignment explanation
Indices: 6209450--6209496 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
6209440 TATTAATATA
6209450 ATTTTTT
1 ATTTTTT
6209457 ATTTTATT
1 ATTTT-TT
*
6209465 TTTTTTT
1 ATTTTTT
6209472 ACTTTTTT
1 A-TTTTTT
*
6209480 A-TTTTC
1 ATTTTTT
6209486 ATTTTTT
1 ATTTTTT
6209493 ATTT
1 ATTT
6209497 GTAAGTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.15
7 15 0.45
8 13 0.39
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (7 bp):
ATTTTTT
Found at i:6210982 original size:25 final size:26
Alignment explanation
Indices: 6210954--6211011 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
6210944 NNTGATATAG
6210954 AATAATA-AATGA-TATTTTGATTAAA
1 AATAATAGAATGATTA-TTTGATTAAA
*
6210979 AATAATTAGAATTATTATTTGATTAAA
1 AATAA-TAGAATGATTATTTGATTAAA
6211006 AA-AATA
1 AATAATA
6211012 TAACAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 7 0.24
26 4 0.14
27 16 0.55
28 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (26 bp):
AATAATAGAATGATTATTTGATTAAA
Found at i:6211029 original size:22 final size:21
Alignment explanation
Indices: 6210995--6211035 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6210985 TAGAATTATT
*
6210995 ATTTGATTAAAAAAATATAACA
1 ATTTAATTAAAAAAA-ATAACA
*
6211017 ATTTAATTGAAAAAAATAA
1 ATTTAATTAAAAAAAATAA
6211036 AAGAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
ATTTAATTAAAAAAAATAACA
Found at i:6225434 original size:22 final size:22
Alignment explanation
Indices: 6225402--6225458 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
6225392 TAATCACCGT
*
6225402 GTGATTAGTTTTTAGTCATTAC
1 GTGATTAGTTTTTAGGCATTAC
*
6225424 GTGATT-GGTTTTAGGCATTAC
1 GTGATTAGTTTTTAGGCATTAC
*
6225445 GTGACTAGTTTTTA
1 GTGATTAGTTTTTA
6225459 TACATTGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 18 0.60
22 12 0.40
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (22 bp):
GTGATTAGTTTTTAGGCATTAC
Found at i:6225562 original size:22 final size:23
Alignment explanation
Indices: 6225491--6225624 Score: 139
Period size: 23 Copynumber: 5.8 Consensus size: 23
6225481 AGCAATGCCT
*
6225491 AAGTCACACAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* *
6225514 CAGTCACGCAATGTCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* *
6225537 AAGTCATGCAATACCTTAC-AAC
1 AAGTCACGCAATGCCTTACTAAC
6225559 AAGTCACGCAATGCC-TA-TCAAC
1 AAGTCACGCAATGCCTTACT-AAC
* *
6225581 TAGTCATGCAATGCCTTATCTAAAAC
1 AAGTCACGCAATGCCTTA-CT--AAC
*
6225607 TAGTCACGCAATGCCTTA
1 AAGTCACGCAATGCCTTA
6225625 TCAAAAATTA
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.02
22 32 0.35
23 37 0.40
25 1 0.01
26 20 0.22
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:6225607 original size:26 final size:26
Alignment explanation
Indices: 6225560--6225809 Score: 148
Period size: 26 Copynumber: 10.5 Consensus size: 26
6225550 CCTTACAACA
6225560 AGTCACGCAATGCC-TATC---AACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
6225582 AGTCATGCAATGCCTTATCTAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
6225608 AGTCACGCAATGCCTTATCAAAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
* **
6225634 AGTCACGCAATG-----TCCAAAGTT
1 AGTCACGCAATGCCTTATCAAAAACT
* * * *
6225655 AATCACGCAATACCATATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
** *
6225681 AGTCGTGCAATGCCTTATAAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* **
6225707 AGTTACGCAATG-----TCAAAATTT
1 AGTCACGCAATGCCTTATCAAAAACT
*
6225728 AGTCACGCAATGCC-TAT---TAACT
1 AGTCACGCAATGCCTTATCAAAAACT
*
6225750 AGTCACGCAATGCC-TAT---TAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
6225772 AGTCACGCAATGCCTTATGAAAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
6225798 AGTTACGTAATG
1 AGTCACGCAATG
6225810 TCCAAATTCA
Statistics
Matches: 178, Mismatches: 33, Indels: 30
0.74 0.14 0.12
Matches are distributed among these distances:
21 34 0.19
22 51 0.29
23 7 0.04
25 1 0.01
26 85 0.48
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAAAAACT
Found at i:6225682 original size:73 final size:69
Alignment explanation
Indices: 6225603--6225783 Score: 199
Period size: 73 Copynumber: 2.6 Consensus size: 69
6225593 GCCTTATCTA
* * *
6225603 AAACTAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGTCCAAAGTTAATCACGCAATAC
1 AAACTAGTCACGCAATGCCTTATAAAAAACTAGTCACGCAATGTCAAAAGTTAATCACGCAATAC
6225668 CATAT
66 C-TAT
** * * *
6225673 CAGAAACTAGTCGTGCAATGCCTTATAAAAAACTAGTTACGCAATGTCAAAATTTAGTCACGCAA
1 ---AAACTAGTCACGCAATGCCTTATAAAAAACTAGTCACGCAATGTCAAAAGTTAATCACGCAA
*
6225738 TGCCTAT
63 TACCTAT
* *
6225745 TAACTAGTCACGCAATGCC-TAT---TAACTAGTCACGCAATG
