Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 23 of 343
Found at i:7711187 original size:32 final size:32
Alignment explanation
Indices: 7711146--7711207 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
7711136 GAGTCGAAGA
7711146 GTTGTAGAATTAATATTGAGTCAATCGACAGG
1 GTTGTAGAATTAATATTGAGTCAATCGACAGG
7711178 GTTGTAGAATTAATATTGAGTCAATCGACA
1 GTTGTAGAATTAATATTGAGTCAATCGACA
7711208 TTTAATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (32 bp):
GTTGTAGAATTAATATTGAGTCAATCGACAGG
Found at i:7714798 original size:22 final size:23
Alignment explanation
Indices: 7714747--7714801 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
7714737 AAAATATAAT
*
7714747 TTTAAATACTTTGTACATAATTAA
1 TTTAAATA-TTTGTACAGAATTAA
* *
7714771 TATAAATATTTGTA-AGACTTAA
1 TTTAAATATTTGTACAGAATTAA
7714793 TTTAAATAT
1 TTTAAATAT
7714802 ACAAATCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 14 0.52
23 6 0.22
24 7 0.26
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (23 bp):
TTTAAATATTTGTACAGAATTAA
Found at i:7732569 original size:27 final size:27
Alignment explanation
Indices: 7732538--7732592 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
7732528 GACTCTTAAC
7732538 TTTAAATTTGGGTTGAGCAAAAAAACG
1 TTTAAATTTGGGTTGAGCAAAAAAACG
7732565 TTTAAATTTGGGTTGAGCAAAAAAACG
1 TTTAAATTTGGGTTGAGCAAAAAAACG
7732592 T
1 T
7732593 AGGCAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
TTTAAATTTGGGTTGAGCAAAAAAACG
Found at i:7732600 original size:28 final size:27
Alignment explanation
Indices: 7732541--7732601 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
7732531 TCTTAACTTT
**
7732541 AAATTTGGGTTGAGCAAAAAAACGTTT
1 AAATTTGGGTTGAGCAAAAAAACGTGG
7732568 AAATTTGGGTTGAGCAAAAAAACGTAGG
1 AAATTTGGGTTGAGCAAAAAAACGT-GG
*
7732596 CAATTT
1 AAATTT
7732602 ATCTATTGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AAATTTGGGTTGAGCAAAAAAACGTGG
Found at i:7733837 original size:13 final size:13
Alignment explanation
Indices: 7733803--7733829 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7733793 ACATTTATCC
7733803 TAGTCCATCACAA
1 TAGTCCATCACAA
7733816 TAGTCCATCACAA
1 TAGTCCATCACAA
7733829 T
1 T
7733830 GGATCATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (13 bp):
TAGTCCATCACAA
Found at i:7737151 original size:105 final size:101
Alignment explanation
Indices: 7736989--7737290 Score: 359
Period size: 105 Copynumber: 3.0 Consensus size: 101
7736979 AAAATTCTTT
* * * *
7736989 ATTACTAATT-TTTTTTGTTTCTTTGAAAAGGAGATGCTGTAAGCTTTCTTTTATTTGAACGTGA
1 ATTATTAATTCTTTTTTGTTTCTCTGAAAA-TAGAT-ATGTAA-CTTTCTTTTATTTGAA-GTGA
* *
7737053 TAGTATCACTGTTAATTAACAAAATAAAAATATAATTTAA
62 TAGTATTACTGTTAATTAACAAAATAAAATTATAATTTAA
*
7737093 ATTATTAATTCTTTTTTGTTTCTGTGAAAATAAGATATTGTAAACTTTCTTTTATTTGAAGATGA
1 ATTATTAATTCTTTTTTGTTTCTCTGAAAAT-AGATA-TGT-AACTTTCTTTTATTTGAAG-TGA
*
7737158 TAGTATTACTGTTAATTAATAAAATAAAATTATAATTTAA
62 TAGTATTACTGTTAATTAACAAAATAAAATTATAATTTAA
* * *
7737198 ATCATTAATTCGTTTTTGTTTCTCTGGAAAT-G--A-G---CTTTCTTTTATTTGAAGGTGATAG
1 ATTATTAATTCTTTTTTGTTTCTCTGAAAATAGATATGTAACTTTCTTTTATTTGAA-GTGATAG
7737256 TATTACTGTTAATTAACAAAATAAAATTATTAATT
65 TATTACTGTTAATTAACAAAATAAAATTA-TAATT
7737291 CTTTTTTATT
Statistics
Matches: 179, Mismatches: 12, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
95 50 0.28
96 6 0.03
99 1 0.01
101 1 0.01
103 1 0.01
104 10 0.06
105 108 0.60
106 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (101 bp):
ATTATTAATTCTTTTTTGTTTCTCTGAAAATAGATATGTAACTTTCTTTTATTTGAAGTGATAGT
ATTACTGTTAATTAACAAAATAAAATTATAATTTAA
Found at i:7739354 original size:16 final size:16
Alignment explanation
Indices: 7739334--7739370 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7739324 TGGAACAGGC
7739334 CTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
*
7739350 TTGTAATTGAATAGAG
1 CTGTAATTGAATAGAG
7739366 CTGTA
1 CTGTA
7739371 GTGGAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (16 bp):
CTGTAATTGAATAGAG
Found at i:7739377 original size:16 final size:16
Alignment explanation
Indices: 7739318--7739378 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
7739308 GTTTGGTTCA
*
7739318 CTGTAATGGAACAG-G
1 CTGTAATGGAATAGAG
*
7739333 CCTGTAATTGAATAGAG
1 -CTGTAATGGAATAGAG
* *
7739350 TTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
7739366 CTGTAGTGGAATA
1 CTGTAATGGAATA
7739379 AAGTTATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 37 0.97
17 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:7739646 original size:58 final size:54
Alignment explanation
Indices: 7739567--7739689 Score: 149
Period size: 58 Copynumber: 2.2 Consensus size: 54
7739557 TTTTAATAAG
* *
7739567 ATTATTATTGAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATT-AAAATAATTTAAT-AAAA-AAT--ATAATTTAATAACATTCTTAACATA
**
7739625 ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAACATTCTTAATGTA
1 ATTATTATTAAA-ATAATTTAATAAAAAATATAATTTAATAACATTCTTAACATA
7739680 ATTATTATTA
1 ATTATTATTA
7739690 TATGAATTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
54 14 0.24
55 16 0.27
56 3 0.05
57 7 0.12
58 19 0.32
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (54 bp):
ATTATTATTAAAATAATTTAATAAAAAATATAATTTAATAACATTCTTAACATA
Found at i:7739656 original size:17 final size:17
Alignment explanation
Indices: 7739634--7739666 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7739624 AATTATTATT
7739634 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
7739651 AAATATAATTTAATAA
1 AAATATAATTTAATAA
7739667 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:7744299 original size:31 final size:31
Alignment explanation
Indices: 7744264--7744381 Score: 209
Period size: 31 Copynumber: 3.8 Consensus size: 31
7744254 CTTGTCACTT
* *
7744264 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
7744295 GTAGCCGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
7744326 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
7744357 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
7744382 TGTCATTTGT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:7744470 original size:50 final size:51
Alignment explanation
Indices: 7744357--7744485 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
7744347 CACTGATCAG
* * *
7744357 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAAATAAGT
* *
7744408 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTTCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAAATAAGT
*
7744458 GTAGCCGGAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
7744486 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAAATAAGT
Found at i:7747239 original size:19 final size:19
Alignment explanation
Indices: 7747212--7747251 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
7747202 GTCTAAGTGT
*
7747212 ATAACTAGTATTACACCAC
1 ATAACTAGTACTACACCAC
*
7747231 ATAATTAGTACTACACCAC
1 ATAACTAGTACTACACCAC
7747250 AT
1 AT
7747252 TAAAGCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (19 bp):
ATAACTAGTACTACACCAC
Found at i:7748671 original size:35 final size:34
Alignment explanation
Indices: 7748602--7748766 Score: 161
Period size: 35 Copynumber: 4.7 Consensus size: 34
7748592 TTTCCTCATT
**
7748602 GAAATACCATACCTACATTTTTCAACTC-GATATGG
1 GAAATACCATACCTACATTTCACAACTCAG-TAT-G
* **
7748637 GAAATGCCATACCTACATTTCTTAACTCAGTATG
1 GAAATACCATACCTACATTTCACAACTCAGTATG
** ** * *
7748671 GATTTGATAATATCATACATTTCACAGCTCAGTATG
1 GAAAT-ACCATA-CCTACATTTCACAACTCAGTATG
7748707 GATAATACCATACCTACATTTCACAACTCAGTATG
1 GA-AATACCATACCTACATTTCACAACTCAGTATG
*
7748742 GATGATACCATACCTACATTTCACA
1 GA-AATACCATACCTACATTTCACA
7748767 CTTTGCCATG
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
