Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 142 of 345
Found at i:38614366 original size:24 final size:26
Alignment explanation
Indices: 38614339--38614388 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
38614329 CTAAGTAACC
*
38614339 TATA-AAAA-TGTAAAATGGATAATA
1 TATACAAAAGTGTAAAATAGATAATA
*
38614363 TATACAAAAGTTTAAAATAGATAATA
1 TATACAAAAGTGTAAAATAGATAATA
38614389 GATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 4 0.18
26 14 0.64
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (26 bp):
TATACAAAAGTGTAAAATAGATAATA
Found at i:38614502 original size:25 final size:24
Alignment explanation
Indices: 38614474--38614540 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
38614464 TTAGACTAAC
38614474 TAATATATATAAAGTTTAAAATAGA
1 TAATATATATAAAGTTTAAAATA-A
**
38614499 TAATATATATAATAACTTAAAATAA
1 TAATATATATAA-AGTTTAAAATAA
38614524 T-ATATA-AT-AAGTTTAAA
1 TAATATATATAAAGTTTAAA
38614541 TAAACAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
21 6 0.16
22 1 0.03
23 2 0.05
24 5 0.14
25 14 0.38
26 9 0.24
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (24 bp):
TAATATATATAAAGTTTAAAATAA
Found at i:38614528 original size:20 final size:20
Alignment explanation
Indices: 38614503--38614543 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
38614493 AATAGATAAT
38614503 ATATATAATAACTTAAAATA
1 ATATATAATAACTTAAAATA
* *
38614523 ATATATAATAAGTTTAAATA
1 ATATATAATAACTTAAAATA
38614543 A
1 A
38614544 ACAATGTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATATAATAACTTAAAATA
Found at i:38615487 original size:8 final size:7
Alignment explanation
Indices: 38615467--38615496 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
38615457 TTGGTTTTAT
38615467 AAATAAA
1 AAATAAA
38615474 AAATAAA
1 AAATAAA
38615481 AAGATAAA
1 AA-ATAAA
38615489 AAATAAA
1 AAATAAA
38615496 A
1 A
38615497 TGAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:38617234 original size:16 final size:16
Alignment explanation
Indices: 38617209--38617239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38617199 ACGACTAATT
*
38617209 AATTTTTAAAATTTAA
1 AATTTATAAAATTTAA
38617225 AATTTATAAAATTTA
1 AATTTATAAAATTTA
38617240 TTAAAAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTATAAAATTTAA
Found at i:38618071 original size:15 final size:15
Alignment explanation
Indices: 38618051--38618080 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38618041 AATTATAATC
*
38618051 AAATAAATAATTAAA
1 AAATAAAAAATTAAA
38618066 AAATAAAAAATTAAA
1 AAATAAAAAATTAAA
38618081 GAGATCTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAAAATTAAA
Found at i:38619114 original size:23 final size:22
Alignment explanation
Indices: 38619076--38619138 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
38619066 TCGAAAATTT
*
38619076 AAAATATTTATAAAATATTTTTTCC
1 AAAAT-TTTAT-AAATATTTATT-C
*
38619101 AAAATTTTATAAATATATATTC
1 AAAATTTTATAAATATTTATTC
38619123 AAAATTTTA-AAATATT
1 AAAATTTTATAAATATT
38619139 AAAAATTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.17
22 10 0.29
23 9 0.26
24 5 0.14
25 5 0.14
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
AAAATTTTATAAATATTTATTC
Found at i:38619871 original size:19 final size:20
Alignment explanation
Indices: 38619823--38619877 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
38619813 CAAGATATTC
* *
38619823 TTATAAACTTTGGTATTTGA
1 TTATAAATTTTGGTATTAGA
* *
38619843 TTAGAAATTTTTGTATTAG-
1 TTATAAATTTTGGTATTAGA
38619862 TTATAAATTTTGGTAT
1 TTATAAATTTTGGTAT
38619878 ATCAAAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.53
Consensus pattern (20 bp):
TTATAAATTTTGGTATTAGA
Found at i:38624447 original size:28 final size:28
Alignment explanation
Indices: 38624416--38624493 Score: 129
Period size: 28 Copynumber: 2.8 Consensus size: 28
38624406 TATGTCTCTT
*
38624416 ACACGGCCATGACACGCCTGTGCCCCTC
1 ACACAGCCATGACACGCCTGTGCCCCTC
* *
38624444 ACACAGTCATGACACGCCCGTGCCCCTC
1 ACACAGCCATGACACGCCTGTGCCCCTC
38624472 ACACAGCCATGACACGCCTGTG
1 ACACAGCCATGACACGCCTGTG
38624494 TCCTAATCTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.22, C:0.44, G:0.21, T:0.14
Consensus pattern (28 bp):
ACACAGCCATGACACGCCTGTGCCCCTC
Found at i:38634774 original size:49 final size:49
Alignment explanation
Indices: 38634700--38634961 Score: 236
Period size: 49 Copynumber: 5.4 Consensus size: 49
38634690 TAAAGTCCCG
* * *
38634700 TGTCCCAGATAGGTCTTACATTGACTTTCATATATCGAGGCTGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGCCA
* * * *
38634749 TGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGTCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGCCA
* * *
38634798 TGTCCCAGACAGGTCATACACTGGCTCTCATCTATCG-GTG-TCGATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCT-GATGCCA
* * * * * *
38634847 TGTCCCAAATAGGCCTTACACTGGCTCTCATCTATC-AGTG-TCAATGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCT-GATGCCA
* * * * *
38634896 TGCCCCAGATAGGTCTTACACTGACACACA-ATA---A-GCTGACGCCA
1 TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGCCA
38634940 TGTCCCAGACAGGTCTTACACT
1 TGTCCCAGACAGGTCTTACACT
38634962 AGCTTGTATA
Statistics
Matches: 181, Mismatches: 28, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
44 26 0.14
45 1 0.01
46 1 0.01
48 3 0.02
49 150 0.83
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCTGATGCCA
Found at i:38635048 original size:46 final size:48
Alignment explanation
Indices: 38634938--38635054 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 48
38634928 AAGCTGACGC
* * *
38634938 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCAAAGCCGATG
1 CATGTCCCAGACATGTCTTACACCAGCTTCTATATCCCAAAGCCGATG
* * * *
38634986 CATGTCCCAGATATGTCTTACACCAGC-TCT-TGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACCAGCTTCTATATCCCAAAGCCGATG
*
38635032 CATGTCCTAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
38635055 TGGCACTCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 34 0.57
47 2 0.03
48 24 0.40
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACCAGCTTCTATATCCCAAAGCCGATG
Found at i:38639573 original size:27 final size:28
Alignment explanation
Indices: 38639517--38639586 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
38639507 AAATTTGTAC
38639517 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38639545 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38639572 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38639587 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38647497 original size:27 final size:28
Alignment explanation
Indices: 38647441--38647510 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
38647431 AAATTTGTAC
38647441 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38647469 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38647496 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38647511 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38653660 original size:49 final size:49
Alignment explanation
Indices: 38653596--38653724 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 49
38653586 ATTAAAGTCG
* * * *
38653596 ATGCCGTGTTCCAGACTGGTCTTACACTGACTTTCATATATCGAG-GTCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGTCA
* * * *
38653645 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGTCA
*
38653694 ATGTCATGTCCCAGACAGGTCTTACACTGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC
38653725 ACACAACAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGTCA
Found at i:38653715 original size:98 final size:97
Alignment explanation
Indices: 38653546--38653724 Score: 234
Period size: 98 Copynumber: 1.8 Consensus size: 97
38653536 GATAAAATGC
* *
38653546 CAATGCCATGTCCCAAACATAGTCTTACACTGGCTAGCACATTAAAGTCGATGCCGTGTTCCAGA
1 CAATGCCATGTCCCAAACATAGTCTTACACTGGCTAGCACATTAAAGTCGATGCCATGTCCCAGA
*
38653611 CTGGTCTTACACTGACTTTCATATATCGAGGT
66 CAGGTCTTACACTGACTTTCATATATCGAGGT
* * ** *** *
38653643 CAATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATTGGTGTCGATGTCATGTCCCA
1 CAATGCCATGTCCCAAACATAGTCTTACACTGGCTAGCA-C-ATTAAAGTCGATGCCATGTCCCA
38653707 GACAGGTCTTACACTGAC
64 GACAGGTCTTACACTGAC
38653725 ACACAACAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
96 16 0.23
97 19 0.28
98 34 0.49
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (97 bp):
CAATGCCATGTCCCAAACATAGTCTTACACTGGCTAGCACATTAAAGTCGATGCCATGTCCCAGA
CAGGTCTTACACTGACTTTCATATATCGAGGT
Found at i:38653844 original size:46 final size:47
Alignment explanation
Indices: 38653786--38653905 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 47
38653776 TCCTGAGGTT
* **
38653786 GATGCATGTCCCAGACATGTT-TTATACTAGCTTTCGTC-TCAAT-GCC
1 GATGCATGTCCCAGACATGTTCTTACACTAGCACTCGTCAT--ATGGCC
* * *
38653832 GATGCATGTCCCAAACAT-TTCTTACACTAGCACTCGTGATGTGGCC
1 GATGCATGTCCCAGACATGTTCTTACACTAGCACTCGTCATATGGCC
38653878 GATGCATGTCCCAGACATG-TCTTACACT
1 GATGCATGTCCCAGACATGTTCTTACACT
38653906 GGCTCATATT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
45 3 0.05
46 59 0.94
47 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTTCTTACACTAGCACTCGTCATATGGCC
Found at i:38655383 original size:41 final size:41
Alignment explanation
Indices: 38655323--38655504 Score: 174
Period size: 41 Copynumber: 4.5 Consensus size: 41
38655313 AATTATTTAC
* * * *
38655323 TGAATTGCATATACGTGCCCCTATTTGTACTTTGGTACCCT
1 TGAATTGCACATACATGCCCCTATTTATACTTTGATACCCT
38655364 TGAATTGCACATACATGCCCCTATTTAT-CTTTGATATCCC-
