Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold202
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: 972956
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 36649 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:569156 original size:23 final size:23
Alignment explanation
Indices: 569122--569168 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
569112 CAAATAATTC
569122 AGTGACTATTTTGTAACTTTTTG
1 AGTGACTATTTTGTAACTTTTTG
569145 AGTGAC-AGTTTTGTAACTTTTTG
1 AGTGACTA-TTTTGTAACTTTTTG
569168 A
1 A
569169 AGTTAAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (23 bp):
AGTGACTATTTTGTAACTTTTTG
Found at i:569632 original size:28 final size:29
Alignment explanation
Indices: 569591--569646 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
569581 ATTTGTTTAA
569591 GGTTTAGGAA-TTTTAAAAAATAAATTAG
1 GGTTTAGGAATTTTTAAAAAATAAATTAG
* *
569619 GGTTTA-GAATTTTTTTAAAAATTAATTA
1 GGTTTAGGAA-TTTTTAAAAAATAAATTA
569647 AATTAGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 6 0.25
29 15 0.62
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (29 bp):
GGTTTAGGAATTTTTAAAAAATAAATTAG
Found at i:569702 original size:34 final size:32
Alignment explanation
Indices: 569611--569710 Score: 96
Period size: 34 Copynumber: 3.0 Consensus size: 32
569601 TTTTAAAAAA
* *
569611 TAAATTAGGGTTTAGAATTTTTTTAAAAATTAAT
1 TAAATTA-GGTTTA-AGTGTTTTTAAAAATTAAT
* **
569645 TAAATTAGGTTTTAGTGGCTTTAAGTAAATTAAT
1 TAAATTAGGTTTAAGTGTTTTTAA--AAATTAAT
569679 TAAATTAAGGTTTAAG-GTTTTTAAAAA-TAAT
1 TAAATT-AGGTTTAAGTGTTTTTAAAAATTAAT
569710 T
1 T
569711 TTGTGTTTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
31 5 0.09
32 10 0.18
33 5 0.09
34 27 0.49
35 8 0.15
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (32 bp):
TAAATTAGGTTTAAGTGTTTTTAAAAATTAAT
Found at i:570027 original size:126 final size:126
Alignment explanation
Indices: 569795--570324 Score: 719
Period size: 126 Copynumber: 4.2 Consensus size: 126
569785 ATTTTGATCT
* * *
569795 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* ** * *
569860 ATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAGGGCTCCCACATGGATGCTC
66 ATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
569921 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGGCAGTTCTG-AAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
569985 ATACTTCAAGCAGTATGCAATGTCAGCAAAAGT-CTTGAAAAAGGCTACCACGTGGACTCTC
66 ATGCTTCAAGCAGGATGCACTATCAGCAAAAGTAC-TGAAAAAAGCTCCCACGTGGACGCTC
* * *
570046 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * *
570111 ACGCTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
570172 TTTTTCTACTA-TAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAA
1 TTTTTCTAC-AGTAGTTTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
* * * *
570236 AATGCTTCAAGCAGGATGCACTATCAACAAAATTACT-AAAAAAACTCCCACGTGGACACTC
65 AATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
*
570297 TTTTTTTACAGTAG-TTCTTGAAAAAATA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATA
570325 GTGTCAAAAA
Statistics
Matches: 361, Mismatches: 37, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
124 4 0.01
125 152 0.42
126 203 0.56
127 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAA
ATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:570289 original size:251 final size:251
Alignment explanation
Indices: 569795--570324 Score: 733
Period size: 251 Copynumber: 2.1 Consensus size: 251
569785 ATTTTGATCT
* * * *
569795 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAAATAGTGACAAAA
1 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGACAAAA
* * ** *
569860 ATGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAGGGCTCCCACATGGATGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTT
* *
569925 TCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGGCAGTTCTGAAAAATAATGTCAAAAATACT
131 TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAATAATGTCAAAAATACT
* * * ** *
569990 TCAAGCAGTATGCAATGTCAGCAAAAGTCTTGAAAAAGGCTACCACGTGGACTCTC
196 TCAAGCAGGATGCAATATCAACAAAAGTCTTGAAAAAAACTACCACGTGGACACTC
* *
570046 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTTTGAAAAAATAGTGTCAAAA
1 TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGACAAAA
* * *
570111 ACGCTTCAAGTAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTT
* * * *
570176 TCTACTA-TAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCAAAAATG
131 TCTAC-AGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTG-AAAAATAATGTCAAAAATA
* * *
570240 CTTCAAGCAGGATGCACTATCAACAAAATTAC-T-AAAAAAACTCCCACGTGGACACTC
194 CTTCAAGCAGGATGCAATATCAACAAAAGT-CTTGAAAAAAACTACCACGTGGACACTC
* *
570297 TTTTTTTACAGTAGTTCTTGAAAAAATA
1 TTTTTATACAGTAGTTCCTGAAAAAATA
570325 GTGTCAAAAA
Statistics
Matches: 245, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
251 200 0.82
252 44 0.18
253 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (251 bp):
TTTTTATACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGACAAAA
ACGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTCTTTT
TCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAATAATGTCAAAAATACT
TCAAGCAGGATGCAATATCAACAAAAGTCTTGAAAAAAACTACCACGTGGACACTC
Found at i:570325 original size:97 final size:98
Alignment explanation
Indices: 570217--570414 Score: 281
Period size: 97 Copynumber: 2.0 Consensus size: 98
570207 GAAGACGGTT
* *
570217 TTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAACAAAATTACT-AAAAAAAC
1 TTGAAAAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAAA
* * * *
570281 TCCCACGTGGACACTCTTTTTTTACAGTAGTTC
66 TCCCACGAGGACACTCTTTTTCTAAAATAGTTC
* * * * *
570314 TTGAAAAAATAGTGTCAAAAATGCTTTAAGCAAGATGTACTGTCAGCAAAATTATTGAAAAAAAA
1 TTGAAAAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAAA
*
570379 TCCCACGAGGACGCTCTTTTTCTAAAATAGTTC
66 TCCCACGAGGACACTCTTTTTCTAAAATAGTTC
570412 TTG
1 TTG
570415 CTTTGCCTTA
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
97 50 0.57
98 38 0.43
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (98 bp):
TTGAAAAAATAGTGTCAAAAATGCTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAAA
TCCCACGAGGACACTCTTTTTCTAAAATAGTTC
Found at i:573523 original size:17 final size:18
Alignment explanation
Indices: 573501--573545 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
573491 TCTAATGAAC
*
573501 TACAAATAATCAATA-AA
1 TACAAATAAGCAATACAA
573518 TACAAATAAGCAATACAA
1 TACAAATAAGCAATACAA
*
573536 TACACATAAG
1 TACAAATAAG
573546 AGCAATAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (18 bp):
TACAAATAAGCAATACAA
Found at i:574273 original size:16 final size:16
Alignment explanation
Indices: 574221--574273 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
574211 TGTAATATAT
574221 ATAAGAAAAATTTTAAA
1 ATAA-AAAAATTTTAAA
574238 ATAAAACAAA--TTAAA
1 ATAAAA-AAATTTTAAA
574253 GATAAAAAAATTTTAAA
1 -ATAAAAAAATTTTAAA
574270 ATAA
1 ATAA
574274 CATATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.25
16 12 0.38
17 12 0.38
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (16 bp):
ATAAAAAAATTTTAAA
Found at i:575274 original size:16 final size:16
Alignment explanation
Indices: 575253--575293 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
575243 ACATCCAGCT
575253 GGAGGCGCACGCACGC
1 GGAGGCGCACGCACGC
*
575269 GGAGGCGCACGCGCGC
1 GGAGGCGCACGCACGC
575285 GGAGGCGCA
1 GGAGGCGCA
575294 ACACGCGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.34, G:0.49, T:0.00
Consensus pattern (16 bp):
GGAGGCGCACGCACGC
Found at i:576199 original size:603 final size:604
Alignment explanation
Indices: 575027--576248 Score: 2078
Period size: 603 Copynumber: 2.0 Consensus size: 604
575017 AGAGAAAAAA
575027 AAATCACCTGTAGCAAATTGTTATTCGATTTTTTCCTTTTTTTATTGATTCGTGAATCCCTTTAA
1 AAATCACCTGTAGCAAATTGTTATTCGATTTTTTCCTTTTTTTATTGATTCGTGAATCCCTTTAA
575092 AAATGAATCAATCGAATTTAAATAACCGAATGAAATTACAAAAATTATTTATTTATTTTTTCTTT
66 AAATGAATCAATCGAATTTAAATAACCGAATGAAATTACAAAAATTATTTATTTATTTTTTCTTT
575157 TATATTTTTTGCTATTTTATTTGCTATTCTAGTGTACTCCTTTCTGTTGCTGCTCGTTGCTTGTT
131 TATATTTTTTGCTATTTTATTTGCTATTCTAGTGTACTCCTTTCTGTTGCTGCTCGTTGCTTGTT
575222 GGTTTCGTTTGTTTTGCAGGTACATCCAGCTGGAGGCGCACGCACGCGGAGGCGCACGCGCGCGG
196 GGTTTCGTTTGTTTTGCAGGTACATCCAGCT--------------G-GGAGGCGCACGCGCGCGG
575287 AGGCGCAACACGCGAGGGGAAGTCTGGTTCACATGCGGCGCGTGTGGAGGGCAAACGGAGGAGCG
246 AGGCGCAACACGCGAGGGGAAGTCTGGTTCACATGCGGCGCGTGTGGAGGGCAAACGGAGGAGCG
* * *
575352 GTGCTGGAAGCTGTTAGATTTTAGGGTTTCGGTTAATTAGGGAATATTTTGGGCTGATTGAAAGG
311 GTGCTGGAAGCTGTTAGATTTTAGGGTTTCGATTAATTAGGGAATATATTGGGCTAATTGAAAGG
*
575417 TTGGGTTTAGTATTTTGGACTGGGCCTTTAGATTTTATATTTTTGGTTTTGTAATCTGGACTGTT
376 TTGGGTTTAGTATTTTAGACTGGGCCTTTAGATTTTATATTTTTGGTTTTGTAATCTGGACTGTT
575482 TAATTGGACATTTTTATTAATTTTTTGGATGTGGTTTCTTTTTAAATTTGGCTAATATTGGGCCA
441 TAATTGGACATTTTTATTAATTTTTTGGATGTGGTTTCTTTTTAAATTTGGCTAATATTGGGCCA
*
575547 AGCCAAAATTGGCCTATTACAGACATATTTCTATTTGGCGGCGCTATTTCCAAAGTGAGA-AGCA
506 AGCCAAAATTGGCCTATTACAGACATATTTCTATTTGGCGGCACTATTTCCAAAGTGA-ACAGCA
*
575611 AGTTATAAATG-CCAAATGTAGGGAGGCTATGTATG
570 AGTTATAAA-GACCAAATGCAGGGAGGCTATGTATG
*
575646 AAATTACCTGTAGCAAATTGTTATTCGATTTTTTTCCTTTTTTTTATTGATTCGTGAATCCCTTT
1 AAATCACCTGTAGCAAATTGTTATTCGA-TTTTTTCC-TTTTTTTATTGATTCGTGAATCCCTTT
575711 AAAAATGAATCAATCGAATTTAAATAACCGAATGAAATTACAAAAATTATTTATTTA-TTTTTCT
64 AAAAATGAATCAATCGAATTTAAATAACCGAATGAAATTACAAAAATTATTTATTTATTTTTTCT
* *
575775 TTTATATTTTTTGCTATTTT-TTTGTTATTCTAGTGTACTCCTTTCTGTTGCTGCTTGTTGCTTG
129 TTTATATTTTTTGCTATTTTATTTGCTATTCTAGTGTACTCCTTTCTGTTGCTGCTCGTTGCTTG
575839 TTGGTTTCGTTTGTTTTGCAGGTACATCCAGCT-GGAGGCGCACGCGCGCGGAGGCGCAACACGC
194 TTGGTTTCGTTTGTTTTGCAGGTACATCCAGCTGGGAGGCGCACGCGCGCGGAGGCGCAACACGC
575903 GAGGGGAAGTCTGGTTCACATGCGGCGCGTGTGGAGGGCAAACGGAGGAGCGGTGCTGGAAGCTG
259 GAGGGGAAGTCTGGTTCACATGCGGCGCGTGTGGAGGGCAAACGGAGGAGCGGTGCTGGAAGCTG
*
575968 TTAGATTTTAGGGTTTCGATTAATTAGGGAATATATTGGGCTAATTGAAGGGTTGGGTTTAGTAT
324 TTAGATTTTAGGGTTTCGATTAATTAGGGAATATATTGGGCTAATTGAAAGGTTGGGTTTAGTAT
*
576033 TTTAGA-TGGGGCCTTTAGATTTTATATTTTTGGTTTTGTAATCTGGATTGTTTAATTGGACATT
389 TTTAGACT-GGGCCTTTAGATTTTATATTTTTGGTTTTGTAATCTGGACTGTTTAATTGGACATT
* * * *
576097 TTTATTAATTTTTTTGATTTGGTTTCTTTTTAAATTTGGTTAATATTGGGCCAGGCCAAAATTGG
453 TTTATTAATTTTTTGGATGTGGTTTCTTTTTAAATTTGGCTAATATTGGGCCAAGCCAAAATTGG
*
576162 CCTATTACAGACATATTTTTATTTGGCGGCACTATTTCCAAAGTGAACAGCAAGTTATAAAGACC
518 CCTATTACAGACATATTTCTATTTGGCGGCACTATTTCCAAAGTGAACAGCAAGTTATAAAGACC
576227 AAATGCAGGGAGGCTATGTATG
583 AAATGCAGGGAGGCTATGTATG
576249 GTGTCGAAAG
Statistics
Matches: 582, Mismatches: 16, Indels: 26
0.93 0.03 0.04
Matches are distributed among these distances:
602 3 0.01
603 358 0.62
619 102 0.18
620 35 0.06
621 84 0.14
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (604 bp):
AAATCACCTGTAGCAAATTGTTATTCGATTTTTTCCTTTTTTTATTGATTCGTGAATCCCTTTAA
AAATGAATCAATCGAATTTAAATAACCGAATGAAATTACAAAAATTATTTATTTATTTTTTCTTT
TATATTTTTTGCTATTTTATTTGCTATTCTAGTGTACTCCTTTCTGTTGCTGCTCGTTGCTTGTT
GGTTTCGTTTGTTTTGCAGGTACATCCAGCTGGGAGGCGCACGCGCGCGGAGGCGCAACACGCGA
GGGGAAGTCTGGTTCACATGCGGCGCGTGTGGAGGGCAAACGGAGGAGCGGTGCTGGAAGCTGTT
AGATTTTAGGGTTTCGATTAATTAGGGAATATATTGGGCTAATTGAAAGGTTGGGTTTAGTATTT
TAGACTGGGCCTTTAGATTTTATATTTTTGGTTTTGTAATCTGGACTGTTTAATTGGACATTTTT
ATTAATTTTTTGGATGTGGTTTCTTTTTAAATTTGGCTAATATTGGGCCAAGCCAAAATTGGCCT
ATTACAGACATATTTCTATTTGGCGGCACTATTTCCAAAGTGAACAGCAAGTTATAAAGACCAAA
TGCAGGGAGGCTATGTATG
Found at i:577327 original size:18 final size:18
Alignment explanation
Indices: 577301--577340 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
577291 GACTGAGAAA
*
577301 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
577319 AGGACACATATAAGGGCT
1 AGGAAACATATAAGGGCT
577337 AGGA
1 AGGA
577341 TACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.10, G:0.30, T:0.17
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:580310 original size:33 final size:33
Alignment explanation
Indices: 580268--580333 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
580258 CGATGGATAG
580268 TGTGATGATATCTCTGCCAAGCTTACAACCCAA
1 TGTGATGATATCTCTGCCAAGCTTACAACCCAA
*
580301 TGTGATGATATCTCTGCCAAGCTTCCAACCCAA
1 TGTGATGATATCTCTGCCAAGCTTACAACCCAA
580334 CGAGCCTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (33 bp):
TGTGATGATATCTCTGCCAAGCTTACAACCCAA
Found at i:581077 original size:24 final size:24
Alignment explanation
Indices: 581050--581115 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
581040 GGATGCTCCG
* *
581050 AAGAGCTATTAACGGGAAGTTCGT
1 AAGAGCTATTAACGGGAAGATCAT
* *
581074 AAGAACCATATAACGGGAAGATCAT
1 AAGAGCTAT-TAACGGGAAGATCAT
* *
581099 GAGAGCTAATAACGGGA
1 AAGAGCTATTAACGGGA
581116 CACTCTTTCG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
24 15 0.45
25 18 0.55
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (24 bp):
AAGAGCTATTAACGGGAAGATCAT
Found at i:588797 original size:404 final size:405
Alignment explanation
Indices: 588048--588861 Score: 1477
