Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 68 of 313
Found at i:23095500 original size:13 final size:13
Alignment explanation
Indices: 23095482--23095510 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23095472 TTTAGTTTAA
23095482 TTAGTTAATTAGT
1 TTAGTTAATTAGT
23095495 TTAGTTAATTAGT
1 TTAGTTAATTAGT
23095508 TTA
1 TTA
23095511 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:23101772 original size:39 final size:39
Alignment explanation
Indices: 23101728--23101867 Score: 190
Period size: 39 Copynumber: 3.6 Consensus size: 39
23101718 TCATATTTAA
* *
23101728 TCAGTAACAATCAATTATTCAGTACAGTAATTTAGTCAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* * * * *
23101767 TCAGTAACTATCAAATGTGCAGTGCAGTAGTTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
* * *
23101806 TCAATAACTATCAATTATTCAATACAGGAATTTAGTTAT
1 TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
23101845 TCAGTAACTATCAATTATTCAGT
1 TCAGTAACTATCAATTATTCAGT
23101868 GCAATAGTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (39 bp):
TCAGTAACTATCAATTATTCAGTACAGTAATTTAGTTAT
Found at i:23101868 original size:78 final size:78
Alignment explanation
Indices: 23101732--23101878 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 78
23101722 ATTTAATCAG
* * * *
23101732 TAACAATCAATTATTCAGTACAGTAATTTAGTCATTCAGTAACTATCAAATGTGCAGTGCAGTAG
1 TAACAATCAATTATTCAATACAGGAATTTAGTCATTCAGTAACTATCAAATATGCAGTGCAATAG
23101797 TTTAGTTATTCAA
66 TTTAGTTATTCAA
* * * *
23101810 TAACTATCAATTATTCAATACAGGAATTTAGTTATTCAGTAACTATCAATTATTCAGTGCAATAG
1 TAACAATCAATTATTCAATACAGGAATTTAGTCATTCAGTAACTATCAAATATGCAGTGCAATAG
23101875 TTTA
66 TTTA
23101879 CCCCTATTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (78 bp):
TAACAATCAATTATTCAATACAGGAATTTAGTCATTCAGTAACTATCAAATATGCAGTGCAATAG
TTTAGTTATTCAA
Found at i:23113871 original size:20 final size:21
Alignment explanation
Indices: 23113829--23113876 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
23113819 GGACTAAAAT
*
23113829 ATAAATTTGTGAAATTTGATGA
1 ATAAA-TTCTGAAATTTGATGA
23113851 A-AAATTCTGAAATTTTG-TGA
1 ATAAATTCTGAAA-TTTGATGA
23113871 ATAAAT
1 ATAAAT
23113877 GTGCTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 11 0.48
21 11 0.48
22 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (21 bp):
ATAAATTCTGAAATTTGATGA
Found at i:23121980 original size:17 final size:17
Alignment explanation
Indices: 23121929--23121982 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
23121919 GAAATATTTT
*
23121929 AATATAATTTAATA-TA
1 AATATAATTTAATACAA
* *
23121945 AA-CT-ATTTAATTTCAA
1 AATATAATTTAA-TACAA
23121961 AATATAATTTAATACAA
1 AATATAATTTAATACAA
23121978 AATAT
1 AATAT
23121983 TTTAAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
14 6 0.21
15 2 0.07
16 5 0.17
17 10 0.34
18 6 0.21
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATAATTTAATACAA
Found at i:23130598 original size:42 final size:41
Alignment explanation
Indices: 23130551--23130711 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 41
23130541 ATTAGGGCTA
* *
23130551 ATGAGATTAGATGTAATACCATATCTGGGATATGGCATCAAT
1 ATGAGATTAG-TGTAAGACCATATCTGGGATATGGCATCGAT
* * * *
23130593 ATGAGACTACGTGCAAGACCATATCTAGCATATGGCATCGAT
1 ATGAGATTA-GTGTAAGACCATATCTGGGATATGGCATCGAT
* * *
23130635 ATGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCAACGAT
1 ATGAGA-TTAGTGTAAGACCATA-TCTGGGATA-TGGCATCGAT
* * *
23130678 ACGAGATTACATGTAAGACCATATATGGGATATG
1 ATGAGATTA-GTGTAAGACCATATCTGGGATATG
23130712 ACATTGGTAC
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
42 61 0.64
43 35 0.36
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (41 bp):
ATGAGATTAGTGTAAGACCATATCTGGGATATGGCATCGAT
Found at i:23131692 original size:16 final size:17
Alignment explanation
Indices: 23131671--23131706 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23131661 GACTTTATGA
*
23131671 TTAA-TTGTAAAAAATT
1 TTAATTTGTAAAAAAAT
23131687 TTAATTTGTAAAAAAAT
1 TTAATTTGTAAAAAAAT
23131704 TTA
1 TTA
23131707 TGGCTCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTAATTTGTAAAAAAAT
Found at i:23140353 original size:19 final size:18
Alignment explanation
Indices: 23140327--23140367 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
23140317 TTTAATTCTT
23140327 AAAATTTAAAAAAATCAA
1 AAAATTTAAAAAAATCAA
*
23140345 AAAACTTTAAAAAAATGAA
1 AAAA-TTTAAAAAAATCAA
23140364 AAAA
1 AAAA
23140368 ACATCAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAATTTAAAAAAATCAA
Found at i:23140366 original size:20 final size:19
Alignment explanation
Indices: 23140327--23140381 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
23140317 TTTAATTCTT
*
23140327 AAAA-TTTAAAAAAATCAA
1 AAAACTTTAAAAAAATAAA
23140345 AAAACTTTAAAAAAATGAAA
1 AAAACTTTAAAAAAAT-AAA
* *
23140365 AAAACATCAAAAAAATA
1 AAAACTTTAAAAAAATA
23140382 TTTTTCAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 12 0.38
20 16 0.50
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (19 bp):
AAAACTTTAAAAAAATAAA
Found at i:23140486 original size:20 final size:21
Alignment explanation
Indices: 23140474--23140522 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
23140464 ATTTATTTAT
23140474 TAAAATAATAATTT-TATAAG
1 TAAAATAATAATTTATATAAG
23140494 TAAAATAATAATATTATA-AA-
1 TAAAATAATAAT-TTATATAAG
23140514 TAAAATAAT
1 TAAAATAAT
23140523 TTAAGGGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 21 0.78
21 4 0.15
22 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAAATAATAATTTATATAAG
Found at i:23141610 original size:18 final size:19
Alignment explanation
Indices: 23141587--23141624 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23141577 TTTGAGCAGA
*
23141587 TCCAATCGACGT-CAAAAT
1 TCCAATCGACCTACAAAAT
*
23141605 TCCAATGGACCTACAAAAT
1 TCCAATCGACCTACAAAAT
23141624 T
1 T
23141625 AAATCAAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (19 bp):
TCCAATCGACCTACAAAAT
Found at i:23141918 original size:16 final size:16
Alignment explanation
Indices: 23141897--23141928 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23141887 CGGTTACATC
23141897 GGCTCAAAGCCTGTTA
1 GGCTCAAAGCCTGTTA
*
23141913 GGCTCAAGGCCTGTTA
1 GGCTCAAAGCCTGTTA
23141929 TAATTACACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (16 bp):
GGCTCAAAGCCTGTTA
Found at i:23144240 original size:6 final size:6
Alignment explanation
Indices: 23144229--23144262 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
23144219 CCTGAGTCAA
*
23144229 ACAGAT ACAGAT ACAAAT ACAGAT ACAGAT ACAG
1 ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAG
23144263 CTGTCGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.18, G:0.15, T:0.15
Consensus pattern (6 bp):
ACAGAT
Found at i:23149564 original size:50 final size:49
Alignment explanation
Indices: 23149510--23149638 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
23149500 TAGAGGTGTC
* * *
23149510 AGTGTAAGACCATGTCTGGGATATGACATCGGCAC-GGATATATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-TATGAGAGCT
** * * * *
23149560 AGTGTAAGACCATGTCTGACACATGGCGTCGGCCTCGATTTTGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTATGAGAGCT
23149609 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
23149639 AACTTGATGG
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 35 0.53
50 31 0.47
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTATGAGAGCT
Found at i:23149633 original size:49 final size:50
Alignment explanation
Indices: 23149460--23149638 Score: 156
Period size: 50 Copynumber: 3.7 Consensus size: 50
23149450 TTATTTGTGT
* * * *
23149460 GCTAGTGTAAGA-CTTATCTAGGACATGGCATCGACA-C-ATATA-GAG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATATGAGA
* * * *
23149505 GTGTCAGTGTAAGACCATGTCTGGGATATGACATCGGCACGGATATATGAGA
1 G-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATATGAGA
** * * *
23149557 GCTAGTGTAAGACCATGTCTGACACATGGCGTCGGC-CTCGAT-TTTGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATATGAGA
*
23149606 GTTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
23149639 AACTTGATGG
Statistics
Matches: 105, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 9 0.09
48 18 0.17
49 35 0.33
50 36 0.34
51 4 0.04
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATATGAGA
Found at i:23150362 original size:30 final size:30