1 TGAATTGCACATACATGCCCCTATTTATACTTTGATA-CCCT
* * * *
38655404 TAAATT--ACATACATGTGCCCCTGTTTATACTTCGATACCCC
1 TGAATTGCACATACA--TGCCCCTATTTATACTTTGATACCCT
** * * **
38655445 TGAATTGCACATATGTGCCCCTGTTTGTACTTTGATAATCT
1 TGAATTGCACATACATGCCCCTATTTATACTTTGATACCCT
*
38655486 TGAATTGCACCTACATGCC
1 TGAATTGCACATACATGCC
38655505 TCTGTTTACA
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
38 7 0.06
40 27 0.23
41 77 0.66
43 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTATTTATACTTTGATACCCT
Found at i:38657828 original size:40 final size:39
Alignment explanation
Indices: 38657800--38657947 Score: 226
Period size: 40 Copynumber: 3.7 Consensus size: 39
38657790 TTGGTGATTT
38657800 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTC
38657840 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
38657880 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
*
38657920 GCACAAATGCCTTCGGGACTTAGCCCGG
1 GCAC-AATGCCTTCGGGTCTTAGCCCGG
38657948 GTATCATTCA
Statistics
Matches: 103, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
40 100 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:38665901 original size:40 final size:40
Alignment explanation
Indices: 38665857--38665957 Score: 202
Period size: 40 Copynumber: 2.5 Consensus size: 40
38665847 TTTGCACAAT
38665857 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
38665897 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
38665937 TGCCTTCGGGTCTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
38665958 GTATCATTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
Found at i:38671918 original size:61 final size:61
Alignment explanation
Indices: 38671823--38671945 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
38671813 AAAACTAAGA
*
38671823 TTGATTTGATGAGTTTTCTTACTCCAAGAATTCGATATGGTGATTTAGGATAGGAAAGGGG
1 TTGATTCGATGAGTTTTCTTACTCCAAGAATTCGATATGGTGATTTAGGATAGGAAAGGGG
38671884 TTGATTCGATGAGTTTTCTTACTCCAAGAATTCGATATGGTGATTTAGGATAGGAAAGGGG
1 TTGATTCGATGAGTTTTCTTACTCCAAGAATTCGATATGGTGATTTAGGATAGGAAAGGGG
38671945 T
1 T
38671946 AGAGAATCAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.36
Consensus pattern (61 bp):
TTGATTCGATGAGTTTTCTTACTCCAAGAATTCGATATGGTGATTTAGGATAGGAAAGGGG
Found at i:38674508 original size:40 final size:40
Alignment explanation
Indices: 38674459--38674666 Score: 244
Period size: 40 Copynumber: 5.2 Consensus size: 40
38674449 CAGAATTTAA
* *
38674459 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38674499 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38674539 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38674578 CCGGA-ATTAGTAACTCGTACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38674618 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38674659 CCGGATAT
1 CCGGATAT
38674667 CATTCGAATA
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.22
40 79 0.55
41 27 0.19
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38674594 original size:79 final size:79
Alignment explanation
Indices: 38674455--38674663 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
38674445 CCTTCAGAAT
* * * *
38674455 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTGACTCGCAC
1 TTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCAC
38674519 AAATGCCTTCGGGA-C
65 AAATGCCTTC-GGATC
* * *
38674534 TTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGTA
1 TTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
38674597 CAAATGCCTTCGGATC
64 CAAATGCCTTCGGATC
* * *
38674613 TTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
38674664 TATCATTCGA
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.46
80 45 0.41
81 11 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACA
AATGCCTTCGGATC
Found at i:38677855 original size:77 final size:79
Alignment explanation
Indices: 38677682--38677901 Score: 272
Period size: 77 Copynumber: 2.8 Consensus size: 79
38677672 TCGAATGATG
* * * *
38677682 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC-GACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
38677745 CATGCGAGTTACTAAA
65 -AGGCGAGTTACTAAA
*
38677761 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
38677823 T-GGCGAGTTACTAAA
64 TAGGCGAGTTACTAAA
* * * *
38677838 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
38677902 TGAACGAGTA
Statistics
Matches: 124, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
76 1 0.01
77 56 0.45
78 14 0.11
79 39 0.31
80 14 0.11
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTA
GGCGAGTTACTAAA
Found at i:38677895 original size:117 final size:119
Alignment explanation
Indices: 38677682--38677903 Score: 276
Period size: 117 Copynumber: 1.9 Consensus size: 119
38677672 TCGAATGATG
* *
38677682 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGACTAAGATCCGAAGGCATTCA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTCA
38677747 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
38677801 TCCGGGCTAAG-CCCGAAGGCATTG-GC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCC-GACTAAGAT-CCGAAGGCATT
** * *
38677862 TGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 CATGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
38677904 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
116 13 0.15
117 51 0.57
118 14 0.16
119 11 0.12
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAATCCGACTAAGATCCGAAGGCATTCA
TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:38677910 original size:40 final size:40
Alignment explanation
Indices: 38677682--38677903 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
38677672 TCGAATGATG
* * *
38677682 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
38677722 TCC-GACTAAGAT-CCGAAGGCATTCATGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38677761 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
38677801 TCCGGGCTAAG-CCCGAAGGCA-TTG-GCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38677838 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38677879 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38677904 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 14, Indels: 16
0.84 0.07 0.08
Matches are distributed among these distances:
37 22 0.14
38 13 0.08
39 37 0.23
40 86 0.54
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38683693 original size:28 final size:27
Alignment explanation
Indices: 38683628--38683697 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
38683618 TGCTCGATCA
* * *
38683628 CGCACACTTAGTGCCATATATTCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
38683655 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
38683683 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38683698 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:38685069 original size:18 final size:18
Alignment explanation
Indices: 38685037--38685074 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
38685027 TCCACACCCA
38685037 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
38685057 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
38685074 T
1 T
38685075 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:38689485 original size:79 final size:81
Alignment explanation
Indices: 38689351--38689568 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 81
38689341 GAATCACATA
* * *
38689351 CCTTCGGAAT-TTAA-CCGGATATAGCT-AC-T-GCTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT
38689410 ATAGTAACTCGCACAAATG
64 -TAGTAACTCGCACAAATG
* * *
38689429 CCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCGGAATT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATT
38689491 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
38689508 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGA
38689569 TATCATTCGA
Statistics
Matches: 119, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 14 0.12
79 62 0.52
80 32 0.27
81 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
GTAACTCGCACAAATG
Found at i:38689497 original size:39 final size:41
Alignment explanation
Indices: 38689383--38689568 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
38689373 AGCTACTGCT
* *
38689383 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
38689423 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
38689463 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
38689502 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
38689543 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38689569 TATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 66 0.52
41 23 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:38691905 original size:14 final size:15
Alignment explanation
Indices: 38691877--38691906 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38691867 TTATTATTAT
38691877 TATTATTTCCTTTCC
1 TATTATTTCCTTTCC
38691892 TATTATTT-CTTTCC
1 TATTATTTCCTTTCC
38691906 T
1 T
38691907 TTTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTTCCTTTCC
Found at i:38710684 original size:23 final size:23
Alignment explanation
Indices: 38710658--38710822 Score: 151
Period size: 23 Copynumber: 7.3 Consensus size: 23
38710648 TAATGTATAA
* * *
38710658 TAAGCTCTATTAAGCTAAAATGG
1 TAAGCTCTATCAAGCTGAAACGG
* **
38710681 TAAGCTCTATCAAGC-AAAACAA
1 TAAGCTCTATCAAGCTGAAACGG
* * *
38710703 TAAGCTCAAACGAGCTGAAACGG
1 TAAGCTCTATCAAGCTGAAACGG
* *
38710726 TAAGCTCTACCAAGCT--AACAG
1 TAAGCTCTATCAAGCTGAAACGG
*
38710747 TAAGCTC-ATACGAGCTGAAACGG
1 TAAGCTCTAT-CAAGCTGAAACGG