34 4 0.04
35 76 0.71
36 26 0.24
37 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (34 bp):
GAAATACCATACCTACATTTCACAACTCAGTATG
Found at i:7754857 original size:31 final size:31
Alignment explanation
Indices: 7754821--7754882 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
7754811 GCTACAAAAC
7754821 TACTACAAGC-CTTCAACAAAACACAAAAATT
1 TACTACAA-CACTTCAACAAAACACAAAAATT
* *
7754852 TACTACAACACTTCAATAAAACACACAAATT
1 TACTACAACACTTCAACAAAACACAAAAATT
7754883 GCCACAATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.21
Consensus pattern (31 bp):
TACTACAACACTTCAACAAAACACAAAAATT
Found at i:7756471 original size:21 final size:21
Alignment explanation
Indices: 7756446--7756487 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7756436 TTAAGTTTAA
7756446 TAAACAATAAATGA-TAATTTT
1 TAAACAATAAAT-ATTAATTTT
7756467 TAAACAATAAATATTAATTTT
1 TAAACAATAAATATTAATTTT
7756488 ATTCTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAACAATAAATATTAATTTT
Found at i:7760405 original size:24 final size:24
Alignment explanation
Indices: 7760376--7760427 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7760366 GATTACATAA
* *
7760376 ATTTTTAGATTTAA-AATGTTATTT
1 ATTTTTA-ATTAAATAATGTGATTT
7760400 ATTTTTAATTAAATAATGTGATTT
1 ATTTTTAATTAAATAATGTGATTT
7760424 ATTT
1 ATTT
7760428 GTGATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (24 bp):
ATTTTTAATTAAATAATGTGATTT
Found at i:7767958 original size:11 final size:11
Alignment explanation
Indices: 7767938--7767967 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7767928 TTATATAAAG
7767938 CTTCCCTTTCC
1 CTTCCCTTTCC
*
7767949 CTTCCTTTTCC
1 CTTCCCTTTCC
7767960 CTTCCCTT
1 CTTCCCTT
7767968 GCTCTGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (11 bp):
CTTCCCTTTCC
Found at i:7769427 original size:24 final size:23
Alignment explanation
Indices: 7769370--7769427 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
7769360 CAAGATTCAT
*
7769370 AATT-AATATAAATTATTTATAA
1 AATTAAATATAAAGTATTTATAA
*
7769392 AATTAACA-ATAAAGTATTTTTAA
1 AATTAA-ATATAAAGTATTTATAA
*
7769415 AGCTTAAATATAA
1 A-ATTAAATATAA
7769428 TAATAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 4 0.14
23 16 0.55
24 9 0.31
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (23 bp):
AATTAAATATAAAGTATTTATAA
Found at i:7769946 original size:21 final size:20
Alignment explanation
Indices: 7769908--7769947 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7769898 AAATAATATA
*
7769908 TAATATATTTTTTATATTAG
1 TAATATATTTTTAATATTAG
*
7769928 TAATGTATTTTTAACTATTA
1 TAATATATTTTTAA-TATTA
7769948 TTCTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
TAATATATTTTTAATATTAG
Found at i:7771108 original size:169 final size:168
Alignment explanation
Indices: 7770903--7771229 Score: 512
Period size: 169 Copynumber: 1.9 Consensus size: 168
7770893 AAATATTTAA
*
7770903 TTATAAAATAAAATGCAAAAGATTATAGCAATTTAAACATGAAATAAGTAATAAGTGTCGATTGA
1 TTATAAAATAAAATGCAAAAGATTATAGCAATTTAAACAAGAAATAAGTAATAAGTGTCGATTGA
*
7770968 ATCTT-AGTTTAATTGGTATAACTATTATTGTCAATATAGGAGGACGTATGTTTGAGTGCATTGA
66 ATCTTGA-TTTAATTGGTATAACTATTATTATCAATATAGGAGGACGTATGTTTGAGTGCATTGA
* *
7771032 ATTACATTATCTTCCTATTTATTAATTAGAGCGGAACTAT
130 AATACATT-TCTTCCTATTTATGAATTAGAGCGGAACTAT
* *
7771072 TTATGAAATAAAATGCAAAAGATTATAGCTATTTAAACAAGAAATAAGTAATAAGTGTCGATTGA
1 TTATAAAATAAAATGCAAAAGATTATAGCAATTTAAACAAGAAATAAGTAATAAGTGTCGATTGA
* * * *
7771137 GTCTTGATTTAATTGGTTTGACTATTATTATTAATATAGGAGGACGTATGTTTGAGTGCATTGAA
66 ATCTTGATTTAATTGGTATAACTATTATTATCAATATAGGAGGACGTATGTTTGAGTGCATTGAA
* * *
7771202 ATATATTTTTTTCTATTTATGAATTAGA
131 ATACATTTCTTCCTATTTATGAATTAGA
7771230 AAGGAAGTAT
Statistics
Matches: 144, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
168 18 0.12
169 125 0.87
170 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (168 bp):
TTATAAAATAAAATGCAAAAGATTATAGCAATTTAAACAAGAAATAAGTAATAAGTGTCGATTGA
ATCTTGATTTAATTGGTATAACTATTATTATCAATATAGGAGGACGTATGTTTGAGTGCATTGAA
ATACATTTCTTCCTATTTATGAATTAGAGCGGAACTAT
Found at i:7773101 original size:18 final size:18
Alignment explanation
Indices: 7773078--7773120 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7773068 GATCAAGGTG
7773078 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
7773096 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
7773114 TAATTAA
1 TAATTAA
7773121 AAATATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:7776265 original size:16 final size:16
Alignment explanation
Indices: 7776232--7776264 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7776222 ATTAAATAAT
7776232 AATTATATATATTTAA
1 AATTATATATATTTAA
*
7776248 AATTAT-TATTTTTAA
1 AATTATATATATTTAA
7776263 AA
1 AA
7776265 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTATATATATTTAA
Found at i:7778309 original size:3 final size:3
Alignment explanation
Indices: 7778301--7778402 Score: 56
Period size: 3 Copynumber: 35.3 Consensus size: 3
7778291 TAATGATAGC
* * * *
7778301 AAT AAT AAT ACT AAT -AT AAT AA- ATGT AAT AGT GAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * *
7778344 AAT AAT GAT AGT -AT GAAT AAT ATAT AA- AA- AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT -AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
*
7778388 -AT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT A
7778403 TTAAAATACA
Statistics
Matches: 75, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
2 12 0.16
3 57 0.76
4 6 0.08
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7778354 original size:23 final size:25
Alignment explanation
Indices: 7778312--7778371 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
7778302 ATAATAATAC
7778312 TAATATAATAAATGTAATAGTGAT-AA
1 TAATATAATAAATG-AATAGT-ATGAA
7778338 TAATATAAT-AATG-ATAGTATGAA
1 TAATATAATAAATGAATAGTATGAA
7778361 TAATAT-ATAAA
1 TAATATAATAAA
7778372 AAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 4 0.12
23 15 0.47
25 4 0.12
26 9 0.28
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (25 bp):
TAATATAATAAATGAATAGTATGAA
Found at i:7778363 original size:26 final size:27
Alignment explanation
Indices: 7778307--7778396 Score: 80
Period size: 26 Copynumber: 3.4 Consensus size: 27
7778297 TAGCAATAAT
*
7778307 AATACTAATATAATAAATGTAATAGTG
1 AATAATAATATAATAAATGTAATAGTG
*
7778334 -ATAATAATATAAT-AATGATAGTA-TG
1 AATAATAATATAATAAATG-TAATAGTG
* * *
7778359 AATAAT-ATATAAAAAATAATAATAATG
1 AATAATAATATAATAAAT-GTAATAGTG
7778386 ATATAATAATA
1 A-ATAATAATA
7778397 ACAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
25 12 0.24
26 28 0.55
27 3 0.06
28 5 0.10
29 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.08, T:0.33
Consensus pattern (27 bp):
AATAATAATATAATAAATGTAATAGTG
Found at i:7778391 original size:11 final size:11
Alignment explanation
Indices: 7778301--7778396 Score: 62
Period size: 11 Copynumber: 8.9 Consensus size: 11
7778291 TAATGATAGC
7778301 AATAATAATACT
1 AATAATAATA-T
7778313 AAT-ATAATA-
1 AATAATAATAT
*
7778322 AAT-GTAATAGT
1 AATAATAATA-T
*
7778333 GATAATAATAT
1 AATAATAATAT
*
7778344 AATAATGATAGT
1 AATAATAATA-T
7778356 -ATGAATAATAT
1 AAT-AATAATAT
*
7778367 -ATAA-AAAAT
1 AATAATAATAT
7778376 AATAATAATGAT
1 AATAATAAT-AT
7778388 -ATAATAATA
1 AATAATAATA
7778397 ACAATATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
9 12 0.18
10 7 0.10
11 32 0.47
12 17 0.25
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (11 bp):
AATAATAATAT
Found at i:7778504 original size:3 final size:3
Alignment explanation
Indices: 7778496--7778547 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
7778486 ATACACTAAC
* * ** *
7778496 ATA ATA ATA ATT ATA ATA ATA CTA GCA ATA ATA ATA ATTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