Alignment explanation
Indices: 23150328--23150389 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
23150318 TCATACTAAG
23150328 TTAGGCTTTGTTATGTTGTTTGGTGTTAGA
1 TTAGGCTTTGTTATGTTGTTTGGTGTTAGA
* *
23150358 TTAGGCTTTGTTATGTTTTTTTGTGTTAGA
1 TTAGGCTTTGTTATGTTGTTTGGTGTTAGA
23150388 TT
1 TT
23150390 GTGTTTCAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.03, G:0.26, T:0.58
Consensus pattern (30 bp):
TTAGGCTTTGTTATGTTGTTTGGTGTTAGA
Found at i:23150911 original size:20 final size:21
Alignment explanation
Indices: 23150872--23150911 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23150862 GTTATAATGA
*
23150872 CCACACGGGCTTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
23150893 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
23150912 ATTTCAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:23172334 original size:18 final size:15
Alignment explanation
Indices: 23172297--23172330 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
23172287 GAAGAATTTC
23172297 ATTAGCAAATATAAT
1 ATTAGCAAATATAAT
23172312 ATTAGCAAATATAAT
1 ATTAGCAAATATAAT
23172327 ATTA
1 ATTA
23172331 TTAGAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
ATTAGCAAATATAAT
Found at i:23177716 original size:46 final size:46
Alignment explanation
Indices: 23177659--23177778 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
23177649 TCAACTACGA
* * *
23177659 TCTTACTCATTTTCTGTCATGTTACCATGGCAACTTTCAATCATGG
1 TCTTATTCATTTTCTGTCATGTTGCCATGGCAACTTTCAACCATGG
* * * * *
23177705 TTTTATTCA-TTTCTTATCACGTTGCCATGGTATCTTTCAACCATGG
1 TCTTATTCATTTTC-TGTCATGTTGCCATGGCAACTTTCAACCATGG
*
23177751 TCTTATTCATTTCCTGTCATGTTGCCAT
1 TCTTATTCATTTTCTGTCATGTTGCCAT
23177779 CATGTTGCCA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 4 0.07
46 53 0.88
47 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.45
Consensus pattern (46 bp):
TCTTATTCATTTTCTGTCATGTTGCCATGGCAACTTTCAACCATGG
Found at i:23177853 original size:45 final size:45
Alignment explanation
Indices: 23177784--23177909 Score: 180
Period size: 45 Copynumber: 2.8 Consensus size: 45
23177774 GCCATCATGT
* * * * *
23177784 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTAAATCGTGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTAAATCGTGA
* *
23177829 TGCCATAGCATCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTAAATCGTGA
*
23177874 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
23177910 CTGGTATGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTAAATCGTGA
Found at i:23177971 original size:33 final size:33
Alignment explanation
Indices: 23177934--23178074 Score: 108
Period size: 33 Copynumber: 4.3 Consensus size: 33
23177924 TAATCTAACT
*
23177934 ATGGTCTTACACATGTATTGCCATGGCCTAGCC
1 ATGGTCTTACACATGTATTGCCATAGCCTAGCC
** * * **
23177967 ATGGTCTTACAC-TCGTGGTGTCATATCCTAGAT
1 ATGGTCTTACACAT-GTATTGCCATAGCCTAGCC
* * *
23178000 ATGGTCTTATCATCA-GGA-TACCATAGCCTAGCT
1 ATGGTCTTA-CA-CATGTATTGCCATAGCCTAGCC
* * * *
23178033 GTGGTCTTACACATATATTGCCATGGCCCAGCC
1 ATGGTCTTACACATGTATTGCCATAGCCTAGCC
23178066 ATGGTCTTA
1 ATGGTCTTA
23178075 TCTGTCAATT
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
31 2 0.02
32 4 0.05
33 71 0.88
34 3 0.04
35 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACATGTATTGCCATAGCCTAGCC
Found at i:23181110 original size:20 final size:20
Alignment explanation
Indices: 23181077--23181115 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23181067 TGTTGGAATA
*
23181077 TTTTAATAATAAAATATTTAC
1 TTTTAATAA-AAAAAATTTAC
23181098 TTTT-ATAAAAAAAATTTA
1 TTTTAATAAAAAAAATTTA
23181116 AGAAGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAATAAAAAAAATTTAC
Found at i:23191845 original size:58 final size:58
Alignment explanation
Indices: 23191754--23191870 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
23191744 CTGTGTACAT
* *
23191754 TGACGTATCCCTTAGTGGGTTAGGATGTGTGCTTATGCAAAGAGGAAAGGTTGTGGCA
1 TGACGTATCCCTTAGTGAGTTAGGATGTATGCTTATGCAAAGAGGAAAGGTTGTGGCA
23191812 TGACGTATCCCTTAGTGAGTTAGGATGTATGCTTATGCAAAGAGGAAAGGTTGTGGCA
1 TGACGTATCCCTTAGTGAGTTAGGATGTATGCTTATGCAAAGAGGAAAGGTTGTGGCA
23191870 T
1 T
23191871 ATGCATCTCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (58 bp):
TGACGTATCCCTTAGTGAGTTAGGATGTATGCTTATGCAAAGAGGAAAGGTTGTGGCA
Found at i:23202557 original size:23 final size:24
Alignment explanation
Indices: 23202514--23202564 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
23202504 TTGAAATAAG
*
23202514 ATAAAATAATTAACTAGTT-AATA
1 ATAAAATAATTAACTAATTAAATA
*
23202537 ATAAAATAA-TAATTAAATTAAATA
1 ATAAAATAATTAACT-AATTAAATA
23202561 ATAA
1 ATAA
23202565 TGGGATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 12 0.50
24 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAAAATAATTAACTAATTAAATA
Found at i:23204179 original size:29 final size:29
Alignment explanation
Indices: 23204112--23204189 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 29
23204102 GTATAGGGGT
* *
23204112 TTTGTTATATATATAATATA-GGTGTGGC
1 TTTGTTATATATATTATATATGATGTGGC
23204140 TTTGTTATATATATTATATATGCATG-GGC
1 TTTGTTATATATATTATATATG-ATGTGGC
23204169 TTTGTTATATATATTATATAT
1 TTTGTTATATATATTATATAT
23204190 ATTCATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 19 0.41
29 25 0.54
30 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.51
Consensus pattern (29 bp):
TTTGTTATATATATTATATATGATGTGGC
Found at i:23204487 original size:36 final size:36
Alignment explanation
Indices: 23204440--23204520 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
23204430 TTGTGAACCA
* *
23204440 TGTTAACTTGGTGAATTATATTATTATGGCGAACTG
1 TGTTAATTTGGTGAATTATATTAATATGGCGAACTG
* *
23204476 TGTTAATTTGGTGACTTGTATTAATATGGCGAACTG
1 TGTTAATTTGGTGAATTATATTAATATGGCGAACTG
*
23204512 TATTAATTT
1 TGTTAATTT
23204521 TCCAAATTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.44
Consensus pattern (36 bp):
TGTTAATTTGGTGAATTATATTAATATGGCGAACTG
Found at i:23204513 original size:18 final size:18
Alignment explanation
Indices: 23204458--23204518 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
23204448 TGGTGAATTA
*
23204458 TATTATTATGGCGAACTG
1 TATTAATATGGCGAACTG
* * *
23204476 TGTTAATTTGGTG-ACTTG
1 TATTAATATGGCGAAC-TG
23204494 TATTAATATGGCGAACTG
1 TATTAATATGGCGAACTG
23204512 TATTAAT
1 TATTAAT
23204519 TTTCCAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (18 bp):
TATTAATATGGCGAACTG
Found at i:23207184 original size:25 final size:26
Alignment explanation
Indices: 23207059--23207185 Score: 81
Period size: 25 Copynumber: 5.2 Consensus size: 26
23207049 CTATATAATG
*
23207059 GGAAGCTCA-TAAGAGCCATA-ATCA
1 GGAAGCTCACAAAGAGCCATATATCA
* * * * *
23207083 GAAAGTTTACAAAGAACCATAT-T-G
1 GGAAGCTCACAAAGAGCCATATATCA
* *
23207107 GGAAGCTCACGAAGAG---TCTATCA
1 GGAAGCTCACAAAGAGCCATATATCA
* * *
23207130 GGAAGCTCACAAAGAGCCATGTAACG
1 GGAAGCTCACAAAGAGCCATATATCA
* *
23207156 GGAAGCTC-CGAATAGCCATATATCA
1 GGAAGCTCACAAAGAGCCATATATCA
23207181 GGAAG
1 GGAAG
23207186 TCCAAGCGAG
Statistics
Matches: 74, Mismatches: 22, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
21 2 0.03
22 1 0.01
23 15 0.20
24 17 0.23
25 27 0.36
26 12 0.16
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATATATCA
Found at i:23214069 original size:42 final size:41
Alignment explanation
Indices: 23213915--23214070 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
23213905 TATGTTATCG
*
23213915 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
23213957 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
23214001 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
23214043 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
23214071 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:23221400 original size:42 final size:41
Alignment explanation
Indices: 23221246--23221401 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
23221236 TATGTTATCG
*
23221246 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
23221288 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
23221332 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
23221374 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
23221402 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:23227838 original size:7 final size:7
Alignment explanation