38710770 TAAGCTCTATCAAGCTGAAACGG
1 TAAGCTCTATCAAGCTGAAACGG
* *
38710793 TAAGCTC-ATACGAGCTGAAATGG
1 TAAGCTCTAT-CAAGCTGAAACGG
38710816 TAAGCTC
1 TAAGCTC
38710823 CAATGAGATA
Statistics
Matches: 116, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.01
21 16 0.14
22 18 0.16
23 79 0.68
24 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (23 bp):
TAAGCTCTATCAAGCTGAAACGG
Found at i:38710818 original size:46 final size:45
Alignment explanation
Indices: 38710670--38710822 Score: 218
Period size: 44 Copynumber: 3.4 Consensus size: 45
38710660 AGCTCTATTA
* * * * *
38710670 AGCTAAAATGGTAAGCTCTATCAAGCAAAACAATAAGCTCAAACG
1 AGCTGAAACGGTAAGCTCTATCAAGCTAAACAGTAAGCTCATACG
*
38710715 AGCTGAAACGGTAAGCTCTACCAAGCT-AACAGTAAGCTCATACG
1 AGCTGAAACGGTAAGCTCTATCAAGCTAAACAGTAAGCTCATACG
*
38710759 AGCTGAAACGGTAAGCTCTATCAAGCTGAAACGGTAAGCTCATACG
1 AGCTGAAACGGTAAGCTCTATCAAGCT-AAACAGTAAGCTCATACG
*
38710805 AGCTGAAATGGTAAGCTC
1 AGCTGAAACGGTAAGCTC
38710823 CAATGAGATA
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
44 41 0.42
45 23 0.24
46 33 0.34
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.19
Consensus pattern (45 bp):
AGCTGAAACGGTAAGCTCTATCAAGCTAAACAGTAAGCTCATACG
Found at i:38711242 original size:38 final size:38
Alignment explanation
Indices: 38711191--38711269 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
38711181 ATATCAAATT
38711191 AACTCATTCAAAATTTCATTCAATTCAATGTAGCCTAA
1 AACTCATTCAAAATTTCATTCAATTCAATGTAGCCTAA
*
38711229 AACTCATTCAAAATTTCATTCAATTCAATTTAGCCTAA
1 AACTCATTCAAAATTTCATTCAATTCAATGTAGCCTAA
38711267 AAC
1 AAC
38711270 ATTCATTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.34
Consensus pattern (38 bp):
AACTCATTCAAAATTTCATTCAATTCAATGTAGCCTAA
Found at i:38715472 original size:58 final size:57
Alignment explanation
Indices: 38715372--38715484 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
38715362 ATACATGCAT
* * *
38715372 ATGGCCCACTAGGCCCAATCTCATTCATATAGCCCATCAGGCCCAAATCATATTCGC
1 ATGGCCCACTAGGCCCAATCACATTCATAGAGCCCATCAGGCCCAAATCACATTCGC
* *
38715429 ATGGCCCATTAGGCCCAAATCACATTCATACGA-CCCATTAGGCCCAAATCACATTC
1 ATGGCCCACTAGGCCC-AATCACATTCATA-GAGCCCATCAGGCCCAAATCACATTC
38715485 ATATACATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 15 0.31
58 33 0.67
59 1 0.02
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (57 bp):
ATGGCCCACTAGGCCCAATCACATTCATAGAGCCCATCAGGCCCAAATCACATTCGC
Found at i:38715486 original size:29 final size:28
Alignment explanation
Indices: 38715376--38715487 Score: 120
Period size: 29 Copynumber: 3.9 Consensus size: 28
38715366 ATGCATATGG
* * *
38715376 CCCACTAGGCCC-AATCTCATTCATATA
1 CCCATTAGGCCCAAATCACATTCATAGA
* * *
38715403 GCCCATCAGGCCCAAATCATATTCGCAT-GG
1 -CCCATTAGGCCCAAATCACATT--CATAGA
38715433 CCCATTAGGCCCAAATCACATTCATACGA
1 CCCATTAGGCCCAAATCACATTCATA-GA
38715462 CCCATTAGGCCCAAATCACATTCATA
1 CCCATTAGGCCCAAATCACATTCATA
38715488 TACATGCTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.04
28 10 0.14
29 54 0.77
31 3 0.04
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.22
Consensus pattern (28 bp):
CCCATTAGGCCCAAATCACATTCATAGA
Found at i:38718642 original size:17 final size:18
Alignment explanation
Indices: 38718620--38718653 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38718610 CACATTGAAG
38718620 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
38718637 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
38718654 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:38719831 original size:29 final size:29
Alignment explanation
Indices: 38719764--38719917 Score: 195
Period size: 29 Copynumber: 5.3 Consensus size: 29
38719754 AAGTCTACAT
*
38719764 ACATGCATATGGCCCA-CTAGGCCC-AATC
1 ACATTCATATGGCCCATC-AGGCCCAAATC
*
38719792 TCATTCATATGGCCCATCAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* * *
38719821 ATATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* *
38719850 ACATTCATACGGCCCATAAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* * *
38719879 ACATTCATACGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
38719908 ACATTCATAT
1 ACATTCATAT
38719918 ACATGCTTTC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
28 20 0.18
29 91 0.82
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAAATC
Found at i:38719872 original size:58 final size:58
Alignment explanation
Indices: 38719764--38719916 Score: 218
Period size: 58 Copynumber: 2.7 Consensus size: 58
38719754 AAGTCTACAT
* * * * *
38719764 ACATGCATATGGCCCACTAGGCCC-AATCTCATTCATATGGCCCATCAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATCACATTCATACGGCCCATAAGGCCCAAATC
* *
38719821 ATATTCGTATGGCCCATTAGGCCCAAATCACATTCATACGGCCCATAAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATCACATTCATACGGCCCATAAGGCCCAAATC
* *
38719879 ACATTCATACGGCCTATTAGGCCCAAATCACATTCATA
1 ACATTCATATGGCCCATTAGGCCCAAATCACATTCATA
38719917 TACATGCTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 20 0.24
58 64 0.76
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (58 bp):
ACATTCATATGGCCCATTAGGCCCAAATCACATTCATACGGCCCATAAGGCCCAAATC
Found at i:38727536 original size:25 final size:25
Alignment explanation
Indices: 38727493--38727563 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
38727483 GAGGAAGTGC
*
38727493 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGC-TTTGCCCCAGTTTACCA
*
38727519 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38727544 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38727564 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 35 0.81
26 8 0.19
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38727576 original size:24 final size:24
Alignment explanation
Indices: 38727492--38727576 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 24
38727482 GGAGGAAGTG
*
38727492 CAAAAGGGCTTTTGCCCCAGTTTAC
1 CAAAAGGGC-TTTGCCCCAGTTTAT
38727517 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
38727542 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
38727566 TAAAAGAGGCT
1 CAAAAG-GGCT
38727577 AGGCCTCCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 34 0.62
26 8 0.15
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:38727822 original size:30 final size:31
Alignment explanation
Indices: 38727784--38727854 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 31
38727774 CATTTACAGT
*
38727784 AAAA-GCTTCGGCCCAGTGATATG-ATAATG
1 AAAAGGCTTCGGCCCAGTGACATGAATAATG
38727813 AAAAGGCTTCGGCCCAGTGACATGAATAATG
1 AAAAGGCTTCGGCCCAGTGACATGAATAATG
*
38727844 CAAAGGCTTCG
1 AAAAGGCTTCG
38727855 TGTGACAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 4 0.11
30 18 0.47
31 16 0.42
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGACATGAATAATG
Found at i:38728311 original size:11 final size:11
Alignment explanation
Indices: 38728295--38728321 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38728285 TAGAAGAAAG
38728295 AAAAAAAAGAA
1 AAAAAAAAGAA
38728306 AAAAAAAAGAA
1 AAAAAAAAGAA
38728317 AAAAA
1 AAAAA
38728322 GCTCTCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:38729693 original size:79 final size:81
Alignment explanation
Indices: 38729557--38729736 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 81
38729547 AATGATGTCT
* * *
38729557 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTTGT
**
38729621 CCGAGTTACTA-ATTTC
66 CCGAGTTACTATA-ACC
* * **
38729637 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCAAAGGCATTTG
*
38729699 TGCGAGTTACTATAACC
65 TCCGAGTTACTATAACC
*
38729716 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
38729737 TGAACGAGTA
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 57 0.67
80 27 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTTGT
CCGAGTTACTATAACC
Found at i:38729752 original size:40 final size:40
Alignment explanation
Indices: 38729557--38729738 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
38729547 AATGATGTCT
* * *
38729557 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * **
38729597 GGACTAAGAT-CCGAAGGCATTTGTCCGAGTTACTA-ATTTC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
*
38729637 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* *
38729676 GGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
38729716 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
38729739 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.65
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:38729760 original size:79 final size:79
Alignment explanation
Indices: 38729610--38729761 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
38729600 CTAAGATCCG
** **
38729610 AAGGCATTTGTCCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
38729675 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * * *
38729689 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTCCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
38729752 ATCC-GGTTAA
63 ATCCGGGTTAA
38729762 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 24 0.39
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:38731161 original size:30 final size:31
Alignment explanation
Indices: 38731120--38731197 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
38731110 GTGTGTTACA
38731120 CTTCGGCCCAGTGATATG-ATAATGAAAAGG
1 CTTCGGCCCAGTGATATGAATAATGAAAAGG
* * * *
38731150 CTTCAGCCCAGTGACATGAATAATGCAAATG
1 CTTCGGCCCAGTGATATGAATAATGAAAAGG
38731181 CTTCGGCCCAGT-ATATG
1 CTTCGGCCCAGTGATATG