1 AAACTAGTCACGCAATGCCTTATAAAAAACTAGTCACGCAATG
6225784 CCTTATGAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
65 15 0.16
68 3 0.03
69 16 0.17
72 3 0.03
73 57 0.61
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
AAACTAGTCACGCAATGCCTTATAAAAAACTAGTCACGCAATGTCAAAAGTTAATCACGCAATAC
CTAT
Found at i:6225755 original size:22 final size:22
Alignment explanation
Indices: 6225727--6225786 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
6225717 TGTCAAAATT
6225727 TAGTCACGCAATGCCTATTAAC
1 TAGTCACGCAATGCCTATTAAC
6225749 TAGTCACGCAATGCCTATTAAC
1 TAGTCACGCAATGCCTATTAAC
6225771 TAGTCACGCAATGCCT
1 TAGTCACGCAATGCCT
6225787 TATGAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (22 bp):
TAGTCACGCAATGCCTATTAAC
Found at i:6225789 original size:91 final size:90
Alignment explanation
Indices: 6225560--6225837 Score: 272
Period size: 91 Copynumber: 3.0 Consensus size: 90
6225550 CCTTACAACA
* ** *
6225560 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCTAAAACTAGTCACGCAATGCCTTA
1 AGTCACGCAATGCCTATAAACTAGTCATGCAATGCCTTATAAAAAACTAGTTACGCAATG-----
* *
6225625 TCAAAAATTAGTCACGCAATGTCCAAAGTT
61 TCAAAATTTAGTCACGCAATGTCCAAAGCT
* * *
6225655 AATCACGCAATACCATATCAGAAACTAGTCGTGCAATGCCTTATAAAAAACTAGTTACGCAATGT
1 AGTCACGCAATGCC-TAT---AAACTAGTCATGCAATGCCTTATAAAAAACTAGTTACGCAATGT
6225720 CAAAATTTAGTCACGCAATG-CCTATTAA-CT
62 CAAAATTTAGTCACGCAATGTCC-A--AAGCT
* * * * * *
6225750 AGTCACGCAATGCCTATTAACTAGTCACGCAATGCCTTATGAAAAATTAGTTACGTAATGTCCAA
1 AGTCACGCAATGCCTATAAACTAGTCATGCAATGCCTTATAAAAAACTAGTTACGCAATGTCAAA
* * *
6225815 ATTCAGTAACGCAATATCCAAAG
66 ATTTAGTCACGCAATGTCCAAAG
6225838 TCAATCACGT
Statistics
Matches: 153, Mismatches: 21, Indels: 23
0.78 0.11 0.12
Matches are distributed among these distances:
89 2 0.01
91 55 0.36
92 2 0.01
93 2 0.01
94 24 0.16
95 25 0.16
96 5 0.03
99 38 0.25
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (90 bp):
AGTCACGCAATGCCTATAAACTAGTCATGCAATGCCTTATAAAAAACTAGTTACGCAATGTCAAA
ATTTAGTCACGCAATGTCCAAAGCT
Found at i:6225835 original size:21 final size:20
Alignment explanation
Indices: 6225793--6225836 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6225783 GCCTTATGAA
* * *
6225793 AAATTAGTTACGTAATGTCC
1 AAATTAGTAACGCAATATCC
6225813 AAATTCAGTAACGCAATATCC
1 AAATT-AGTAACGCAATATCC
6225834 AAA
1 AAA
6225837 GTCAATCACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.27
Consensus pattern (20 bp):
AAATTAGTAACGCAATATCC
Found at i:6241200 original size:44 final size:44
Alignment explanation
Indices: 6241129--6241213 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
6241119 AGGAAAAGTT
* * *
6241129 AAAGCAGGCTTAGCCTACATCTTCTCTAGTTATGATATGTTATC
1 AAAGCAGGCTTAACCTACACCTCCTCTAGTTATGATATGTTATC
6241173 AAAGCAGGCTTAACCTACACCTCCTCTAGTTATGATATGTT
1 AAAGCAGGCTTAACCTACACCTCCTCTAGTTATGATATGTT
6241214 TATCCTGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (44 bp):
AAAGCAGGCTTAACCTACACCTCCTCTAGTTATGATATGTTATC
Found at i:6253466 original size:17 final size:16
Alignment explanation
Indices: 6253424--6253466 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6253414 GCATATGAAA
*
6253424 ATTTATTTAGTATTTT
1 ATTTATTTAGGATTTT
*
6253440 AGTTAGTTTAGGATTTT
1 ATTTA-TTTAGGATTTT
6253457 ATTTTATTTA
1 A-TTTATTTA
6253467 TTTAGTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (16 bp):
ATTTATTTAGGATTTT
Found at i:6255267 original size:2 final size:2
Alignment explanation
Indices: 6255260--6255285 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6255250 TGCTCTACAC
6255260 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
6255286 GAGGACGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6255320 original size:2 final size:2
Alignment explanation
Indices: 6255313--6255345 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6255303 GAAGACTANC
*
6255313 AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6255346 CCAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6261827 original size:2 final size:2
Alignment explanation
Indices: 6261820--6261846 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6261810 GTGACTCTAC
6261820 GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT G
6261847 AGAGAGAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:6261851 original size:2 final size:2
Alignment explanation
Indices: 6261846--6261894 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
6261836 GTGTGTGTGT
*
6261846 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6261888 GA GA GA G
1 GA GA GA G
6261895 GAACCTTGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6266979 original size:69 final size:69