Indices: 23227822--23227868 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
23227812 TATCATTATA
23227822 GTTTAAG
1 GTTTAAG
*
23227829 GTTTATG
1 GTTTAAG
23227836 GTTTAAG
1 GTTTAAG
* * *
23227843 ATATATG
1 GTTTAAG
23227850 GTTTAAG
1 GTTTAAG
23227857 GTTTAAG
1 GTTTAAG
23227864 GTTTA
1 GTTTA
23227869 GGAGTTAATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (7 bp):
GTTTAAG
Found at i:23227839 original size:14 final size:14
Alignment explanation
Indices: 23227817--23227868 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
23227807 TTAATTATCA
*
23227817 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
23227831 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
*
23227845 ATATGGTTTAAGGT
1 TTATGGTTTAAGGT
*
23227859 TTAAGGTTTA
1 TTATGGTTTA
23227869 GGAGTTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:23227933 original size:7 final size:7
Alignment explanation
Indices: 23227906--23228020 Score: 90
Period size: 7 Copynumber: 16.1 Consensus size: 7
23227896 GATGAATTAT
23227906 GGGTTTA
1 GGGTTTA
* *
23227913 GAGATTA
1 GGGTTTA
*
23227920 TGGTTTA
1 GGGTTTA
23227927 GGGTTTA
1 GGGTTTA
23227934 GGG-TTA
1 GGGTTTA
*
23227940 GAGTTTA
1 GGGTTTA
* *
23227947 AGGTGTAA
1 GGGT-TTA
*
23227955 GCGTTTA
1 GGGTTTA
23227962 GGGTTTA
1 GGGTTTA
23227969 GGGTTTA
1 GGGTTTA
23227976 GGGTTTA
1 GGGTTTA
*
23227983 GTGTTTA
1 GGGTTTA
*
23227990 TGGG-ATA
1 -GGGTTTA
*
23227997 GGGGTTAA
1 -GGGTTTA
23228005 GAGGTTTA
1 G-GGTTTA
23228013 GGGTTTA
1 GGGTTTA
23228020 G
1 G
23228021 ATTAATTAGC
Statistics
Matches: 82, Mismatches: 21, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
6 5 0.06
7 64 0.78
8 13 0.16
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:23234056 original size:22 final size:22
Alignment explanation
Indices: 23234024--23234067 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23234014 GATTAATATT
*
23234024 TTATATTTAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
23234046 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
23234068 ACAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:23249766 original size:29 final size:29
Alignment explanation
Indices: 23249717--23249836 Score: 147
Period size: 29 Copynumber: 4.2 Consensus size: 29
23249707 ACATGGCTTG
* *
23249717 GAAT-TGATTCGGG-CTAGATGGGCAATAT
1 GAATGTGATTTGGGCCTA-ATGGGCCATAT
*
23249745 GAACGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
23249774 GAATGTGATTTTGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* *
23249803 GAATGAGA-TTGGGCCTAGTGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
23249831 GCATGT
1 GAATGT
23249837 ATGTAGACTT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.31
29 52 0.65
30 3 0.04
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:23254567 original size:37 final size:37
Alignment explanation
Indices: 23254508--23254646 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
23254498 AGCTCAGACG
* *
23254508 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
23254545 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
23254582 TAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23254619 CAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
23254647 TAGAGCTCGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:23254962 original size:49 final size:49
Alignment explanation
Indices: 23254765--23255426 Score: 1024
Period size: 49 Copynumber: 13.6 Consensus size: 49
23254755 CCCTTCGGGA
* * * * *
23254765 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23254812 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23254859 CTTATCACATATATACACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT----ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23254912 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23254961 CTTATCAC--ATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23255008 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23255057 CTTATCAC--ATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255104 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255153 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255202 CTTATCACATATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255255 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23255304 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255353 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255400 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
23255427 TATTCAAATA
Statistics
Matches: 572, Mismatches: 27, Indels: 32
0.91 0.04 0.05
Matches are distributed among these distances:
46 1 0.00
47 194 0.34
49 279 0.49
53 98 0.17
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23255021 original size:96 final size:96
Alignment explanation
Indices: 23254765--23255426 Score: 1017
Period size: 96 Copynumber: 6.8 Consensus size: 96
23254755 CCCTTCGGGA
* * * * * * * *
23254765 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23254828 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23254859 CTTATCACATATATACACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 CTTATCAC--ATAT----ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* * *
23254924 ATATACACTTTCACATTCATCACATTGGTCATTCGGC
60 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23254961 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
23255026 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23255057 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23255122 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23255153 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATAT
23255218 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
60 ATATACACTTTCACATTCATCACATCGGCCATTAGGC
23255255 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
23255320 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
23255353 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
23255416 ACTTTCACATT
66 ACTTTCACATT
23255427 TATTCAAATA
Statistics
Matches: 534, Mismatches: 20, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
94 27 0.05
96 232 0.43
98 93 0.17
100 40 0.07
102 142 0.27
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23261570 original size:95 final size:96
Alignment explanation
Indices: 23261365--23261648 Score: 304
Period size: 95 Copynumber: 2.9 Consensus size: 96
23261355 CGCATCAAAA
* * * * *
23261365 TCGATGCTATGTCCCAGACATGGTCTTACACTGTCTCTCATATATCGAGGCCGATGTCATGTCCC
1 TCGATGCCATGTCCTAGACATGGTCTTACACTG---CTCACATATC-AAGCCGATGCCATGTCCC
* * *
23261430 AGA-ATGGTCTTACACTGGCTCTCATCTGTCGGTG
62 AGACATGGTCTTACACTAGCTCTCATATCTCGGTG
* * *
23261464 CCGATGCCATGTCCTAGACATGGTCTTACACTG-ACACATATCAAGCCCATGCCATGTCCCAGAC
1 TCGATGCCATGTCCTAGACATGGTCTTACACTGCTCACATATCAAGCCGATGCCATGTCCCAGAC
*
23261528 ATGGTCTTACACTAGCTTTCATATCTCGAG-G
66 ATGGTCTTACACTAGCTCTCATATCTCG-GTG
* * * * *
23261559 TCGATGCCATGTCCTAGACATGGTTTTAAACTAGCTCTCATCTCAATGTCGATGCCATGTCCCAG
1 TCGATGCCATGTCCTAGACATGGTCTTACACT-GCTCACATATCAA-GCCGATGCCATGTCCCAG
* * *
23261624 ACATGGTCATACAATGGCTCTCATA
64 ACATGGTCTTACACTAGCTCTCATA
23261649 ATATGGCCGA
Statistics
Matches: 156, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
94 18 0.12
95 61 0.39
96 2 0.01
97 8 0.05
98 37 0.24
99 30 0.19
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (96 bp):
TCGATGCCATGTCCTAGACATGGTCTTACACTGCTCACATATCAAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATATCTCGGTG
Found at i:23261579 original size:50 final size:49
Alignment explanation
Indices: 23261366--23261684 Score: 286
Period size: 50 Copynumber: 6.6 Consensus size: 49
23261356 GCATCAAAAT
* *
23261366 CGATGCTATGTCCCAGACATGGTCTTACACTGTCTCTCATATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTCTCATATCTCGAGGC
* * *
23261416 CGATGTCATGTCCCAGA-ATGGTCTTACACTGGCTCTCATCTGTCG-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATCTCGAG-GC
* * * *
23261465 CGATGCCATGTCCTAGACATGGTCTTACACTG-ACACATA--TC-AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATATCTCGAGGC
* * *
23261510 CCATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATCTCGAGGC
* * * * * *
23261560 CGATGCCATGTCCTAGACATGGTTTTAAACTAGCTCTC--ATCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATCTCGAGGC
* * *
23261608 CGATGCCATGTCCCAGACATGGTCATACAATGGCTCTCATA-AT--ATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCTCATATCTCGA-GGC