38731198 TTGAGATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 20 0.49
31 21 0.51
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (31 bp):
CTTCGGCCCAGTGATATGAATAATGAAAAGG
Found at i:38735713 original size:40 final size:40
Alignment explanation
Indices: 38735629--38735886 Score: 355
Period size: 40 Copynumber: 6.5 Consensus size: 40
38735619 TGGATGATAA
*
38735629 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * * *
38735670 CCGGGCTAAGTCCCGAAGGCATTTGCGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38735710 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38735750 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38735790 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
38735830 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
38735869 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38735887 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.08
39 16 0.08
40 142 0.71
41 24 0.12
42 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38741498 original size:25 final size:25
Alignment explanation
Indices: 38741453--38741522 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
38741443 GAGGAAGTGC
* *
38741453 AAAAGGGCTTTTGCCCAAGTTTACCG
1 AAAAGGGC-TTTGCCCCAGTTTACCA
*
38741479 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38741504 AAAAGGGCTTTACCCCAGT
1 AAAAGGGCTTTGCCCCAGT
38741523 CATTAAAAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 32 0.80
26 8 0.20
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38741819 original size:31 final size:30
Alignment explanation
Indices: 38741744--38741821 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 30
38741734 CGTTTACAGT
* *
38741744 AAAGGCTTCAGCCCAGTGATATGACAATGA
1 AAAGGCTTCAGCCCAGTGACACGACAATGA
* * * *
38741774 AAAGGTTTCGGCCCAGTGACACGAATAATGC
1 AAAGGCTTCAGCCCAGTGACACG-ACAATGA
38741805 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
38741822 ATATGTTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 19 0.49
31 20 0.51
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.19
Consensus pattern (30 bp):
AAAGGCTTCAGCCCAGTGACACGACAATGA
Found at i:38743206 original size:35 final size:35
Alignment explanation
Indices: 38743166--38743235 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
38743156 TTATGTAATG
38743166 ATATTTCATCCTGTGTGCAGATGGATTTAGAAACA
1 ATATTTCATCCTGTGTGCAGATGGATTTAGAAACA
*
38743201 ATATTTCATCCTTTGTGCAGATGGATTTAGAAACA
1 ATATTTCATCCTGTGTGCAGATGGATTTAGAAACA
38743236 CTCTACGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (35 bp):
ATATTTCATCCTGTGTGCAGATGGATTTAGAAACA
Found at i:38748277 original size:29 final size:29
Alignment explanation
Indices: 38748187--38748346 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
38748177 ACTCGATTTC
* * **
38748187 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
38748216 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
38748244 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
38748274 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38748303 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38748332 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38748347 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38756358 original size:29 final size:29
Alignment explanation
Indices: 38756268--38756427 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
38756258 ACTCGATTTC
* * **
38756268 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
38756297 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
38756325 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
38756355 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38756384 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38756413 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38756428 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38768078 original size:40 final size:40
Alignment explanation
Indices: 38768034--38768213 Score: 195
Period size: 40 Copynumber: 4.5 Consensus size: 40
38768024 GCTCGATTGT
* * *
38768034 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
38768074 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
38768114 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
38768154 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
38768195 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACATAGCCCGGA
38768214 ACCATTCGAA
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 87 0.74
41 26 0.22
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:38768132 original size:80 final size:81
Alignment explanation
Indices: 38768034--38768212 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
38768024 GCTCGATTGT
* * * *
38768034 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
38768098 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
38768114 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
38768179 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
38768195 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
38768213 AACCATTCGA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 58 0.67
81 28 0.33
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:38776108 original size:40 final size:39
Alignment explanation
Indices: 38776064--38776281 Score: 215
Period size: 40 Copynumber: 5.4 Consensus size: 39
38776054 GCTCGATTGT
* * *
38776064 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
*
38776104 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGAACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
38776144 CTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
38776184 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
38776224 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAGGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
38776265 CTTCGGGACATAGCCCG
1 CTTCGGGACATAGCCCG
38776282 AATACCATTC
Statistics
Matches: 152, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.01
40 123 0.81
41 24 0.16
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:38791461 original size:28 final size:29
Alignment explanation
Indices: 38791380--38791464 Score: 127
Period size: 29 Copynumber: 3.0 Consensus size: 29
38791370 GCATAACTAT
*
38791380 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAA
*
38791409 GAATGTGATTTGGGCTTAATGGGCCATAA
1 GAATGTGATTTGGGCCTAATGGGCCATAA
* *
38791438 GAATGAGA-TTGGGCCTAATAGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
38791465 TACATGCATG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 17 0.33
29 34 0.67
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAA
Found at i:38792624 original size:17 final size:18
Alignment explanation
Indices: 38792591--38792624 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38792581 TCTAAGGAAG
38792591 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
38792609 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
38792625 CTTCATATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:38794923 original size:93 final size:93
Alignment explanation
Indices: 38794811--38794982 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38794801 GCCCATAAGT
* *
38794811 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38794876 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
38794904 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38794969 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
38794983 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38794978 original size:46 final size:46
Alignment explanation
Indices: 38794803--38794978 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
38794793 TGTAACCCGC
* * *
38794803 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
38794849 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
38794899 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
38794942 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38794979 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38797390 original size:29 final size:29
Alignment explanation
Indices: 38797351--38797438 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
38797341 CAAAGATAAC
*
38797351 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
38797380 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
38797409 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
38797439 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:38797409 original size:15 final size:15
Alignment explanation
Indices: 38797351--38797429 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
38797341 CAAAGATAAC
*
38797351 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
38797365 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
38797380 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
38797394 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
38797409 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
38797424 AAGAAA
1 AAGAAA
38797430 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:38797438 original size:15 final size:15
Alignment explanation
Indices: 38797362--38797438 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
38797352 AGAAAACCGA
38797362 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
38797377 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
38797391 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
38797405 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