7778542 ATA ATA
1 ATA ATA
7778548 TATACACAAC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:7778543 original size:16 final size:16
Alignment explanation
Indices: 7778508--7778547 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
7778498 AATAATAATT
7778508 ATAATAAT-ACTAGCA
1 ATAATAATAACTAGCA
* *
7778523 ATAATAATAATTAGTA
1 ATAATAATAACTAGCA
7778539 ATAATAATA
1 ATAATAATA
7778548 TATACACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
ATAATAATAACTAGCA
Found at i:7778610 original size:33 final size:34
Alignment explanation
Indices: 7778561--7778625 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
7778551 ACACAACATG
*
7778561 GTATTTAAAAAAATAAAAATAATAT-ATATAATA
1 GTATTTAAAAAAATAAAAATAAGATGATATAATA
* * *
7778594 GTATTTAAGAATATAAACATAAGATGATATAA
1 GTATTTAAAAAAATAAAAATAAGATGATATAA
7778626 AATACATACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (34 bp):
GTATTTAAAAAAATAAAAATAAGATGATATAATA
Found at i:7778699 original size:11 final size:11
Alignment explanation
Indices: 7778672--7778714 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
7778662 AATGGCATTA
*
7778672 AAAATATATAC
1 AAAATATATAT
*
7778683 ATAATATATAT
1 AAAATATATAT
*
7778694 AAAATACATAT
1 AAAATATATAT
*
7778705 AATATATATA
1 AAAATATATA
7778715 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:7780111 original size:6 final size:6
Alignment explanation
Indices: 7780102--7780134 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
7780092 GAAGGTGGAC
7780102 GTTGGT GTTGGT GTTGGT GTTGGT GTTGGT GTT
1 GTTGGT GTTGGT GTTGGT GTTGGT GTTGGT GTT
7780135 TGAAGATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (6 bp):
GTTGGT
Found at i:7781297 original size:19 final size:19
Alignment explanation
Indices: 7781269--7781305 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7781259 TGTTCATCAA
7781269 AATTTCTTCAAAGATTTTC
1 AATTTCTTCAAAGATTTTC
*
7781288 AATTTGTTCAAAGATTTT
1 AATTTCTTCAAAGATTTT
7781306 TTTGAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (19 bp):
AATTTCTTCAAAGATTTTC
Found at i:7782103 original size:15 final size:15
Alignment explanation
Indices: 7782083--7782123 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
7782073 GCTCAATTTT
7782083 TAGTGGTGTCGAAAA
1 TAGTGGTGTCGAAAA
7782098 TAGTGGTGTCGAAAA
1 TAGTGGTGTCGAAAA
7782113 TAGTGGT-TCGA
1 TAGTGGTGTCGA
7782124 GGTTACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.29
Consensus pattern (15 bp):
TAGTGGTGTCGAAAA
Found at i:7783710 original size:21 final size:21
Alignment explanation
Indices: 7783686--7783882 Score: 145
Period size: 21 Copynumber: 9.6 Consensus size: 21
7783676 GTGTTTTACT
7783686 TTCTGTTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * *
7783707 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGC
* *
7783728 TTTTGTTCAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* *
7783749 TTCTGTTCTA-CTCTTAAGAGT
1 TTCTGTT-TAGCTCTTACGAGC
* * *
7783770 TTCTGTTAAGTTCTCACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* *
7783791 TTCTGTTCAGAT-TT-CGAGC
1 TTCTGTTTAGCTCTTACGAGC
*
7783810 TTCTTTTTAGCT-TT-CGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * * * *
7783829 TTTTGTTCAAC-CATTATGGGT
1 TTCTGTTTAGCTC-TTACGAGC
*
7783850 TTCTGTTTAGCTCTCACGAGC
1 TTCTGTTTAGCTCTTACGAGC
*
7783871 TTCTGTTCAGCT
1 TTCTGTTTAGCT
7783883 TTCTGGCTTT
Statistics
Matches: 132, Mismatches: 38, Indels: 12
0.73 0.21 0.07
Matches are distributed among these distances:
19 28 0.21
20 4 0.03
21 98 0.74
22 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTACGAGC
Found at i:7783810 original size:19 final size:19
Alignment explanation
Indices: 7783786--7783837 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
7783776 TAAGTTCTCA
7783786 CGAGCTTCTGTTCAGATTT
1 CGAGCTTCTGTTCAGATTT
* * *
7783805 CGAGCTTCTTTTTAGCTTT
1 CGAGCTTCTGTTCAGATTT
*
7783824 CGAGCTTTTGTTCA
1 CGAGCTTCTGTTCA
7783838 ACCATTATGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
CGAGCTTCTGTTCAGATTT
Found at i:7783879 original size:42 final size:42
Alignment explanation
Indices: 7783685--7783879 Score: 195
Period size: 42 Copynumber: 4.7 Consensus size: 42
7783675 CGTGTTTTAC
* *
7783685 TTTCTGTTTAGCTCTTACGAGCTTCTGTTTAACTCTTATGAG
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACTCTTATGAG
* * * * *
7783727 TTTTTGTTCAGCTCTTACGAGCTTCTGTTCTACTCTTAAGAG
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACTCTTATGAG
* * *
7783769 TTTCTGTTAAGTTCTCACGAGCTTCTGTTCAGA-T-TT-CGAG
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCA-ACTCTTATGAG
* * * * *
7783809 CTTCTTTTTAGCT-T-TCGAGCTTTTGTTCAAC-CATTATGGG
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACTC-TTATGAG
7783849 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCA
1 TTTCTGTTTAGCTCTCACGAGCTTCTGTTCA
7783880 GCTTTCTGGC
Statistics
Matches: 123, Mismatches: 23, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 1 0.01
38 13 0.11
39 3 0.02
40 25 0.20
41 3 0.02
42 77 0.63
43 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTCACGAGCTTCTGTTCAACTCTTATGAG
Found at i:7790411 original size:41 final size:40
Alignment explanation
Indices: 7790361--7790439 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
7790351 TATGGGATAT
**
7790361 TGAATATTGTTTTGAATACTGAATTGAACTGTGAAAATTAC
1 TGAATATTGTTACGAATACTGAATTGAACTGT-AAAATTAC
* *
7790402 TGAATATTGTTACGTATACTGCATTGAACTGTAAAATT
1 TGAATATTGTTACGAATACTGAATTGAACTGTAAAATT
7790440 TTTGATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 6 0.18
41 28 0.82
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (40 bp):
TGAATATTGTTACGAATACTGAATTGAACTGTAAAATTAC
Found at i:7790702 original size:45 final size:46
Alignment explanation
Indices: 7790652--7790762 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 46
7790642 CGACTACTGT
*
7790652 TACTGTTACCGTTACTGTTACCA-ATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCAGATTCAACACTTTGTGTGTCGAA
* *
7790697 TACTGTTACCGTTACTGTTA-TAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACCAGATTCAACACTTTGTGTGTCGAA
*
7790742 TACTGTTACTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
7790763 TGCTACTGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 59 0.98
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (46 bp):
TACTGTTACCGTTACTGTTACCAGATTCAACACTTTGTGTGTCGAA
Found at i:7790711 original size:51 final size:48
Alignment explanation
Indices: 7790637--7790764 Score: 145
Period size: 45 Copynumber: 2.7 Consensus size: 48
7790627 CAGGCACTTA
* * * *
7790637 TGTGCCGACTACTGTTACTGTTACCGTTACTGTTACCAATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTG-TA--AATTCAACACTTTG
* *
7790688 TGTGTCGAATACTGTTACCGTTACTGTTA---TAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTGTAAATTCAACACTTTG
*
7790733 TGTGTTGAATACTGTTACTGTTACTGTTACTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACTG
7790765 CTACTGTTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
45 39 0.59
47 2 0.03
51 25 0.38
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (48 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACTGTAAATTCAACACTTTG
Found at i:7790753 original size:6 final size:6
Alignment explanation
Indices: 7790742--7790785 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
7790732 GTGTGTTGAA
*
7790742 TACTGT TACTGT TACTGT TACTGC TACTGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
7790786 TAGGTATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:7806148 original size:6 final size:6
Alignment explanation
Indices: 7806120--7806150 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
7806110 TAAATAAAAG
*
7806120 AAAAAT AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT AAAATT A