*
23261656 CGATG-CATGTCCCAGAAAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
23261685 AGCACACTGT
Statistics
Matches: 221, Mismatches: 36, Indels: 28
0.78 0.13 0.10
Matches are distributed among these distances:
45 31 0.14
46 11 0.05
47 18 0.08
48 51 0.23
49 45 0.20
50 65 0.29
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTCTCATATCTCGAGGC
Found at i:23261665 original size:95 final size:93
Alignment explanation
Indices: 23261414--23261680 Score: 272
Period size: 95 Copynumber: 2.8 Consensus size: 93
23261404 ATATATCGAG
* * *
23261414 GCCGATGTCATGTCCCAGA-ATGGTCTTACACTGGCTCTCATCTGTCGGTGCCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATC-G-GCCGATGCCATGTCC
*
23261478 TAGACATGGTCTTACACTGACACATATCAA
64 TAGACATGGTCTTAAACTGACACATATCAA
* * * * *
23261508 GCCCATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATC--GGCCGATGCCATGTCC
* * * *
23261573 TAGACATGGTTTTAAACTAGCTCTCATCTCAA
64 TAGACATGGTCTTAAACT-G-ACACATATCAA
* * *
23261605 TGTCGATGCCATGTCCCAGACATGGTCATACAATGGCTCTCATAATAT-GGCCGATG-CATGTCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATCGGCCGATGCCATGTCC
* *
23261668 CAGAAAT-GTCTTA
64 TAGACATGGTCTTA
23261681 CACTAGCACA
Statistics
Matches: 143, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
94 22 0.15
95 65 0.45
96 9 0.06
97 8 0.06
98 36 0.25
99 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGCCGATGCCATGTCCTA
GACATGGTCTTAAACTGACACATATCAA
Found at i:23261679 original size:144 final size:142
Alignment explanation
Indices: 23261366--23261687 Score: 364
Period size: 144 Copynumber: 2.2 Consensus size: 142
23261356 GCATCAAAAT
*
23261366 CGATGCTATGTCCCAGACATGGTCTTACACT-GTCTCTCATATATCGAGGCCGATGTCATGTCCC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGAGGCCGATGCCATGTCCC
* * ** * * *
23261430 AGAATGGTCTTACACTGGCTCTCATCTGTCGGTGCCGATGCCATGTCCTAGACATGGTCTTACAC
64 AGAATGGTCTTAAACTAGCTCTCATC-GTCAATGCCGATGCCATGTCCCAGACATGGTCATACAA
23261495 TGACACATATCAAGC
128 TGACACATATCAAGC
* * * * *
23261510 CCATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGTCGATGCCATGTCCTA
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCA
* *
23261575 GACATGGTTTTAAACTAGCTCTCATC-TCAATGTCGATGCCATGTCCCAGACATGGTCATACAAT
65 GA-ATGGTCTTAAACTAGCTCTCATCGTCAATGCCGATGCCATGTCCCAGACATGGTCATACAAT
* * *
23261639 GGCTCTCATAAT-ATGGC
129 -G-ACACAT-ATCA-AGC
*
23261656 CGATGCATGTCCCAGAAAT-GTCTTACACTAGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGC
23261688 ACACTGTCAC
Statistics
Matches: 151, Mismatches: 20, Indels: 14
0.82 0.11 0.08
Matches are distributed among these distances:
143 32 0.21
144 71 0.47
145 40 0.26
146 8 0.05
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (142 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAG
AATGGTCTTAAACTAGCTCTCATCGTCAATGCCGATGCCATGTCCCAGACATGGTCATACAATGA
CACATATCAAGC
Found at i:23266476 original size:16 final size:16
Alignment explanation
Indices: 23266455--23266514 Score: 93
Period size: 16 Copynumber: 3.8 Consensus size: 16
23266445 TGTATTAGAT
* *
23266455 TAGAGGCGTAAAGGAA
1 TAGAGGTGTAATGGAA
*
23266471 TAGAGGTGTAATGGAT
1 TAGAGGTGTAATGGAA
23266487 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATGGAA
23266503 TAGAGGTGTAAT
1 TAGAGGTGTAAT
23266515 AGCAAATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.37, C:0.02, G:0.37, T:0.25
Consensus pattern (16 bp):
TAGAGGTGTAATGGAA
Found at i:23266503 original size:32 final size:32
Alignment explanation
Indices: 23266452--23266514 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
23266442 CGCTGTATTA
23266452 GATTAGAGGCGTAAAGGAATAGAGGTGTAATG
1 GATTAGAGGCGTAAAGGAATAGAGGTGTAATG
* *
23266484 GATTAGAGGTGTAATGGAATAGAGGTGTAAT
1 GATTAGAGGCGTAAAGGAATAGAGGTGTAAT
23266515 AGCAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.37, T:0.25
Consensus pattern (32 bp):
GATTAGAGGCGTAAAGGAATAGAGGTGTAATG
Found at i:23266765 original size:16 final size:16
Alignment explanation
Indices: 23266728--23266769 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23266718 TTAATCATAT
*
23266728 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23266744 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23266759 TTAAAATATAT
1 TTAAAATATAT
23266770 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23266776 original size:14 final size:15
Alignment explanation
Indices: 23266737--23266778 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23266727 TTTAAACATA
*
23266737 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23266752 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23266766 A-TATAATTTAATA
1 ATTATAATTAAATA
23266779 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23266845 original size:33 final size:33
Alignment explanation
Indices: 23266808--23266876 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
23266798 TTCTTATATG
* * *
23266808 AATTTACTCAAATCATAATATATGATACTATAA
1 AATTTACTAAAATCATAATACATAATACTATAA
23266841 AATTTACTAAAATCATAATACATAATACTATAA
1 AATTTACTAAAATCATAATACATAATACTATAA
23266874 AAT
1 AAT
23266877 ATAATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.35
Consensus pattern (33 bp):
AATTTACTAAAATCATAATACATAATACTATAA
Found at i:23269144 original size:16 final size:16
Alignment explanation
Indices: 23269123--23269155 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23269113 GATACAATAT
*
23269123 AACAAAGGATAAGCAA
1 AACAAAGGATAACCAA
23269139 AACAAAGGATAACCAA
1 AACAAAGGATAACCAA
23269155 A
1 A
23269156 GTAACATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.15, G:0.15, T:0.06
Consensus pattern (16 bp):
AACAAAGGATAACCAA
Found at i:23272161 original size:46 final size:46
Alignment explanation
Indices: 23272094--23272321 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
23272084 AGTGTGCTCT
23272094 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
23272140 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
23272186 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
23272232 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
23272278 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
23272322 TCATGTCAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 167 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:23275365 original size:49 final size:50
Alignment explanation
Indices: 23275287--23275549 Score: 199
Period size: 49 Copynumber: 5.6 Consensus size: 50
23275277 CATCAAAGTT
*
23275287 GATGCCATGTCCTAGACATGGTCTTACACTGACTCTCATATATCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCG-GTGCC
* * * *
23275337 GATGTCATGTCCCAGA-ATGGTCTTACACTGGCTCTCATCTGTCGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGGTGCC
*
23275386 GATGCCATGTCCCAGACATGGTC-T----T---T-TCATATCTCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCG-GTGCC
** * **
23275427 GATGCCATGTCCCAGACATGGTCTTATGCT-AGCTCTC--ATCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGGTGCC
* * *
23275475 GA-GCCATGTCCCAAACATGGTCTTACACTGGCTTTCATA-AT--GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGGT-GCC
* *
23275522 GATG-AATGTCTCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
23275550 AGCACACATG
Statistics
Matches: 175, Mismatches: 20, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
41 34 0.19
42 3 0.02
45 1 0.01
46 12 0.07
47 44 0.25
48 13 0.07
49 46 0.26
50 22 0.13
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGGTGCC
Found at i:23279879 original size:18 final size:18
Alignment explanation
Indices: 23279851--23279894 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
23279841 ATATGCATAT
23279851 ATATATATATTTATTATTA
1 ATAT-TATATTTATTATTA
*
23279870 TTATTATATTTATTATTA
1 ATATTATATTTATTATTA
23279888 ATATTAT
1 ATATTAT
23279895 TAGTACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTATATTTATTATTA
Found at i:23280020 original size:21 final size:23
Alignment explanation
Indices: 23279995--23280206 Score: 170
Period size: 23 Copynumber: 8.9 Consensus size: 23
23279985 ATCATTTCTA
*
23279995 ATATATA-TATTGTATATGTTTTT
1 ATATATATTA-TGTATATATTTTT
23280018 ATATATATTATGTATATATTTTT
1 ATATATATTATGTATATATTTTT
23280041 A-ATATTATTA-GTTATATATATATTT
1 ATATA-TATTATG-TATATAT-T-TTT
23280066 ATACTAT-TTCATGTATATATTTTT
1 ATA-TATATT-ATGTATATATTTTT
* *
23280090 ATATTATCTTATATATATATTTTT