38797421 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
38797436 ATA
1 ATA
38797439 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38800496 original size:93 final size:93
Alignment explanation
Indices: 38800384--38800555 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38800374 GCCCATAAGT
* *
38800384 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38800449 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
38800477 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38800542 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
38800556 AAATATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38800551 original size:46 final size:46
Alignment explanation
Indices: 38800376--38800551 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
38800366 TGTAACCCGC
* * *
38800376 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
38800422 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
38800472 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
38800515 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38800552 TGCCAAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38802970 original size:30 final size:30
Alignment explanation
Indices: 38802926--38803014 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
38802916 CAAAGATAAC
38802926 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
38802955 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
38802985 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
38803015 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:38802974 original size:15 final size:15
Alignment explanation
Indices: 38802926--38803005 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
38802916 CAAAGATAAC
*
38802926 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
38802940 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
38802955 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
38802970 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
38802985 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
38803000 AAGAAA
1 AAGAAA
38803006 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:38803014 original size:15 final size:15
Alignment explanation
Indices: 38802937--38803014 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
38802927 AGAAAACCGA
38802937 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
38802952 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
38802966 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
38802981 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
38802997 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
38803012 ATA
1 ATA
38803015 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:38806074 original size:93 final size:93
Alignment explanation
Indices: 38805962--38806133 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38805952 GCCCATAAGT
* *
38805962 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38806027 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
38806055 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38806120 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
38806134 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38806129 original size:46 final size:46
Alignment explanation
Indices: 38805954--38806129 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
38805944 TGTAACCCGC
* * *
38805954 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
38806000 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
38806050 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
38806093 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38806130 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:38811098 original size:71 final size:71
Alignment explanation
Indices: 38811012--38811175 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38811002 CGATTTGTCT
38811012 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38811077 CTTTCA
66 CTTTCA
38811083 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38811148 CTTTCA
66 CTTTCA
38811154 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38811176 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38811213 original size:71 final size:70
Alignment explanation
Indices: 38811012--38811209 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38811002 CGATTTGTCT
* * * *
38811012 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38811077 CTTTCA
65 CTTTCA
* * * *
38811083 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38811148 CTTTCA
65 CTTTCA
* *
38811154 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38811210 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38818559 original size:71 final size:71
Alignment explanation
Indices: 38818473--38818636 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38818463 CGATTTGTCT
38818473 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38818538 CTTTCA
66 CTTTCA
38818544 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38818609 CTTTCA
66 CTTTCA
38818615 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38818637 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38818674 original size:71 final size:70
Alignment explanation
Indices: 38818473--38818670 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38818463 CGATTTGTCT
* * * *
38818473 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38818538 CTTTCA
65 CTTTCA
* * * *
38818544 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38818609 CTTTCA
65 CTTTCA
* *
38818615 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38818671 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38820931 original size:5 final size:5
Alignment explanation
Indices: 38820923--38820949 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38820913 CAAAAATAAA
38820923 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
38820950 GATTGGCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:38823498 original size:44 final size:43
Alignment explanation
Indices: 38823370--38823514 Score: 118
Period size: 44 Copynumber: 3.4 Consensus size: 43
38823360 GAACGTCCTG
* * *
38823370 GACATGGTCTTACATGT-AATTCAGTATCGATGCCTCTGTCCCA
1 GACATGGTCTTACACGTAAATTCA-AATCGATGCCTATGTCCCA
* * * *
38823413 GATAGGGTCTT--ACGTGAAA-TCAGATACAATGCCTATGTCCCA
1 GACATGGTCTTACACGT-AAATTCAAAT-CGATGCCTATGTCCCA
* *
38823455 GACATGGTCTTACACGTAAATCTCAAATCGATGCCTGTCTCCCA
1 GACATGGTCTTACACGTAAAT-TCAAATCGATGCCTATGTCCCA
* **
38823499 GATACAGTCTTACACG
1 GACATGGTCTTACACG
38823515 ATATCTCAGA
Statistics
Matches: 80, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.06
42 26 0.32
43 14 0.17
44 30 0.38
45 5 0.06
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
GACATGGTCTTACACGTAAATTCAAATCGATGCCTATGTCCCA
Found at i:38825623 original size:25 final size:25
Alignment explanation
Indices: 38825585--38825657 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
38825575 TTGAATGATC
*
38825585 TCGACAATTAAATTGTAAATTATAA
1 TCGACAATTGAATTGTAAATTATAA
38825610 TCGACAATTGAATTGTAAATTATAA
1 TCGACAATTGAATTGTAAATTATAA
* * *
38825635 TTGGCAATTGAATTATAAATTAT
1 TCGACAATTGAATTGTAAATTAT
38825658 GTAAGTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (25 bp):
TCGACAATTGAATTGTAAATTATAA
Found at i:38825877 original size:29 final size:29
Alignment explanation
Indices: 38825844--38825904 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
38825834 TGGCCCATAT
*
38825844 ATCACAACACAAATAAGTGAGTACTCACA
1 ATCACAACACAAATAAATGAGTACTCACA
38825873 ATCACAACACAAATAAATGAGTACTCACA
1 ATCACAACACAAATAAATGAGTACTCACA
38825902 ATC
1 ATC
38825905 CTATGGCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.25, G:0.08, T:0.18
Consensus pattern (29 bp):
ATCACAACACAAATAAATGAGTACTCACA
Found at i:38826172 original size:17 final size:17
Alignment explanation
Indices: 38826150--38826185 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
38826140 TTTTTTCTGA
38826150 AACTTAAGAATTTTTCT
1 AACTTAAGAATTTTTCT
38826167 AACTTAAGAATTTTTCT
1 AACTTAAGAATTTTTCT
38826184 AA
1 AA
38826186 GTTACAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (17 bp):
AACTTAAGAATTTTTCT
Found at i:38827954 original size:43 final size:42
Alignment explanation
Indices: 38827888--38828044 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 42
38827878 AGCTTGTACA
* *
38827888 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGAAG-GGTCTTACATGAAATCAAATATCG
* * *
38827931 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATCATATA-CA
1 ATGCCAATGTCCCAGA-AGGGTCTTACATGAAATCAAATATCG
* *
38827973 ATGCCAATGTGCCAGACATGGTCTTAGACAT-AAATCACAA-ATCG
1 ATGCCAATGTCCCAGA-AGGGTCTT--ACATGAAATCA-AATATCG
* *
38828017 ATGCCAATGTCTCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGAAG-GGTCTTACA
38828045 CGATAACACA
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 25 0.27
43 41 0.44
44 27 0.29
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGAAGGGTCTTACATGAAATCAAATATCG
Found at i:38836122 original size:51 final size:51
Alignment explanation
Indices: 38836044--38836192 Score: 223
Period size: 51 Copynumber: 2.9 Consensus size: 51
38836034 ACGGATACAC
*
38836044 AGTGGTCC-TCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAA
1 AGTGG-CCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAA
*
38836095 AGTGGCCTTCACATAGTCCCACACTTGT-GTCCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTATTTTATTCACAA
*