Alignment explanation
Indices: 6266898--6267035 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
6266888 TACTGTCGGC
6266898 TATTAATACATAACTACTACAAATATCATTATCATTGCTTTCGGTTTATGCGTAAAGACCTTAAA
1 TATTAATACATAACTACTACAAATATCATTATCATTGCTTTCGGTTTATGCGTAAAGACCTTAAA
6266963 AAGG
66 AAGG
* *
6266967 TATTAATACATAACTACTACAAATATCATTATCATTGCTTTCGGTTTATGCGTATAGATCTTAAA
1 TATTAATACATAACTACTACAAATATCATTATCATTGCTTTCGGTTTATGCGTAAAGACCTTAAA
6267032 AAGG
66 AAGG
6267036 GTAGACTTGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (69 bp):
TATTAATACATAACTACTACAAATATCATTATCATTGCTTTCGGTTTATGCGTAAAGACCTTAAA
AAGG
Found at i:6269785 original size:34 final size:35
Alignment explanation
Indices: 6269721--6269789 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
6269711 CAACACAAAT
6269721 TTAAAGGAATGTCTTGGAAGTAAAACTTGTGAAAC
1 TTAAAGGAATGTCTTGGAAGTAAAACTTGTGAAAC
*
6269756 TTAAAGGAATGTCTT-GAAGTAAAATTTGTGAAAC
1 TTAAAGGAATGTCTTGGAAGTAAAACTTGTGAAAC
6269790 AAAAACAAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (35 bp):
TTAAAGGAATGTCTTGGAAGTAAAACTTGTGAAAC
Found at i:6279353 original size:31 final size:30
Alignment explanation
Indices: 6279290--6279350 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
6279280 ATCAAACTTC
* *
6279290 TATATTTTTATTTTGAGTCAAATAAATATT
1 TATATTTTTATTTTAAATCAAATAAATATT
*
6279320 TATATTTTTTATTTTAAATTAAATAAA-ATT
1 TATA-TTTTTATTTTAAATCAAATAAATATT
6279350 T
1 T
6279351 TATGATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (30 bp):
TATATTTTTATTTTAAATCAAATAAATATT
Found at i:6279529 original size:25 final size:24
Alignment explanation
Indices: 6279491--6279548 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
6279481 TTGATGTCAT
6279491 ATTAATGTAAAATAATAAAT-AATA
1 ATTAAT-TAAAATAATAAATCAATA
* *
6279515 ATTTAATTAATAATAATTAATCAATT
1 A-TTAATTAA-AATAATAAATCAATA
6279541 ATTAATTA
1 ATTAATTA
6279549 TAAGTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 21 0.72
26 4 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTAATTAAAATAATAAATCAATA
Found at i:6279541 original size:18 final size:15
Alignment explanation
Indices: 6279503--6279532 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6279493 TAATGTAAAA
*
6279503 TAATAAATAATAATT
1 TAATTAATAATAATT
6279518 TAATTAATAATAATT
1 TAATTAATAATAATT
6279533 AATCAATTAT
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTAATAATAATT
Found at i:6281749 original size:42 final size:42
Alignment explanation
Indices: 6281690--6281806 Score: 162
Period size: 43 Copynumber: 2.8 Consensus size: 42
6281680 GAAATTGGAA
* *
6281690 GGTTGAGTCCTGAGAACAGACACTTAAAAGAAGAAACAGGAC
1 GGTTGACTGCTGAGAACAGACACTTAAAAGAAGAAACAGGAC
* **
6281732 GGTTGACTGCTGAGAACAGACACTCAAAAAGAAGAAACAGTTC
1 GGTTGACTGCTGAGAACAGACACT-TAAAAGAAGAAACAGGAC
* *
6281775 GGTTGACTGCAGAGAACAGACACTTAGAAGAA
1 GGTTGACTGCTGAGAACAGACACTTAAAAGAA
6281807 CATATCAGAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
42 28 0.42
43 38 0.58
ACGTcount: A:0.42, C:0.17, G:0.26, T:0.15
Consensus pattern (42 bp):
GGTTGACTGCTGAGAACAGACACTTAAAAGAAGAAACAGGAC
Found at i:6282227 original size:42 final size:42
Alignment explanation
Indices: 6282115--6282227 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
6282105 TTAAATGAAA
**
6282115 TGACTACCCAGAAC-GA-ATGCTT-GCAAGAGGAAATTGGACGGT
1 TGACTACCCAGAACAGACA--CTTAG-AAGAGGAAACAGGACGGT
* * ** *
6282157 TGAGTACCGAGAACAGACGGTTAAAAGAGGAAACAGGACGGT
1 TGACTACCCAGAACAGACACTTAGAAGAGGAAACAGGACGGT
6282199 TGACTACCCAGAACAGACACTTAGAAGAG
1 TGACTACCCAGAACAGACACTTAGAAGAG
6282228 CATATCAGAC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (42 bp):
TGACTACCCAGAACAGACACTTAGAAGAGGAAACAGGACGGT
Found at i:6286067 original size:37 final size:39
Alignment explanation
Indices: 6285995--6286072 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 39
6285985 AAATATTAAG
*
6285995 ATTTTATTTAATTTAAATATTACTATGATTAAATTT-TTT
1 ATTTTATTT-ATTTAAATATTAATATGATTAAATTTATTT
6286034 ATTTTATTT-TTTAAATATTAATA--ATTGATAATTTATTT
1 ATTTTATTTATTTAAATATTAATATGATT-A-AATTTATTT
6286072 A
1 A
6286073 AAATATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
35 3 0.09
36 1 0.03
37 18 0.51
38 4 0.11
39 9 0.26
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (39 bp):
ATTTTATTTATTTAAATATTAATATGATTAAATTTATTT
Found at i:6286100 original size:23 final size:23
Alignment explanation
Indices: 6286044--6286101 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
6286034 ATTTTATTTT
6286044 TTAAATATT-A-ATAATTGATAA
1 TTAAATATTAATATAATTGATAA
*
6286065 TT-TAT-TTAAAATATAATTGATAA
1 TTAAATATT--AATATAATTGATAA
6286088 TTAAATATTAATAT