1 ATA-TATATTATGTATATATTTTT
23280114 AATAACTATATTATGTATATATTTTT
1 -AT-A-TATATTATGTATATATTTTT
* * *
23280140 AACACTATATTATGTACATACTTTT
1 -ATA-TATATTATGTATATATTTTT
23280165 A-ATATTATTATGTACT-TATTTTT
1 ATATA-TATTATGTA-TATATTTTT
*
23280188 A-ATATA-TATGTACATATTT
1 ATATATATTATGTATATATTT
23280207 ATGTAGTATT
Statistics
Matches: 162, Mismatches: 12, Indels: 32
0.79 0.06 0.16
Matches are distributed among these distances:
21 11 0.07
22 8 0.05
23 52 0.32
24 26 0.16
25 31 0.19
26 31 0.19
27 3 0.02
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATATATTATGTATATATTTTT
Found at i:23280067 original size:48 final size:49
Alignment explanation
Indices: 23279988--23280192 Score: 171
Period size: 48 Copynumber: 4.2 Consensus size: 49
23279978 TATTATTATC
* * * *
23279988 ATTTCTAATA-TATATATTGTATATGTTTTTAT-A-TATATTATGTATAT
1 ATTTTTAATATTAT-TATTATATATATATTTATAACTATATTATGTATAT
23280035 ATTTTTAATATTATTAGTTATATATATATTTAT-ACTAT-TTCATGTATAT
1 ATTTTTAATATTATTA-TTATATATATATTTATAACTATATT-ATGTATAT
*
23280084 ATTTTT-ATATTATCT-TATATATATATTTTTAATAACTATATTATGTATAT
1 ATTTTTAATATTAT-TAT-TATATATATATTT-ATAACTATATTATGTATAT
* * * *
23280134 ATTTTTAACACTA-TATTATGTACATACTTT-TAA-TATTATTATGTACT-T
1 ATTTTTAATATTATTATTATATATATA-TTTATAACTA-TATTATGTA-TAT
23280182 ATTTTTAATAT
1 ATTTTTAATAT
23280193 ATATGTACAT
Statistics
Matches: 132, Mismatches: 12, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
47 14 0.11
48 60 0.45
49 29 0.22
50 23 0.17
51 6 0.05
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.57
Consensus pattern (49 bp):
ATTTTTAATATTATTATTATATATATATTTATAACTATATTATGTATAT
Found at i:23280337 original size:8 final size:7
Alignment explanation
Indices: 23280326--23280366 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
23280316 TATTATTCTA
23280326 ATATTTT
1 ATATTTT
23280333 GATATTTT
1 -ATATTTT
23280341 AATATTTT
1 -ATATTTT
*
23280349 ATATATT
1 ATATTTT
23280356 ATATTTT
1 ATATTTT
23280363 ATAT
1 ATAT
23280367 ATTTTATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (7 bp):
ATATTTT
Found at i:23280343 original size:16 final size:15
Alignment explanation
Indices: 23280319--23280366 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
23280309 TATTTAATAT
*
23280319 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
23280335 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
23280350 TATATT-ATATTTTA
1 TATTTTAATATTTTA
23280364 TAT
1 TAT
23280367 ATTTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 11 0.37
15 6 0.20
16 13 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:23280361 original size:14 final size:14
Alignment explanation
Indices: 23280326--23280374 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
23280316 TATTATTCTA
*
23280326 ATATTTTGATATTTT
1 ATATTTT-ATATATT
23280341 AATATTTTATATATT
1 -ATATTTTATATATT
23280356 ATATTTTATATATT
1 ATATTTTATATATT
*
23280370 TTATT
1 ATATT
23280375 ATTCGCATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 6 0.19
16 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATATTTTATATATT
Found at i:23283063 original size:20 final size:19
Alignment explanation
Indices: 23283038--23283079 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
23283028 TTGGAATTTA
*
23283038 GGGTTTGGGTTCAAGGTTAT
1 GGGTTTGAGTTCAAGGTT-T
*
23283058 GGGTTTGAGTTTAAGGTTT
1 GGGTTTGAGTTCAAGGTTT
23283077 GGG
1 GGG
23283080 CTTATGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.40
Consensus pattern (19 bp):
GGGTTTGAGTTCAAGGTTT
Found at i:23283089 original size:20 final size:19
Alignment explanation
Indices: 23283038--23283095 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
23283028 TTGGAATTTA
*
23283038 GGGTTTGGGTTCAAGGTTAT
1 GGGTTT-GGTTTAAGGTTAT
23283058 GGGTTTGAGTTTAAGGTT-T
1 GGGTTTG-GTTTAAGGTTAT
*
23283077 GGGCTTATGGTTTAGGGTT
1 GGG-TT-TGGTTTAAGGTT
23283096 CAAGGTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 5 0.15
20 26 0.79
21 2 0.06
ACGTcount: A:0.14, C:0.03, G:0.40, T:0.43
Consensus pattern (19 bp):
GGGTTTGGTTTAAGGTTAT
Found at i:23283129 original size:21 final size:21
Alignment explanation
Indices: 23283099--23283144 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23283089 TAGGGTTCAA
*
23283099 GGTTTGAGATTCTAAATTTAT
1 GGTTTAAGATTCTAAATTTAT
* **
23283120 GGTTTAAGATTTTAGGTTTAT
1 GGTTTAAGATTCTAAATTTAT
23283141 GGTT
1 GGTT
23283145 ATAGTTTCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (21 bp):
GGTTTAAGATTCTAAATTTAT
Found at i:23283227 original size:35 final size:34
Alignment explanation
Indices: 23283171--23283258 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 34
23283161 GGTTTGGGCT
* * *
23283171 TTTAAGTTTTGGGTTCT-AGGTTTGATATTTTAGA
1 TTTAAGTTTAGGGTT-TAAGGTTTGAGATTCTAGA
23283205 TTTAGAGTTTAGGGTTTAAGGTTTGAGATTCTAGA
1 TTTA-AGTTTAGGGTTTAAGGTTTGAGATTCTAGA
*
23283240 TTTAAAGTTTATGGTTTAA
1 TTT-AAGTTTAGGGTTTAA
23283259 TATTTAGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
34 5 0.11
35 41 0.87
36 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (34 bp):
TTTAAGTTTAGGGTTTAAGGTTTGAGATTCTAGA
Found at i:23283351 original size:20 final size:21
Alignment explanation
Indices: 23283312--23283362 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
23283302 TGAATTTAAA
*
23283312 GTTTAGGATTTGAGGTTCAAG
1 GTTTAGGATTCGAGGTTCAAG
*
23283333 GTTTAGGGTTCGA-GTTCAAG
1 GTTTAGGATTCGAGGTTCAAG
23283353 GTTTAGGATT
1 GTTTAGGATT
23283363 TTGGGTTCGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.22, C:0.06, G:0.33, T:0.39
Consensus pattern (21 bp):
GTTTAGGATTCGAGGTTCAAG
Found at i:23283883 original size:16 final size:17
Alignment explanation
Indices: 23283847--23283883 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
23283837 AATTTTATTT
*
23283847 TAATAATAAATTTTAAA
1 TAATAATAAATGTTAAA
23283864 -AATAAT-AATGTTAAA
1 TAATAATAAATGTTAAA
23283879 TAATA
1 TAATA
23283884 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATGTTAAA
Found at i:23286083 original size:40 final size:40
Alignment explanation
Indices: 23285994--23286070 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
23285984 ACACCATGTG
*
23285994 GGGATAAAATCGACCCACCCAGCCCTACACACTAAGTATA
1 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
* *
23286034 GGGATAAAATCGACCCATCCAGTCCTACACACCAAGT
1 GGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
23286071 GGTATTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (40 bp):
GGGATAAAATCGACCCACCCAGCCCTACACACCAAGTATA
Found at i:23296346 original size:9 final size:9
Alignment explanation
Indices: 23296332--23296357 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23296322 TTTATTCTTA
23296332 ATTATTAAT
1 ATTATTAAT
23296341 ATTATTAAT
1 ATTATTAAT
23296350 ATTATTAA
1 ATTATTAA
23296358 GTGATCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTATTAAT
Found at i:23296547 original size:26 final size:25
Alignment explanation
Indices: 23296496--23296543 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23296486 ATTAATTGAA
*
23296496 TATTTTTTTATTCCATCATTTTTAT
1 TATTATTTTATTCCATCATTTTTAT
*
23296521 TATTATTTTATTTCATCATTTTT
1 TATTATTTTATTCCATCATTTTT
23296544 TATTTTACTC
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:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTATTTTATTCCATCATTTTTAT
Found at i:23306576 original size:41 final size:41
Alignment explanation
Indices: 23306519--23306600 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
23306509 TCGGAATCAG
*
23306519 GGAAAGAATTTGTGATTTATTATGATGCATCCTTGAATGGA
1 GGAAAGAATTTGTGATTTATAATGATGCATCCTTGAATGGA
*
23306560 GGAAAGAATTTTTGATTTATAATGATGCATCCTTGAATGGA
1 GGAAAGAATTTGTGATTTATAATGATGCATCCTTGAATGGA
23306601 CTAGGTTGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (41 bp):
GGAAAGAATTTGTGATTTATAATGATGCATCCTTGAATGGA
Found at i:23309693 original size:11 final size:11
Alignment explanation
Indices: 23309677--23309702 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23309667 TTTGAACCTG
23309677 AGGAATAGTTT
1 AGGAATAGTTT
23309688 AGGAATAGTTT
1 AGGAATAGTTT
23309699 AGGA
1 AGGA
23309703 TACAAGTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (11 bp):
AGGAATAGTTT
Found at i:23311820 original size:45 final size:44
Alignment explanation
Indices: 23311688--23311955 Score: 293
Period size: 45 Copynumber: 5.9 Consensus size: 44