38836146 AGTGCCCTTCACATAGTACCACACTTG-AGGCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTA-GCCAAAGCTATTTTATTC
38836193 CTAAGGTTCA
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
50 3 0.03
51 86 0.96
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTTTATTCACAA
Found at i:38836285 original size:28 final size:27
Alignment explanation
Indices: 38836216--38836338 Score: 141
Period size: 24 Copynumber: 4.7 Consensus size: 27
38836206 GGGAAATTTC
*
38836216 TCACTTAGCACCATGCCATGGACTTGTT
1 TCACTTAGCA-CATGCCATGGACTTATT
38836244 TCACTTAG---ATGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
38836268 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
38836296 TCACTTAG---ATGTCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
38836320 TCACTTAACACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
38836339 ATCCTGGATA
Statistics
Matches: 82, Mismatches: 5, Indels: 16
0.80 0.05 0.16
Matches are distributed among these distances:
24 43 0.52
25 1 0.01
27 1 0.01
28 37 0.45
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:38836291 original size:52 final size:51
Alignment explanation
Indices: 38836216--38836338 Score: 183
Period size: 52 Copynumber: 2.4 Consensus size: 51
38836206 GGGAAATTTC
*
38836216 TCACTTAGCACCATGCCATGGACTTGTTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCA-CATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* *
38836268 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGTCATGGTCTTATT
1 TCACTTAGCACA-TGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
*
38836320 TCACTTAACACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
38836339 ATCCTGGATA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
51 2 0.03
52 62 0.95
53 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (51 bp):
TCACTTAGCACATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:38840343 original size:8 final size:8
Alignment explanation
Indices: 38840332--38840359 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
38840322 TAAAGCGATA
38840332 AAATGCCG
1 AAATGCCG
38840340 AAATGCCG
1 AAATGCCG
38840348 AAATGCCG
1 AAATGCCG
38840356 AAAT
1 AAAT
38840360 TCTGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:38840812 original size:25 final size:25
Alignment explanation
Indices: 38840779--38840826 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
38840769 TTATAATATG
* *
38840779 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38840804 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38840827 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38840929 original size:20 final size:20
Alignment explanation
Indices: 38840863--38840929 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
38840853 ATTTTGATAA
* *
38840863 ACATGGTATGTATGATGTGC
1 ACATGATATGTATGATATGC
*
38840883 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38840903 ACATGATATGTATGACATGC
1 ACATGATATGTATGATATGC
38840923 ACATGAT
1 ACATGAT
38840930 GTATTTATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38841097 original size:23 final size:24
Alignment explanation
Indices: 38840978--38841144 Score: 223
Period size: 24 Copynumber: 7.0 Consensus size: 24
38840968 GGAGAAAGTG
38840978 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38841002 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
38841026 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38841050 CAAAAGGGCTTACGCCTCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38841074 TAAAAGGGCTT-TGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38841097 TAAAAGGGCTT-TGCCCCAGTTGT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38841120 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
38841145 ATGAAAAAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
23 39 0.30
24 84 0.65
25 7 0.05
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:38841373 original size:31 final size:31
Alignment explanation
Indices: 38841338--38841398 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
38841328 CATTTACAGT
*
38841338 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTACGGCCCAGTAATATGAAATATGG
* **
38841369 AAAGGCTACGGCCTAGTGTTATGAAATATG
1 AAAGGCTACGGCCCAGTAATATGAAATATG
38841399 AAATGTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTACGGCCCAGTAATATGAAATATGG
Found at i:38848158 original size:40 final size:40
Alignment explanation
Indices: 38848109--38848293 Score: 131
Period size: 40 Copynumber: 4.7 Consensus size: 40
38848099 TGCTGGAAAT
* * * * **
38848109 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
* *
38848149 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
* * * * *
38848189 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
* * * ** * * *
38848227 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
* * *
38848268 CATATCCGGGCTATGTCCCGAAGGCA
1 TATATCCGGGCTAAGACCCGAAGGCA
38848294 TTTGAACGAG
Statistics
Matches: 115, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATCGTGCGAGTCAC
Found at i:38854861 original size:35 final size:36
Alignment explanation
Indices: 38854773--38854958 Score: 194
Period size: 39 Copynumber: 4.9 Consensus size: 36
38854763 ATGATGTCCG
* * * *
38854773 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCC
1 GGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTA-ATTC
**
38854812 GGACTAAGATCGAAGGCATTGTGCGAGTTACTAATTC
1 GG-CTAAGCCCGAAGGCATTGTGCGAGTTACTAATTC
38854849 -GCTAAGCCCGAAGGCATTGTGCGAGTTACTAATTCC
1 GGCTAAGCCCGAAGGCATTGTGCGAGTTACTAATT-C
*
38854885 GGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 -GGCTAAGCCCGAAGGCATT-GTGCGAGTTACT-AATTC
*
38854924 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 -GGCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTA
38854959 TAACCGGGCT
Statistics
Matches: 129, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
35 31 0.24
36 2 0.02
37 3 0.02
38 25 0.19
39 36 0.28
40 30 0.23
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (36 bp):
GGCTAAGCCCGAAGGCATTGTGCGAGTTACTAATTC
Found at i:38854911 original size:74 final size:76
Alignment explanation
Indices: 38854773--38854984 Score: 252
Period size: 73 Copynumber: 2.8 Consensus size: 76
38854763 ATGATGTCCG
* * * * **
38854773 GGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCGAAGGCATTGTGCGA
1 GGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTATATCCGGGCTAAGCCCGAAGGCATTGTGCGA
*
38854838 GTTACT-AATTC
65 GTTACTAAATCC
38854849 -GCTAAG-CCCGAAGGCATTGTGCGAGTTACTA-ATTCCGGGCTAAGCCCGAAGGCATTGGTGCG
1 GGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCATT-GTGCG
38854911 AGTTACTAAATCC
64 AGTTACTAAATCC
* * *
38854924 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 -GGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCATT
38854985 TGAACGAGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
72 1 0.01
73 27 0.23
74 27 0.23
75 10 0.09
77 5 0.04
78 10 0.09
79 24 0.21
80 13 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (76 bp):
GGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCATTGTGCGAG
TTACTAAATCC
Found at i:38854950 original size:40 final size:40
Alignment explanation
Indices: 38854769--38854986 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
38854759 TCGAATGATG
* * *
38854769 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
38854809 TCCGGACTAAGAT--CGAAGGCA-TTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38854846 TTC--GCTAAG-CCCGAAGGCA-TTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38854882 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38854921 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38854962 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38854987 AACGAGTAGC
Statistics
Matches: 154, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
35 27 0.18
36 3 0.02
37 3 0.02
38 22 0.14
39 38 0.25
40 58 0.38
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38855008 original size:79 final size:78
Alignment explanation
Indices: 38854769--38855019 Score: 216
Period size: 79 Copynumber: 3.3 Consensus size: 78
38854759 TCGAATGATG
* * * * * **
38854769 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACT-ATATCCGGACTAAGATCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAATA-CCGGGCTAAGCCCGAAGGCATTG
38854833 TG--CGAGTTACT-AA
64 -GAACGAGTTACTAAA
* * * *
38854846 TTC--GCTAAG-CCCGAAGGCATTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGA
*
38854908 GCGAGTTACTAAA
66 ACGAGTTACTAAA
*
38854921 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
* *
38854985 TGAACGAG-TAGCTATA
63 GGAACGAGTTA-CTAAA
* *
38855001 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38855020 TACGTGATTC
Statistics
Matches: 145, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
72 1 0.01
73 26 0.18
74 26 0.18
75 10 0.07
77 7 0.05
78 12 0.08
79 39 0.27
80 24 0.17
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGA
ACGAGTTACTAAA
Found at i:38864242 original size:29 final size:29
Alignment explanation
Indices: 38864152--38864311 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
38864142 ACTCGATTTC
* * **
38864152 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
38864181 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
38864209 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
38864239 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38864268 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