7806151 GTAATAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:7807825 original size:5 final size:5
Alignment explanation
Indices: 7807815--7807861 Score: 76
Period size: 5 Copynumber: 9.0 Consensus size: 5
7807805 AAGAAATAAT
7807815 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA CTTAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA --TAAAA TAAAA
7807862 AAAGTAACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 35 0.88
7 5 0.12
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:7808651 original size:21 final size:20
Alignment explanation
Indices: 7808626--7808664 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7808616 CCAGGCCGTG
7808626 TCGCACGCCTGTGTGGCTCTA
1 TCGCA-GCCTGTGTGGCTCTA
*
7808647 TCGCAGGCTGTGTGGCTC
1 TCGCAGCCTGTGTGGCTC
7808665 GATACTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.08, C:0.31, G:0.33, T:0.28
Consensus pattern (20 bp):
TCGCAGCCTGTGTGGCTCTA
Found at i:7811571 original size:24 final size:24
Alignment explanation
Indices: 7811544--7811589 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
7811534 AACAAAAGAA
7811544 AAATT-AAACTAAAAACAAAAAAGT
1 AAATTGAAAC-AAAAACAAAAAAGT
* *
7811568 AAATTGCAACAAAAAGAAAAAA
1 AAATTGAAACAAAAACAAAAAA
7811590 AATGGCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.13
Consensus pattern (24 bp):
AAATTGAAACAAAAACAAAAAAGT
Found at i:7812947 original size:24 final size:24
Alignment explanation
Indices: 7812871--7812941 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 24
7812861 CAGCTCGAAA
* * *
7812871 GAGCGTCCCGATAGTAGCTCTTAC
1 GAGCTTCCCGTTAATAGCTCTTAC
* * * *
7812895 GAGCTTCCCATTATATGGTTCTTAT
1 GAGCTTCCCGTTA-ATAGCTCTTAC
7812920 GAGCTTCCCGTTAATAGCTCTT
1 GAGCTTCCCGTTAATAGCTCTT
7812942 TAGAGCATCC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 17 0.47
25 19 0.53
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTAATAGCTCTTAC
Found at i:7824231 original size:24 final size:24
Alignment explanation
Indices: 7824199--7824339 Score: 167
Period size: 24 Copynumber: 5.9 Consensus size: 24
7824189 TCGGTCAAGG
* *
7824199 AAATTCGCACACATAGTGCCATGC
1 AAATCCGCACACATAGTGCCATTC
* ** *
7824223 TAGCCCGCACACATAATGCC-TTGC
1 AAATCCGCACACATAGTGCCATT-C
* * *
7824247 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
7824271 AAATCCGCACACATAGTGTCATTC
1 AAATCCGCACACATAGTGCCATTC
*
7824295 AAATCTGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
7824319 AAATCCGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
7824340 ATGTCATTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
23 1 0.01
24 94 0.97
25 2 0.02
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATTC
Found at i:7825679 original size:17 final size:17
Alignment explanation
Indices: 7825657--7825690 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7825647 CCCCACTTAA
*
7825657 TATATTATAACTTATTT
1 TATATTATAACATATTT
7825674 TATATTATAACATATTT
1 TATATTATAACATATTT
7825691 CAAATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:7833950 original size:49 final size:51
Alignment explanation
Indices: 7833815--7834003 Score: 228
Period size: 49 Copynumber: 3.8 Consensus size: 51
7833805 TAATAACATG
* ** *
7833815 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TCCGTGAT-GGTGC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT-CGT-CTCGGTGC
* * * *
7833866 CCATTGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTG-
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGC
*
7833916 CCAACGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCGTCTC--TGC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGC
*
7833964 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7834004 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.02
48 11 0.09
49 56 0.47
50 11 0.09
51 38 0.32
52 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (51 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGC
Found at i:7834120 original size:13 final size:13
Alignment explanation
Indices: 7834099--7834130 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7834089 GCTTGGATCA
*
7834099 TCATCAAATAAAT
1 TCATAAAATAAAT
7834112 TCATAAAATAAAT
1 TCATAAAATAAAT
7834125 TCATAA
1 TCATAA
7834131 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7834377 original size:30 final size:29
Alignment explanation
Indices: 7834342--7834398 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
7834332 CCTCGACTCT
*
7834342 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
7834372 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
7834399 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:7841437 original size:50 final size:50
Alignment explanation
Indices: 7841313--7841560 Score: 275
Period size: 49 Copynumber: 4.8 Consensus size: 50
7841303 GATAATAACA
* * ** * *
7841313 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7841364 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7841414 TGCCAACGCCATGTCCCAGACATGGTCTTACA-TGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7841463 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7841518 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7841561 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 46 0.27
50 45 0.27
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7841488 original size:99 final size:104
Alignment explanation
Indices: 7841312--7841553 Score: 343
Period size: 99 Copynumber: 2.3 Consensus size: 104
7841302 TGATAATAAC
**
7841312 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAT-GGATCCTCTCGTGATGGTGCCCATGCCATG
* *
7841377 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
7841414 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGA-CCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGATCCTCTCGTGAT-GGTGCCCATGCCATG
7841476 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
7841518 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGG
7841554 GATCTCTTTA
Statistics
Matches: 126, Mismatches: 7, Indels: 11
0.88 0.05 0.08
Matches are distributed among these distances:
98 1 0.01
99 50 0.40
100 3 0.02
101 32 0.25
102 3 0.02
103 1 0.01
104 2 0.02
105 34 0.27
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGATCCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:7841676 original size:13 final size:13
Alignment explanation
Indices: 7841655--7841686 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7841645 GCTTGGATCA
*
7841655 TCATCAAATAAAT
1 TCATAAAATAAAT
7841668 TCATAAAATAAAT
1 TCATAAAATAAAT
7841681 TCATAA
1 TCATAA
7841687 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7841933 original size:30 final size:30
Alignment explanation
Indices: 7841898--7841955 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7841888 CCTCGACTCT
*
7841898 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
7841928 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
7841956 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:7848742 original size:53 final size:53
Alignment explanation
Indices: 7848672--7848811 Score: 201
Period size: 53 Copynumber: 2.6 Consensus size: 53
7848662 CACATATCAT
* * *
7848672 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
7848725 ATCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
7848778 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
7848812 GCGCACTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 77 0.99
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:7852599 original size:10 final size:10
Alignment explanation
Indices: 7852584--7852611 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7852574 AATTCACATA
7852584 CAATATCATT
1 CAATATCATT
7852594 CAATATCATT