23311678 GGGTGAATTG
* *
23311688 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGG
1 CCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACA-ATCAA-T
*
23311736 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAATCAACT
1 CCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACAATCAA-T
* * *
23311783 CCGATGCCATGTCCAATATGGTCTTACACTGGTTCACAATCCAT
1 CCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAAT
* * **
23311827 GCCGATGCCATGTCCAACATGGTCCTACACTAGCTCGTAATCAAT
1 -CCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAAT
** * * *
23311872 GTGAATGCCTTGTCCAACATGGTCTTACACTGGTTCACAGTCAAT
1 CCG-ATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAAT
* *
23311917 GCCGATGCCATGTCCAATATGGTCTTTCACTGGCTCACA
1 -CCGATGCCATGTCCAACATGGTCTTACACTGGCTCACA
23311956 TGTCACCCAA
Statistics
Matches: 187, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.01
45 126 0.67
46 4 0.02
47 16 0.09
48 39 0.21
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
CCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAAT
Found at i:23311869 original size:90 final size:89
Alignment explanation
Indices: 23311688--23311955 Score: 338
Period size: 90 Copynumber: 2.9 Consensus size: 89
23311678 GGGTGAATTG
* *
23311688 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGATGCCATGTCCCAG
1 CCGATGCCATGT-CCA-ACATGGTCTTACACTGGTTCACA-GTCAATGCCGATGCCATGT-CCA-
*
23311753 ACATGGTCTTACACTAGCTCACAATCAACT
61 ACATGGTCCTACACTAGCTCACAATCAA-T
* * *
23311783 CCGATGCCATGTCCAATATGGTCTTACACTGGTTCACAATCCATGCCGATGCCATGTCCAACATG
1 CCGATGCCATGTCCAACATGGTCTTACACTGGTTCACAGTCAATGCCGATGCCATGTCCAACATG
**
23311848 GTCCTACACTAGCTCGTAATCAAT
66 GTCCTACACTAGCTCACAATCAAT
** * *
23311872 GTGAATGCCTTGTCCAACATGGTCTTACACTGGTTCACAGTCAATGCCGATGCCATGTCCAATAT
1 CCG-ATGCCATGTCCAACATGGTCTTACACTGGTTCACAGTCAATGCCGATGCCATGTCCAACAT
* * *
23311937 GGTCTTTCACTGGCTCACA
65 GGTCCTACACTAGCTCACA
23311956 TGTCACCCAA
Statistics
Matches: 152, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
89 2 0.01
90 95 0.62
91 3 0.02
92 16 0.11
93 21 0.14
94 3 0.02
95 12 0.08
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (89 bp):
CCGATGCCATGTCCAACATGGTCTTACACTGGTTCACAGTCAATGCCGATGCCATGTCCAACATG
GTCCTACACTAGCTCACAATCAAT
Found at i:23311933 original size:135 final size:140
Alignment explanation
Indices: 23311686--23311955 Score: 356
Period size: 135 Copynumber: 2.0 Consensus size: 140
23311676 GAGGGTGAAT
* * *
23311686 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGGCCGATGCCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCCTACACTAGCTCACATATCAAGGCCGATGCCATGTCCC
*
23311751 AGACATGGTCTTACACTAGCTCACAATCAACTCCGATGCCATGTCCAATATGGTCTTACACTGGT
66 AGACATGGTCTTACACTAGCTCACAATCAACTCCGATGCCATGTCCAATATGGTCTTACACTGGC
23311816 TCACAATCCA
131 TCACAATCCA
** * * *
23311826 TGCCGATGCCATGT-CCA-ACATGGTCCTACACTAGCTCGTA-ATCAATG-TGAATGCCTTGT-C
1 TGCCGATGCCATGTCCCAGACATGGTCCTACACTAGCTCACATATCAAGGCCG-ATGCCATGTCC
* * * *
23311886 CA-ACATGGTCTTACACTGGTTCACAGTCAA-TGCCGATGCCATGTCCAATATGGTCTTTCACTG
65 CAGACATGGTCTTACACTAGCTCACAATCAACT-CCGATGCCATGTCCAATATGGTCTTACACTG
23311949 GCTCACA
129 GCTCACA
23311956 TGTCACCCAA
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
134 1 0.01
135 61 0.53
136 4 0.03
137 13 0.11
138 19 0.17
139 3 0.03
140 14 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (140 bp):
TGCCGATGCCATGTCCCAGACATGGTCCTACACTAGCTCACATATCAAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCTCACAATCAACTCCGATGCCATGTCCAATATGGTCTTACACTGGC
TCACAATCCA
Found at i:23315752 original size:6 final size:6
Alignment explanation
Indices: 23315743--23315777 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
23315733 ATGAGAAAGG
* *
23315743 GATTGG GATTGG GATTGC GATTGC GATTGC GATTG
1 GATTGC GATTGC GATTGC GATTGC GATTGC GATTG
23315778 ATCTAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.09, G:0.40, T:0.34
Consensus pattern (6 bp):
GATTGC
Found at i:23319205 original size:44 final size:44
Alignment explanation
Indices: 23319126--23319755 Score: 259
Period size: 44 Copynumber: 13.7 Consensus size: 44
23319116 TTACAATAGA
* * * **
23319126 AAATATTATCTCTCTAAAGTTGCAATGGAACAAGATGAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * *
23319170 GAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * * * * *
23319214 AAATCCTATATCCCTGAAGATGCAGTGGA-TCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGAT-GAAG-----CTA-C
* *
23319264 AAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * * * * *
23319308 AAATCCTATATCCCTGAAGATGCAGTGGA-TCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGAT-GAAG-----CTA-C
* *
23319358 AAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * * * * *
23319402 AAATCCTATATCCCTGAAGATGCAGTGGA-TCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGAT-GAAG-----CTA-C
* *
23319452 AAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * * * * *
23319496 AAATCCTATATCCCTGAAGATGCAGTGGA-TCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGAT-GAAG-----CTA-C
* * *
23319546 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAACCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * * * * * * *
23319590 AAATCCTATATCTCTGAAGATGTAGCTGATCGGA-TCAAAGTTACAATC-GC
1 AAATCTTATCTCCCT-AA-A-GTTGCAG-T-GGAGT--AAGAT-GAAGCTAC
* * * * * *
23319640 GAATCTTATCTCTCTGAGGTTGCAGTGGAGCAAGACGAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * *
23319684 AAATCTTATCTCCCTGAAA-TTG-AGTAGAGCAATATGAAGCTAT
1 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGTAAGATGAAGCTAC
* * * *
23319727 AAATCCTATATCCCTGAAGATGCAGTGGA
1 AAATCTTATCTCCCTAAAGTTGCAGTGGA
23319756 TTGGATCAAA
Statistics
Matches: 425, Mismatches: 116, Indels: 90
0.67 0.18 0.14
Matches are distributed among these distances:
42 2 0.00
43 55 0.13
44 181 0.43
45 14 0.03
46 2 0.00
47 10 0.02
48 1 0.00
49 12 0.03
50 126 0.30
51 22 0.05
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAAGATGAAGCTAC
Found at i:23319289 original size:50 final size:50
Alignment explanation
Indices: 23319214--23319574 Score: 323
Period size: 50 Copynumber: 7.6 Consensus size: 50
23319204 ATGAAGCTAT
* * * *
23319214 AAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGATCAGATCAAAGTTATAATATC
* * * *
23319264 AAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGAT-GAAGCTATAA-ATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGA-TCAGATCAAAGTTATAATATC
* * *
23319313 ----C-TATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGATCAGATCAAAGTTATAATATC
* * * *
23319358 AAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGAT-GAAGCTATAA-ATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGA-TCAGATCAAAGTTATAATATC
* * *
23319407 ----C-TATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGATCAGATCAAAGTTATAATATC
* * * *
23319452 AAATCTTATCTCCCTAAATTTGCAGTGGAGTAAGAT-GAAGCTATAA-ATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGA-TCAGATCAAAGTTATAATATC
* * *
23319501 ----C-TATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTATAATATC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGATCAGATCAAAGTTATAATATC
23319546 AAATCTTATCTCCCTAAAGTTGCAGTGGA
1 AAATCTTATCTCCCTAAAGTTGCAGTGGA
23319575 GCAAGATAAA
Statistics
Matches: 241, Mismatches: 46, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
43 15 0.06
44 81 0.34
45 12 0.05
49 12 0.05
50 106 0.44
51 15 0.06
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (50 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGATCAGATCAAAGTTATAATATC
Found at i:23319291 original size:94 final size:94
Alignment explanation
Indices: 23319171--23319701 Score: 857
Period size: 94 Copynumber: 5.6 Consensus size: 94
23319161 TGAAGCTACG
23319171 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
1 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
23319236 CAGTGGATCAGATCAAAGTTATAATATCA
66 CAGTGGATCAGATCAAAGTTATAATATCA
23319265 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
1 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
23319330 CAGTGGATCAGATCAAAGTTATAATATCA
66 CAGTGGATCAGATCAAAGTTATAATATCA
23319359 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
1 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
23319424 CAGTGGATCAGATCAAAGTTATAATATCA
66 CAGTGGATCAGATCAAAGTTATAATATCA