Period size: 404 Copynumber: 2.0 Consensus size: 405
588038 TACATCAAAA
*
588048 CATATTAATCATAAGCCATTCCAATGGCTATTTACAACCAAAACATTTATATGCCAACACTGGCC
1 CATATTAATCATAAGCCATTCCAATGGCCATTTACAACCAAAACATTTATATGCCAACACTGGCC
* *
588113 AATTATCCTATACATGTCATTATAACCAAAATTAGTTTTATATTTGTACCAAAATGGGCAGATGG
66 AATTAACCTATACATGTCATTATAACCAAAATTAATTTTATATTTGTACCAAAATGGGCAGATGG
* * * *
588178 ATAACGTGATGATATCTCCTCCAAGCTTCCAACCTAACGAGCCTCCGAATTACTGTAGAACAGAG
131 ATAACGTGATGATATCTCCGCCAAGCTTCCAACCCAACGAGCCTCCGAATTACTATAGAACAAAG
*
588243 GAAAATAAACCAAAGTAAGCTTTAAAGCTTAGTAAGTTCATATAACATTGAATTTAACTTACCAA
196 GAAAATAAAACAAAGTAAGCTTTAAAGCTTAGTAAGTTCATATAACATTGAATTTAACTTACCAA
**
588308 TTAATTCACATTTAAGGTAAGCAAATAAACATGCTCAAACCAATTTGGTCACATGCCTAAACACA
261 TTAATTCACATTTAAGGTAAGCAAATAAACATGCTCAAACCAATTTGACCACATGCCTAAACACA
588373 TATCCTCATCAAGCATGTTAGTCATGTAATTCACATGAATATCAAGAAACATGTTTGAGCTCAAT
326 TATCCTCATCAAGCATGTTAGTCATGTAATTCACATGAATATCAAGAAACATGTTTGAGCTCAAT
588438 ATCAATCAAATTTT-
391 ATCAATCAAATTTTG
588452 CATATTAATCATAAGCCATTCCAATGGCCATTTACAACCAAAACATTTATATGCCAACACTGGCC
1 CATATTAATCATAAGCCATTCCAATGGCCATTTACAACCAAAACATTTATATGCCAACACTGGCC
* *
588517 AATTAACCTATACATGTCATTATAACCAAAATTAATTTTATATTTGTACCGAAATGGGCCGATGG
66 AATTAACCTATACATGTCATTATAACCAAAATTAATTTTATATTTGTACCAAAATGGGCAGATGG
**
588582 ATAGTGTGATGATATCTCCGCCAAGCTTCCAACCCAACGAGCCTCCGAATTACTATAGAACAAAG
131 ATAACGTGATGATATCTCCGCCAAGCTTCCAACCCAACGAGCCTCCGAATTACTATAGAACAAAG
*
588647 GAAAATAAAACAAAGTAAGCTTTAAAGCTTAGTAAGTTCGTATAACATTGAATTTAACTTACCAA
196 GAAAATAAAACAAAGTAAGCTTTAAAGCTTAGTAAGTTCATATAACATTGAATTTAACTTACCAA
588712 TTAATTCACATTTAAGGTAAGCAAATAAACATGCTCAAACCAATTTGACCACATGCCTAAACACA
261 TTAATTCACATTTAAGGTAAGCAAATAAACATGCTCAAACCAATTTGACCACATGCCTAAACACA
*
588777 TATCCTCATCAAGCATGTTAGTCATGTAATTCACTTGAATATCAAGAAACATGTTTGAGCTCAAT
326 TATCCTCATCAAGCATGTTAGTCATGTAATTCACATGAATATCAAGAAACATGTTTGAGCTCAAT
588842 ATCAATCAAATTTTG
391 ATCAATCAAATTTTG
588857 CATAT
1 CATAT
588862 ACATATATAT
Statistics
Matches: 393, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
404 388 0.99
405 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (405 bp):
CATATTAATCATAAGCCATTCCAATGGCCATTTACAACCAAAACATTTATATGCCAACACTGGCC
AATTAACCTATACATGTCATTATAACCAAAATTAATTTTATATTTGTACCAAAATGGGCAGATGG
ATAACGTGATGATATCTCCGCCAAGCTTCCAACCCAACGAGCCTCCGAATTACTATAGAACAAAG
GAAAATAAAACAAAGTAAGCTTTAAAGCTTAGTAAGTTCATATAACATTGAATTTAACTTACCAA
TTAATTCACATTTAAGGTAAGCAAATAAACATGCTCAAACCAATTTGACCACATGCCTAAACACA
TATCCTCATCAAGCATGTTAGTCATGTAATTCACATGAATATCAAGAAACATGTTTGAGCTCAAT
ATCAATCAAATTTTG
Found at i:589189 original size:25 final size:24
Alignment explanation
Indices: 589118--589210 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
589108 CCATGTAACG
* * * *
589118 GGAAGCTCCGGAGAGCCATTAACA
1 GGAAGCTTCAGAGAGCCAATATCA
* *
589142 GGAAGCTT-ATACAAGCCAATATCA
1 GGAAGCTTCAGA-GAGCCAATATCA
* * *
589166 GGAAGGTTCAAGCGAGCCAGTATCA
1 GGAAGCTTC-AGAGAGCCAATATCA
589191 GGAAGCTTCAGAGAGCCAAT
1 GGAAGCTTCAGAGAGCCAAT
589211 TAATTGGGAA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
23 1 0.02
24 32 0.62
25 18 0.35
26 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (24 bp):
GGAAGCTTCAGAGAGCCAATATCA
Found at i:589268 original size:25 final size:27
Alignment explanation
Indices: 589216--589268 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 27
589206 CCAATTAATT
*
589216 GGGAAGCTCATGAAAGAGCCTTTGATC
1 GGGAAGCTCATGAAAGAGCCTATGATC
589243 GGGAAGCTC-TG-AAGAGCCATAT-ATC
1 GGGAAGCTCATGAAAGAGCC-TATGATC
589268 G
1 G
589269 AGACCCTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.46
26 4 0.17
27 9 0.38
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (27 bp):
GGGAAGCTCATGAAAGAGCCTATGATC
Found at i:613395 original size:89 final size:89
Alignment explanation
Indices: 613244--613408 Score: 269
Period size: 89 Copynumber: 1.9 Consensus size: 89
613234 GTACTTTACT
* *
613244 ATGAAAAATTAGATTTGACTTGTTTTTGGATTTCCCTTGGATTTATCTTGATTTCCTTTAATTCT
1 ATGAAAAATAAGATTTGACTTGTTTTTGGATTTCCCTTGGATTTAGCTTGATTTCCTTTAATTCT
613309 CTCATTGATTTTTGAAATTTTCAA
66 CTCATTGATTTTTGAAATTTTCAA
* * *
613333 ATGAAAAATAAGATTTGACTTGTTCTTT-GATTTTCCTTGGATTTAGCTTGCTTTTCTTTAATTC
1 ATGAAAAATAAGATTTGACTTGTT-TTTGGATTTCCCTTGGATTTAGCTTGATTTCCTTTAATTC
613397 TCTCATTGATTT
65 TCTCATTGATTT
613409 CTTCTACTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
89 67 0.96
90 3 0.04
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (89 bp):
ATGAAAAATAAGATTTGACTTGTTTTTGGATTTCCCTTGGATTTAGCTTGATTTCCTTTAATTCT
CTCATTGATTTTTGAAATTTTCAA
Found at i:622957 original size:13 final size:13
Alignment explanation
Indices: 622939--622963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
622929 TAATAAACAT
622939 ATTTTTAAACTTG
1 ATTTTTAAACTTG
622952 ATTTTTAAACTT
1 ATTTTTAAACTT
622964 TTTGTTATTT
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:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTTTTAAACTTG
Found at i:637740 original size:141 final size:140
Alignment explanation
Indices: 637501--637769 Score: 450
Period size: 141 Copynumber: 1.9 Consensus size: 140
637491 CTAATGCTTG
*
637501 TGTTGCATTTATGGACTTGATGAATAAGGTGTTTCATCATTTTTAGATCAGTTTGTTGTTTTTAT
1 TGTTGCATTTATGGACTTGATGAATAAGGTGTTTCATCATTTTTAGATCAGTTTGTTATTTTTAT
* *
637566 CAAGGACATTCTGGCCTATTCTAATACCAAAATCGAGTATGGTGAGCATCTAAGAGTTGTTCTGA
66 CAAGGACATTCTGGCCTATTCTAAGACCAAAATCGAGTATGGTGAACATCTAAGAGTTGTTCTGA
637631 ATAATGGCTC
131 ATAATGGCTC
637641 TGTTGCATTCT-TGGACTTGATGAATAAGGTGTTTCAGTCATTTTTAGATCAGTTTGTTATTTTT
1 TGTTGCATT-TATGGACTTGATGAATAAGGTGTTTCA-TCATTTTTAGATCAGTTTGTTATTTTT
* * * *
637705 ATCAAGGACATTCTGGTCTATTCTAAGACCGAAATCGAGTATGGTGAACATTTGAGAGTTGTTCT
64 ATCAAGGACATTCTGGCCTATTCTAAGACCAAAATCGAGTATGGTGAACATCTAAGAGTTGTTCT
637770 ACAGATTCTC
Statistics
Matches: 120, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
140 34 0.28
141 86 0.72
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (140 bp):
TGTTGCATTTATGGACTTGATGAATAAGGTGTTTCATCATTTTTAGATCAGTTTGTTATTTTTAT
CAAGGACATTCTGGCCTATTCTAAGACCAAAATCGAGTATGGTGAACATCTAAGAGTTGTTCTGA
ATAATGGCTC
Found at i:640145 original size:26 final size:26
Alignment explanation
Indices: 640109--640161 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
640099 ATAAATTCAC
640109 GGCAACTCGGTAATTTGCTAACTTAT
1 GGCAACTCGGTAATTTGCTAACTTAT
640135 GGCAACTCGGTAATTTGCTAACTTAT
1 GGCAACTCGGTAATTTGCTAACTTAT
640161 G
1 G
640162 AACATACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (26 bp):
GGCAACTCGGTAATTTGCTAACTTAT
Found at i:642301 original size:15 final size:15
Alignment explanation
Indices: 642281--642311 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
642271 ACTATGTACG
642281 CTTTTCTCTTTTTTT
1 CTTTTCTCTTTTTTT
*
642296 CTTTTCTTTTTTTTT
1 CTTTTCTCTTTTTTT
642311 C
1 C
642312 ACGAGCCTTT
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
CTTTTCTCTTTTTTT
Found at i:645957 original size:13 final size:13
Alignment explanation
Indices: 645941--645965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
645931 TTTAATAAGT
645941 ATTTTTAAACTTA
1 ATTTTTAAACTTA
645954 ATTTTTAAACTT
1 ATTTTTAAACTT
645966 TTTATTATTG
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTTAAACTTA
Found at i:657104 original size:376 final size:377
Alignment explanation
Indices: 656410--657162 Score: 1418
Period size: 376 Copynumber: 2.0 Consensus size: 377
656400 TGATTCTCGG
*
656410 GTTTTGAAATTATTTTACAACTTAAGGTTAGGGTTGAAAATAGGAAATGTTCCCTCCTATTTTCA
1 GTTTTGAAATTATTTTACAACTTAAGGTTAGGGTTAAAAATAGGAAATGTTCCCTCCTATTTTCA
* *
656475 ACCCTAATCTATGAAAAATTCTCATAACTGAAACTTTAACCCTGAACCAAATATTCTCGAGCCAA
66 ACCCTAATCTATGAAAAATTCTCATAACTGAAACCTTAACCCTGAACCAAATATTCTCAAGCCAA
*
656540 ACAATTTTGAATAAAATATTTTTAAAATCCTTCTAATAAGACGCATTTTTTAAAATCTCGTCAGA
131 ACAATTTTGAATAAAATATTTTTAAAATCATTCTAATAAGACGCATTTTTTAAAATCTCGTCAGA
656605 CTTGTCATGTCAAATCTTTTCCAAGACTTTGAAGTTATGTTTGATATCGGGGGTAGTATTTGCTA
196 CTTGTCATGTCAAATCTTTTCCAAGACTTTGAAGTTATGTTTGATATCGGGGGTAGTATTTGCTA
656670 GAAAATGAGCCACATTTCTGTTGGCGAACTTCTATACTAAAATTTCAAGTAGACTGTTTTCATAA
261 GAAAATGAGCCACATTTCTGTTGGCGAACTTCTATACTAAAATTTCAAGTAGACTGTTTTCATAA
656735 GGAGATTTGCGTAAGGAGAAGATTCTTTATGTCAAAGACTTGAATTTTAAAA
326 GGAGATTTGCGTAAGGAGAAGATTCTTTATGTCAAAGACTTGAATTTTAAAA
*
656787 GTTTTGAAATTATTTTACAACTTAAGGTTAGGGTTAAAAATAGGAAATGTTCGCTCCTATTTTCA
1 GTTTTGAAATTATTTTACAACTTAAGGTTAGGGTTAAAAATAGGAAATGTTCCCTCCTATTTTCA
656852 A-CCTAATCTATGAAAAATTCTCATAACTGAAACCTTAACCCTGAACCAAATATTCTCAAGCCAA
66 ACCCTAATCTATGAAAAATTCTCATAACTGAAACCTTAACCCTGAACCAAATATTCTCAAGCCAA
* * *
656916 ACAATTTTGAATAAAATATTTTTAAAATCATTCTAATAAGACGGATTTTTTAAAATCTCTTTAGA
131 ACAATTTTGAATAAAATATTTTTAAAATCATTCTAATAAGACGCATTTTTTAAAATCTCGTCAGA
656981 CTTGTCATGTCAAATCTTTTCCAAGACTTTGAAGTTATGTTTGATATCGGGGGTAGTATTTGCTA
196 CTTGTCATGTCAAATCTTTTCCAAGACTTTGAAGTTATGTTTGATATCGGGGGTAGTATTTGCTA
657046 GAAAATGAGCCACATTTCTGTTGGCGAACTTCTATACTAAAATTTCAAGTAGACTGTTTTCATAA
261 GAAAATGAGCCACATTTCTGTTGGCGAACTTCTATACTAAAATTTCAAGTAGACTGTTTTCATAA
*
657111 GGAGATTTGCGTAAGGAGAAGATTCTTTATGTTAAAGACTTGAATTTTAAAA
326 GGAGATTTGCGTAAGGAGAAGATTCTTTATGTCAAAGACTTGAATTTTAAAA
657163 ATTGACCCAA
Statistics
Matches: 367, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
376 303 0.83
377 64 0.17
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (377 bp):
GTTTTGAAATTATTTTACAACTTAAGGTTAGGGTTAAAAATAGGAAATGTTCCCTCCTATTTTCA
ACCCTAATCTATGAAAAATTCTCATAACTGAAACCTTAACCCTGAACCAAATATTCTCAAGCCAA
ACAATTTTGAATAAAATATTTTTAAAATCATTCTAATAAGACGCATTTTTTAAAATCTCGTCAGA
CTTGTCATGTCAAATCTTTTCCAAGACTTTGAAGTTATGTTTGATATCGGGGGTAGTATTTGCTA
GAAAATGAGCCACATTTCTGTTGGCGAACTTCTATACTAAAATTTCAAGTAGACTGTTTTCATAA
GGAGATTTGCGTAAGGAGAAGATTCTTTATGTCAAAGACTTGAATTTTAAAA
Found at i:658073 original size:18 final size:18
Alignment explanation
Indices: 658046--658085 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
658036 TAAAAGGCAA
* *
658046 CTGAGGATGAAGAGGGAG
1 CTGAGAATGAAAAGGGAG
*
658064 CTGAGAATGAAAAGGGAT
1 CTGAGAATGAAAAGGGAG
658082 CTGA
1 CTGA
658086 ATTCGACAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.40, T:0.15
Consensus pattern (18 bp):
CTGAGAATGAAAAGGGAG
Found at i:661800 original size:42 final size:43
Alignment explanation
Indices: 661741--661826 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
661731 TTGTAGGAGT
*
661741 ATGCAACCACTGATTTTAA-TTTTTTTGTGGTTGTGTCGTTGG
1 ATGCAACCACCGATTTTAATTTTTTTTGTGGTTGTGTCGTTGG
661783 ATGCAACCACCGATTTTAATTTTTTTTGTGGTTGTGTCGTTGG
1 ATGCAACCACCGATTTTAATTTTTTTTGTGGTTGTGTCGTTGG
661826 A
1 A
661827 CACATCTCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 18 0.43
43 24 0.57
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (43 bp):
ATGCAACCACCGATTTTAATTTTTTTTGTGGTTGTGTCGTTGG
Found at i:663757 original size:16 final size:15
Alignment explanation
Indices: 663716--663757 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
663706 AATTTCTTTA
663716 AAAATTATAACAAAAT
1 AAAATTAT-ACAAAAT
663732 -AAATTAATACAATAAT
1 AAAATT-ATACAA-AAT
663748 AAAATTATAC
1 AAAATTATAC
663758 TTTAACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.39
16 9 0.39
17 5 0.22
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTATACAAAAT
Found at i:684157 original size:17 final size:16
Alignment explanation
Indices: 684135--684166 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
684125 TTATAGATTA
684135 TTGGAAGCTCGATCAGT
1 TTGGAAGCTCG-TCAGT
684152 TTGGAAGCTCGTCAG
1 TTGGAAGCTCGTCAG
684167 ATATCTATCA
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:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCAGT
Found at i:690293 original size:21 final size:21
Alignment explanation
Indices: 690269--690314 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
690259 TCACGAGATT
* *
690269 GAACCCTGGTGTCGCGAAATG
1 GAACCCTGGAGTAGCGAAATG
690290 GAACCCTGGAGTAGCGAAATG
1 GAACCCTGGAGTAGCGAAATG
690311 GAAC
1 GAAC
690315 TTCGAACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (21 bp):
GAACCCTGGAGTAGCGAAATG
Found at i:692079 original size:3 final size:3
Alignment explanation
Indices: 692071--692102 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
692061 CTCAACATTC
692071 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
692103 GTTAAGATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:693879 original size:25 final size:25
Alignment explanation
Indices: 693848--694009 Score: 117
Period size: 25 Copynumber: 6.5 Consensus size: 25
693838 CACAATGGCA
* *
693848 TTCCAAATAATTTACCATAAAGGTT
1 TTCCAAATAATTCACCATAAAGGCT
* * * * * *
693873 TTTCAAATGATACGCCACAAGGGCT
1 TTCCAAATAATTCACCATAAAGGCT
693898 TTCCAAATAATTCACCATAAAGGCT
1 TTCCAAATAATTCACCATAAAGGCT
* * * * *
693923 TTCCAAATGATACGCCAGAAGGGCT
1 TTCCAAATAATTCACCATAAAGGCT
* ** * *
693948 TTCCAAAGAATTTTCCACAAAGGTT
1 TTCCAAATAATTCACCATAAAGGCT
** * *
693973 TTCCAAAGGATTCACCACAAGGGCT
1 TTCCAAATAATTCACCATAAAGGCT
*
693998 TTCCAAAGAATT
1 TTCCAAATAATT
694010 AGCCGATACT