1 CAATATCATT
7852604 CAATATCA
1 CAATATCA
7852612 ATCTTATTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (10 bp):
CAATATCATT
Found at i:7854285 original size:5 final size:5
Alignment explanation
Indices: 7854275--7854361 Score: 174
Period size: 5 Copynumber: 17.4 Consensus size: 5
7854265 ATTAAACTAT
7854275 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
7854325 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
7854362 ATTACTTAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 82 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:7855409 original size:35 final size:35
Alignment explanation
Indices: 7855359--7855436 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
7855349 ACTTGATTGG
*
7855359 TAACTATTATTATATACAAATTCAGCCAACGGTAAA
1 TAAC-ATTATCATATACAAATTCAGCCAACGGTAAA
*
7855395 TAACATTATCATATACAAATTTAGCCAACGGTAAA
1 TAACATTATCATATACAAATTCAGCCAACGGTAAA
7855430 TAACATT
1 TAACATT
7855437 CTCAACTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.31
Consensus pattern (35 bp):
TAACATTATCATATACAAATTCAGCCAACGGTAAA
Found at i:7861179 original size:13 final size:13
Alignment explanation
Indices: 7861161--7861185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7861151 GCCATCATGA
7861161 TATTTACTTACCT
1 TATTTACTTACCT
7861174 TATTTACTTACC
1 TATTTACTTACC
7861186 ATAACATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTACTTACCT
Found at i:7861864 original size:9 final size:9
Alignment explanation
Indices: 7861850--7861874 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7861840 TTTTCTATCG
7861850 TTTTATTTC
1 TTTTATTTC
7861859 TTTTATTTC
1 TTTTATTTC
7861868 TTTTATT
1 TTTTATT
7861875 ATTAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTTC
Found at i:7861893 original size:5 final size:5
Alignment explanation
Indices: 7861885--7861916 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
7861875 ATTAAATTAT
7861885 TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TA
7861917 ACAATTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:7868210 original size:14 final size:14
Alignment explanation
Indices: 7868182--7868223 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7868172 TTGCTAAGAA
*
7868182 AAAAAATAGATAAAG
1 AAAAAA-AGAAAAAG
7868197 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
*
7868211 AAAAAAATAAAAA
1 AAAAAAAGAAAAA
7868224 TTAAGAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:7870204 original size:6 final size:6
Alignment explanation
Indices: 7870195--7870221 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7870185 TTTATTCATA
7870195 AAAGAG AAAGAG AAAGAG AAAGAG AAA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAA
7870222 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:7870718 original size:17 final size:16
Alignment explanation
Indices: 7870696--7870738 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
7870686 AACTTCATCA
7870696 TTAAATAAAAAATATAT
1 TTAAATAAAAAATA-AT
* *
7870713 TTAAATAATAATTAAT
1 TTAAATAAAAAATAAT
7870729 TATAAATAAA
1 T-TAAATAAA
7870739 TGTTAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAATAAAAAATAAT
Found at i:7870828 original size:13 final size:13
Alignment explanation
Indices: 7870810--7870849 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
7870800 CGAGAGTTAT
7870810 TAATATTTAATTA
1 TAATATTTAATTA
*
7870823 TAATATTT-ATGA
1 TAATATTTAATTA
7870835 TTAATATTTAATTA
1 -TAATATTTAATTA
7870849 T
1 T
7870850 GTTTGAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TAATATTTAATTA
Found at i:7872559 original size:26 final size:26
Alignment explanation
Indices: 7872503--7872609 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
7872493 TGATACAAAT
7872503 TGATAATGGGTTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
7872528 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7872554 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7872580 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7872606 TGAT
1 TGAT
7872610 GGACATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 19 0.25
26 58 0.75
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7879481 original size:52 final size:52
Alignment explanation
Indices: 7879419--7879521 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
7879409 AACTTATTTC
*
7879419 ATTCATTTCACTTACTAGCCTATATAACTTTCCACGATTTATTCACAAGTCT
1 ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTCT
7879471 ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTC
1 ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTC
7879522 ATTAAACAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (52 bp):
ATTCATTTCACTTACTAACCTATATAACTTTCCACGATTTATTCACAAGTCT
Found at i:7880905 original size:20 final size:20
Alignment explanation
Indices: 7880882--7880928 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
7880872 TATAATTATT
7880882 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
7880902 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATCTTTTA
7880922 TAATTAA
1 TAATTAA
7880929 ATATATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTAATAAATATCTTTTA
Found at i:7881517 original size:19 final size:21
Alignment explanation
Indices: 7881471--7881517 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
7881461 TATAATAAAT
* *
7881471 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
7881492 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
7881510 TAATTAAA
1 TAATTAAA
7881518 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:7893741 original size:20 final size:20
Alignment explanation
Indices: 7893715--7893765 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
7893705 GGACTAATGT
*
7893715 AAAATTTCTAATGTTATATC
1 AAAATTTCTAATGTGATATC
* * *
7893735 GAAATTT-TAAGGTGATATT
1 AAAATTTCTAATGTGATATC
7893754 AAAATTTCTAAT
1 AAAATTTCTAAT
7893766 ACTATATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (20 bp):
AAAATTTCTAATGTGATATC
Found at i:7893774 original size:20 final size:20
Alignment explanation
Indices: 7893749--7893786 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7893739 TTTTAAGGTG
7893749 ATATTAAAATTTCTAATACT
1 ATATTAAAATTTCTAATACT
*
7893769 ATATTAAAATTTTTAATA
1 ATATTAAAATTTCTAATA
7893787 TCATACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTAAAATTTCTAATACT
Found at i:7893936 original size:40 final size:40
Alignment explanation
Indices: 7893891--7894090 Score: 222
Period size: 41 Copynumber: 5.0 Consensus size: 40
7893881 TGTAAAACAT
*****
7893891 AGAGCAATAGCGGCATTTGACCAAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCATTTTTGTTAAAACGCCGCTAAAAAC
** *
7893931 AGAGCAATAATGGCTTTTTTGTTAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCATTTTTGTTAAAACGCCGCTAAAAAC
*
7893971 AGAGCAATAGCGGCATTTTTTGTTAAAACGCCGCTAAAAAT
1 AGAGCAATAGCGGCA-TTTTTGTTAAAACGCCGCTAAAAAC
* * *
7894012 AGAGCATTAGCGGC-TCTTTTGGTAAAACGCCGCTAAAAGTC
1 AGAGCAATAGCGGCAT-TTTTGTTAAAACGCCGCTAAAA-AC
* ** *
7894053 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCAATAGCGGCATTTTTGTTAAAACGCCGCTAAAA
7894091 GTCATATAAC
Statistics
Matches: 139, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 65 0.47
41 73 0.53
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
AGAGCAATAGCGGCATTTTTGTTAAAACGCCGCTAAAAAC
Found at i:7894002 original size:41 final size:40
Alignment explanation
Indices: 7893914--7894090 Score: 237
Period size: 41 Copynumber: 4.4 Consensus size: 40
7893904 CATTTGACCA
** * *
7893914 AAAACGCCGCTAAAAACAGAGCAATAATGGCTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCTCTTTTGGT
* *
7893954 AAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGC-TCTTTTGGT
* *