23319453 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
1 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
23319518 CAGTGGATCAGATCAAAGTTATAATATCA
66 CAGTGGATCAGATCAAAGTTATAATATCA
* * * * * *
23319547 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAACCTACAAATCCTATATCTCTGAAGATG
1 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
* * * ** *
23319612 TAGCT-GATCGGATCAAAGTTACAATCGCG
66 CAG-TGGATCAGATCAAAGTTATAATATCA
* * ** * * * * *
23319641 AATCTTATCTCTCTGAGGTTGCAGTGGAGCAAGACGAAGCTACAAATCTTATCTCCCTGAA
1 AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAA
23319702 ATTGAGTAGA
Statistics
Matches: 415, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
94 414 1.00
95 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
AATCTTATCTCCCTAAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAGATG
CAGTGGATCAGATCAAAGTTATAATATCA
Found at i:23319723 original size:43 final size:44
Alignment explanation
Indices: 23319641--23319752 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 44
23319631 TACAATCGCG
* ** *
23319641 AATCTTATCTCTCTGAGGTTGCAGTGGAGCAAGACGAAGCTACA
1 AATCTTATCTCCCTGAAATTGCAGTAGAGCAAGACGAAGCTACA
* * *
23319685 AATCTTATCTCCCTGAAATTG-AGTAGAGCAATATGAAGCTATA
1 AATCTTATCTCCCTGAAATTGCAGTAGAGCAAGACGAAGCTACA
* *
23319728 AATCCTATATCCCTGAAGA-TGCAGT
1 AATCTTATCTCCCTGAA-ATTGCAGT
23319753 GGATTGGATC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 35 0.61
44 22 0.39
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAATTGCAGTAGAGCAAGACGAAGCTACA
Found at i:23319742 original size:231 final size:233
Alignment explanation
Indices: 23319451--23319932 Score: 658
Period size: 231 Copynumber: 2.1 Consensus size: 233
23319441 GTTATAATAT
* *
23319451 CAAATCTTATCTCCCT-AAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAG
1 CAAATCTTATCTCCCTGAAATTTGCAGTAGAGCAAGATGAAGCTATAAATCCTATATCCCTGAAG
* * *
23319515 ATGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAG
66 ATGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAG
* * *
23319580 A-TAAACCTACAAATCCTATA-TCTCTGAAGATGTAGCT-GATCGGATCAAAGTTACAATCGCGA
131 ATTAAACC-ACAAATCCTATATTC-CTGAAGATGTAG-TGGATCAGATCAAAGCTACAATAG-GA
* *
23319642 A-TCTTATCT-CTCTGAGGTTGCAGTGGAGCAAGACGAAGCTA
192 ACTCTTATCTCCT-TGAAGTTGCAGTGGAACAAGACGAAGCTA
*
23319683 CAAATCTTATCTCCCTGAAA-TTG-AGTAGAGCAATATGAAGCTATAAATCCTATATCCCTGAAG
1 CAAATCTTATCTCCCTGAAATTTGCAGTAGAGCAAGATGAAGCTATAAATCCTATATCCCTGAAG
**
23319746 ATGCAGTGGATTGGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAG
66 ATGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAG
* * * * *
23319811 ATTAAGCCACAAATCCTATATTCCTGAAGATGTAGTGGATTAGATCGAAGCTACCATAGTAACTC
131 ATTAAACCACAAATCCTATATTCCTGAAGATGTAGTGGATCAGATCAAAGCTACAATAGGAACTC
* *
23319876 TTATCTCCTTGAAGTTTCAGTGGAACAAGATGAAGCTA
196 TTATCTCCTTGAAGTTGCAGTGGAACAAGACGAAGCTA
*
23319914 CAAATCCTATAC-CCCTGAA
1 CAAATCTTAT-CTCCCTGAA
23319933 GTTGTAGTTG
Statistics
Matches: 222, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
230 3 0.01
231 187 0.84
232 29 0.13
233 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (233 bp):
CAAATCTTATCTCCCTGAAATTTGCAGTAGAGCAAGATGAAGCTATAAATCCTATATCCCTGAAG
ATGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAG
ATTAAACCACAAATCCTATATTCCTGAAGATGTAGTGGATCAGATCAAAGCTACAATAGGAACTC
TTATCTCCTTGAAGTTGCAGTGGAACAAGACGAAGCTA
Found at i:23319837 original size:137 final size:137
Alignment explanation
Indices: 23319545--23319838 Score: 315
Period size: 137 Copynumber: 2.1 Consensus size: 137
23319535 GTTATAATAT
* * * * * * * *
23319545 CAAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAAGATAAACCTACAAATCCTATATCTCTGAAG
1 CAAATCCTATATCCCTGAAA-TTG-AGTAGAGCAATATGAAGCTATAAATCCTATATCCCTGAAG
* * * * * * *
23319609 ATGTAGCTGATCGGATCAAAGTTACAATCGCGAATCTTATCTCTCTGAGGTTGCAGTGGAGCAAG
64 ATGCAGCTGATCGGATCAAAGTTACAATAGCAAATCTTATCTCTCTAAAGATGCAGTGAAGCAAG
*
23319674 ACGAAGCTA
129 ACGAAGCCA
* *
23319683 CAAATCTTATCTCCCTGAAATTGAGTAGAGCAATATGAAGCTATAAATCCTATATCCCTGAAGAT
1 CAAATCCTATATCCCTGAAATTGAGTAGAGCAATATGAAGCTATAAATCCTATATCCCTGAAGAT
* * *
23319748 GCAG-TGGATTGGATCAAAGTTATAATATCAAATCTTATCTAC-CTAAAGATGCAGTGAAGCAAG
66 GCAGCT-GATCGGATCAAAGTTACAATAGCAAATCTTATCT-CTCTAAAGATGCAGTGAAGCAAG
**
23319811 ATTAAGCCA
129 ACGAAGCCA
*
23319820 CAAATCCTATATTCCTGAA
1 CAAATCCTATATCCCTGAA
23319839 GATGTAGTGG
Statistics
Matches: 131, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
136 1 0.01
137 107 0.82
138 20 0.15
139 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (137 bp):
CAAATCCTATATCCCTGAAATTGAGTAGAGCAATATGAAGCTATAAATCCTATATCCCTGAAGAT
GCAGCTGATCGGATCAAAGTTACAATAGCAAATCTTATCTCTCTAAAGATGCAGTGAAGCAAGAC
GAAGCCA
Found at i:23319939 original size:94 final size:94
Alignment explanation
Indices: 23319711--23319940 Score: 259
Period size: 94 Copynumber: 2.4 Consensus size: 94
23319701 AATTGAGTAG
* * * * * *
23319711 AGCAATATGAAGCTATAAATCCTATATCCCTGAAGATGCAGTGGATTGGATCAAAGTTATAATAT
1 AGCAAGATGAAGCTACAAATCCTATATCCCTGAAGATGTAGTGGATTAGATCAAAGCTACAATAT
23319776 CAAATCTTATCTACCTAAAGATGCAGTGA
66 CAAATCTTATCTACCTAAAGATGCAGTGA
* * * * *
23319805 AGCAAGATTAAGCCACAAATCCTATATTCCTGAAGATGTAGTGGATTAGATCGAAGCTACCATAG
1 AGCAAGATGAAGCTACAAATCCTATATCCCTGAAGATGTAGTGGATTAGATCAAAGCTACAATA-
* * * *
23319870 T-AACTCTTATCT-CCTTGAAGTTTCAGTGGA
65 TCAAATCTTATCTACC-TAAAGATGCAGT-GA
* *
23319900 A-CAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGT
1 AGCAAGATGAAGCTACAAATCCTATATCCCTGAAGATGTAGT
23319941 TGTTTGGAAT
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
93 2 0.02
94 107 0.95
95 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (94 bp):
AGCAAGATGAAGCTACAAATCCTATATCCCTGAAGATGTAGTGGATTAGATCAAAGCTACAATAT
CAAATCTTATCTACCTAAAGATGCAGTGA
Found at i:23319998 original size:44 final size:44
Alignment explanation
Indices: 23319905--23320001 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
23319895 GTGGAACAAG
* * * **
23319905 ATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTTGTTTGGA
1 ATGAAACTAAAAATCCTATACCCCTGAAGTTGTAGTGGAATGGA
* *
23319949 ATGAAACTAAAAATCTTATATCCCTGAAGTTGTAGTGGAATGGA
1 ATGAAACTAAAAATCCTATACCCCTGAAGTTGTAGTGGAATGGA
*
23319993 TTGAAACTA
1 ATGAAACTA
23320002 CAACAACAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (44 bp):
ATGAAACTAAAAATCCTATACCCCTGAAGTTGTAGTGGAATGGA
Found at i:23320013 original size:325 final size:322
Alignment explanation
Indices: 23319357--23320054 Score: 814
Period size: 325 Copynumber: 2.1 Consensus size: 322
23319347 GTTATAATAT
*
23319357 CAAATCTTATCTCCCT-AAATTTGCAGTGGAGTAAGATGAAGCTATAAATCCTATATCCCTGAAG
1 CAAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTGAAG
* ** * *
23319421 ATGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTCCCTAAATTTGCAGTGGAGTAAG
65 ATGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAG
* * * *
23319486 ATGAAGCTATAAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTATAATATCAAATC
130 ATGAAGCCACAAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGCTACAATATCAAATC
* * *
23319551 TTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAACCTACAAATCCTATATCTCTGAAGATGTAGC
195 TTATCTCCCTAAAGTTGCAGTGGAACAAGATAAACCTACAAATCCTATACCCCTGAAGATGTAGC
* * * * * *
23319616 TGATCGGATCAAAGTTACAATCGCGAATCTTATCTCTCTGAGGTTGCAGTGGAGCAAGACGAAGC
260 TGATCGGATCAAAGCTACAA---C-AATCTTATATCCCTGAAGTTGCAGTGGAGCAAAACGAAAC
*
23319681 TA
321 AA
* *
23319683 CAAATCTTATCTCCCTGAAATTG-AGTAGAGCAATATGAAGCTATAAATCCTATATCCCTGAAGA
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTGAAGA
**
23319747 TGCAGTGGATTGGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAGA
66 TGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAGA
* * * * * * *
23319812 TTAAGCCACAAATCCTATATTCCTGAAGATGTAGTGGATTAGATCGAAGCTACCATAGT-AACTC
131 TGAAGCCACAAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGCTACAATA-TCAAATC
* * * * * * *
23319876 TTATCTCCTTGAAGTTTCAGTGGAACAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGT
195 TTATCTCCCTAAAGTTGCAGTGGAACAAGATAAACCTACAAATCCTATACCCCTGAAGATGTAGC
* * * * * *
23319941 TGTTTGGAATGAAA-CTA-AA-AATCTTATATCCCTGAAGTTGTAGTGGAATGGATTGAAACTAC
260 TGATCGG-ATCAAAGCTACAACAATCTTATATCCCTGAAGTTGCAGTGG-A-GCA---AAACGA-
23320003 AACAA
318 AACAA
* * *
23320008 CAAATCTTATCTCCTTGAAGTTGCAATGGAGCAAGATGAAGCTATAA