Statistics
Matches: 104, Mismatches: 33, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 104 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (25 bp):
TTCCAAATAATTCACCATAAAGGCT
Found at i:693891 original size:50 final size:50
Alignment explanation
Indices: 693837--694009 Score: 229
Period size: 50 Copynumber: 3.5 Consensus size: 50
693827 TAACAACTTA
* * * *
693837 CCACAATGGCATTCCAAATAATTTACCATAAAGGTTTTTCAAATGATACG
1 CCACAAGGGCTTTCCAAAGAATTTACCATAAAGGTTTTCCAAATGATACG
* * *
693887 CCACAAGGGCTTTCCAAATAATTCACCATAAAGGCTTTCCAAATGATACG
1 CCACAAGGGCTTTCCAAAGAATTTACCATAAAGGTTTTCCAAATGATACG
* * * * * *
693937 CCAGAAGGGCTTTCCAAAGAATTTTCCACAAAGGTTTTCCAAAGGATTCA
1 CCACAAGGGCTTTCCAAAGAATTTACCATAAAGGTTTTCCAAATGATACG
693987 CCACAAGGGCTTTCCAAAGAATT
1 CCACAAGGGCTTTCCAAAGAATT
694010 AGCCGATACT
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 108 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (50 bp):
CCACAAGGGCTTTCCAAAGAATTTACCATAAAGGTTTTCCAAATGATACG
Found at i:698267 original size:17 final size:17
Alignment explanation
Indices: 698245--698278 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
698235 GTATTTCTAC
698245 AACTTTCTCAACAATTG
1 AACTTTCTCAACAATTG
*
698262 AACTTTCTCAATAATTG
1 AACTTTCTCAACAATTG
698279 TAGAATAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
AACTTTCTCAACAATTG
Found at i:701391 original size:24 final size:25
Alignment explanation
Indices: 701350--701400 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
701340 CTTTATTTCC
701350 TCTCATCATTCACTAA-CCTCTCATT
1 TCTCATCATTCACTAACCCT-TCATT
701375 TCTC-TCATTCA-TAAACCCTTCATT
1 TCTCATCATTCACT-AACCCTTCATT
701399 TC
1 TC
701401 CCCTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 1 0.04
24 16 0.67
25 7 0.29
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (25 bp):
TCTCATCATTCACTAACCCTTCATT
Found at i:713905 original size:490 final size:490
Alignment explanation
Indices: 712985--713968 Score: 1968
Period size: 490 Copynumber: 2.0 Consensus size: 490
712975 GAGGTCGTAG
712985 GTCTTGTTTAGGGACCTTCTCCTACTCAATATTTTAAAAATATGCAAGGTTTTTAATGTCCGGTT
1 GTCTTGTTTAGGGACCTTCTCCTACTCAATATTTTAAAAATATGCAAGGTTTTTAATGTCCGGTT
713050 TCAATCATAAATGATCAATATATGTATGACAAGTACATGTGACATTCTTTCCTTAAAGTTTCCAT
66 TCAATCATAAATGATCAATATATGTATGACAAGTACATGTGACATTCTTTCCTTAAAGTTTCCAT
713115 GATTTCATCTTAAAAATAAATAAAAATTACAAAATTCACCCCAAACATACTTTGGGTCTTCTATT
131 GATTTCATCTTAAAAATAAATAAAAATTACAAAATTCACCCCAAACATACTTTGGGTCTTCTATT
713180 TTGCCACCATGGACTTCTACTACGGTATTGGTTCACATTATTGTTGTCATCATCTGTCTGTCACG
196 TTGCCACCATGGACTTCTACTACGGTATTGGTTCACATTATTGTTGTCATCATCTGTCTGTCACG
713245 CTTTTTGTGTCGTCGCCACCACCAAACTATCTTAGGTTTCAGTCGACCATCGTCGAACCACTATT
261 CTTTTTGTGTCGTCGCCACCACCAAACTATCTTAGGTTTCAGTCGACCATCGTCGAACCACTATT
713310 GGCCACTATCGACTGCAACCGACCATCATCGTCTTACCACTACTGTCGACCCTTGCTATTGAACA
326 GGCCACTATCGACTGCAACCGACCATCATCGTCTTACCACTACTGTCGACCCTTGCTATTGAACA
713375 TCACCGTCGAACCACCGACAGCCTCCTACTGCCATACCACCATCAGTCTACTACCAATTTGGCTG
391 TCACCGTCGAACCACCGACAGCCTCCTACTGCCATACCACCATCAGTCTACTACCAATTTGGCTG
713440 GGTCAGGTTTGCATCATCTTAATCGACCTACACAA
456 GGTCAGGTTTGCATCATCTTAATCGACCTACACAA
713475 GTCTTGTTTAGGGACCTTCTCCTACTCAATATTTTAAAAATATGCAAGGTTTTTAATGTCCGGTT
1 GTCTTGTTTAGGGACCTTCTCCTACTCAATATTTTAAAAATATGCAAGGTTTTTAATGTCCGGTT
713540 TCAATCATAAATGATCAATATATGTATGACAAGTACATGTGACATTCTTTCCTTAAAGTTTCCAT
66 TCAATCATAAATGATCAATATATGTATGACAAGTACATGTGACATTCTTTCCTTAAAGTTTCCAT
713605 GATTTCATCTTAAAAATAAATAAAAATTACAAAATTCACCCCAAACATACTTTGGGTCTTCTATT
131 GATTTCATCTTAAAAATAAATAAAAATTACAAAATTCACCCCAAACATACTTTGGGTCTTCTATT
713670 TTGCCACCATGGACTTCTACTACGGTATTGGTTCACATTATTGTTGTCATCATCTGTCTGTCACG
196 TTGCCACCATGGACTTCTACTACGGTATTGGTTCACATTATTGTTGTCATCATCTGTCTGTCACG
713735 CTTTTTGTGTCGTCGCCACCACCAAACTATCTTAGGTTTCAGTCGACCATCGTCGAACCACTATT
261 CTTTTTGTGTCGTCGCCACCACCAAACTATCTTAGGTTTCAGTCGACCATCGTCGAACCACTATT
713800 GGCCACTATCGACTGCAACCGACCATCATCGTCTTACCACTACTGTCGACCCTTGCTATTGAACA
326 GGCCACTATCGACTGCAACCGACCATCATCGTCTTACCACTACTGTCGACCCTTGCTATTGAACA
713865 TCACCGTCGAACCACCGACAGCCTCCTACTGCCATACCACCATCAGTCTACTACCAATTTGGCTG
391 TCACCGTCGAACCACCGACAGCCTCCTACTGCCATACCACCATCAGTCTACTACCAATTTGGCTG
713930 GGTCAGGTTTGCATCATCTTAATCGACCTACACAA
456 GGTCAGGTTTGCATCATCTTAATCGACCTACACAA
713965 GTCT
1 GTCT
713969 CGATTCTCTG
Statistics
Matches: 494, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
490 494 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (490 bp):
GTCTTGTTTAGGGACCTTCTCCTACTCAATATTTTAAAAATATGCAAGGTTTTTAATGTCCGGTT
TCAATCATAAATGATCAATATATGTATGACAAGTACATGTGACATTCTTTCCTTAAAGTTTCCAT
GATTTCATCTTAAAAATAAATAAAAATTACAAAATTCACCCCAAACATACTTTGGGTCTTCTATT
TTGCCACCATGGACTTCTACTACGGTATTGGTTCACATTATTGTTGTCATCATCTGTCTGTCACG
CTTTTTGTGTCGTCGCCACCACCAAACTATCTTAGGTTTCAGTCGACCATCGTCGAACCACTATT
GGCCACTATCGACTGCAACCGACCATCATCGTCTTACCACTACTGTCGACCCTTGCTATTGAACA
TCACCGTCGAACCACCGACAGCCTCCTACTGCCATACCACCATCAGTCTACTACCAATTTGGCTG
GGTCAGGTTTGCATCATCTTAATCGACCTACACAA
Found at i:722660 original size:25 final size:23
Alignment explanation
Indices: 722615--722690 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 23
722605 AAAATATAAC
*
722615 AATATATTTACATATACATATATAT
1 AATAAATTTACATAT--ATATATAT
722640 AATAAATCTGTACATATATATATA-
1 AATAAAT-T-TACATATATATATAT
*
722664 AA-ATATTTACATATATATATAT
1 AATAAATTTACATATATATATAT
722686 -ATAAA
1 AATAAA
722691 AATAATGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
21 15 0.34
22 3 0.07
23 3 0.07
24 2 0.05
25 13 0.30
26 1 0.02
27 7 0.16
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (23 bp):
AATAAATTTACATATATATATAT
Found at i:722683 original size:21 final size:22
Alignment explanation
Indices: 722629--722686 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
722619 TATTTACATA
*
722629 TACATATATATA-ATAAATCTG
1 TACATATATATATATAAATATG
*
722650 TACATATATATATA-AAATATT
1 TACATATATATATATAAATATG
722671 TACATATATATATATA
1 TACATATATATATATA
722687 TAAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATATATATATATAAATATG
Found at i:722691 original size:25 final size:25
Alignment explanation
Indices: 722618--722691 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
722608 ATATAACAAT
*
722618 ATATTTACATATACATATATATAATA
1 ATATTTACATATATATATATATAA-A
* * *
722644 A-ATCT--GTACATATATATATAAA
1 ATATTTACATATATATATATATAAA
722666 ATATTTACATATATATATATATAAA
1 ATATTTACATATATATATATATAAA
722691 A
1 A
722692 ATAATGATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
22 2 0.05
23 16 0.42
25 19 0.50
26 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (25 bp):
ATATTTACATATATATATATATAAA
Found at i:724328 original size:45 final size:44
Alignment explanation
Indices: 724234--724350 Score: 128
Period size: 45 Copynumber: 2.6 Consensus size: 44
724224 GTAATCCACT
* * * *
724234 CCACTACAACTTTAGGGAGATAGGATTGGTTTATTTAGTCTGTC
1 CCACTGCAACTTTAGGGAGATAAGATTGATTTATTGAGTCTGTC
* * *
724278 CCACTGCAATTTTAGGGGGATAAGACTTGATTTCTTGAGTCTG-C
1 CCACTGCAACTTTAGGGAGATAAGA-TTGATTTATTGAGTCTGTC
* *
724322 CTCACTGTAACTTCAGGGAGATAAGATTG
1 C-CACTGCAACTTTAGGGAGATAAGATTG
724351 GATGCAATCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 26 0.43
45 34 0.57
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTTAGGGAGATAAGATTGATTTATTGAGTCTGTC
Found at i:724404 original size:173 final size:174
Alignment explanation
Indices: 724177--724520 Score: 426
Period size: 173 Copynumber: 2.0 Consensus size: 174
724167 AGATGAATTT
* *
724177 GATGCAATCTGCTCTACTGTAATTTCAGAGAGATAAGATTCATCATTGTAATCCACTCCACTACA
1 GATGCAATCTGCTCTACTGTAACTTCAGAGAGATAAAATTCATCATTGTAATCCACTCCACTACA
* ** * * * *
724242 ACTTTAGGGAGATAGGATTGGT-TTATTTAGTCTGTCCCACTGCAATTTTAGGGGGATAAGACTT
66 ACTTTAGGGAGATAGGATT-ATCGGATTTAATCTGTCCCACTGCAACTTCAGGGAGATAAGACTT
** * *
724306 GATTTCTTGAGTCTGCCTCACTGTAACTTCAGG-GAGATAAGATTG
130 GACATCTTCAGTCTGCCTCACTGCAACTTCAGGAG-GATAAGATTG
* * ** * *
724351 GATGCAATCTGCTCT-TTGTAACTTCAGAGAGATAAAA-TCTGTGGTTTTAATCCACTCCACTGC
1 GATGCAATCTGCTCTACTGTAACTTCAGAGAGATAAAATTC-ATCATTGTAATCCACTCCACTAC
* * *
724414 AACTTTAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTT
65 AACTTTAGGGAGATAGGATTATCGGATTTAATCTGTCCCACTGCAACTTCAGGGAGATAAGACTT
*
724479 GCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGA
130 GACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGA
724521 CTTGCTTACT
Statistics
Matches: 144, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
172 3 0.02
173 125 0.87
174 16 0.11
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (174 bp):
GATGCAATCTGCTCTACTGTAACTTCAGAGAGATAAAATTCATCATTGTAATCCACTCCACTACA
ACTTTAGGGAGATAGGATTATCGGATTTAATCTGTCCCACTGCAACTTCAGGGAGATAAGACTTG
ACATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGATTG
Found at i:724506 original size:45 final size:44
Alignment explanation
Indices: 724445--724692 Score: 169
Period size: 44 Copynumber: 5.7 Consensus size: 44
724435 TCGGCTTTAA
* *
724445 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AG
*
724490 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAG
* *
724534 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-ATAC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
* * * * * * *
724575 TCTACT-CTCTGCAACATCAGAGAGATAAGA-TT-CAAAGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA--CTTAG
* * * * *
724618 TCCGCTCCACTGTAACTTCAGGGAGATAGGA-TT--ATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCA-T-AC-TTAG
*
724662 TCTGCTCCACTGCAACTTCAAGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
724693 TTCGCCATTG
Statistics
Matches: 161, Mismatches: 28, Indels: 29
0.74 0.13 0.13
Matches are distributed among these distances:
39 3 0.02
40 21 0.13
41 5 0.03
42 2 0.01
43 8 0.05
44 88 0.55
45 34 0.21
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
Found at i:724551 original size:44 final size:45
Alignment explanation
Indices: 724405--724566 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 45
724395 TTTTAATCCA
* * ** ** * *
724405 CTCCACTGCAACTTTAGGGAGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* *
724449 TTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
*
724494 C-CTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTG
724538 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
724567 AGATACGATC
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
44 59 0.59
45 41 0.41
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
Found at i:724556 original size:217 final size:218
Alignment explanation
Indices: 724270--724700 Score: 582
Period size: 217 Copynumber: 2.0 Consensus size: 218
724260 TGGTTTATTT
* * * * *
724270 AGTCTGTCCCACTGCAATTTTAGGGGGATAAGACTTGATTTCTTGAGTCTGCCTCACTGTAACTT
1 AGTCTGTCCCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCCTCACTGCAACTT
* * * * * * * ***
724335 CAGGGAGATAAGATTGGATGCAATCTGCTCTTTGTAACTTCAGAGAGATAAAA-TCTGTGGTTTT
66 CAGGGAGATAAGACTAGATACAATCTACTCTCTGCAACATCAGAGAGATAAAATTC-AAAGTTTT
* *
724399 AATCCACTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACTGCAACTTC
130 AATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTC
* *
724464 AGGGAGATAAGATTTGCCATCTTC
195 AAGGAGATAAGATTCGCCATCTTC
*
724488 AGTCTG-CCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTT-AGTCTG-CTCCACTGCAAC
1 AGTCTGTCC-CACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCCT-CACTGCAAC
* *
724550 TTCAGGGAGATAAGACTAGATACGATCTACTCTCTGCAACATCAGAGAGATAAGATTCAAAGTTT
64 TTCAGGGAGATAAGACTAGATACAATCTACTCTCTGCAACATCAGAGAGATAAAATTCAAAGTTT
* * *
724615 TAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTT
129 TAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTT
724680 CAAGGAGATAAGATTCGCCAT
194 CAAGGAGATAAGATTCGCCAT
724701 TGCAATGTTG
Statistics
Matches: 185, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
216 2 0.01
217 145 0.78
218 38 0.21
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (218 bp):
AGTCTGTCCCACTGCAACTTCAGGAGGATAAGACTTGATTACTTGAGTCTGCCTCACTGCAACTT
CAGGGAGATAAGACTAGATACAATCTACTCTCTGCAACATCAGAGAGATAAAATTCAAAGTTTTA
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCA
AGGAGATAAGATTCGCCATCTTC
Found at i:725347 original size:88 final size:88
Alignment explanation
Indices: 725212--725429 Score: 240
Period size: 88 Copynumber: 2.5 Consensus size: 88
725202 TAAAACTGAT
* * * * * *
725212 GTCTTCGATCTACTTCACTGCCAGTATAGGAAGGCAAGACCTGCTATTTTCAACCTACTCCACTG
1 GTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCTACTATTTTCAACCTACTCCACTG
* *
725277 CTGCTCAAGGAGACAAGGCTGGA
66 CAGCCCAAGGAGACAAGGCTGGA
* * * *
725300 GAT-TTCGATCTGCTTCGCTACCGGTACAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCT
1 G-TCTTCGATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCTACTATTTTCAACCTACTCCACT
* * *
725364 GCAGCCCAGGGAGGCAAGGCTGGT
65 GCAGCCCAAGGAGACAAGGCTGGA
* * * * *
725388 GTCTTTGATCTGTTTCGTTGCCGGTACAGAAAGGCAAAATCT
1 GTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCT
725430 GCTGTCTTCA
Statistics