7893995 AAAACGCCGCTAAAAATAGAGCATTAGCGGCTCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCTCTTTTGGT
* * *
7894035 AAAACGCCGCTAAAAGTCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACAGAGCAATAGCGGCTCTTTTGGT
7894076 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
7894091 GTCATATAAC
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 51 0.40
41 75 0.60
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCTCTTTTGGT
Found at i:7894032 original size:81 final size:81
Alignment explanation
Indices: 7893914--7894090 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
7893904 CATTTGACCA
* * *
7893914 AAAACGCCGCTAAAAACAGAGCAATAATGGCTTTTTTGTTAAAACGCCGCTAAAA-ACAGAGCAA
1 AAAACGCCGCTAAAAACAGAGCAATAACGGCTCTTTTGGTAAAACGCCGCTAAAAGACAGAGCAA
** *
7893978 TAGCGGCATTTTTTGTT
66 TAGCGGC-GCTTTTGGT
* * * * *
7893995 AAAACGCCGCTAAAAATAGAGCATTAGCGGCTCTTTTGGTAAAACGCCGCTAAAAGTCAGAGCAT
1 AAAACGCCGCTAAAAACAGAGCAATAACGGCTCTTTTGGTAAAACGCCGCTAAAAGACAGAGCAA
7894060 TAGCGGCGCTTTTGGT
66 TAGCGGCGCTTTTGGT
7894076 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
7894091 GTCATATAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 70 0.83
82 14 0.17
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCAATAACGGCTCTTTTGGTAAAACGCCGCTAAAAGACAGAGCAA
TAGCGGCGCTTTTGGT
Found at i:7894761 original size:22 final size:22
Alignment explanation
Indices: 7894700--7894764 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
7894690 TGGGTTATGG
*
7894700 GTTTAGGG-TTAATGGTTTATA
1 GTTTAGGGATTAATGGTTTAGA
* *
7894721 TTTTA-GGATT-TTAGAGTTTAGA
1 GTTTAGGGATTAAT-G-GTTTAGA
7894743 GTTTAGGGATTAATGGTTTAGA
1 GTTTAGGGATTAATGGTTTAGA
7894765 TTAATTAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
20 3 0.09
21 7 0.21
22 17 0.50
23 6 0.18
24 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
GTTTAGGGATTAATGGTTTAGA
Found at i:7895104 original size:14 final size:15
Alignment explanation
Indices: 7895066--7895106 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
7895056 CATTGATAGC
*
7895066 AAATAAAAATAAAATA
1 AAATAATAA-AAAATA
7895082 AAATAATAAAAAATA
1 AAATAATAAAAAATA
7895097 AAAT-ATAAAA
1 AAATAATAAAA
7895107 TAGAGGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 10 0.42
16 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATAATAAAAAATA
Found at i:7903631 original size:27 final size:26
Alignment explanation
Indices: 7903584--7903634 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
7903574 CGAGGCTGCT
*
7903584 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
7903610 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
7903635 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:7904289 original size:27 final size:27
Alignment explanation
Indices: 7904249--7904305 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
7904239 TACGCACGAA
7904249 GGGCAAAATAGTCATTTAACACC-CTAG
1 GGGCAAAATAGTCATTTAAC-CCTCTAG
* *
7904276 GGGCAAAATGGTCATTTTACCCTCTAG
1 GGGCAAAATAGTCATTTAACCCTCTAG
7904303 GGG
1 GGG
7904306 TAAATCGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (27 bp):
GGGCAAAATAGTCATTTAACCCTCTAG
Found at i:7904323 original size:27 final size:27
Alignment explanation
Indices: 7904293--7904355 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
7904283 ATGGTCATTT
7904293 TACCCT-CTAGGGGTAAATCGGTAGTCC
1 TACCCTAC-AGGGGTAAATCGGTAGTCC
** * *
7904320 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTAAATCGGTAGTCC
7904347 TACCCTACA
1 TACCCTACA
7904356 AGGATATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (27 bp):
TACCCTACAGGGGTAAATCGGTAGTCC
Found at i:7904363 original size:27 final size:27
Alignment explanation
Indices: 7904310--7904369 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
7904300 TAGGGGTAAA
* *
7904310 TCGGTAGTCCTACCCTACAGGGGTATT
1 TCGGTAGTCCTACCCTACAAGGATATT
* *
7904337 TCGGTATTTCTACCCTACAAGGATATT
1 TCGGTAGTCCTACCCTACAAGGATATT
7904364 TCGGTA
1 TCGGTA
7904370 ATTTTGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
TCGGTAGTCCTACCCTACAAGGATATT
Found at i:7904423 original size:27 final size:27
Alignment explanation
Indices: 7904393--7904459 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
7904383 AGGGTAAAAC
** *
7904393 GGTAATTCTGTAACTCGGGGGTACTTT
1 GGTAATTCTACAACTCGAGGGTACTTT
* * *
7904420 GGTAATTTTACAAGTCGAGGGTATTTT
1 GGTAATTCTACAACTCGAGGGTACTTT
*
7904447 GGTAATTTTACAA
1 GGTAATTCTACAA
7904460 ACCAGGGGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.39
Consensus pattern (27 bp):
GGTAATTCTACAACTCGAGGGTACTTT
Found at i:7904468 original size:27 final size:26
Alignment explanation
Indices: 7904410--7904480 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
7904400 CTGTAACTCG
* **
7904410 GGGGTACTTTGGTAATTTTACAAGTC
1 GGGGTATTTTGGTAATTTTACAAACC
7904436 GAGGGTATTTTGGTAATTTTACAAACC
1 G-GGGTATTTTGGTAATTTTACAAACC
*
7904463 AGGGGTATTTTAGTAATT
1 -GGGGTATTTTGGTAATT
7904481 CTAAAACTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (26 bp):
GGGGTATTTTGGTAATTTTACAAACC
Found at i:7910717 original size:27 final size:27
Alignment explanation
Indices: 7910679--7910731 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7910669 CACGAAGGGA
7910679 AAAATAGTCATTTAACACC-CTAGGGGC
1 AAAATAGTCATTTAAC-CCTCTAGGGGC
* *
7910706 AAAATGGTCATTTTACCCTCTAGGGG
1 AAAATAGTCATTTAACCCTCTAGGGG
7910732 TAAATCGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAATAGTCATTTAACCCTCTAGGGGC
Found at i:7910749 original size:27 final size:27
Alignment explanation
Indices: 7910719--7910787 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
7910709 ATGGTCATTT
7910719 TACCCT-CTAGGGGTAAATCGGTAGTCC
1 TACCCTAC-AGGGGTAAATCGGTAGTCC
** * *
7910746 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTAAATCGGTAGTCC
*
7910773 TACCCTACAAGGGTA
1 TACCCTACAGGGGTA
7910788 TTTCGATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (27 bp):
TACCCTACAGGGGTAAATCGGTAGTCC
Found at i:7910788 original size:27 final size:27
Alignment explanation
Indices: 7910736--7910792 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
7910726 TAGGGGTAAA
*
7910736 TCGGTAGTCCTACCCTACAGGGGTATT
1 TCGGTAGTCCTACCCTACAAGGGTATT
* *
7910763 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAGTCCTACCCTACAAGGGTATT
7910790 TCG
1 TCG
7910793 ATAATTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
TCGGTAGTCCTACCCTACAAGGGTATT
Found at i:7910812 original size:27 final size:27
Alignment explanation
Indices: 7910782--7910854 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
7910772 CTACCCTACA
*
7910782 AGGGTATTTCGATAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
*** *
7910809 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTGTAAATCG
*
7910836 GGGGTACTTT-GGTAATTTT
1 AGGGTA-TTTCGGTAATTTT
7910855 ACAAACCAGG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTGTAAATCG
Found at i:7914665 original size:19 final size:19
Alignment explanation
Indices: 7914641--7914678 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7914631 GTTTTCCAGA
7914641 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
7914660 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
7914679 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:7925713 original size:35 final size:35
Alignment explanation
Indices: 7925672--7925774 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 35
7925662 TAAGTATGTA
*
7925672 CATGTGAGGTCATATTGACTTTGTATATTCGGCTG
1 CATGTGAGGTTATATTGACTTTGTATATTCGGCTG
* * * ** *
7925707 CTTGTGAAGTTATATTGAAC-TTGTATATTTGATTT
1 CATGTGAGGTTATATTG-ACTTTGTATATTCGGCTG
* *
7925742 CATATGAGGTTATATTGAATTTGTATATTCGGC
1 CATGTGAGGTTATATTGACTTTGTATATTCGGC
7925775 CATATGAGAT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
34 1 0.02
35 49 0.94