1 TTAAATATTAATAT
6286102 TTTATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 2 0.07
22 1 0.03
23 18 0.62
24 2 0.07
25 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (23 bp):
TTAAATATTAATATAATTGATAA
Found at i:6286317 original size:21 final size:21
Alignment explanation
Indices: 6286270--6286318 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
6286260 TTAATAATTT
*
6286270 TAATTAATTTTTAACTTTAAA
1 TAATTAATTTTTAACTATAAA
6286291 -ATATTAATTTTTAA-TAATAAA
1 TA-ATTAATTTTTAACT-ATAAA
6286312 TAATTAA
1 TAATTAA
6286319 ACACTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 21 0.88
22 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATTAATTTTTAACTATAAA
Found at i:6290230 original size:2 final size:2
Alignment explanation
Indices: 6290218--6290268 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
6290208 CAACTTTATT
**
6290218 TA TA CTA TA TA TA TA TA TA TA T- TA TA T- TA TA TA TA TA CC TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6290259 TA TA T- TA TA T
1 TA TA TA TA TA T
6290269 TTGTTTATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 3 0.07
2 36 0.88
3 2 0.05
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6290260 original size:24 final size:22
Alignment explanation
Indices: 6290217--6290269 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 22
6290207 TCAACTTTAT
*
6290217 TTATACTATATATATATATATA
1 TTATATTATATATATATATATA
6290239 TTATATTATATATATACCTATATA
1 TTATATTATATATATA--TATATA
6290263 TTATATT
1 TTATATT
6290270 TGTTTATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 15 0.54
24 13 0.46
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATATTATATATATATATATA
Found at i:6292353 original size:18 final size:19
Alignment explanation
Indices: 6292327--6292381 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 19
6292317 AAAATATTTT
6292327 AATTAAT-AATAATTAATTA
1 AATTAATAAAT-ATTAATTA
*
6292346 AATT-ATAAATATTTATTA
1 AATTAATAAATATTAATTA
*
6292364 AATAAAATAAAATATTAA
1 AAT-TAAT-AAATATTAA
6292382 AATTTGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 12 0.41
19 7 0.24
20 2 0.07
21 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTAATAAATATTAATTA
Found at i:6292363 original size:22 final size:21
Alignment explanation
Indices: 6292338--6292379 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
6292328 ATTAATAATA
* *
6292338 ATTAATTAAATTATAAATATTT
1 ATTAAATAAAATA-AAATATTT
6292360 ATTAAATAAAATAAAATATT
1 ATTAAATAAAATAAAATATT
6292380 AAAATTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAAATAAAATAAAATATTT
Found at i:6296890 original size:2 final size:2
Alignment explanation
Indices: 6296883--6296929 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
6296873 TTATACATAA
6296883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6296923 AT -T AT AT
1 AT AT AT AT
6296930 TTGTTTATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6302947 original size:2 final size:2
Alignment explanation
Indices: 6302940--6302975 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6302930 AGATAGATTG
6302940 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
6302976 CATACCTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6307185 original size:10 final size:10
Alignment explanation
Indices: 6307168--6307214 Score: 62
Period size: 9 Copynumber: 4.8 Consensus size: 10
6307158 GAGTTCTATC
6307168 AAGAAAAA-A
1 AAGAAAAAGA
*
6307177 AAGGAAAA-A
1 AAGAAAAAGA
6307186 AAGAAAAAGA
1 AAGAAAAAGA
6307196 AAGAAAAAGAA
1 AAGAAAAAG-A
6307207 AAGAAAAA
1 AAGAAAAA
6307215 TAATTTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 15 0.44
10 10 0.29
11 9 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:6307187 original size:11 final size:10
Alignment explanation
Indices: 6307171--6307214 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
6307161 TTCTATCAAG
6307171 AAAAAAAAG-
1 AAAAAAAAGA
*
6307180 GAAAAAAAGA
1 AAAAAAAAGA
*
6307190 AAAAGAAAGA
1 AAAAAAAAGA
6307200 AAAAGAAAAGA
1 AAAA-AAAAGA
6307211 AAAA
1 AAAA
6307215 TAATTTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:6307209 original size:15 final size:14
Alignment explanation
Indices: 6307171--6307214 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
6307161 TTCTATCAAG
*
6307171 AAAA-AAAAGGAAA
1 AAAAGAAAAGAAAA
6307184 AAAAGAAAAAGAAAGA
1 AAAAG-AAAAGAAA-A
6307200 AAAAGAAAAGAAAA
1 AAAAGAAAAGAAAA
6307214 A
1 A
6307215 TAATTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 4 0.15
14 2 0.07
15 15 0.56
16 6 0.22
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAA
Found at i:6307267 original size:17 final size:17