Matches: 107, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
87 1 0.01
88 105 0.98
89 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
GTCTTCGATCTGCTTCGCTGCCGGTACAGGAAGGCAAGATCTACTATTTTCAACCTACTCCACTG
CAGCCCAAGGAGACAAGGCTGGA
Found at i:731238 original size:18 final size:19
Alignment explanation
Indices: 731199--731236 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
731189 AAATACGAGT
731199 ATTATCTCTATTTTGAAAA
1 ATTATCTCTATTTTGAAAA
*
731218 ATTATCTTTATTTTGAAAA
1 ATTATCTCTATTTTGAAAA
731237 TTTTCCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTATCTCTATTTTGAAAA
Found at i:731789 original size:21 final size:21
Alignment explanation
Indices: 731763--731827 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
731753 TATTTACATA
*
731763 TACATATATATATTAAAT-CT
1 TACATATATATATTAAATAAT
731783 GTACATATATATATATATAATAAT
1 -TACATATATATAT-TA-AATAAT
*
731807 TACATATATATATAAAATAAT
1 TACATATATATATTAAATAAT
731828 GATTACACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 19 0.49
22 3 0.08
23 16 0.41
24 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (21 bp):
TACATATATATATTAAATAAT
Found at i:731796 original size:23 final size:23
Alignment explanation
Indices: 731763--731840 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 23
731753 TATTTACATA
*
731763 TACATATATATAT-TA-AAT-CT
1 TACATATATATATATATAATAAT
731783 GTACATATATATATATATAATAAT
1 -TACATATATATATATATAATAAT
* *
731807 TACATATATATATAAAATAATGAT
1 TACATATATATAT-ATATAATAAT
731831 TACACTATAT
1 TACA-TATAT
731841 TAAAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
21 13 0.27
22 2 0.04
23 16 0.33
24 13 0.27
25 5 0.10
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (23 bp):
TACATATATATATATATAATAAT
Found at i:731847 original size:24 final size:24
Alignment explanation
Indices: 731784--731847 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
731774 ATTAAATCTG
* *
731784 TACATATATAT-ATATATAATAAT
1 TACATATATATAAAAAATAATAAT
* *
731807 TACATATATATATAAAATAATGAT
1 TACATATATATAAAAAATAATAAT
731831 TACACTATAT-TAAAAAA
1 TACA-TATATATAAAAAA
731848 ATAAATATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 11 0.32
24 18 0.53
25 5 0.15
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
TACATATATATAAAAAATAATAAT
Found at i:735272 original size:38 final size:38
Alignment explanation
Indices: 735208--735449 Score: 299
Period size: 38 Copynumber: 6.4 Consensus size: 38
735198 CGTAATGTTA
* *
735208 ATTCGGGCTTTGTGCCTAACAAGCTTTGTGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * *
735246 ATTCAGGCTTTGTGCCTAGCAGGCTTTGTGCTGGTGGT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * *
735284 -TTCGGGCTTTGT-CACCAGCAAGCTTTGTGCCGGTGAC
1 ATTCGGGCTTTGTGC-CTAGCAGGCTTTGTGCCGGTGAT
* * *
735321 ATTCGGGCTTTGTGCCTAGCAGGTTTTGTGCCGATGGT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * *
735359 ATTTGGGCTTTGTGCCTAGTAGGCTTTGTGTCGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * *
735397 ATTCGGGCTTTGTGCCTAGCGGGCTTTGTGTCGATGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
*
735435 ATTCGAGCTTTGTGC
1 ATTCGGGCTTTGTGC
735450 TGATGATATT
Statistics
Matches: 173, Mismatches: 28, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
36 1 0.01
37 29 0.17
38 142 0.82
39 1 0.01
ACGTcount: A:0.12, C:0.19, G:0.32, T:0.36
Consensus pattern (38 bp):
ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
Found at i:735447 original size:22 final size:22
Alignment explanation
Indices: 735419--735471 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
735409 TGCCTAGCGG
735419 GCTTTGTG-TCGATGATATTCGA
1 GCTTTGTGCT-GATGATATTCGA
735441 GCTTTGTGCTGATGATATTCGA
1 GCTTTGTGCTGATGATATTCGA
*
735463 GATTTGTGC
1 GCTTTGTGC
735472 CTAGCAGGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.42
Consensus pattern (22 bp):
GCTTTGTGCTGATGATATTCGA
Found at i:742252 original size:12 final size:11
Alignment explanation
Indices: 742235--742290 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
742225 ATTTTATATT
742235 AAAAATAATTAA
1 AAAAATAA-TAA
742247 AAAAATAAT--
1 AAAAATAATAA
742256 AAAAATAATAA
1 AAAAATAATAA
*
742267 AAAAATTAT-A
1 AAAAATAATAA
* *
742277 GAAAATCATAA
1 AAAAATAATAA
742288 AAA
1 AAA
742291 TTAGCTAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
9 9 0.24
10 8 0.22
11 12 0.32
12 8 0.22
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:742289 original size:20 final size:20
Alignment explanation
Indices: 742234--742290 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
742224 TATTTTATAT
742234 TAAAAATAATTAAAAAAATAA
1 TAAAAATAA-TAAAAAAATAA
*
742255 TAAAAATAATAAAAAAATTA
1 TAAAAATAATAAAAAAATAA
*
742275 TAGAAAATCATAAAAA
1 TA-AAAATAATAAAAA
742291 TTAGCTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAATAATAAAAAAATAA
Found at i:742730 original size:19 final size:20
Alignment explanation
Indices: 742694--742746 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
742684 AAAATTACAA
*
742694 AAAAAGTCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
742713 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
742733 AAAAATATCAAAAT
1 AAAAAT-TCAAAAT
742747 TTATATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 10 0.33
20 20 0.67
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:742800 original size:30 final size:28
Alignment explanation
Indices: 742756--742817 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 28
742746 TTTATATTTT
742756 AAAAAATATATAAAATA-TTAAAAAGTCTA
1 AAAAAATATATAAAA-AGTTAAAAA-TCTA
*
742785 AAAAAATATATTAAAAAGTTAAAAATTTA
1 AAAAAATATA-TAAAAAGTTAAAAATCTA
742814 AAAA
1 AAAA
742818 TTTTCTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAAAATATATAAAAAGTTAAAAATCTA
Found at i:742927 original size:16 final size:16
Alignment explanation
Indices: 742906--742936 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
742896 TTTGAATTTT
742906 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
742922 TTTCAAATTTATATG
1 TTTCAAATATATATG
742937 CTCTAACATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:743253 original size:27 final size:27
Alignment explanation
Indices: 743223--743276 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
743213 CATTAAACTA
* * *
743223 TAAAAATCATACAAATTAAAAAAATAT
1 TAAAAATCAAAAAAATAAAAAAAATAT
**
743250 TAAAGTTCAAAAAAATAAAAAAAATAT
1 TAAAAATCAAAAAAATAAAAAAAATAT
743277 ATAGAAATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (27 bp):
TAAAAATCAAAAAAATAAAAAAAATAT
Found at i:743379 original size:28 final size:28
Alignment explanation
Indices: 743348--743405 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
743338 AAGAAACTTT
*
743348 ATTAA-AATAAATTTAAAATTATTAAAAA
1 ATTAATAA-AAATTTAAAAATATTAAAAA
*
743376 ATTAATAAAAATTTAAAAATATTATAAA
1 ATTAATAAAAATTTAAAAATATTAAAAA
743404 AT
1 AT
743406 GTTATTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTAATAAAAATTTAAAAATATTAAAAA
Found at i:743841 original size:17 final size:19
Alignment explanation
Indices: 743807--743842 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
743797 TTCCACTTTC
743807 TATATTTTTAATAATTTTT
1 TATATTTTTAATAATTTTT
743826 TATA-TTTTAA-AATTTTT
1 TATATTTTTAATAATTTTT
743843 CATAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 6 0.35
19 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TATATTTTTAATAATTTTT
Found at i:745220 original size:19 final size:19
Alignment explanation
Indices: 745172--745220 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
745162 CACATATAGT
* *
745172 GCATATTGGTGCTCAAAGA
1 GCATATTGGCGCACAAAGA
* *
745191 TCATCATTGGCGCACAAAGC
1 GCAT-ATTGGCGCACAAAGA
745211 GCATATTGGC
1 GCATATTGGC
745221 ACACGAAGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (19 bp):
GCATATTGGCGCACAAAGA
Found at i:757163 original size:72 final size:73
Alignment explanation
Indices: 757045--757189 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 73
757035 TATTTATTAT
757045 ATATATTACCTTCATCATAAATATGCCATAAACACGATAGTAGGAATTACTAAAATGTTAAAATG
1 ATATATTACCTTCATCATAAATATGCCATAAACACGATAGTAGGAATTACTAAAATGTTAAAATG
757110 TATTCACA
66 TATTCACA
757118 ATATATTACC-TCATCATAAATATGCCATAAACACGATAGTAGGAATTACTAAAATGTTAAAATG
1 ATATATTACCTTCATCATAAATATGCCATAAACACGATAGTAGGAATTACTAAAATGTTAAAATG
757182 TATTCACA
66 TATTCACA
757190 TGCATAGAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 62 0.86
73 10 0.14
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (73 bp):
ATATATTACCTTCATCATAAATATGCCATAAACACGATAGTAGGAATTACTAAAATGTTAAAATG
TATTCACA
Found at i:761478 original size:5 final size:5
Alignment explanation
Indices: 761468--761493 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
761458 GGCGAATAAA
761468 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
761494 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:761753 original size:20 final size:20
Alignment explanation
Indices: 761728--761786 Score: 86
Period size: 19 Copynumber: 3.0 Consensus size: 20
761718 TACAAAATAA
761728 TCAAAATAATTTTTAAAAAT
1 TCAAAATAATTTTTAAAAAT
*
761748 TGAAAATAATTTTT-AAAAT
1 TCAAAATAATTTTTAAAAAT
*
761767 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTTTTAAAAAT
761786 T
1 T
761787 TTAAATTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.14
19 17 0.49
20 13 0.37
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
TCAAAATAATTTTTAAAAAT
Found at i:761765 original size:19 final size:19
Alignment explanation
Indices: 761728--761783 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
761718 TACAAAATAA
761728 TCAAAATAATTTTTAAAAAT
1 TCAAAATAATTTTT-AAAAT
*
761748 TGAAAATAATTTTTAAAAT
1 TCAAAATAATTTTTAAAAT
*
761767 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTTTAAAA
761784 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 9 0.27
19 11 0.33
20 13 0.39
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (19 bp):
TCAAAATAATTTTTAAAAT
Found at i:761864 original size:15 final size:15
Alignment explanation
Indices: 761844--761875 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
761834 CCCAAGGCCC
761844 AATCACCTAAACCCA
1 AATCACCTAAACCCA
*
761859 AATCACCTAAGCCCA
1 AATCACCTAAACCCA
761874 AA
1 AA
761876 ACCTATAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.38, G:0.03, T:0.12
Consensus pattern (15 bp):
AATCACCTAAACCCA
Found at i:763199 original size:7 final size:7
Alignment explanation
Indices: 763182--763215 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
763172 TTTGAGTTAA
763182 AAAAATG
1 AAAAATG
763189 -AAAATG
1 AAAAATG
763195 AAAAATG
1 AAAAATG
763202 AAAAATG
1 AAAAATG
763209 AAAAATG
1 AAAAATG
763216 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:765062 original size:88 final size:88
Alignment explanation
Indices: 764442--765032 Score: 975
Period size: 88 Copynumber: 6.7 Consensus size: 88
764432 CAGATCAATG
* *
764442 AAGATCGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
*
764507 CTCGGTTGTATTGGAGCAGGTCA
66 CTCGGTTGTAGTGGAGCAGGTCA
* * *
764530 AAGATAGCAGATATTGCCTTCCTGCATTTACAGTGAAGCAGATCGAAGACACAAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
* *
764595 CTTGGTTGTAGTGGAGCAAGTCA
66 CTCGGTTGTAGTGGAGCAGGTCA
* *
764618 AAGATAGCAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGTCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
*
764683 CTCGGTTGTAGTGGAGTAGGTCA
66 CTCGGTTGTAGTGGAGCAGGTCA
* * *
764706 AAGATAGTAGATCTTGCCTTCCTGCATGGACAGCGAAGCAGATCGAAGACACAAGCCTTTCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
764771 CTCGGTTGTAGTGGAGCAGGTCA
66 CTCGGTTGTAGTGGAGCAGGTCA
* *
764794 AAGATAGCAGATCTTGCCTTCCTGCATTGACAACGAAGCAAATCGAAGACACAAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
*
764859 CTCGGTTGTAGTGGAGTAGGTCA
66 CTCGGTTGTAGTGGAGCAGGTCA
*
764882 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
*
764947 CTCGGTTGTAGTGGAGCAGATCA
66 CTCGGTTGTAGTGGAGCAGGTCA
* * * *
764970 AAGATAACAGATATTGCCTTCCTGCATTGACGGTGAAGCAGATCGAAGACACAAGCCTTGCCT
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCT
765033 ACCTAAGCGG
Statistics
Matches: 466, Mismatches: 37, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 466 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCC
CTCGGTTGTAGTGGAGCAGGTCA
Found at i:765293 original size:100 final size:99
Alignment explanation
Indices: 765120--765695 Score: 643
Period size: 100 Copynumber: 5.8 Consensus size: 99
765110 TAATTCTATC
* * * * *
765120 TCCCAGGCAGTGTAGTGGAACAGATTGAAGCCACAACGGCGAATCTCGCTTCCCCAACATTGCAT
1 TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAT
* *
765185 TTAAAAGATTGAGGCCACAACGGCGAATATTACTT
66 TTAAAAGATTGAGGCCACAACGACGAATCTTAC-T
* * *
765220 TCCCAGGTGGTGCAATGGAACAGATTGAAGCTACAACGACGAATCTCGTTTCCCCGACATTGCAT
1 TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAT
**
765285 TTAAAAGATTGAGGCCACAACGGTGAATCTTACTT
66 TTAAAAGATTGAGGCCACAACGACGAATCTTAC-T
** * * * *
765320 TCATAGGCGGTGCAGTGGAACAGATTGAAGCCACAACGGTGAATCTCGCTTCCTCGACATTGCAA
1 TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGC-A
* *