36 2 0.04
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (35 bp):
CATGTGAGGTTATATTGACTTTGTATATTCGGCTG
Found at i:7933545 original size:35 final size:35
Alignment explanation
Indices: 7933450--7933546 Score: 113
Period size: 35 Copynumber: 2.8 Consensus size: 35
7933440 TATGTACATG
* * * * *
7933450 TGAGGTCATATTGACTTTGTATATTCGACTGCTTG
1 TGAGGTTATATTGAATTTGTATATTTGACTGCATA
* * * *
7933485 TGAAGTTATATTGAACTTGTATATTTGATTTCATA
1 TGAGGTTATATTGAATTTGTATATTTGACTGCATA
7933520 TGAGGTTATATTGAATTTGTATATTTG
1 TGAGGTTATATTGAATTTGTATATTTG
7933547 GCCATATGAG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (35 bp):
TGAGGTTATATTGAATTTGTATATTTGACTGCATA
Found at i:7939209 original size:17 final size:17
Alignment explanation
Indices: 7939189--7939234 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
7939179 CTATTAGAGG
*
7939189 GCTTGCAATCTTGATGA
1 GCTTGCAGTCTTGATGA
*
7939206 GCTTG-AGTCTTGGTGA
1 GCTTGCAGTCTTGATGA
*
7939222 GCTCGCAGTCTTG
1 GCTTGCAGTCTTG
7939235 GGCAAGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (17 bp):
GCTTGCAGTCTTGATGA
Found at i:7939327 original size:18 final size:19
Alignment explanation
Indices: 7939304--7939350 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
7939294 CACAGATATG
7939304 GTGAGCTCGCA-TCTTTG-A
1 GTGAGCTCGCAGT-TTTGTA
*
7939322 GTGAGCTCACAGTTTTGTA
1 GTGAGCTCGCAGTTTTGTA
7939341 G-GAGCTCGCA
1 GTGAGCTCGCA
7939351 ATTATGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (19 bp):
GTGAGCTCGCAGTTTTGTA
Found at i:7940653 original size:12 final size:12
Alignment explanation
Indices: 7940636--7940660 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7940626 AGTAAGATGG
7940636 TTGAAAAATCCA
1 TTGAAAAATCCA
7940648 TTGAAAAATCCA
1 TTGAAAAATCCA
7940660 T
1 T
7940661 AAACTGGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TTGAAAAATCCA
Found at i:7941396 original size:17 final size:16
Alignment explanation
Indices: 7941354--7941433 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 16
7941344 GCTCATAGTC
7941354 TTGGTGAGCTCAG-AATT
1 TTGGTGAGCTC-GTAA-T
7941371 TTAGGTGAGCTCGTACAT
1 TT-GGTGAGCTCGTA-AT
* *
7941389 TTGGTGAGATCGTATT
1 TTGGTGAGCTCGTAAT
*
7941405 CTTGGTAAGCTCGTAGAT
1 -TTGGTGAGCTCGTA-AT
*
7941423 ATGGTGAGCTC
1 TTGGTGAGCTC
7941434 ACAACTTTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 35 0.69
18 14 0.27
19 1 0.02
ACGTcount: A:0.21, C:0.14, G:0.30, T:0.35
Consensus pattern (16 bp):
TTGGTGAGCTCGTAAT
Found at i:7942270 original size:44 final size:46
Alignment explanation
Indices: 7942179--7942273 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 46
7942169 GTCTGCCACA
7942179 GTCATTTCTTTTAATTTCATTTGTGCCCGCTTTTTTTTGTTTATTATTG
1 GTCATTTCTTTTAATTTCATTTGT---CGCTTTTTTTTGTTTATTATTG
* * *
7942228 GTCATTTCTTTTAATTTGATTTGT-GTTTCTCTTTTTTTTTATTATT
1 GTCATTTCTTTTAATTTCATTTGTCGCTT-T-TTTTTGTTTATTATT
7942274 TGTTTTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 3 0.07
46 1 0.02
47 14 0.34
49 23 0.56
ACGTcount: A:0.13, C:0.12, G:0.11, T:0.65
Consensus pattern (46 bp):
GTCATTTCTTTTAATTTCATTTGTCGCTTTTTTTTGTTTATTATTG
Found at i:7947624 original size:8 final size:7
Alignment explanation
Indices: 7947595--7947626 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
7947585 ATCTTTTTTC
7947595 TTCCCCT
1 TTCCCCT
7947602 TTCCCCT
1 TTCCCCT
7947609 TTCCCCT
1 TTCCCCT
*
7947616 TTCCCCC
1 TTCCCCT
7947623 TTCC
1 TTCC
7947627 TTATTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (7 bp):
TTCCCCT
Found at i:7947645 original size:10 final size:10
Alignment explanation
Indices: 7947630--7947675 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
7947620 CCCTTCCTTA
7947630 TTTCTTCCCT
1 TTTCTTCCCT
7947640 TTTCTTCCCT
1 TTTCTTCCCT
*
7947650 TTTCCTTCTC-
1 TTT-CTTCCCT
7947660 TTT-TTCCCT
1 TTTCTTCCCT
*
7947669 TCTCTTC
1 TTTCTTC
7947676 TTCCTCCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 4 0.13
9 2 0.07
10 19 0.63
11 5 0.17
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCTTCCCT
Found at i:7949780 original size:6 final size:6
Alignment explanation
Indices: 7949761--7949812 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
7949751 TTGAGTCCGA
** * *
7949761 TTATTT TTACGT TTATGT TTACTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
7949809 TTAT
1 TTAT
7949813 GTCTATTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:7949819 original size:12 final size:12
Alignment explanation
Indices: 7949772--7949819 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
7949762 TATTTTTACG
*
7949772 TTTATGTTTACT
1 TTTATGTTTATT
*
7949784 TTTATTTTTATT
1 TTTATGTTTATT
*
7949796 TTTATTTTTATT
1 TTTATGTTTATT
*
7949808 TTTATGTCTATT
1 TTTATGTTTATT
7949820 ATGTTTTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTATGTTTATT
Found at i:7949819 original size:18 final size:18
Alignment explanation
Indices: 7949761--7949819 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
7949751 TTGAGTCCGA
**
7949761 TTATTTTTACGTTTATGT
1 TTATTTTTATTTTTATGT
* *
7949779 TTACTTTTATTTTTATTT
1 TTATTTTTATTTTTATGT
7949797 TTATTTTTATTTTTATGT
1 TTATTTTTATTTTTATGT
*
7949815 CTATT
1 TTATT
7949820 ATGTTTTCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTTTATGT
Found at i:7950789 original size:13 final size:13
Alignment explanation
Indices: 7950771--7950805 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
7950761 ATTCAGTCAA
7950771 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
7950784 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
7950797 -AAGAAAAAA
1 AAAGAAAAAA
7950806 TATAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:7953387 original size:15 final size:14
Alignment explanation
Indices: 7953369--7953407 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7953359 AATATTATTT
*
7953369 TTAAAAAAATTTAAA
1 TTAAAAAAATAT-AA
*
7953384 TTAAAAAAATATAT
1 TTAAAAAAATATAA
7953398 TTAAAAAAAT
1 TTAAAAAAAT
7953408 CTCTAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAAATATAA
Found at i:7953927 original size:14 final size:14
Alignment explanation
Indices: 7953905--7953946 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
7953895 GGGGTTGTTA
*
7953905 TTATATTTTTATTT
1 TTATTTTTTTATTT
*
7953919 TTATTTTTTCA-TT
1 TTATTTTTTTATTT
*
7953932 TGATTTTTTTATTT
1 TTATTTTTTTATTT
7953946 T
1 T
7953947 AGGTTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:7962178 original size:18 final size:18
Alignment explanation
Indices: 7962155--7962190 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7962145 GATGAGGGGA
7962155 TCTCAACTTGGAATGTTT
1 TCTCAACTTGGAATGTTT
7962173 TCTCAACTTGGAATGTTT
1 TCTCAACTTGGAATGTTT
7962191 GAAACTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTCAACTTGGAATGTTT
Found at i:7965519 original size:10 final size:10
Alignment explanation
Indices: 7965504--7965549 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
7965494 CCCTTCCTTA
7965504 TTTCTTCCCT
1 TTTCTTCCCT
7965514 TTTCTTCCCT
1 TTTCTTCCCT
*
7965524 TTTCCTTCTC-
1 TTT-CTTCCCT
7965534 TTT-TTCCCT
1 TTTCTTCCCT
*
7965543 TCTCTTC
1 TTTCTTC
7965550 TTCCTCCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
8 4 0.13
9 2 0.07
10 19 0.63
11 5 0.17
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTCTTCCCT
Found at i:7967653 original size:6 final size:6
Alignment explanation
Indices: 7967634--7967685 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
7967624 TTGAGTCCGA
** * *
7967634 TTATTT TTACGT TTATGT TTACTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
7967682 TTAT
1 TTAT
7967686 GTCTATTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:7967692 original size:12 final size:12
Alignment explanation