Alignment explanation
Indices: 6307244--6307293 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6307234 TCTACCAAGA
6307244 AAAAAAAACGAAAAAAAG
1 AAAAAAAA-GAAAAAAAG
**
6307262 AAAAAAAAGAGGAAAAG
1 AAAAAAAAGAAAAAAAG
6307279 AAAAGAAAAGGAAAA
1 AAAA-AAAA-GAAAA
6307294 TAATTTCAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 11 0.42
18 12 0.46
19 3 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:6307282 original size:16 final size:17
Alignment explanation
Indices: 6307257--6307293 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
6307247 AAAAACGAAA
6307257 AAAAGAAAAA-AAAGAGG
1 AAAAGAAAAAGAAA-AGG
6307274 AAAAG-AAAAGAAAAGG
1 AAAAGAAAAAGAAAAGG
6307290 AAAA
1 AAAA
6307294 TAATTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAGG
Found at i:6317131 original size:35 final size:35
Alignment explanation
Indices: 6317085--6317153 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
6317075 CTGAATGCTT
6317085 TTACTGATCCATCTCAAACA-AATTTCACATTTCCG
1 TTACTGATCCATCTCAAACAGAA-TTCACATTTCCG
6317120 TTACTGATCCATCTCAAACAGAATTCACATTTCC
1 TTACTGATCCATCTCAAACAGAATTCACATTTCC
6317154 AATATCAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 31 0.94
36 2 0.06
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (35 bp):
TTACTGATCCATCTCAAACAGAATTCACATTTCCG
Found at i:6317189 original size:51 final size:51
Alignment explanation
Indices: 6317113--6317213 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
6317103 CAAATTTCAC
*
6317113 ATTTCCGTTACTGATCCATCTCAAACAGAA-TTCACATTTCCAATATCAGAT
1 ATTTCCATTACTGATCCATCTCAAACA-AATTTCACATTTCCAATATCAGAT
* * *
6317164 ATTTCCATTATTGATCCATTTCAAACAAATTTCACATTTCCAATGTCAGA
1 ATTTCCATTACTGATCCATCTCAAACAAATTTCACATTTCCAATATCAGA
6317214 ACTGAAGACG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.04
51 43 0.96
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (51 bp):
ATTTCCATTACTGATCCATCTCAAACAAATTTCACATTTCCAATATCAGAT
Found at i:6317696 original size:54 final size:54
Alignment explanation
Indices: 6317614--6317723 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
6317604 AGTTCCCACC
* * *
6317614 AGGCATGTTTCCTCCGCCCATGTTTGGAGGTGGTGCATAGTTATTCTGGTACTG
1 AGGCATGTTTCCTCCACCCATGTTTGGAGGTGGAGCATAGTTATTCTGGTAATG
6317668 AGGCATGTTTCCTCCACCCATGTTTGGAGGTGGAGCATAGTTATTCTGGTAATG
1 AGGCATGTTTCCTCCACCCATGTTTGGAGGTGGAGCATAGTTATTCTGGTAATG
6317722 AG
1 AG
6317724 CAGGCGTGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (54 bp):
AGGCATGTTTCCTCCACCCATGTTTGGAGGTGGAGCATAGTTATTCTGGTAATG
Found at i:6317804 original size:30 final size:30
Alignment explanation
Indices: 6317768--6317995 Score: 257
Period size: 33 Copynumber: 7.2 Consensus size: 30
6317758 CTGCTGCATC
*
6317768 CCTCCTCCCATGTTTGGTGGAGGCATCCCT
1 CCTCCTCCCATGTTTGGTGGTGGCATCCCT
6317798 CCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
1 CCTCCTCCCA---TGTTTGGTGGTGGCATCCCT
6317831 CCTCCTCCCATGTTGTTCGGTGGTGGCAT--C-
1 CCTCCTCCCATG-T-TT-GGTGGTGGCATCCCT
6317861 CCTCCTCCCATGTTGTTCGGTGGTGGCATCCCT
1 CCTCCTCCCATG-T-TT-GGTGGTGGCATCCCT
6317894 CCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
1 CCTCCTCCCA---TGTTTGGTGGTGGCATCCCT
6317927 CCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
1 CCTCCTCCCA---TGTTTGGTGGTGGCATCCCT
* *
6317960 CCTCCTCCCATG-TTGTTTGGTGGCATCCTT
1 CCTCCTCCCATGTTTG-GTGGTGGCATCCCT
6317990 CCTCCT
1 CCTCCT
6317996 GAATTAGGAG
Statistics
Matches: 182, Mismatches: 3, Indels: 26
0.86 0.01 0.12
Matches are distributed among these distances:
29 3 0.02
30 61 0.34
31 2 0.01
32 3 0.02
33 108 0.59
34 2 0.01
35 1 0.01
36 2 0.01
ACGTcount: A:0.07, C:0.35, G:0.23, T:0.35
Consensus pattern (30 bp):
CCTCCTCCCATGTTTGGTGGTGGCATCCCT
Found at i:6317867 original size:63 final size:64
Alignment explanation
Indices: 6317768--6317995 Score: 351
Period size: 63 Copynumber: 3.6 Consensus size: 64
6317758 CTGCTGCATC
*
6317768 CCTCCTCCCATG-T-TTGGTGGAGGCATCCCTCCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
1 CCTCCTCCCATGTTGTTGGTGGTGGCAT-CCTCCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
*
6317831 CCTCCTCCCATGTTGTTCGGTGGTGGCAT-C-CCTCCTCCCATGTTGTTCGGTGGTGGCATCCCT
1 CCTCCTCCCATGTTGTT-GGTGGTGGCATCCTCCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
6317894 CCTCCTCCCATGTTGTTTGGTGGTGGCATCCCTCCTCCTCCCATGTTGTTTGGTGGTGGCATCCC
1 CCTCCTCCCATGTTG-TTGGTGGTGGCAT-CCTCCTCCTCCCATGTTGTTTGGTGGTGGCATCCC
6317959 T
64 T
6317960 CCTCCTCCCATGTTGTT--TGGTGGCATCCTTCCTCCT
1 CCTCCTCCCATGTTGTTGGTGGTGGCATCC-TCCTCCT
6317996 GAATTAGGAG
Statistics
Matches: 154, Mismatches: 3, Indels: 16
0.89 0.02 0.09
Matches are distributed among these distances:
62 2 0.01
63 86 0.56
64 4 0.03
65 5 0.03
66 57 0.37
ACGTcount: A:0.07, C:0.35, G:0.23, T:0.35
Consensus pattern (64 bp):
CCTCCTCCCATGTTGTTGGTGGTGGCATCCTCCTCCTCCCATGTTGTTTGGTGGTGGCATCCCT
Found at i:6317995 original size:33 final size:33
Alignment explanation
Indices: 6317778--6317982 Score: 362
Period size: 33 Copynumber: 6.3 Consensus size: 33
6317768 CCTCCTCCCA
*
6317778 TGTTTGGTGGAGGCATCCCTCCTCCTCCCATGT
1 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
6317811 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
1 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
*
6317844 TGTTCGGTGGTGGCAT--C-CCTCCTCCCATGT
1 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
*
6317874 TGTTCGGTGGTGGCATCCCTCCTCCTCCCATGT
1 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
6317907 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
1 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
6317940 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
1 TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
6317973 TGTTTGGTGG
1 TGTTTGGTGG
6317983 CATCCTTCCT
Statistics
Matches: 166, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
30 29 0.17
31 1 0.01
32 1 0.01
33 135 0.81
ACGTcount: A:0.06, C:0.32, G:0.26, T:0.36
Consensus pattern (33 bp):
TGTTTGGTGGTGGCATCCCTCCTCCTCCCATGT
Found at i:6332305 original size:30 final size:29
Alignment explanation
Indices: 6332265--6332422 Score: 160
Period size: 30 Copynumber: 5.4 Consensus size: 29
6332255 TTATTAATCC
* *
6332265 AAAAAGTTATTTGATTCAAAATAAAAATAT
1 AAAAATTTATTTAATT-AAAATAAAAATAT
*
6332295 AAAAATTTATTTAATATAAAATAAGAATAT
1 AAAAATTTATTTAAT-TAAAATAAAAATAT
* * *
6332325 TAAAATTTGA--TAATTATATTAAAAATAT
1 AAAAATTT-ATTTAATTAAAATAAAAATAT
*
6332353 AAAAATTTATTTAATTTTAAATAAAAATAT
1 AAAAATTTATTTAA-TTAAAATAAAAATAT
* * *
6332383 AAAATTTTGATTGAA-TATAATAAAAATAT
1 AAAAATTT-ATTTAATTAAAATAAAAATAT
6332412 AAAAATTTATT
1 AAAAATTTATT
6332423 GAGAAGATAA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.01
28 21 0.20
29 26 0.25
30 51 0.48
31 7 0.07
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.39
Consensus pattern (29 bp):
AAAAATTTATTTAATTAAAATAAAAATAT
Found at i:6332348 original size:58 final size:59
Alignment explanation
Indices: 6332284--6332422 Score: 203
Period size: 58 Copynumber: 2.4 Consensus size: 59
6332274 TTTGATTCAA
*
6332284 AATAAAAATATAAAAATTTATTTAATATAAAATAAGAATATTAAAA-TTTGA-T-AATTAT
1 AATAAAAATATAAAAATTTATTTAATATAAAATAAAAATA-TAAAATTTTGATTGAA-TAT
* * *
6332342 ATTAAAAATATAAAAATTTATTTAATTTTAAATAAAAATATAAAATTTTGATTGAATAT
1 AATAAAAATATAAAAATTTATTTAATATAAAATAAAAATATAAAATTTTGATTGAATAT
6332401 AATAAAAATATAAAAATTTATT
1 AATAAAAATATAAAAATTTATT
6332423 GAGAAGATAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
57 5 0.07
58 41 0.56
59 25 0.34
60 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (59 bp):
AATAAAAATATAAAAATTTATTTAATATAAAATAAAAATATAAAATTTTGATTGAATAT
Found at i:6332363 original size:19 final size:19
Alignment explanation
Indices: 6332286--6332363 Score: 54
Period size: 20 Copynumber: 4.1 Consensus size: 19
6332276 TGATTCAAAA
6332286 TAAAAATATAAAAATTTATT
1 TAAAAATATAAAAATTTA-T
* *
6332306 TAATATAAAATAAGAA--TAT
1 TAA-A-AATATAAAAATTTAT
* * *
6332325 T-AAAATTTGATAATTATAT
1 TAAAAATATAAAAATT-TAT
6332344 TAAAAATATAAAAATTTAT
1 TAAAAATATAAAAATTTAT
6332363 T
1 T
6332364 TAATTTTAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 13
0.66 0.14 0.20
Matches are distributed among these distances:
16 6 0.14
17 1 0.02
18 1 0.02
19 10 0.23
20 16 0.37
21 1 0.02
22 8 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
TAAAAATATAAAAATTTAT
Found at i:6337914 original size:12 final size:12
Alignment explanation
Indices: 6337897--6337922 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6337887 TTGCATGACC
6337897 TTTATTTATTTT
1 TTTATTTATTTT
6337909 TTTATTTATTTT
1 TTTATTTATTTT
6337921 TT
1 TT
6337923 AATTGTATGA
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTATTTATTTT
Found at i:6338072 original size:9 final size:9
Alignment explanation
Indices: 6338037--6338075 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
6338027 CAACTGTAAG
*
6338037 TGCTGCTGT
1 TGCTGCTGA
6338046 TGCTGCTGA
1 TGCTGCTGA
* *
6338055 TGTTACTGA
1 TGCTGCTGA
6338064 TGCTGCTGA
1 TGCTGCTGA
6338073 TGC
1 TGC
6338076 CTTTGTTAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.10, C:0.21, G:0.31, T:0.38
Consensus pattern (9 bp):
TGCTGCTGA
Found at i:6343463 original size:31 final size:31
Alignment explanation
Indices: 6343428--6343489 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