765385 TTAAAAAGATTGAGGTCACAACGACGAATCTTACT
65 TTTAAAAGATTGAGGCCACAACGACGAATCTTACT
* * * *
765420 T-CCAGGCGGTGCAGTGGAATAGATTGAAGCTACAAAGGCGAATCTTC-TTTCCCCGACATTGCA
1 TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATC-TCGCTTCCCCGACATTGC-
* *
765483 ATTAAAAAGATTGAGGTCACAACGACGAATCTTACT
64 ATTTAAAAGATTGAGGCCACAACGACGAATCTTACT
* * * * * * **
765519 TCCCTGGCGGTGTAATGAAATAGATTGAAGCTACGACGGCGAATCTTGCTTCCCCGACATTGCGG
1 TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAT
* * *
765584 TTAAATAGATTGAAGCTACAACAACGAATCTTACT
66 TTAAA-AGATTGAGGCCACAACGACGAATCTTACT
* * * * * * * *** *
765619 TCCCTGGCGGTGTAATGAAATAGATTGAAGCTACGACGACAAATCTTATTTCCCCGACATTGCAG
1 TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAT
765684 TTAAACAGATTG
66 TTAAA-AGATTG
765696 GAGATGGTAG
Statistics
Matches: 419, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
99 93 0.22
100 295 0.70
101 31 0.07
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (99 bp):
TCCCAGGCGGTGCAATGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAT
TTAAAAGATTGAGGCCACAACGACGAATCTTACT
Found at i:765515 original size:50 final size:50
Alignment explanation
Indices: 765141--765695 Score: 272
Period size: 50 Copynumber: 11.1 Consensus size: 50
765131 GTAGTGGAAC
** * *
765141 AGATTGAAGCCACAACGGCGAATCTCGC-TTCCCCAACATTGC-ATTTAAA
1 AGATTGAAG-CACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* * * **** ** *
765190 AGATTGAGGCCACAACGGCGAATATTACTTTCCCAGGTGGTGCAATGGAAC
1 AGATTGAAG-CACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* *
765241 AGATTGAAGCTACAACGACGAATC-T-CGTTTCCCCGACATTGC-ATTTAAA
1 AGATTGAAGC-ACAACGGCGAATCTTAC-TTTCCCCGACATTGCAATTAAAA
* * *** * ** * ** *
765290 AGATTGAGGCCACAACGGTGAATCTTACTTTCATAGGCGGTGCAGTGGAAC
1 AGATTGAAG-CACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* ** *
765341 AGATTGAAGCCACAACGGTGAATCTCGC-TTCCTCGACATTGCAATTAAAA
1 AGATTGAAG-CACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* * * * ** * ** *
765391 AGATTGAGGTCACAACGACGAATCTTAC-TT-CCAGGCGGTGCAGTGGAAT
1 AGATTGAAG-CACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
*
765440 AGATTGAAGCTACAAAGGCGAATCTT-CTTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGC-ACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* * * * ** * * *
765490 AGATTGAGGTCACAACGACGAATCTTAC-TTCCCTGGCGGTGTAATGAAAT
1 AGATTGAAG-CACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* * ** *
765540 AGATTGAAGCTACGACGGCGAATCTTGC-TTCCCCGACATTGCGGTTAAAT
1 AGATTGAAGC-ACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
** * * ** * * *
765590 AGATTGAAGCTACAACAACGAATCTTAC-TTCCCTGGCGGTGTAATGAAAT
1 AGATTGAAGC-ACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
* * * * *
765640 AGATTGAAGCTACGACGACAAATCTTA-TTTCCCCGACATTGCAGTTAAAC
1 AGATTGAAGC-ACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
765690 AGATTG
1 AGATTG
765696 GAGATGGTAG
Statistics
Matches: 371, Mismatches: 120, Indels: 29
0.71 0.23 0.06
Matches are distributed among these distances:
48 2 0.01
49 82 0.22
50 233 0.63
51 54 0.15
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCACAACGGCGAATCTTACTTTCCCCGACATTGCAATTAAAA
Found at i:765679 original size:299 final size:299
Alignment explanation
Indices: 765122--765695 Score: 704
Period size: 299 Copynumber: 1.9 Consensus size: 299
765112 ATTCTATCTC
* * *
765122 CCAGGCAGTGTAGTGGAACAGATTGAAGCCACAACGGCGAATCTCGCTTCCCCAACATTGCATTT
1 CCAGGCAGTGCAGTGGAACAGATTGAAGCCACAAAGGCGAATCTCGCTTCCCCAACATTGCATTA
* * *
765187 AAAAGATTGAGGCCACAACGGCGAATATTACTTTCCCAGGTGGTGCAATGGAACAGATTGAAGCT
66 AAAAGATTGAGGCCACAACGACGAATATTACTTTCCCAGGCGGTGCAATGAAACAGATTGAAGCT
* * * ***
765252 ACAACGACGAATCTCGTTTCCCCGACATTGCATTTAAAAGATTGAGGCCACAACGGTGAATCTTA
131 ACAACGACGAATCTCGCTTCCCCGACATTGCAGTTAAAAGATTGAAGCCACAACAACGAATCTTA
* * * *** * *
765317 CTTTCATAGGCGGTGCAGTGGAACAGATTGAAGCCACAACGGTGAATCTCGCTTCCTCGACATTG
196 CTTCCATAGGCGGTGCAATGAAACAGATTGAAGCCACAACGACAAATCTCACTTCCCCGACATTG
765382 CAATTAAAAAGATTGAGGTCACAACGACGAATCTTACTT
261 CAATTAAAAAGATTGAGGTCACAACGACGAATCTTACTT
* * * * *
765421 CCAGGCGGTGCAGTGGAATAGATTGAAGCTACAAAGGCGAATCTTC-TTTCCCCGACATTGCAAT
1 CCAGGCAGTGCAGTGGAACAGATTGAAGCCACAAAGGCGAATC-TCGCTTCCCCAACATTGC-AT
* * * * *
765485 TAAAAAGATTGAGGTCACAACGACGAATCTTAC-TTCCCTGGCGGTGTAATGAAATAGATTGAAG
64 TAAAAAGATTGAGGCCACAACGACGAATATTACTTTCCCAGGCGGTGCAATGAAACAGATTGAAG
* * * * *
765549 CTACGACGGCGAATCTTGCTTCCCCGACATTGCGGTTAAATAGATTGAAGCTACAACAACGAATC
129 CTACAACGACGAATCTCGCTTCCCCGACATTGCAGTTAAA-AGATTGAAGCCACAACAACGAATC
* * * * * * *
765614 TTACTTCCCT-GGCGGTGTAATGAAATAGATTGAAGCTACGACGACAAATCTTATTTCCCCGACA
193 TTACTTCCATAGGCGGTGCAATGAAACAGATTGAAGCCACAACGACAAATCTCACTTCCCCGACA
* *
765678 TTGCAGTTAAACAGATTG
258 TTGCAATTAAAAAGATTG
765696 GAGATGGTAG
Statistics
Matches: 228, Mismatches: 44, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
299 168 0.74
300 60 0.26
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (299 bp):
CCAGGCAGTGCAGTGGAACAGATTGAAGCCACAAAGGCGAATCTCGCTTCCCCAACATTGCATTA
AAAAGATTGAGGCCACAACGACGAATATTACTTTCCCAGGCGGTGCAATGAAACAGATTGAAGCT
ACAACGACGAATCTCGCTTCCCCGACATTGCAGTTAAAAGATTGAAGCCACAACAACGAATCTTA
CTTCCATAGGCGGTGCAATGAAACAGATTGAAGCCACAACGACAAATCTCACTTCCCCGACATTG
CAATTAAAAAGATTGAGGTCACAACGACGAATCTTACTT
Found at i:767267 original size:22 final size:21
Alignment explanation
Indices: 767242--767328 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 21
767232 ACTAATCTAG
767242 TTATTATTATTATATTTTCCCT
1 TTATTATTA-TATATTTTCCCT
* *
767264 TTATGTA-TATATATTTACGCT
1 TTAT-TATTATATATTTTCCCT
*
767285 TCTATTATTATACTATTAGTTCCTCC
1 T-TATTATTATA-TATT--TTCC-CT
*
767311 TTATTATTGTTATATTTT
1 TTATTATT-ATATATTTT
767329 TATTTATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
21 13 0.25
22 13 0.25
23 8 0.16
25 13 0.25
26 4 0.08
ACGTcount: A:0.24, C:0.13, G:0.05, T:0.59
Consensus pattern (21 bp):
TTATTATTATATATTTTCCCT
Found at i:768775 original size:3 final size:3
Alignment explanation
Indices: 768767--768810 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
768757 CTAAAATATC
768767 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
768811 CTTTAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:777048 original size:52 final size:52
Alignment explanation
Indices: 776986--777089 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
776976 GTTGGTTAGG
*
776986 ATCAGTGGTCCGGATGGGCCTTTAAGTTAGTTTTGCGTTTTAAGAATAGAAT
1 ATCAGTGGTCCGGATGGACCTTTAAGTTAGTTTTGCGTTTTAAGAATAGAAT
*
777038 ATCAGTGGTCCGGATGGACCTTTAAGTTAGTTTTGCGTTTTAAGAGTAGAAT
1 ATCAGTGGTCCGGATGGACCTTTAAGTTAGTTTTGCGTTTTAAGAATAGAAT
777090 GACTTTGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.37
Consensus pattern (52 bp):
ATCAGTGGTCCGGATGGACCTTTAAGTTAGTTTTGCGTTTTAAGAATAGAAT
Found at i:783976 original size:42 final size:42
Alignment explanation
Indices: 783863--784019 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 42
783853 AGCTCGTACA
* * * *
783863 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCATAT-ACG
* *
783906 ATGCCACTGT-CTCAGACAGGGTCTTACACGTAATCATATACG
1 ATGCCAATGTCCT-AGACATGGTCTTACACGTAATCATATACG
* *
783948 ACGCCAATGTCCTAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGT-AATCAT-ATA-CG
* *
783992 ATGCCAAAGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCTAGACATGGTCTTACA
784020 TGATATCACA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 31 0.32
43 38 0.40
44 27 0.28
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAATCATATACG
Found at i:789497 original size:22 final size:24
Alignment explanation
Indices: 789472--789525 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
789462 TTATAAATTC
789472 AATTTAA-AATATATAAT-ACAAT
1 AATTTAAGAATATATAATAACAAT
* *
789494 AATTTCAAGCATATTTAATAACAAT
1 AATTT-AAGAATATATAATAACAAT
789519 AATTTAA
1 AATTTAA
789526 TCATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 2 0.07
24 10 0.37
25 10 0.37
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (24 bp):
AATTTAAGAATATATAATAACAAT
Found at i:793200 original size:21 final size:21
Alignment explanation
Indices: 793175--793226 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
793165 TCTGTTTCTC
793175 TTTACAATTTTGATTTCAATT
1 TTTACAATTTTGATTTCAATT
793196 TTTACAATTTTGATTTCAATT
1 TTTACAATTTTGATTTCAATT
*
793217 TATACAATTT
1 TTTACAATTT
793227 CAATCCCTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTACAATTTTGATTTCAATT
Found at i:810602 original size:17 final size:17
Alignment explanation
Indices: 810580--810618 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
810570 AAAGTCAACG
810580 GACTTATCTTTCATGCA
1 GACTTATCTTTCATGCA
*
810597 GACTTATCTTTCTTGCA
1 GACTTATCTTTCATGCA
810614 GACTT
1 GACTT
810619 TTATGTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (17 bp):
GACTTATCTTTCATGCA
Found at i:812421 original size:6 final size:6
Alignment explanation
Indices: 812404--812442 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
812394 TAAATAGAAG
* *
812404 AAAATA ACAATA AAAATA AAAATA AAAATA AAAACA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
812443 CAAAACAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:814038 original size:12 final size:12
Alignment explanation
Indices: 814021--814045 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
814011 AAATAATATT
814021 AATAAAGAAATA
1 AATAAAGAAATA
814033 AATAAAGAAATA
1 AATAAAGAAATA
814045 A
1 A
814046 TAATAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AATAAAGAAATA
Found at i:826712 original size:50 final size:49
Alignment explanation
Indices: 826618--826748 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 49
826608 TGATAATAAC
* * *
826618 ATGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGTGTTCTCATATCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACA-GGGAGTTCTCATATCG
* * *
826668 ATGCCGATGCCATGTCCCAGACATGGTCTTAC-GGGAGATCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGAG-T-TCTCATATCG
* * *
826718 GTGCCAACGCCATATCCTAGACATGGTCTTA
1 ATGCCAACGCCATGTCCCAGACATGGTCTTA
826749 AATGGGACCT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
48 4 0.06
49 1 0.01
50 64 0.93
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGAGTTCTCATATCG
Found at i:826878 original size:13 final size:13
Alignment explanation
Indices: 826860--826886 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
826850 AGTCAACATT
826860 AAATAAATGCATA
1 AAATAAATGCATA
826873 AAATAAATGCATA
1 AAATAAATGCATA
826886 A
1 A
826887 TTTTTGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (13 bp):
AAATAAATGCATA
Found at i:832494 original size:8 final size:8
Alignment explanation
Indices: 832472--832505 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
832462 NNNNNTATTT
*
832472 TATTTATA
1 TATTTTTA
832480 TATTTTTTA
1 TA-TTTTTA
832489 TATTTTTA
1 TATTTTTA
832497 TATTTTTA
1 TATTTTTA
832505 T
1 T
832506 TTTCTTGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTTA
Found at i:834266 original size:10 final size:10
Alignment explanation
Indices: 834248--834277 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
834238 AATTTTAGCT
*
834248 TTTACCTTTA
1 TTTATCTTTA
834258 TTTATCTTTA
1 TTTATCTTTA
834268 TTTATCTTTA
1 TTTATCTTTA
834278 GAATTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:835477 original size:4 final size:4
Alignment explanation
Indices: 835468--835594 Score: 82
Period size: 4 Copynumber: 29.2 Consensus size: 4
835458 GGGAAAGGAG
*
835468 AAGA AAGA AAGA AA-A AGAAA AAGA AAGAA AAGGA AAGGA GAAGA AAGA
1 AAGA AAGA AAGA AAGA A-AGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA
835516 AAGA AAGAA AATGA AAGGA GAAGA AAG- AA-A AAGA AAGA AAGAA AAGGA
1 AAGA AAG-A AA-GA AA-GA -AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA
*
835564 AATGA GAAGA AAGA AA-A AAAA AAGA GAAGA A
1 AA-GA -AAGA AAGA AAGA AAGA AAGA -AAGA A
835595 GAAGAGGGAA
Statistics
Matches: 104, Mismatches: 4, Indels: 30
0.75 0.03 0.22
Matches are distributed among these distances:
3 9 0.09
4 49 0.47
5 37 0.36
6 9 0.09
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:835491 original size:20 final size:20
Alignment explanation
Indices: 835468--835594 Score: 113
Period size: 20 Copynumber: 6.5 Consensus size: 20
835458 GGGAAAGGAG
835468 AAGAAAGAAAGAAAAAGAAA
1 AAGAAAGAAAGAAAAAGAAA
* * *
835488 AAGAAAGAAA-AGGAAAGGAG
1 AAGAAAGAAAGA-AAAAGAAA
835508 AAGAAAGAAAG--AAAGAAA
1 AAGAAAGAAAGAAAAAGAAA
* *
835526 ATGAAAG-GAGAAGAAAGAAA
1 AAGAAAGAAAGAA-AAAGAAA
*
835546 AAGAAAGAAAG-AAAAGGAA
1 AAGAAAGAAAGAAAAAGAAA
*
835565 ATGAGAAGAAAGAAAAA-AAA
1 AAGA-AAGAAAGAAAAAGAAA
835585 AAGAGAAGAA
1 AAGA-AAGAA
835595 GAAGAGGGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
17 2 0.02
18 11 0.13
19 10 0.12
20 57 0.66
21 6 0.07
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (20 bp):
AAGAAAGAAAGAAAAAGAAA
Found at i:835526 original size:28 final size:28
Alignment explanation
Indices: 835487--835594 Score: 120
Period size: 28 Copynumber: 3.9 Consensus size: 28