Indices: 7967645--7967692 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
7967635 TATTTTTACG
*
7967645 TTTATGTTTACT
1 TTTATGTTTATT
*
7967657 TTTATTTTTATT
1 TTTATGTTTATT
*
7967669 TTTATTTTTATT
1 TTTATGTTTATT
*
7967681 TTTATGTCTATT
1 TTTATGTTTATT
7967693 ATGTTTTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (12 bp):
TTTATGTTTATT
Found at i:7967692 original size:18 final size:18
Alignment explanation
Indices: 7967634--7967692 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
7967624 TTGAGTCCGA
**
7967634 TTATTTTTACGTTTATGT
1 TTATTTTTATTTTTATGT
* *
7967652 TTACTTTTATTTTTATTT
1 TTATTTTTATTTTTATGT
7967670 TTATTTTTATTTTTATGT
1 TTATTTTTATTTTTATGT
*
7967688 CTATT
1 TTATT
7967693 ATGTTTTCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (18 bp):
TTATTTTTATTTTTATGT
Found at i:7968662 original size:13 final size:13
Alignment explanation
Indices: 7968644--7968677 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
7968634 ATTCAGTCAA
7968644 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
7968657 AAAG-AAAAAAAG
1 AAAGAAAAAAAAG
7968669 -AAGAAAAAA
1 AAAGAAAAAA
7968678 TATAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 13 0.65
13 4 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:7968666 original size:12 final size:12
Alignment explanation
Indices: 7968644--7968677 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
7968634 ATTCAGTCAA
7968644 AAAGAAAAAAAAG
1 AAAG-AAAAAAAG
7968657 AAAGAAAAAAAG
1 AAAGAAAAAAAG
7968669 -AAGAAAAAA
1 AAAGAAAAAA
7968678 TATAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 8 0.38
13 4 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:7971257 original size:15 final size:14
Alignment explanation
Indices: 7971239--7971277 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
7971229 AATATTATTT
*
7971239 TTAAAAAAATTTAAA
1 TTAAAAAAATAT-AA
*
7971254 TTAAAAAAATATAT
1 TTAAAAAAATATAA
7971268 TTAAAAAAAT
1 TTAAAAAAAT
7971278 CTCTAAATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAAATATAA
Found at i:7971797 original size:14 final size:14
Alignment explanation
Indices: 7971775--7971816 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
7971765 GGGGTTGTTA
*
7971775 TTATATTTTTATTT
1 TTATTTTTTTATTT
*
7971789 TTATTTTTTCA-TT
1 TTATTTTTTTATTT
*
7971802 TGATTTTTTTATTT
1 TTATTTTTTTATTT
7971816 T
1 T
7971817 AGGTTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:7980053 original size:18 final size:18
Alignment explanation
Indices: 7980030--7980065 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7980020 GATGAGGGGA
7980030 TCTCAACTTGGAATGTTT
1 TCTCAACTTGGAATGTTT
7980048 TCTCAACTTGGAATGTTT
1 TCTCAACTTGGAATGTTT
7980066 GAAACTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (18 bp):
TCTCAACTTGGAATGTTT
Found at i:7984122 original size:29 final size:29
Alignment explanation
Indices: 7984044--7984172 Score: 152
Period size: 29 Copynumber: 4.4 Consensus size: 29
7984034 TGTGTGTACC
*
7984044 ATGTGAAAAGGGATAGCTTCGGCTATCAA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* * *
7984073 ATGTAAAAAAAAGGATAGCTTTGGCTATC-A
1 ATGT--GAAAAGGGATAGCTTCGGCTATCGA
* *
7984103 GATGTGAAAACGGATAGCTTCAGCTATCGA
1 -ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
7984133 ATGTGAAAAGGGATAGCTTTGGATATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
7984162 ATGTGAAAAGG
1 ATGTGAAAAGG
7984173 TTAGGTATAC
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
29 59 0.69
30 2 0.02
31 24 0.28
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:7984207 original size:33 final size:33
Alignment explanation
Indices: 7984165--7984294 Score: 145
Period size: 33 Copynumber: 4.0 Consensus size: 33
7984155 ATATCGAATG
** *
7984165 TGAAAAGGTTAGGTATACTTTTTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
** * * * *
7984198 TGAAAAGGTTACGTACACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
*
7984230 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
* *
7984263 TGAAAAGGAAAAGTATACTTTGTGTGTACCAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCAC
7984295 TCAGAAAGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
32 26 0.32
33 55 0.68
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACA
Found at i:7984244 original size:65 final size:65
Alignment explanation
Indices: 7984165--7984291 Score: 182
Period size: 65 Copynumber: 2.0 Consensus size: 65
7984155 ATATCGAATG
** * ** *
7984165 TGAAAAGGTTAGGTATACTTTTTGTATACCACATGAAAAGGTTACGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAAGTACACTTTGTGTGTACACT
* *
7984230 TGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAAGTATACTTTGTGTGTAC
1 TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAAGTACACTTTGTGTGTAC
7984292 CACTCAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (65 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCACATGAAAAGGAAAAGTACACTTTGTGTGTACACT
Found at i:7986966 original size:29 final size:29
Alignment explanation
Indices: 7986895--7987023 Score: 150
Period size: 29 Copynumber: 4.3 Consensus size: 29
7986885 TGTGTGTACC
* *
7986895 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAAGGATAGCTTCGGCTATCGA
* *
7986924 ATGTAAAAAAAAAAAGGATAGCTTCGACTATCGA
1 ATGT-----GAAAAAGGATAGCTTCGGCTATCGA
*
7986958 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAAGGATAGCTTCGGCTATCGA
* *
7986987 ATGTGAAAATGGATAGCTTTGGCTATCGA
1 ATGTGAAAAAGGATAGCTTCGGCTATCGA
7987016 ATGTGAAA
1 ATGTGAAA
7987024 GGGTTAGGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
29 61 0.71
34 25 0.29
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAAGGATAGCTTCGGCTATCGA
Found at i:7987088 original size:32 final size:31
Alignment explanation
Indices: 7987052--7987153 Score: 132
Period size: 32 Copynumber: 3.2 Consensus size: 31
7987042 GTATACCACA
* *
7987052 TGAAAATGTTATGCACAGTTTGTGTGTACACT
1 TGAAAAAGTTATG-ACACTTTGTGTGTACACT
7987084 TGAAAAAGTTATTGACACTTTGTGTGTACACT
1 TGAAAAAGTTA-TGACACTTTGTGTGTACACT
* *
7987116 TGAAAAGGTTATATACACTTTGTGTGTACACT
1 TGAAAAAGTTAT-GACACTTTGTGTGTACACT
*
7987148 CGAAAA
1 TGAAAA
7987154 GGAAAGGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
31 1 0.02
32 60 0.95
33 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (31 bp):
TGAAAAAGTTATGACACTTTGTGTGTACACT
Found at i:7987154 original size:32 final size:31
Alignment explanation
Indices: 7987070--7987187 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 31
7987060 TTATGCACAG
* *
7987070 TTTGTGTGTACACTTGAAAAAGTTATTGACAC
1 TTTGTGTGTACACTCGAAAAGGTTATT-ACAC
*
7987102 TTTGTGTGTACACTTGAAAAGGTTATATACAC
1 TTTGTGTGTACACTCGAAAAGGTTAT-TACAC
** * *
7987134 TTTGTGTGTACACTCGAAAAGGAAAGGTATAC
1 TTTGTGTGTACACTCGAAAAGGTTA-TTACAC
*
7987166 TTTGTGTGTACCACTCAAAAAG
1 TTTGTGTGTA-CACTCGAAAAG
7987188 AAACGCACAC
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
32 65 0.86
33 11 0.14
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (31 bp):
TTTGTGTGTACACTCGAAAAGGTTATTACAC
Found at i:7987168 original size:64 final size:64
Alignment explanation
Indices: 7987029--7987176 Score: 154
Period size: 64 Copynumber: 2.3 Consensus size: 64
7987019 TGAAAGGGTT
* * * * * * **
7987029 AGGTATACTTTTTGTATACCACATGAAAATGTTATGCACAGTTTGTGTGTACACTTGAAAAAGTT
1 AGGTATACTTTGTGTGTA-CACATGAAAAGGTTATACACACTTTGTGTGTACACTCGAAAAAGAA
* * * * *
7987094 A-TTGACACTTTGTGTGTACACTTGAAAAGGTTATATACACTTTGTGTGTACACTCGAAAAGGAA
1 AGGT-ATACTTTGTGTGTACACATGAAAAGGTTATACACACTTTGTGTGTACACTCGAAAAAGAA
7987158 AGGTATACTTTGTGTGTAC
1 AGGTATACTTTGTGTGTAC
7987177 CACTCAAAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
64 53 0.80
65 13 0.20
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (64 bp):
AGGTATACTTTGTGTGTACACATGAAAAGGTTATACACACTTTGTGTGTACACTCGAAAAAGAA
Done.