38864297 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
38864312 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:38874849 original size:40 final size:40
Alignment explanation
Indices: 38874766--38874918 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
38874756 TCGAATGATG
* *
38874766 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
38874806 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
38874846 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
38874887 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
38874919 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:38885163 original size:21 final size:21
Alignment explanation
Indices: 38885139--38885179 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38885129 TCATCAGATC
*
38885139 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
38885160 TACAGGTTGAGGAATCGGGG
1 TACACCTTGAGGAATCGGGG
38885180 TAGGTGGGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.17, G:0.41, T:0.20
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:38888225 original size:47 final size:47
Alignment explanation
Indices: 38888162--38888691 Score: 844
Period size: 47 Copynumber: 11.3 Consensus size: 47
38888152 CCCTTCGGGA
* *
38888162 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
38888209 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
38888256 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
38888303 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
38888350 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
38888397 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
38888444 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
38888491 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
38888538 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
38888585 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
38888632 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
38888679 CTTATCACATATA
1 CTTATCACATATA
38888692 CATATCTTGT
Statistics
Matches: 441, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 441 1.00
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:38894752 original size:21 final size:22
Alignment explanation
Indices: 38894728--38894779 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
38894718 TCAAATGGAG
* *
38894728 TAAAGAAATCTTGTA-ATGAAA
1 TAAAGAAAACTTGAACATGAAA
*
38894749 TAAAAAAAACTTGAACATGAAA
1 TAAAGAAAACTTGAACATGAAA
38894771 -AAATGAAAA
1 TAAA-GAAAA
38894780 TTATTCTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (22 bp):
TAAAGAAAACTTGAACATGAAA
Found at i:38900015 original size:66 final size:68
Alignment explanation
Indices: 38899939--38900125 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
38899929 TAGTACCACT
*
38899939 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
38900001 CACG
65 CACG
38900005 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
38900070 ATCACG
63 ATCACG
38900076 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
38900126 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:38900050 original size:71 final size:71
Alignment explanation
Indices: 38899962--38900125 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38899952 CGATTTGTCT
38899962 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38900027 CTTTCA
66 CTTTCA
38900033 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38900098 CTTTCA
66 CTTTCA
38900104 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38900126 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38900163 original size:71 final size:70
Alignment explanation
Indices: 38899962--38900159 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
38899952 CGATTTGTCT
* * *
38899962 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
38900027 CTTTCA
65 CTTTCA
* * *
38900033 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
38900098 CTTTCA
65 CTTTCA
* *
38900104 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
38900160 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38907114 original size:66 final size:68
Alignment explanation
Indices: 38907038--38907224 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
38907028 TAGTACCACT
*
38907038 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
38907100 CACG
65 CACG
38907104 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
38907169 ATCACG
63 ATCACG
38907175 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
38907225 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:38907149 original size:71 final size:71
Alignment explanation
Indices: 38907061--38907224 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38907051 CGATTTGTCT
38907061 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38907126 CTTTCA
66 CTTTCA
38907132 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38907197 CTTTCA
66 CTTTCA
38907203 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38907225 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38907262 original size:71 final size:70
Alignment explanation
Indices: 38907061--38907258 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
38907051 CGATTTGTCT
* * *
38907061 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
38907126 CTTTCA
65 CTTTCA
* * *
38907132 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
38907197 CTTTCA
65 CTTTCA
* *
38907203 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
38907259 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38914684 original size:14 final size:14
Alignment explanation
Indices: 38914661--38914695 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38914651 AGGAGAGAAT
*
38914661 GATGAATGATGAGG
1 GATGAGTGATGAGG
38914675 GATGAGTGATGAGG
1 GATGAGTGATGAGG
38914689 GATGAGT
1 GATGAGT
38914696 AGAAATGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (14 bp):
GATGAGTGATGAGG
Found at i:38919663 original size:46 final size:46
Alignment explanation
Indices: 38919612--38919847 Score: 436
Period size: 46 Copynumber: 5.1 Consensus size: 46
38919602 AGTTAAATAT
38919612 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
38919658 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
38919704 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
38919750 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* * *
38919796 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
38919842 ATATAT
1 ATATAT
38919848 ATATGTGATA
Statistics
Matches: 187, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 187 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:38919897 original size:47 final size:47
Alignment explanation
Indices: 38919845--38919953 Score: 164
Period size: 47 Copynumber: 2.3 Consensus size: 47
38919835 GTATGAGATA
* * *
38919845 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAGTG
* *
38919892 TATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAGTG
*
38919939 TATAAATGTGATAAG
1 TATATATGTGATAAG
38919954 TCCCAAGGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAGTG
Found at i:38922568 original size:40 final size:40
Alignment explanation
Indices: 38922513--38922776 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
38922503 CTCGACGATG
*
38922513 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
*
38922553 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
38922593 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
38922633 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
38922673 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
38922713 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
38922753 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
38922777 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:38923504 original size:40 final size:40
Alignment explanation
Indices: 38923440--38923575 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
38923430 AATGGTATCT
* ** *
38923440 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAAATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATCC
* *
38923480 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA-CC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-AATCC
* * * * *
38923520 GGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATATCC
1 GGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAAATCC
* *
38923560 -GGTTAAATCCCGAAGG
1 GGGCTAATTCCCGAAGG
38923576 TACGTGATTC
Statistics
Matches: 76, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 14 0.18
40 60 0.79
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAAATCC
Found at i:38926476 original size:46 final size:46
Alignment explanation
Indices: 38926241--38926466 Score: 411
Period size: 46 Copynumber: 5.0 Consensus size: 46
38926231 AGTTAAATAT
38926241 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
38926287 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
38926333 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
38926379 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
38926425 ATATA--TGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
38926467 AGATGTATAT
Statistics
Matches: 177, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
44 35 0.20
46 142 0.80
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:38926495 original size:138 final size:137
Alignment explanation
Indices: 38926241--38926496 Score: 406
Period size: 138 Copynumber: 1.9 Consensus size: 137
38926231 AGTTAAATAT