6343418 TATGTATGAA
6343428 TCAACTGAAA-TTAGAGGTGGCAAATAGGTGG
1 TCAACT-AAAGTTAGAGGTGGCAAATAGGTGG
6343459 TCAACTAAAGTTAGAGGTGGCAAATAGGTGG
1 TCAACTAAAGTTAGAGGTGGCAAATAGGTGG
6343490 GTTAGAGTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.23
Consensus pattern (31 bp):
TCAACTAAAGTTAGAGGTGGCAAATAGGTGG
Found at i:6343715 original size:16 final size:16
Alignment explanation
Indices: 6343696--6343745 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6343686 GTCGGATTGA
6343696 TTTGAATTTGGGTTGT
1 TTTGAATTTGGGTTGT
** * *
6343712 TTTGTGTTTAGATTGT
1 TTTGAATTTGGGTTGT
*
6343728 TTTGGATTTGGGTTGT
1 TTTGAATTTGGGTTGT
6343744 TT
1 TT
6343746 CGGTTCGGGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.10, C:0.00, G:0.30, T:0.60
Consensus pattern (16 bp):
TTTGAATTTGGGTTGT
Found at i:6351334 original size:15 final size:15
Alignment explanation
Indices: 6351305--6351352 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
6351295 TTTTGTATTA
* *
6351305 TAATGCATTATATAG
1 TAATGCCTTAGATAG
*
6351320 TAATGTCTTAGATAG
1 TAATGCCTTAGATAG
*
6351335 TATTGCCTTAGATAG
1 TAATGCCTTAGATAG
6351350 TAA
1 TAA
6351353 CACCTAGGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (15 bp):
TAATGCCTTAGATAG
Found at i:6353143 original size:752 final size:752
Alignment explanation
Indices: 6352165--6353620 Score: 2560
Period size: 751 Copynumber: 1.9 Consensus size: 752
6352155 ATTATTTATA
6352165 TATATTGAATTTTTATTTTACTGTTTTATTTATTTATAATATATATTTTTAGCAATAATAATAAT
1 TATATTGAATTTTTATTTTACTGTTTTATTTATTTATAATATATATTTTTAGC-A-AATAATAAT
6352230 AATAATGAAATCTATAATTTTGATAAGCTTTTTTTTGTTTTATTTTGTTGTTGTTGTTATTGTTG
64 AATAATGAAATCTATAATTTTGATAAGCTTTTTTTTGTTTTATTTTGTTGTTGTTGTTATTGTTG
*
6352295 TTTTTACTTAATAAATAAATAAATCAATATTGTGTATATATACTTATCTCTTTTTTCATGATCAT
129 TTTTTACTTAATAAATAAATAAATCAATATTGTGTATATATACTTATATCTTTTTTCATGATCAT
*
6352360 TTTTATAGTCTTTTTTTTCCATCTACCTCAATGCCTAGGGCACGTTTTCCTCCAAAGATTCAAAA
194 TTTTATAGTCTTCTTTTTCCATCTACCTCAATGCCTAGGGCACGTTTTCCTCCAAAGATTCAAAA
* * *
6352425 TGGTAAACTTGGAATTGCTACAATACAAAAAAAGACTACTAG-ACATAAGAGGAAGACCATTGTT
259 TGGTAAACTTGGAAGTGCCACAATACAAAAAAAGACCAC--GCACATAAGAGGAAGACCATTGTT
* *
6352489 TTTGAAGTAGTTCCTCCCAAAAAGATTAAAATAGGAAAGAATGGTGAAGTTCCT-CATCTTCTTG
322 TTCGAAGTAGTTCCTCCCAAAAAGATTAAAATAGGAAAGAATGGTGAAATTCCTCCA-CTTCTTG
* *
6352553 AAAATTGGGAAGATGAAATTATTAGAGAAAGAGAATAATATTGTTTTTGGGAAGAAGTCCATGTC
386 AAAATTAGGAAGATGAAATTATTAGAGAAAGAGAATAAGATTGTTTTTGGGAAGAAGTCCATGTC
6352618 AAACAAAGTTGACGAACATCTTTTTGAACCTGTTGGATATGATTAGAATCGTCTATACTCAGAAG
451 AAACAAAGTTGACGAACATCTTTTTGAACCTGTTGGATATGATTAGAATCGTCTATACTCAGAAG
* * * *
6352683 CACCTCTTCATAAAAGAATTGGTATCCTAGGACCATCAATTCTAAAGTTCAAGTTTGAGCATGGT
516 CACCTATTCATAAAAGAATTAGTATCCTAAGACCATCAATTCTAAAGTTCAAGTTTGAGCATAGT
*
6352748 GAGTTTTCACTTTATGTTACTAAGCTAGGCTTTAATTATCAATTTGTTCATGACT-GGAATGAAT
581 GAGTTTCCACTTTATGTTACTAAGCTAGGCTTTAATTATCAATTTGTTCATGACTAGG-ATGAAT
* * *
6352812 GGGTAAACAAGGTGTTGAAGAATCCTATTCATGTTAAACTTCTCTCAACTGTTAGAATTTTGATA
645 GGGTAAACAAGGTATTGAAGAATCCTATTCAAGTTAAACTTCTCTAAACTGTTAGAATTTTGATA
6352877 AGCTTTCATTTATAGATTTCATATATAATGAATCCTTTTTCTG
710 AGCTTTCATTTATAGATTTCATATATAATGAATCCTTTTTCTG
*
6352920 TATATTGCATTTTTATTTTACTGTTTTATTTATTTATAATATATATTTTTAGC-AATAATAATAA
1 TATATTGAATTTTTATTTTACTGTTTTATTTATTTATAATATATATTTTTAGCAAATAATAATAA
6352984 TAATGAAATCTATAATTTTGATAAGCTTTTTTTTGTTTTATTTTGTTGTTGTTGTTATTGTTGTT
66 TAATGAAATCTATAATTTTGATAAGCTTTTTTTTGTTTTATTTTGTTGTTGTTGTTATTGTTGTT
6353049 TTTACTTAATAAATAAATAAATCAATATTGTGTATATATACTTATATCTTTTTTCATGATCATTT
131 TTTACTTAATAAATAAATAAATCAATATTGTGTATATATACTTATATCTTTTTTCATGATCATTT
* **
6353114 TTATAGTCTTCTTTTTCCATCTACCTCAATGCCTAGGGCACGTTTTTCTCCAAAGATTCATTATG
196 TTATAGTCTTCTTTTTCCATCTACCTCAATGCCTAGGGCACGTTTTCCTCCAAAGATTCAAAATG
**
6353179 GTAAACTTGGAAGTGCCACAATACGGAAAAAGACCACGCACATAAGAGGAAGACCATTGTTTTCG
261 GTAAACTTGGAAGTGCCACAATACAAAAAAAGACCACGCACATAAGAGGAAGACCATTGTTTTCG
* *
6353244 AAGTAGTTCCTCCCAAAAAGATTAAAGTAGGAAAGAATGGTGAAATTCTTCCACTTCTTGAAAAT
326 AAGTAGTTCCTCCCAAAAAGATTAAAATAGGAAAGAATGGTGAAATTCCTCCACTTCTTGAAAAT
*
6353309 TAGGAAGATGAAATTATTAGATAAAGAGAATAAGATTGTTTTTGGGAAGAAGTCCATGTCAAACA
391 TAGGAAGATGAAATTATTAGAGAAAGAGAATAAGATTGTTTTTGGGAAGAAGTCCATGTCAAACA
*
6353374 AAGTTGACGAACATCTTTTTGAACCTGTTGGATATGATTAGAATCGTCTATGCTCAGAAGCACCT
456 AAGTTGACGAACATCTTTTTGAACCTGTTGGATATGATTAGAATCGTCTATACTCAGAAGCACCT
*
6353439 ATTCATAAAAGAATTAGTATCCTAAGACCGTCAATTCTAAAGTTCAAGTTTGAGCATAGTGAGTT
521 ATTCATAAAAGAATTAGTATCCTAAGACCATCAATTCTAAAGTTCAAGTTTGAGCATAGTGAGTT
*
6353504 TCCACTTTATGTTACTAAGCTAGGCTTTAATTATCAGTTTGTTCATGACTAGGATGAATGGGTAA