835477 AGAAAAAGAA
835487 AAAGAAAGAAAAGGAAAGGAGAAGAAAG
1 AAAGAAAGAAAAGGAAAGGAGAAGAAAG
*
835515 AAAGAAAGAAAATGAAAGGAGAAGAAAG
1 AAAGAAAGAAAAGGAAAGGAGAAGAAAG
*
835543 AAAAAGAAAG-AAAGAAAAGGA-AATGAGAAG
1 --AAAGAAAGAAAAGGAAAGGAGAA-GA-AAG
835573 AAAGAAA-AAAA--AAA-GAGAAGAA
1 AAAGAAAGAAAAGGAAAGGAGAAGAA
835595 GAAGAGGGAA
Statistics
Matches: 71, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
24 1 0.01
25 4 0.06
26 5 0.07
28 39 0.55
29 11 0.15
30 11 0.15
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (28 bp):
AAAGAAAGAAAAGGAAAGGAGAAGAAAG
Found at i:835594 original size:44 final size:42
Alignment explanation
Indices: 835546--835629 Score: 89
Period size: 44 Copynumber: 1.9 Consensus size: 42
835536 AAGAAAGAAA
835546 AAGAAAGAAAGAAAAGGAAATGAGAAGAAAGAAAAAAAAAAGAG
1 AAGAAAGAAAGAAAAGG-AATGA-AAGAAAGAAAAAAAAAAGAG
** *
835590 AAG-AAGAAGAGGGAAGGAAGGAAACAGAAAGAAAAAAAAA
1 AAGAAAGAA-AGAAAAGGAATG-AA-AGAAAGAAAAAAAAA
835630 GAAGTAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
43 9 0.26
44 25 0.74
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.01
Consensus pattern (42 bp):
AAGAAAGAAAGAAAAGGAATGAAAGAAAGAAAAAAAAAAGAG
Found at i:836329 original size:154 final size:154
Alignment explanation
Indices: 835961--836725 Score: 1022
Period size: 153 Copynumber: 5.0 Consensus size: 154
835951 AAAAGAATTG
835961 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
*
836026 TAAAATTAGAAAAT-ATGATATTTTTTT-AAAGTAATAAAATGCGGAGAAAAAAATACGAACAAA
66 TAAAATTAGAAAATAAT-ATATTTTTTTGAAAGTAATAAAATTCGG-GAAAAAAATACGAACAAA
* *
836089 TGGCCGAAGTAAGGGTTTTTTACTAA
129 GGGCCGAAATAAGGGTTTTTTACTAA
** *
836115 -AT-TTTAAAAAA-ACAGAAATAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
1 TATATTTAAAAAACACA-CTA-AATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAAT
* * **
836177 TATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGAG-AAAAAATACGAGTA
64 AATAAAATTA-GAAAATAATATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACA
*
836240 AAGGGCCGAAATAAGGGTTTTTT-TTAAA
127 AAGGGCCGAAATAAGGGTTTTTTACT-AA
836268 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * *
836333 TAAAATTATAAAATAGTATA-TTTTTTCAAAGTAATAAAATTCGGG-AAAAAATACGAACAAAGG
66 TAAAATTAGAAAATAATATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
* *
836396 TCCGAAATAAGAGTTTTTTACTAA
131 GCCGAAATAAGGGTTTTTTACTAA
* * * * * * * * *
836420 -AT-TTAAAAAAATAAAATTAATTAATACATTTCAAACATAATTTACTAAAATAAAGTAAAATGA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
*
836483 TAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGCAAA
66 TAAAATTA-GAAAATAATATATTTTT-TTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAA
* *
836547 GGG-AGAAATAAGGGGTTTTTT-TTAA
129 GGGCCGAAATAA-GGGTTTTTTACTAA
* * *
836572 TTTATTTAAAAAACACACTAAAATAATAAATCTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* * *
836637 TAAAATTAGAAAATAGTATA-TTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATG
66 TAAAATTAGAAAATAATATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
836701 GCCGAAATAAGGGTTTTTTACTAA
131 GCCGAAATAAGGGTTTTTTACTAA
836725 T
1 T
836726 TTTTTTTTGA
Statistics
Matches: 530, Mismatches: 59, Indels: 45
0.84 0.09 0.07
Matches are distributed among these distances:
149 2 0.00
150 67 0.13
151 9 0.02
152 144 0.27
153 145 0.27
154 131 0.25
155 29 0.05
156 3 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.30
Consensus pattern (154 bp):
TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
TAAAATTAGAAAATAATATATTTTTTTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
GCCGAAATAAGGGTTTTTTACTAA
Found at i:836524 original size:304 final size:306
Alignment explanation
Indices: 835961--836729 Score: 1282
Period size: 304 Copynumber: 2.5 Consensus size: 306
835951 AAAAGAATTG
835961 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
836026 TAAAATTAGAAAATA-TGATATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAACAAAT
66 TAAAATTAGAAAATAGT-ATATTTTTTAAAAGTAATAAAATTCGG-GAAAAAAATACGAACAAAT
*
836090 GGCCGAAGTAAGGGTTTTTTACTAAATTTTAAAAAAACAGAAATAATTAATACATTTCAAACATA
129 GGCCGAAATAAGGGTTTTTTACTAAATTTTAAAAAAACAGAAATAATTAATACATTTCAAACATA
* *
836155 ATGTACTAAAATAATGTAAAATTATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
194 ATGTACTAAAATAAAGTAAAATGATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
* *
836220 TTCGAG-AAAAAATACGAGTAAAGGGCCGAAATAA-GGGTTTTTTTTAAA
259 TTCGAGAAAAAAATACGAGCAAAGGG-AGAAATAAGGGGTTTTTTTT-AA
836268 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
* *
836333 TAAAATTATAAAATAGTATATTTTTTCAAAGTAATAAAATTCGGG-AAAAAATACGAACAAA-GG
66 TAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGG
* *
836396 TCCGAAATAAGAGTTTTTTACTAAA-TTTAAAAAAATA-AAATTAATTAATACATTTCAAACATA
131 -CCGAAATAAGGGTTTTTTACTAAATTTTAAAAAAACAGAAA-TAATTAATACATTTCAAACATA
*
836459 ATTTACTAAAATAAAGTAAAATGATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
194 ATGTACTAAAATAAAGTAAAATGATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAA
*
836524 TTCGGGAAAAAAATACGAGCAAAGGGAGAAATAAGGGGTTTTTTTTAA
259 TTCGAGAAAAAAATACGAGCAAAGGGAGAAATAAGGGGTTTTTTTTAA
* * *
836572 TTTATTTAAAAAACACACTAAAATAATAAATCTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
836637 TAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGG
66 TAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGG
*
836702 CCGAAATAAGGGTTTTTTACTAATTTTT
131 CCGAAATAAGGGTTTTTTACTAAATTTT
836730 TTTTGAAGTT
Statistics
Matches: 435, Mismatches: 19, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
303 3 0.01
304 216 0.50
305 105 0.24
306 6 0.01
307 104 0.24
308 1 0.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (306 bp):
TATATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
TAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAAAAATACGAACAAATGG
CCGAAATAAGGGTTTTTTACTAAATTTTAAAAAAACAGAAATAATTAATACATTTCAAACATAAT
GTACTAAAATAAAGTAAAATGATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATT
CGAGAAAAAAATACGAGCAAAGGGAGAAATAAGGGGTTTTTTTTAA
Found at i:841876 original size:39 final size:41
Alignment explanation
Indices: 841817--841910 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 41
841807 CCACTAATCC
* * * * *
841817 TAATAACTAACACAATAACAATAATAATAGTTTTATACTCAAAA
1 TAATAACTAAC-TAACAACAATAATAA-GGGTTT-TACTAAAAA
841861 TAAT-ACTAACTAACAACAATAATAAGGGTTTTACTAAAAA
1 TAATAACTAACTAACAACAATAATAAGGGTTTTACTAAAAA
841901 TAATAACTAA
1 TAATAACTAA
841911 AAATAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
40 12 0.27
41 9 0.20
42 13 0.30
43 6 0.14
44 4 0.09
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (41 bp):
TAATAACTAACTAACAACAATAATAAGGGTTTTACTAAAAA
Found at i:841928 original size:15 final size:13
Alignment explanation
Indices: 841893--841918 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
841883 TAAGGGTTTT
841893 ACTAAAAATAATA
1 ACTAAAAATAATA
841906 ACTAAAAATAATA
1 ACTAAAAATAATA
841919 TAATTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
ACTAAAAATAATA
Found at i:842078 original size:3 final size:3
Alignment explanation
Indices: 842070--842123 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
842060 AACCCCGGCC
*
842070 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT TCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
842118 CCT CCT
1 CCT CCT
842124 TCTTCTTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CCT
Found at i:852518 original size:35 final size:35
Alignment explanation
Indices: 852472--852547 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
852462 AGATAAAAAA
852472 ATAAAATACTAAAAAATCAAAAAATTATTCTAAAG
1 ATAAAATACTAAAAAATCAAAAAATTATTCTAAAG
* * *
852507 ATAAAATACTAAAAAATCAAAATATTGTTCTAATG
1 ATAAAATACTAAAAAATCAAAAAATTATTCTAAAG
852542 A-AAAAT
1 ATAAAAT
852548 TAGATGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.28
Consensus pattern (35 bp):
ATAAAATACTAAAAAATCAAAAAATTATTCTAAAG
Found at i:858875 original size:321 final size:321
Alignment explanation
Indices: 858293--858941 Score: 1282
Period size: 321 Copynumber: 2.0 Consensus size: 321
858283 CCGATTTAAA
858293 TTATTAATATTTCTACGAGTTGTTATACACCAATATAAGTTGGTATTAATCAAAACAGACCAAAA
1 TTATTAATATTTCTACGAGTTGTTATACACCAATATAAGTTGGTATTAATCAAAACAGACCAAAA
858358 CATAGAATAACCAAAGCAAACCAAAATTTTAACAAATGAAACTACAGTTAGCTCTCTCTATAATA
66 CATAGAATAACCAAAGCAAACCAAAATTTTAACAAATGAAACTACAGTTAGCTCTCTCTATAATA
858423 GTCATTTGTTATAATAGCATTTCACTATAATAGTAAATTTTTAAGTAGAATCGGTTTTTATACTT
131 GTCATTTGTTATAATAGCATTTCACTATAATAGTAAATTTTTAAGTAGAATCGGTTTTTATACTT
858488 TATAACTTTCTATAATAGTTTTTCACATCTATAAGAAAATATTGTCAAAAATGTTAAGTAAATTA
196 TATAACTTTCTATAATAGTTTTTCACATCTATAAGAAAATATTGTCAAAAATGTTAAGTAAATTA
858553 AAATTATAGTTATTTCATAAAGTAAGTCTATTAATTATAATTTATTAAAT-AAAATAATTTT
261 AAATTATAGTTATTTCATAAAGTAAGTCTATTAATTATAATTTATTAAATAAAAATAA-TTT
858614 TTATTAATATTTCTACGAGTTGTTATACACCAATATAAGTTGGTATTAATCAAAACAGACCAAAA
1 TTATTAATATTTCTACGAGTTGTTATACACCAATATAAGTTGGTATTAATCAAAACAGACCAAAA
858679 CATAGAATAACCAAAGCAAACCAAAATTTTAACAAATGAAACTACAGTTAGCTCTCTCTATAATA
66 CATAGAATAACCAAAGCAAACCAAAATTTTAACAAATGAAACTACAGTTAGCTCTCTCTATAATA
858744 GTCATTTGTTATAATAGCATTTCACTATAATAGTAAATTTTTAAGTAGAATCGGTTTTTATACTT
131 GTCATTTGTTATAATAGCATTTCACTATAATAGTAAATTTTTAAGTAGAATCGGTTTTTATACTT
858809 TATAACTTTCTATAATAGTTTTTCACATCTATAAGAAAATATTGTCAAAAATGTTAAGTAAATTA
196 TATAACTTTCTATAATAGTTTTTCACATCTATAAGAAAATATTGTCAAAAATGTTAAGTAAATTA
858874 AAATTATAGTTATTTCATAAAGTAAGTCTATTAATTATAATTTATTAAATAAAAATAATTT
261 AAATTATAGTTATTTCATAAAGTAAGTCTATTAATTATAATTTATTAAATAAAAATAATTT
858935 TTATTAA
1 TTATTAA
858942 AATACTATCT
Statistics
Matches: 327, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
321 320 0.98
322 7 0.02
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (321 bp):
TTATTAATATTTCTACGAGTTGTTATACACCAATATAAGTTGGTATTAATCAAAACAGACCAAAA
CATAGAATAACCAAAGCAAACCAAAATTTTAACAAATGAAACTACAGTTAGCTCTCTCTATAATA
GTCATTTGTTATAATAGCATTTCACTATAATAGTAAATTTTTAAGTAGAATCGGTTTTTATACTT
TATAACTTTCTATAATAGTTTTTCACATCTATAAGAAAATATTGTCAAAAATGTTAAGTAAATTA
AAATTATAGTTATTTCATAAAGTAAGTCTATTAATTATAATTTATTAAATAAAAATAATTT
Found at i:863579 original size:26 final size:26
Alignment explanation
Indices: 863548--863618 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
863538 ACATTCTGAC
***
863548 TCACAGCTCGTGTGAGCAGGCCCATT
1 TCACAGCTCGTGTGAGCAAAACCATT
*
863574 TCACAGCTCATGTGAGCAAAACCATT
1 TCACAGCTCGTGTGAGCAAAACCATT
863600 TCACAGCTCGTGTGAGCAA
1 TCACAGCTCGTGTGAGCAA
863619 CATTATAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCAAAACCATT
Found at i:869017 original size:131 final size:131
Alignment explanation
Indices: 868821--869086 Score: 379
Period size: 131 Copynumber: 2.0 Consensus size: 131
868811 TCTATCATTG
* * * * * *
868821 CTCCAAACAGCTCGTTGATTTAAGATCGCAACTGATATTATTAAGGCTCACTGATTTATGATCAC
1 CTCCAAACAACTCGCTAATTTAAGATCACAACTGATATTATTAAGACTCACTAATTTATGATCAC
* * * *
868886 AACCTAAGTTTATTTGATTTACCATCATGAACAATTTTCTCTAAGTTAGCTAATTTATTATCGTT
66 AACCTAAGTTCATTTGATTTACCATCATGAAAAATTTTCTCTAAGTTAGCTAATTTACTATCGCT
868951 A
131 A
* * ** *
868952 CTCCAAACAACTCGCTAATTTAATATCACAGCTGATATTATTAAGACTTGCTAATTTATGGTCAC
1 CTCCAAACAACTCGCTAATTTAAGATCACAACTGATATTATTAAGACTCACTAATTTATGATCAC
* *
869017 AACCTAAGTTCATTTGATTTACTATCATGAAAAATTTTCTCTAAGTTAGCTGATTTACTATCGCT
66 AACCTAAGTTCATTTGATTTACCATCATGAAAAATTTTCTCTAAGTTAGCTAATTTACTATCGCT
869082 A
131 A
869083 CTCC
1 CTCC
869087 GATATCATAG
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 118 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (131 bp):
CTCCAAACAACTCGCTAATTTAAGATCACAACTGATATTATTAAGACTCACTAATTTATGATCAC
AACCTAAGTTCATTTGATTTACCATCATGAAAAATTTTCTCTAAGTTAGCTAATTTACTATCGCT
A
Found at i:869117 original size:114 final size:114
Alignment explanation
Indices: 868974--869196 Score: 329
Period size: 114 Copynumber: 2.0 Consensus size: 114
868964 CGCTAATTTA
* * * *
868974 ATATCACAGCTGATATTATTAAGACTTGCTAATTTATGGTCACAACCTAAGTTCATTTGATTTAC
1 ATATCACAGCTGATATTATTAAGACTTGCTAATTTACGATCACAACCTAAATTCATTTGAATTAC
869039 TATCATGAAAAATTTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCG
66 TATCATGAAAAATTTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCG
* * ** * *
869088 ATATCATAGTTGATATTATTAAGGGTTGCTGATTTACGATCACAGCCTAAATTCATTTGAATTAC
1 ATATCACAGCTGATATTATTAAGACTTGCTAATTTACGATCACAACCTAAATTCATTTGAATTAC
** *
869153 TATCATGAAATTTTTTTTCTAAGTTAGCTGATTTACTATCGCTA
66 TATCATGAAAAATTTTCTCTAAGTTAGCTGATTTACTATCGCTA
869197 TTCCAAACAT
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (114 bp):
ATATCACAGCTGATATTATTAAGACTTGCTAATTTACGATCACAACCTAAATTCATTTGAATTAC
TATCATGAAAAATTTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCG
Found at i:869283 original size:245 final size:245
Alignment explanation
Indices: 868853--869544 Score: 656
Period size: 245 Copynumber: 2.8 Consensus size: 245
868843 AGATCGCAAC
* * * *
868853 TGATATTATTAAGGCTCACTGATTTATGATCACAACCTAAGTTTATTTGATTTACCATCATGAAC
1 TGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCATTTGAATTACCATCATGAAC
* * *
868918 AATTTTCTCTAAGTTAGCTAATTTATTATCGTTACTCCAAACAACTCGCTAATTTAATATCACAG
66 AATTTTCTCTAAGTTAGCTAATTTACTATCGCTACTCCAAACAACTAGCTAATTTAATATCACAG
* * *
868983 CTGATATTATTAAGACTTGCTAATTTATGGTCACAACCTAAGTTCATTTGATTTACTATCATGAA
131 CTGATATTATTAAGACTCGCTAATTTATGATCACAACCTAAGTTCATTTGATTTACTATCACGAA
**
869048 AAATTTTCTCTAAGTTAGCTGATTTACTATCGCTACTCCGATATCATAGT
196 AAATCATCTCTAAGTTAGCTGATTTACTATCGCTACTCCGATATCATAGT
* ** * *
869098 TGATATTATTAAGGGTTGCTGATTTACGATCACAGCCTAAATTCATTTGAATTACTATCATGAA-
1 TGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCATTTGAATTACCATCATGAAC
* * * * * * * *
869162 ATTTTTTTTCTAAGTTAGCTGATTTACTATCGCTATTCCAAACATCTAGCTGATTTAATGTCAGA
66 A-ATTTTCTCTAAGTTAGCTAATTTACTATCGCTACTCCAAACAACTAGCTAATTTAATATCACA
* * *
869227 GTTGATATTATTAAGGCTCGCTGATTTAAT-ATCACAACCTAAGTTCATTTGATTTACTATCACG
130 GCTGATATTATTAAGACTCGCTAATTT-ATGATCACAACCTAAGTTCATTTGATTTACTATCACG
* * * *
869291 AACAATCATCTCTGAGTTAGTTGATTTACTATCGCTACTCCAAACAGCTAGCTGATTTAATATCG
194 AAAAATCATCTCTAAGTTAGCTGATTTACTATCGCTACT-C---C-G--A--T-A--T--CAT--
869356 CAGT
243 -AGT
* ** * * * *
869360 TGATATTATTAGGGCTCGTTGATTTACGATCACAACCTAAGTTCATTTGATTTACTATCATGAGC
1 TGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCATTTGAATTACCATCATGAAC
* * ** * * * * *
869425 AATCTCCTCTAAGTTAATTGATTT-CT-TGCCACTACTCTAAACAACTAGTTAATTTAATATCGC
66 AATTTTCTCTAAGTTAGCTAATTTACTAT--CGCTACTCCAAACAACTAGCTAATTTAATATCAC
** * ** * * *
869488 AATTGATATTATTAAGTCTCATTGATTTATGATCACAGCCTAAGTTTA-TTGATTTAC
129 AGCTGATATTATTAAGACTCGCTAATTTATGATCACAACCTAAGTTCATTTGATTTAC
869545 GATCCTGAAT
Statistics
Matches: 363, Mismatches: 61, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
244 1 0.00
245 196 0.54
246 3 0.01
249 1 0.00
250 1 0.00
252 1 0.00
254 1 0.00
255 1 0.00
257 1 0.00
259 2 0.01
260 1 0.00
261 13 0.04
262 140 0.39
263 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (245 bp):
TGATATTATTAAGGCTCACTGATTTACGATCACAACCTAAATTCATTTGAATTACCATCATGAAC
AATTTTCTCTAAGTTAGCTAATTTACTATCGCTACTCCAAACAACTAGCTAATTTAATATCACAG
CTGATATTATTAAGACTCGCTAATTTATGATCACAACCTAAGTTCATTTGATTTACTATCACGAA
AAATCATCTCTAAGTTAGCTGATTTACTATCGCTACTCCGATATCATAGT
Found at i:869333 original size:131 final size:130
Alignment explanation
Indices: 869095--869553 Score: 505
Period size: 131 Copynumber: 3.5 Consensus size: 130
869085 CCGATATCAT
* * * * * *
869095 AGTTGATATTATTAAGGGTTGCTGATTTACGATCACAGCCTAAATTCATTTGAATTACTATCATG
1 AGTTGATATTATTAAGGCTCGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTACTATCATG
* * * * * * *
869160 AA-ATTTTTTTTCTAAGTTAGCTGATTTACTATCGCTATTCCAAACATCTAGCTGATTTAATGTC
66 AACA--ATCTCTCTAAGTTAGTTGATTTACTATCGCTACTCCAAACAACTAGCTGATTTAATATC
869224 AG-
129 -GC
* *
869226 AGTTGATATTATTAAGGCTCGCTGATTTAATATCACAACCTAAGTTCATTTGATTTACTATCACG
1 AGTTGATATTATTAAGGCTCGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTACTATCATG
* *
869291 AACAATCATCTCTGAGTTAGTTGATTTACTATCGCTACTCCAAACAGCTAGCTGATTTAATATCG
66 AACAATC-TCTCTAAGTTAGTTGATTTACTATCGCTACTCCAAACAACTAGCTGATTTAATATCG
869356 C
130 C
* * *
869357 AGTTGATATTATTAGGGCTCGTTGATTTACGATCACAACCTAAGTTCATTTGATTTACTATCATG
1 AGTTGATATTATTAAGGCTCGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTACTATCATG
* * * * * *
869422 AGCAATCTCCTCTAAGTTAATTGATTT-CT-TGCCACTACTCTAAACAACTAGTTAATTTAATAT
66 AACAATCT-CTCTAAGTTAGTTGATTTACTAT--CGCTACTCCAAACAACTAGCTGATTTAATAT
869485 CGC
128 CGC
* * ** * * * * *
869488 AATTGATATTATTAAGTCTCATTGATTTATGATCACAGCCTAAGTTTA-TTGATTTACGATCCTG
1 AGTTGATATTATTAAGGCTCGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTACTATCATG
869552 AA
66 AA
869554 TAATATTTCT
Statistics
Matches: 283, Mismatches: 39, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
129 1 0.00
130 20 0.07
131 261 0.92
132 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (130 bp):
AGTTGATATTATTAAGGCTCGCTGATTTAAGATCACAACCTAAGTTCATTTGATTTACTATCATG
AACAATCTCTCTAAGTTAGTTGATTTACTATCGCTACTCCAAACAACTAGCTGATTTAATATCGC
Found at i:874654 original size:21 final size:20
Alignment explanation
Indices: 874612--874654 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
874602 TAGATAAATA
* *
874612 TAATTAAAAGAA-AATTACG
1 TAATTAAAAGAATAAATAAG
874631 TAATTATAAAGAATAAATAAG
1 TAATTA-AAAGAATAAATAAG
874652 TAA
1 TAA
874655 ATAATAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (20 bp):
TAATTAAAAGAATAAATAAG
Found at i:875246 original size:89 final size:90
Alignment explanation
Indices: 875014--875251 Score: 284
Period size: 89 Copynumber: 2.6 Consensus size: 90
875004 AATTAAGTTT
* * *
875014 CTGCTTGTTTTTTTACACTCATTTGAGTACTTGAACTTTTAAAATGCATTAAAAAA-ACCCTCAA
1 CTGCTT-TTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCA-TAAAAAAGACCCTCAA
* *
875078 ATCTTTTCAAAAAAAGTAATTAAGCCC
64 ATCTTTTCAAAAAAAGCAATTAAGCAC
* * * * * *
875105 CT-ATTTTTTTTTTCACTCAATTAGGTACTTGAACTTTCAAAATACATCAAAAAGACCCTCCAA-
1 CTGCTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAT
*
875168 CTTTTTCGAAAAAAGCAATTAAGCAC
66 C-TTTTCAAAAAAAGCAATTAAGCAC
* ** *
875194 CTGCTTTTTTTTTCCACTCAATTGGGTACTTGAACTGCCAAAATGGATAAAAAAGACC
1 CTGCTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACC
875252 TTAAAAAAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
88 7 0.06
89 66 0.53
90 49 0.40
91 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (90 bp):
CTGCTTTTTTTTTACACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAT
CTTTTCAAAAAAAGCAATTAAGCAC
Found at i:875462 original size:18 final size:19
Alignment explanation
Indices: 875402--875462 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
875392 TACATTAAAA
* *
875402 TTTAATAATTTTTCTAATA
1 TTTAATTATTTTTCTAATT
* *
875421 TTT-ATTATTTTTATTATT
1 TTTAATTATTTTTCTAATT
*
875439 TATAATT-TTTTTCTAATT
1 TTTAATTATTTTTCTAATT
875457 TTTAAT
1 TTTAAT
875463 AAGAGTGGGG
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 27 0.82
19 6 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTAATTATTTTTCTAATT
Found at i:876562 original size:56 final size:57
Alignment explanation
Indices: 876500--876621 Score: 151
Period size: 56 Copynumber: 2.1 Consensus size: 57
876490 AATTGTTTTC
* * * *
876500 TTTATTTTATATAA-CATTTTATAAATTTTCATTTATATAATT-ATATATTTTAAAAAA
1 TTTATTTTAAATAATC-TTTTAT-AATTTTCATTTATATAATTCATACACTATAAAAAA
*
876557 -TTATTTTAAATAATTCTTTTATAATTTTTATTTATATAATTCATACACTATAAAAAA
1 TTTATTTTAAATAA-TCTTTTATAATTTTCATTTATATAATTCATACACTATAAAAAA
876614 TTTATTTT
1 TTTATTTT
876622 TGAAATTTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
56 30 0.54
57 18 0.32
58 8 0.14
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (57 bp):
TTTATTTTAAATAATCTTTTATAATTTTCATTTATATAATTCATACACTATAAAAAA
Found at i:881440 original size:22 final size:24
Alignment explanation
Indices: 881400--881443 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
881390 GTAAAGTATT
881400 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
881424 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
881444 AATATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:886698 original size:3 final size:3
Alignment explanation
Indices: 886692--886737 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
886682 TTTATTTAGT
886692 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
886738 NNNNNNNNNA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:886861 original size:47 final size:47
Alignment explanation
Indices: 886804--886894 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
886794 ACATACGAAT
886804 TTTTATTTAAATACTTATGTTTATGCTTTATAATATATATATATGTA
1 TTTTATTTAAATACTTATGTTTATGCTTTATAATATATATATATGTA
886851 TTTTATTTAAATACTTATGTTTATGCTTTATAATATATATATAT
1 TTTTATTTAAATACTTATGTTTATGCTTTATAATATATATATAT
886895 ACGTCTACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (47 bp):
TTTTATTTAAATACTTATGTTTATGCTTTATAATATATATATATGTA
Found at i:886880 original size:21 final size:22
Alignment explanation
Indices: 886809--886885 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 22
886799 CGAATTTTTA
886809 TTTA-AATACTTATGTTTATGC
1 TTTATAATACTTATGTTTATGC
*
886830 TTTATAATA-TATATATATGTAT--
1 TTTATAATACT-TATGT-T-TATGC
886852 TTTATTTAAATACTTATGTTTATGC
1 TTTA--T-AATACTTATGTTTATGC
886877 TTTATAATA
1 TTTATAATA
886886 TATATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
21 5 0.11
22 16 0.36
23 5 0.11
24 5 0.11
25 12 0.27
26 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTATAATACTTATGTTTATGC
Found at i:886990 original size:14 final size:14
Alignment explanation
Indices: 886971--886998 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
886961 TCATATATAC
886971 ATACGTGTTTTTAT
1 ATACGTGTTTTTAT
886985 ATACGTGTTTTTAT
1 ATACGTGTTTTTAT
886999 TACATATAAA
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:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (14 bp):
ATACGTGTTTTTAT
Found at i:890505 original size:14 final size:16
Alignment explanation
Indices: 890486--890517 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
890476 AACGTCTCTT
890486 TTTGCATT-CA-TGCA
1 TTTGCATTACATTGCA
890500 TTTGCATTACATTGCA
1 TTTGCATTACATTGCA
890516 TT
1 TT
890518 ATATGCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (16 bp):
TTTGCATTACATTGCA
Found at i:891687 original size:9 final size:9
Alignment explanation
Indices: 891669--891707 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
891659 TGGAAGATCT
*
891669 AAAATTAAA
1 AAAATCAAA
891678 AAAATCAAA
1 AAAATCAAA
891687 AAAATCAAAA
1 AAAATC-AAA
891697 AAAATCAAA
1 AAAATCAAA
891706 AA
1 AA
891708 TTAAAGTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.79, C:0.08, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAATCAAA
Found at i:891690 original size:10 final size:10
Alignment explanation
Indices: 891675--891707 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
891665 ATCTAAAATT
891675 AAAAAAATC-
1 AAAAAAATCA
891684 AAAAAAATCA
1 AAAAAAATCA
891694 AAAAAAATCA
1 AAAAAAATCA
891704 AAAA
1 AAAA
891708 TTAAAGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:891766 original size:18 final size:19
Alignment explanation
Indices: 891716--891761 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
891706 AATTAAAGTC
*
891716 AAAATAGAAAAA-A-AAGA
1 AAAATAAAAAAAGAGAAGA
891733 AAAATAAAAAAAGAGAAGA
1 AAAATAAAAAAAGAGAAGA
*
891752 AAAAGAAAAA
1 AAAATAAAAA
891762 GGAGAGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 1 0.04
19 13 0.52
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (19 bp):
AAAATAAAAAAAGAGAAGA
Found at i:892946 original size:6 final size:6
Alignment explanation
Indices: 892897--892981 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
892887 CAATGAGTTC
* * * *
892897 AAAA-A AAAA-A AAAAGA GAAAG- AGAAGA GAAAGA AAGGAAAA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA--AAGA AAAAGA
*
892944 AAAAAA GAAAAGA AAAAGAA AAAAGAA AAAAGA AAAAG
1 AAAAGA -AAAAGA AAAAG-A AAAAG-A AAAAGA AAAAG
892982 GAGAAGCCAG
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
5 12 0.19
6 29 0.45
7 18 0.28
8 5 0.08
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:892951 original size:33 final size:32
Alignment explanation
Indices: 892897--892980 Score: 98
Period size: 33 Copynumber: 2.6 Consensus size: 32
892887 CAATGAGTTC
* * *
892897 AAAAAAAAAAAA-AAGAGAAAGAGAAGAGAAAG
1 AAAAAAAAAAAAGAA-AAAAAGAAAAGAAAAAG
*
892929 AAAGGAAAAAAAAGAAAAAAAGAAAAGAAAAAG
1 AAA-AAAAAAAAAGAAAAAAAGAAAAGAAAAAG
892962 AAAAAAGAAAAAAGAAAAA
1 AAAAAA-AAAAAAGAAAAA
892981 GGAGAAGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
32 5 0.11
33 37 0.84
34 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (32 bp):
AAAAAAAAAAAAGAAAAAAAGAAAAGAAAAAG
Found at i:892979 original size:5 final size:5
Alignment explanation
Indices: 892897--892979 Score: 59
Period size: 5 Copynumber: 16.8 Consensus size: 5
892887 CAATGAGTTC
* * * *
892897 AAAAA AAAAA AAAAG AGAAAG AGAAG AGAAAG AAAGG AAAA- AAAAG -AAA-
1 AAAAG AAAAG AAAAG A-AAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG
892946 AAAAG AAAAG AAAAAG AAAA- AAGAA- AAAAG AAAA
1 AAAAG AAAAG -AAAAG AAAAG AA-AAG AAAAG AAAA
892980 AGGAGAAGCC
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
4 14 0.22
5 37 0.57
6 14 0.22
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:893148 original size:43 final size:41
Alignment explanation
Indices: 893057--893169 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 41
893047 GAAAAGGGCG
* * *
893057 GCTCAAATTTTTGATCATAA-TGGGACATTAGGTGATCAGAGC
1 GCTCAAA-TTTTGATCA-AATTGGGGCATGAGGCGATCAGAGC
893099 GACTCAAATTTTGGATCAAATTGGGGCATGGAGGCGATC-GAGC
1 G-CTCAAATTTT-GATCAAATTGGGGCAT-GAGGCGATCAGAGC
* *
893142 AGCTCAAATTTTGATCAGATCGGGGCAT
1 -GCTCAAATTTTGATCAAATTGGGGCAT
893170 ATGGTGATCT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
42 21 0.34
43 32 0.52
44 8 0.13
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (41 bp):
GCTCAAATTTTGATCAAATTGGGGCATGAGGCGATCAGAGC
Found at i:894395 original size:50 final size:50