*
38926241 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTGATATATGTGTGGTAAAGCC
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATA-GTGTGGTAAAGCC
* * * * *
38926306 AAATGGCTAGTGTGAAATATGTATGTGATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATA
65 AAATGGCTAGTATGAAACATGTATGAGATATATATGTGATAAAGCCAAATGGCTAGTGTGAAATA
38926371 TGTATGTG
130 TGTATGTG
38926379 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATA-TGTGGTAAAGCCA
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATAGTGTGGTAAAGCCA
* *
38926443 AATGGCTAGTATGAAACATGTATGAGATGTATATATGTGATAAGGCCGAATGGC
66 AATGGCTAGTATGAAACATGTATGAGA--TATATATGTGATAAAGCCAAATGGC
38926497 CGATGTGATG
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
136 37 0.34
138 71 0.66
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (137 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAGATATAGTGTGGTAAAGCCA
AATGGCTAGTATGAAACATGTATGAGATATATATGTGATAAAGCCAAATGGCTAGTGTGAAATAT
GTATGTG
Found at i:38926530 original size:47 final size:47
Alignment explanation
Indices: 38926470--38926580 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
38926460 ATGTATGAGA
* * * *
38926470 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
38926517 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
38926564 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
38926581 TCCCGAGGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:38928514 original size:50 final size:50
Alignment explanation
Indices: 38928429--38928794 Score: 301
Period size: 50 Copynumber: 7.3 Consensus size: 50
38928419 GGGGTGTTAC
* * *
38928429 ACTACACATGTGACCTATCAATCTGGTACATGTAGTAGCCTACACTTAGT
1 ACTACACACGTGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGT
** * * *
38928479 ACTACACACGTGATTTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
1 ACTACACACGTGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGT
* * * * * *
38928529 ACAACACACGTGATCGAAGTTAA-CGGGTACACATAGTAGCCTACACTTAGT
1 ACTACACACGTGACCTAA--CAATCTGGTACACGTAGTAGCCTACACTTAGT
* * * * * *
38928580 ACTACACATGTAACCTATCAATCTTGTACACGTAGTATCCTACAATTCA-T
1 ACTACACACGTGACCTAACAATCTGGTACACGTAGTAGCCTACACTT-AGT
* * * *
38928630 ACTACACACGTGACTTAACCATCTGATACA-GATAGTAGCCTACACTTCGT
1 ACTACACACGTGACCTAACAATCTGGTACACG-TAGTAGCCTACACTTAGT
* * * * *
38928680 ACTACACACGTGA-TTGAAGTTAA-CGGGTACGCATAGTAGCCTACACTTAGT
1 ACTACACACGTGACCT-AA--CAATCTGGTACACGTAGTAGCCTACACTTAGT
* * * * * * *
38928731 ACTACACATGCGACCTATCAATCTGGTACACATAGCAGCCTGCACTTTGT
1 ACTACACACGTGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGT
*
38928781 ACTACACATGTGAC
1 ACTACACACGTGAC
38928795 TCACAATGAA
Statistics
Matches: 247, Mismatches: 57, Indels: 24
0.75 0.17 0.07
Matches are distributed among these distances:
49 7 0.03
50 166 0.67
51 71 0.29
52 3 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (50 bp):
ACTACACACGTGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGT
Found at i:38928637 original size:101 final size:101
Alignment explanation
Indices: 38928461--38928690 Score: 243
Period size: 101 Copynumber: 2.3 Consensus size: 101
38928451 CTGGTACATG
* ** * * *
38928461 TAGTAGCCTACACTTAGTACTACACACGTGATTTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACACGTAACCTAACAATCTGATACACGTAGTAGCCTACAATT
38928526 AGTACAACACACGTGATCGAAGTTAACGGGTACACA
66 AGTACAACACACGTGATCGAAGTTAACGGGTACACA
* * *
38928562 TAGTAGCCTACACTTAGTACTACACATGTAACCTATCAATCTTG-TACACGTAGTATCCTACAAT
1 TAGTAGCCTACACTTAGTACTACACACGTAACCTAACAATC-TGATACACGTAGTAGCCTACAAT
* * ** * * * *
38928626 TCA-TACTACACACGTGA-CTTAA-CCATCTGATACAGA
65 T-AGTACAACACACGTGATC-GAAGTTAACGGGTACACA
*
38928662 TAGTAGCCTACACTTCGTACTACACACGT
1 TAGTAGCCTACACTTAGTACTACACACGT
38928691 GATTGAAGTT
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
100 36 0.34
101 68 0.64
102 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACGTAACCTAACAATCTGATACACGTAGTAGCCTACAATT
AGTACAACACACGTGATCGAAGTTAACGGGTACACA
Found at i:38928703 original size:151 final size:151
Alignment explanation
Indices: 38928429--38928795 Score: 540
Period size: 151 Copynumber: 2.4 Consensus size: 151
38928419 GGGGTGTTAC
* * *
38928429 ACTACACATGTGACCTATCAATCTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTGATT
1 ACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAATTAGTACTACACACGTGACT
*
38928494 TAACCATCTGATACACGTAGTAGCCTGCACTTAGTACAACACACGTGATCGAAGTTAACGGGTAC
66 TAACCATCTGATACACGTAGTAGCCTACACTTAGTACAACACACGTGATCGAAGTTAACGGGTAC
38928559 ACATAGTAGCCTACACTTAGT
131 ACATAGTAGCCTACACTTAGT
* * *
38928580 ACTACACATGTAACCTATCAATCTTGTACACGTAGTATCCTACAATTCA-TACTACACACGTGAC
1 ACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAATT-AGTACTACACACGTGAC
* * *
38928644 TTAACCATCTGATACA-GATAGTAGCCTACACTTCGTACTACACACGTGATTGAAGTTAACGGGT
65 TTAACCATCTGATACACG-TAGTAGCCTACACTTAGTACAACACACGTGATCGAAGTTAACGGGT
*
38928708 ACGCATAGTAGCCTACACTTAGT
129 ACACATAGTAGCCTACACTTAGT
* * * * * * *
38928731 ACTACACATGCGACCTATCAATCTGGTACACATAGCAGCCTGCACTTTGTACTACACATGTGACT
1 ACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAATTAGTACTACACACGTGACT
38928796 CACAATGAAT
Statistics
Matches: 192, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
150 1 0.01
151 190 0.99
152 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (151 bp):
ACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAATTAGTACTACACACGTGACT
TAACCATCTGATACACGTAGTAGCCTACACTTAGTACAACACACGTGATCGAAGTTAACGGGTAC
ACATAGTAGCCTACACTTAGT
Found at i:38928734 original size:101 final size:101
Alignment explanation
Indices: 38928612--38928793 Score: 231
Period size: 101 Copynumber: 1.8 Consensus size: 101
38928602 CTTGTACACG
* * * * * *
38928612 TAGTATCCTACAATTCATACTACACACGTGACTTAACCATCTGATACAGATAGTAGCCTACACTT
1 TAGTAGCCTACAATTCATACTACACACGCGACCTAACAATCTGATACACATAGCAGCCTACACTT
38928677 CGTACTACACACGTGATTGAAGTTAACGGGTACGCA
66 CGTACTACACACGTGATTGAAGTTAACGGGTACGCA
* * * * *
38928713 TAGTAGCCTACACTT-AGTACTACACATGCGACCTATCAATCTGGTACACATAGCAGCCTGCACT
1 TAGTAGCCTACAATTCA-TACTACACACGCGACCTAACAATCTGATACACATAGCAGCCTACACT
* *
38928777 TTGTACTACACATGTGA
65 TCGTACTACACACGTGA
38928794 CTCACAATGA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
100 1 0.01
101 66 0.99
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACAATTCATACTACACACGCGACCTAACAATCTGATACACATAGCAGCCTACACTT
CGTACTACACACGTGATTGAAGTTAACGGGTACGCA
Found at i:38930159 original size:47 final size:46
Alignment explanation
Indices: 38930086--38930355 Score: 183
Period size: 47 Copynumber: 5.8 Consensus size: 46
38930076 TGATTTGTGT
* *
38930086 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCCAGATGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCCAGATGAGA
* * * * *
38930134 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCAT--ATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCATCCA-GATGAGA
* * * *
38930180 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTTGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CAT-CCAGATGAGA
* ** * ** *
38930227 GCCAGTGTAAGACGTGTCTGGGACACACATCGGC--CAAGATTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGATGAGA
* * * *
38930271 GCTAGTGTAAGACATGTCTGGTACATGCATCAGCA-CGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC-C--AGATGAGA
* *
38930319 GCCAATATAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
38930356 ATTCATTCCA
Statistics
Matches: 169, Mismatches: 40, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
43 3 0.02
44 28 0.17
45 3 0.02
46 40 0.24
47 48 0.28
48 25 0.15
49 14 0.08
50 8 0.05
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGATGAGA
Found at i:38943931 original size:46 final size:46
Alignment explanation
Indices: 38943881--38944056 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38943871 TGGTTGAGCA
38943881 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38943927 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38943972 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38944020 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38944057 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38944037 original size:93 final size:93
Alignment explanation
Indices: 38943878--38944049 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38943868 GGATGGTTGA
* *
38943878 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38943943 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38943971 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38944036 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38944050 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38951660 original size:29 final size:27
Alignment explanation
Indices: 38951626--38951728 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 27
38951616 TACTCAATCA
*
38951626 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
38951655 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
38951684 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
38951713 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
38951729 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.03
29 61 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:38962993 original size:2 final size:2
Alignment explanation
Indices: 38962986--38963018 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
38962976 GAGACTAGTC
38962986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38963019 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.