586 TCCACTTTATGTTACTAAGCTAGGCTTTAATTATCAATTTGTTCATGACTAGGATGAATGGGTAA
*
6353569 ACAAGGTATTGAAGAATCCTATTTAAGTTAAACTTCTCTAAACTGTTAGAAT
651 ACAAGGTATTGAAGAATCCTATTCAAGTTAAACTTCTCTAAACTGTTAGAAT
6353621 ACTTGAAATT
Statistics
Matches: 668, Mismatches: 30, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
750 1 0.00
751 378 0.57
752 237 0.35
755 52 0.08
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (752 bp):
TATATTGAATTTTTATTTTACTGTTTTATTTATTTATAATATATATTTTTAGCAAATAATAATAA
TAATGAAATCTATAATTTTGATAAGCTTTTTTTTGTTTTATTTTGTTGTTGTTGTTATTGTTGTT
TTTACTTAATAAATAAATAAATCAATATTGTGTATATATACTTATATCTTTTTTCATGATCATTT
TTATAGTCTTCTTTTTCCATCTACCTCAATGCCTAGGGCACGTTTTCCTCCAAAGATTCAAAATG
GTAAACTTGGAAGTGCCACAATACAAAAAAAGACCACGCACATAAGAGGAAGACCATTGTTTTCG
AAGTAGTTCCTCCCAAAAAGATTAAAATAGGAAAGAATGGTGAAATTCCTCCACTTCTTGAAAAT
TAGGAAGATGAAATTATTAGAGAAAGAGAATAAGATTGTTTTTGGGAAGAAGTCCATGTCAAACA
AAGTTGACGAACATCTTTTTGAACCTGTTGGATATGATTAGAATCGTCTATACTCAGAAGCACCT
ATTCATAAAAGAATTAGTATCCTAAGACCATCAATTCTAAAGTTCAAGTTTGAGCATAGTGAGTT
TCCACTTTATGTTACTAAGCTAGGCTTTAATTATCAATTTGTTCATGACTAGGATGAATGGGTAA
ACAAGGTATTGAAGAATCCTATTCAAGTTAAACTTCTCTAAACTGTTAGAATTTTGATAAGCTTT
CATTTATAGATTTCATATATAATGAATCCTTTTTCTG
Found at i:6359371 original size:25 final size:26
Alignment explanation
Indices: 6359314--6359371 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
6359304 GGTGCTCCTT
*
6359314 GGGAGCACCGTTTTGGTGTTCCCTAC
1 GGGAGCACCGTTTTGGTGTTCCCCAC
*
6359340 GGG-GCACTG-TTTGAGTGTTCCCCA-
1 GGGAGCACCGTTTTG-GTGTTCCCCAC
6359364 GGGAGCAC
1 GGGAGCAC
6359372 AGATGGGTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.25
25 18 0.64
26 3 0.11
ACGTcount: A:0.14, C:0.26, G:0.34, T:0.26
Consensus pattern (26 bp):
GGGAGCACCGTTTTGGTGTTCCCCAC
Found at i:6364411 original size:2 final size:2
Alignment explanation
Indices: 6364404--6364437 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6364394 ATTTCGGTAG
6364404 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
6364438 TAATGAAGTN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6379064 original size:17 final size:17
Alignment explanation
Indices: 6379042--6379078 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6379032 AGCTAAATAT
6379042 GCACACA-TTAAGGGGGA
1 GCACACACTT-AGGGGGA
6379059 GCACACACTTAGGGGGA
1 GCACACACTTAGGGGGA
6379076 GCA
1 GCA
6379079 ATCCTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.32, C:0.22, G:0.35, T:0.11
Consensus pattern (17 bp):
GCACACACTTAGGGGGA
Found at i:6381122 original size:2 final size:2
Alignment explanation
Indices: 6381115--6381144 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6381105 TTGATATCTA
6381115 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
6381145 TTAATGAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6388667 original size:9 final size:9
Alignment explanation
Indices: 6388653--6388679 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6388643 GCTTGGGGGG
6388653 TTTTTCGGT
1 TTTTTCGGT
6388662 TTTTTCGGT
1 TTTTTCGGT
6388671 TTTTTCGGT
1 TTTTTCGGT
6388680 GTTCTTCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (9 bp):
TTTTTCGGT
Found at i:6389996 original size:11 final size:11
Alignment explanation
Indices: 6389980--6390005 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6389970 AAAAGTTATT
6389980 TTTTATAATAA
1 TTTTATAATAA
6389991 TTTTATAATAA
1 TTTTATAATAA
6390002 TTTT
1 TTTT
6390006 TAAAACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTATAATAA
Found at i:6412356 original size:25 final size:25
Alignment explanation
Indices: 6412328--6412379 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6412318 CTTTGTGTGG
6412328 TTAGTTAACAACGTTGTGCTATATA
1 TTAGTTAACAACGTTGTGCTATATA
*
6412353 TTAGTTAACAACGTTGTGTTATATA
1 TTAGTTAACAACGTTGTGCTATATA
6412378 TT
1 TT
6412380 TCAGATCGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (25 bp):
TTAGTTAACAACGTTGTGCTATATA
Found at i:6415633 original size:68 final size:68
Alignment explanation
Indices: 6415524--6415661 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 68
6415514 ACACACTTAT
6415524 GATATTAATTATGTAGGCATTGACCGGAGACAACCAAATACAGTAATAGTAATCTAAAGAAGCAA
1 GATATTAATTATGTAGGCATTGACCGGAGACAACCAAATACAGTAATAGTAATCTAAAGAAGCAA
6415589 AAA
66 AAA
*
6415592 GATATTAATTATGTAGGCATTGACCGGAGACGACCAAATACAGTAATAGTAATCTAAAGAAGCAA
1 GATATTAATTATGTAGGCATTGACCGGAGACAACCAAATACAGTAATAGTAATCTAAAGAAGCAA
6415657 AAA
66 AAA
6415660 GA
1 GA
6415662 GGTACCAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (68 bp):
GATATTAATTATGTAGGCATTGACCGGAGACAACCAAATACAGTAATAGTAATCTAAAGAAGCAA
AAA
Done.