Alignment explanation
Indices: 894341--895013 Score: 593
Period size: 50 Copynumber: 13.6 Consensus size: 50
894331 GCAATTCAAA
* *
894341 AGATTGAAGCCACAACTGTGAATCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
* * * * * **** *
894391 AGATTGAAGCCACAACGGTGAATTTTACTTC-CTGAC-ATTACAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGA-TGCAGCGGAAC
894440 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
* * * ****
894490 AGATTTAAGCCACAACAGCGAATCTTACTTCCTC-GAC-ATTGCAATTCAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTT-CTCAGGCGA-TGCAGCGGAAC
*
894540 AGATTGAAGCCACAACGGTGAATCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
* * * * **** *
894590 AGATTGAAGCCACAACGGTGAATCTTACTTCCCCGAC-ATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGA-TGCAGCGGAAC
* * * *
894640 AAATTAAAGCCACTACGACGAATCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
* **** *
894690 AGATTGAAGCCACAACGGCGAATCTTACTTC-C---CCATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGA-TGCAGCGGAAC
* * * * * * *
894737 AGATCGAAGCCACGACGGTGAATCTTACTT-TTAGGCGATACAGCAGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
* * * * * * ** *
894786 AGATTGAAGCTACAACGGCGAGTCTCACTTC-C---CCATTGTAACTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGA-TGCAGCGGAAC
894833 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
* * * * ****
894883 AGATTGAAGCCACAACGGCGAATTTTACTTCCCCGAC-ATTGCAATTCAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGA-TGCAGCGGAAC
* *
894933 AGATTGAAGCCACAACGGTGAGTCTTACTTCTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
894983 AGATTGAAGCCACAACGGCGAATCTTACTTC
1 AGATTGAAGCCACAACGGCGAATCTTACTTC
895014 CCCATTGCAA
Statistics
Matches: 481, Mismatches: 120, Indels: 44
0.75 0.19 0.07
Matches are distributed among these distances:
46 4 0.01
47 66 0.14
48 2 0.00
49 73 0.15
50 327 0.68
51 9 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCTCAGGCGATGCAGCGGAAC
Found at i:894581 original size:100 final size:100
Alignment explanation
Indices: 894297--896441 Score: 1977
Period size: 100 Copynumber: 21.8 Consensus size: 100
894287 NNNNNNNNNN
* * * *
894297 AAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACTGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
894362 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * * *
894397 AAGCCACAACGGTGAATTTTACTT-CCTGACATTACAATTCAAAAGATTGAAGCCACAACGGCGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
*
894461 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTT
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * * *
894496 AAGCCACAACAGCGAATCTTACTTCCTCGACATTGCAATTCAACAGATTGAAGCCACAACGGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
894561 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * * * *
894596 AAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAATTCAAAAAATTAAAGCCACTACGACGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
894661 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * * *
894696 AAGCCACAACGGCGAATCTTACTT-CCC--CATTGCAATTTAAAAGATCGAAGCCACGACGGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* * * *
894758 ATCTTACTT-TTAGGCGATACAGCAGAATAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * *
894792 AAGCTACAACGGCGAGTCTCACTT-CCC--CATTGTAACTCAAAAGATTGAAGCCACAACGGCGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
894854 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * *
894889 AAGCCACAACGGCGAATTTTACTTCCCCGACATTGCAATTCAACAGATTGAAGCCACAACGGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
*
894954 GTCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * * *
894989 AAGCCACAACGGCGAATCTTACTT-CCC--CATTGCAATTTAACAGATCGAAGCCACGACGGNNN
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGG---
********************************
895051 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGATTG
63 ----CGAATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * *
895093 AAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGTCACAACGGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
**
895158 ATCTTACTTC-CTAGGCGATGCAATGGAACAGATTG
66 ATCTTACTTCTC-AGGCGATGCAGCGGAACAGATTG
* * * * * *
895193 AAGCTACGACAGCGAATCTCACTTCCCTGACATTGCAATTTAAAAGATTGAAGCCACAACGGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* *
895258 ATCTTACTTCCCAGGCGATGCAGCAGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * ** * *
895293 AAGCTACGACAGCGAATCTCGCTTCCCCGACATTGTAATTCAAAAGATTGAAGCCACAACGGCAA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* *
895358 ATCTTACTTC-CA---GATTACAGTGGAACAGATTG
66 ATCTTACTTCTCAGGCGA-TGCAGCGGAACAGATTG
* * * * * * *
895390 AAGCTACAACAGCGGATCTTGCTTCCCCG-----GCAGTTAAAAAGATTGAAGCTACAACAGCGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* * * *
895450 ATATTACTT-TCCTA-GCGTTGCAGTGGAATAGATTG
66 ATCTTACTTCT-C-AGGCGATGCAGCGGAACAGATTG
* *
895485 AAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGTGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* *
895550 ATCTTACTTC-CTAGACGATGCAGTGGAACAGATTG
66 ATCTTACTTCTC-AGGCGATGCAGCGGAACAGATTG
* * *
895585 AAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* *
895650 ATCTTACTTCCCAGGTGATGCAGCGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * ** *
895685 AAGCTACGACAGCGAATCTCGCTTCCCCGACATTGTAATTCAAAAGATTGAAGCCACAACGGCGA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* * *
895750 ATCTTACTTC-CA---GATTACAGTGGAATAGATTG
66 ATCTTACTTCTCAGGCGA-TGCAGCGGAACAGATTG
* * * * *
895782 AAGCTACAACAGC-AGATCTTGCTTCCCCG-----GCAGTTAAAAAGATTGAAG-C-TAACGGCG
1 AAGCTACAACGGCGA-ATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCG
* *
895839 AATCTTACTTC-CA---GATTGCAGTGGAATAGATTG
65 AATCTTACTTCTCAGGCGA-TGCAGCGGAACAGATTG
* * * * * * *
895872 AAGCTACAACAGC-AGATCTTGCTTCCCCG-----GCAGTTAAAAAGATTGAAGCTACAACAGTG
1 AAGCTACAACGGCGA-ATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCG
* * *
895931 GATCTTACTT-TCCTA-GCGTTGCAGTGGAACAGATTG
65 AATCTTACTTCT-C-AGGCGATGCAGCGGAACAGATTG
* * * * * * *
895967 AAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGG
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* * * *
896032 ATCTTACTT-TCCTA-GCGGTGCAGCGGAATATAGTG
66 ATCTTACTTCT-C-AGGCGATGCAGCGGAACAGATTG
* * * * *
896067 AAGCTACAACGGCGGATCTCACTTCCCCGACATTGCAACTCAAAAGATTGAAGCCACAATGGCAA
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
* * *
896132 ATCTTACTTCCCAAGCGATGCAGTGGAACAGATTG
66 ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * *
896167 AAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAA-TCTAAAAGATTGAGGCCACAACGGCG
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTC-AAAAGATTGAAGCCACAACGGCG
* *
896231 GATCTTACTTC-CAAGCGATGCAGCGGAACAGATTG
65 AATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
* * * * *
896266 AAGCTACAACGGCGAATCTCACTTCCCCGACATTACAATTTAAAAAAGATTGAGGCCACAACGGT
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAA-TT-CAAAAGATTGAAGCCACAACGGC
* * * * * *
896331 GGATCTTACTTC-CAAGCGATGCAGTGAAACATATTA
64 GAATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
** * * *** * * * * * *
896367 AAGCTATGACAGTGAATCTCGTTTTCCCGAAATTGTAAGT-AAATAGATTGAAGCCACGACGACG
1 AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAA-AGATTGAAGCCACAACGGCG
896431 AATCTTACTTC
65 AATCTTACTTC
896442 CTGAAATTGC
Statistics
Matches: 1729, Mismatches: 263, Indels: 107
0.82 0.13 0.05
Matches are distributed among these distances:
90 87 0.05
91 1 0.00
92 63 0.04
93 2 0.00
94 2 0.00
95 81 0.05
96 90 0.05
97 186 0.11
98 6 0.00
99 191 0.11
100 876 0.51
101 84 0.05
104 30 0.02
105 3 0.00
107 27 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.22
Consensus pattern (100 bp):
AAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGGCGA
ATCTTACTTCTCAGGCGATGCAGCGGAACAGATTG
Found at i:895162 original size:50 final size:50
Alignment explanation
Indices: 895087--896343 Score: 787
Period size: 50 Copynumber: 25.6 Consensus size: 50
895077 NNNNNNNNNN
* * *
895087 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* ** * * * *
895137 AGATTGAAG-TCACAACGGTGAATCTTACTTCCTAGGCGA-TGCAATGGAAC
1 AGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTGAAA
* * * * * *
895187 AGATTGAAGCTACGACAGCGAATCTCACTTCCCTGACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * ** *
895237 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGA-TGCAGCAGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTGAAA
* * ** * * *
895287 AGATTGAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGTAATTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * * *
895337 AGATTGAAGCCACAACGGCAAATCTTACTT--CC-AGATTACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * *
895384 AGATTGAAGCTACAACAGCGGATCTTGCTTCCCCG-----GCAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * * * *
895429 AGATTGAAGCTACAACAGCGAATATTACTT-TCCTAGCGTTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGTTGAAA
* * *
895479 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * ** * *
895529 AGATTGAAGCCACAACGGTGAATCTTACTTCCTAGACGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTGAAA
* * * * *
895579 AGATTGAAGCTACAACAGCGAATCTCACTTCCCTGACATTGCAATTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * ** ** *
895629 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGTGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCC-CGACATTGCAGTTGAAA
* * ** * * *
895679 AGATTGAAGCTACGACAGCGAATCTCGCTTCCCCGACATTGTAATTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * *
895729 AGATTGAAGCCACAACGGCGAATCTTACTT--CC-AGATTACAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * *
895776 AGATTGAAGCTACAACAGC-AGATCTTGCTTCCCCG-----GCAGTTAAAA
1 AGATTGAAGCTACAACGGCGA-ATCTTACTTCCCCGACATTGCAGTTGAAA
* * *
895821 AGATTGAAGCT--AACGGCGAATCTTACTT--CC-AGATTGCAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * *
895866 AGATTGAAGCTACAACAGC-AGATCTTGCTTCCCCG-----GCAGTTAAAA
1 AGATTGAAGCTACAACGGCGA-ATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * * * * *
895911 AGATTGAAGCTACAACAGTGGATCTTACTT-TCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGTTGAAA
* * * * *
895961 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * ** ** *
896011 AGATTGAAGCTACAACAGCGGATCTTACTT-TCCTAGCGGTGCAGCGGAAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGTTGAAA
* * * * ** *
896061 ATAGTGAAGCTACAACGGCGGATCTCACTTCCCCGACATTGCAACTCAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
* * * * * *
896111 AGATTGAAGCCACAATGGCAAATCTTACTT-CCCAAGCGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-C-ATTGCAGTTGAAA
* * * *
896161 AGATTGAAGCTACGACGGTGAATCTCACTTCCCCGACATTGCAATCT-AAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGT-TGAAA
* * * ** ** *
896211 AGATTGAGGCCACAACGGCGGATCTTACTTCCAAG-CGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTGAAA
* * * *
896260 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTACAATTTAAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTT-GAAA
* * * *
896312 AGATTGAGGCCACAACGGTGGATCTTACTTCC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCC
896344 AAGCGATGCA
Statistics
Matches: 904, Mismatches: 246, Indels: 112
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.00
43 13 0.01
44 5 0.01
45 101 0.11
46 2 0.00
47 79 0.09
48 4 0.00
49 55 0.06
50 594 0.66
51 20 0.02
52 29 0.03
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTTGAAA
Found at i:896781 original size:44 final size:44
Alignment explanation
Indices: 896665--896782 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 44
896655 CCACGAAGAG
*
896665 TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
896709 TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
* ** *
896753 TGATGAATCCTATACT-TCTGAAGTTGCAGT
1 TCACAAATCCTAT-CTCCCTGAAGTTGCAGT
896783 AGGTCAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
44 66 0.97
45 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
TCACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
Found at i:900051 original size:14 final size:14
Alignment explanation
Indices: 900032--900058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
900022 AAGAAATCGA
900032 TACATATATCATTC
1 TACATATATCATTC
900046 TACATATATCATT
1 TACATATATCATT
900059 AGGTTTGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (14 bp):
TACATATATCATTC
Found at i:901997 original size:31 final size:30
Alignment explanation
Indices: 901914--901999 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 30
901904 CAATCTCAAT
901914 TAATTAGGTGACCAAATTAAAAAATTG-ACA
1 TAATTAGGTGACCAAATTAAAAAA-TGAACA
* *
901944 -AA-TGGGTGACCAAA-AAAGAAAATGAACAA
1 TAATTAGGTGACCAAATTAA-AAAATGAAC-A
*
901973 TAATTACGTGACCAAATTAAAAAATGA
1 TAATTAGGTGACCAAATTAAAAAATGA
902000 TAGTTGGATG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
27 4 0.09
28 17 0.38
29 3 0.07
30 2 0.04
31 17 0.38
32 2 0.04
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.21
Consensus pattern (30 bp):
TAATTAGGTGACCAAATTAAAAAATGAACA
Done.