1 CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTATAA
23320055 CACAAAATCC
Statistics
Matches: 313, Mismatches: 49, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
319 23 0.07
320 1 0.00
321 2 0.01
324 6 0.02
325 233 0.74
326 45 0.14
327 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (322 bp):
CAAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTATAAATCCTATATCCCTGAAGA
TGCAGTGGATCAGATCAAAGTTATAATATCAAATCTTATCTACCTAAAGATGCAGTGAAGCAAGA
TGAAGCCACAAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGCTACAATATCAAATCT
TATCTCCCTAAAGTTGCAGTGGAACAAGATAAACCTACAAATCCTATACCCCTGAAGATGTAGCT
GATCGGATCAAAGCTACAACAATCTTATATCCCTGAAGTTGCAGTGGAGCAAAACGAAACAA
Found at i:23321734 original size:39 final size:39
Alignment explanation
Indices: 23321691--23321765 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
23321681 TTTTTATTAT
23321691 ATTTTTAATTTATGTATTGTTTTAAGAATTGTTTTTCTC
1 ATTTTTAATTTATGTATTGTTTTAAGAATTGTTTTTCTC
* * * * * *
23321730 ATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTT
1 ATTTTTAATTTATGTATTGTTTTAAGAATTGTTTTT
23321766 ATGTTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (39 bp):
ATTTTTAATTTATGTATTGTTTTAAGAATTGTTTTTCTC
Found at i:23321784 original size:24 final size:26
Alignment explanation
Indices: 23321755--23321803 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23321745 CTTGTTTTAA
* *
23321755 TATTTG-TTT-TTATGTTTTTAAATG
1 TATTTGATTTATTATATTTTAAAATG
23321779 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
23321804 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:23322554 original size:22 final size:22
Alignment explanation
Indices: 23322511--23322559 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
23322501 ATTAATTGAA
23322511 TATTTTTTATTTAATCATTTTT
1 TATTTTTTATTTAATCATTTTT
*
23322533 TATTATTTTATTTCATCATTTTT
1 TATT-TTTTATTTAATCATTTTT
23322556 TATT
1 TATT
23322560 GTACTCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTTTATTTAATCATTTTT
Found at i:23327549 original size:23 final size:23
Alignment explanation
Indices: 23327523--23327569 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23327513 AAACTTTCAG
23327523 ATATTCCAAAAATAGCATATTAA
1 ATATTCCAAAAATAGCATATTAA
23327546 ATATTCCAAAAATAGCATATTAA
1 ATATTCCAAAAATAGCATATTAA
23327569 A
1 A
23327570 CTAAGTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.30
Consensus pattern (23 bp):
ATATTCCAAAAATAGCATATTAA
Found at i:23342126 original size:13 final size:13
Alignment explanation
Indices: 23342108--23342136 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23342098 AATTGTAGAT
23342108 TGATATTATGATA
1 TGATATTATGATA
23342121 TGATATTATGATA
1 TGATATTATGATA
23342134 TGA
1 TGA
23342137 GATATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (13 bp):
TGATATTATGATA
Found at i:23348154 original size:19 final size:18
Alignment explanation
Indices: 23348116--23348162 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
23348106 TTTTTATCAT
*
23348116 TTATCATTTA-TTGAGCA
1 TTATCATTTATTTCAGCA
23348133 TTATCATTTATTTCAGGCA
1 TTATCATTTATTTCA-GCA
*
23348152 TTATCACTTAT
1 TTATCATTTAT
23348163 CGGGCTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 13 0.50
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.49
Consensus pattern (18 bp):
TTATCATTTATTTCAGCA
Found at i:23376536 original size:40 final size:41
Alignment explanation
Indices: 23376473--23376683 Score: 202
Period size: 40 Copynumber: 5.3 Consensus size: 41
23376463 CTGGGGCACC
*
23376473 AAGTGCAAT-TAGGAGTACCGAAGTACAAACAGGGGCAAAG-
1 AAGTGCAATCAAGG-GTACCGAAGTACAAACAGGGGCAAAGT
* * * * * *
23376513 ATGTGCATTCAGGGGTACTGAAGTACAAACAAGGGCACA-T
1 AAGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCAAAGT
* * * *
23376553 AAGTGCAATTAAAGGTACCGAAGTACAAACGGGGGC-ACGT
1 AAGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCAAAGT
* * *
23376593 AAGTGCAATC-AGTGGTACCGAAGTATAAATAGGGGC-ACGT
1 AAGTGCAATCAAG-GGTACCGAAGTACAAACAGGGGCAAAGT
* *
23376633 AAGTGCAATCAAGGGTACCAAAGTACAAACAGGGGCACA-T
1 AAGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCAAAGT
*
23376673 AAATGCAATCA
1 AAGTGCAATCA
23376684 TTCAATAATT
Statistics
Matches: 137, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.16
Consensus pattern (41 bp):
AAGTGCAATCAAGGGTACCGAAGTACAAACAGGGGCAAAGT
Found at i:23376610 original size:80 final size:80
Alignment explanation
Indices: 23376473--23376683 Score: 255
Period size: 80 Copynumber: 2.6 Consensus size: 80
23376463 CTGGGGCACC
* * * *
23376473 AAGTGCAATT-AGGAGTACCGAAGTACAAACAGGGGCAAAG-ATGTGCATTCAGGGGTACTGAAG
1 AAGTGCAATTAAGG-GTACCGAAGTACAAACAGGGGC-ACGTAAGTGCAATCAGGGGTACCGAAG
23376536 TACAAACAAGGGCACAT
64 TACAAACAAGGGCACAT
* * *
23376553 AAGTGCAATTAAAGGTACCGAAGTACAAACGGGGGCACGTAAGTGCAATCAGTGGTACCGAAGTA
1 AAGTGCAATTAAGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGTACCGAAGTA
* * * *
23376618 TAAATAGGGGCACGT
66 CAAACAAGGGCACAT
* * * *
23376633 AAGTGCAATCAAGGGTACCAAAGTACAAACAGGGGCACATAAATGCAATCA
1 AAGTGCAATTAAGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCA
23376684 TTCAATAATT
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 108 0.96
81 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.16
Consensus pattern (80 bp):
AAGTGCAATTAAGGGTACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGTACCGAAGTA
CAAACAAGGGCACAT
Found at i:23377444 original size:22 final size:22
Alignment explanation
Indices: 23377402--23377446 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
23377392 TTTAGGAAGA
*
23377402 TAACTTTTGTTTCTTATTTTTT
1 TAACCTTTGTTTCTTATTTTTT
*
23377424 TAACCTTT-TTTCTT-TTATTT
1 TAACCTTTGTTTCTTATTTTTT
23377444 TAA
1 TAA
23377447 TAATAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (22 bp):
TAACCTTTGTTTCTTATTTTTT
Found at i:23377713 original size:12 final size:13
Alignment explanation
Indices: 23377692--23377726 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
23377682 AACACTCCTT
23377692 AAATATTTATGAA
1 AAATATTTATGAA
23377705 AAA-ATTTAT-AA
1 AAATATTTATGAA
23377716 AAATATTTATG
1 AAATATTTATG
23377727 GCTCAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.25
12 12 0.60
13 3 0.15
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (13 bp):
AAATATTTATGAA
Found at i:23384549 original size:40 final size:39
Alignment explanation
Indices: 23384434--23384766 Score: 373
Period size: 40 Copynumber: 8.4 Consensus size: 39
23384424 AGATATAGTA
* * * * * * * *
23384434 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATT
* *
23384473 CCAGCACGAAGCCTACGGATC-TTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGG-TCTTTAAGCCCGGATACAATT
*
23384512 CCAGCACGAAGCCTGCAGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGC-GGTCTTTAAGCCCGGATACAATT
* *
23384552 CCAGCACGAAGCCTGTAGGTCTTTAAGCCCGAATACAATT
1 CCAGCACGAAGCCTG-CGGTCTTTAAGCCCGGATACAATT
* * * *
23384592 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATT
* * *
23384631 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGAATATAATT
1 CCAGCACGAAGCCTGC-GGTCTTTAAGCCCGGATACAATT
*
23384671 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGTCTTTAAGCCCGGATACAATT
* * * *
23384711 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATT
23384750 CCAGCACGAAGCCTGCG
1 CCAGCACGAAGCCTGCG
23384767 AACCTTAAGT
Statistics
Matches: 252, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
39 117 0.46
40 134 0.53
41 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATT
Found at i:23384556 original size:79 final size:79
Alignment explanation
Indices: 23384434--23384766 Score: 361
Period size: 79 Copynumber: 4.2 Consensus size: 79
23384424 AGATATAGTA
* * * * * * * *
23384434 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCACGAAGCCTACGGATC-TTAA
1 CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTACGGATCTTTAA
* *
23384498 GTCCGGATACAATT
66 GCCCGAATACAATT
*
23384512 CCAGCACGAAGCCTGCAGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGTA-GG-TCTT
1 CCAGCACGAAGCCTGC-GGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCC--TACGGATCTT
23384575 TAAGCCCGAATACAATT
63 TAAGCCCGAATACAATT
* * * * * * *
23384592 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTACGGATCTTTAA
*
23384657 GCCCGAATATAATT
66 GCCCGAATACAATT
* * * *
23384671 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGA-CCTT
1 CCAGCACGA-AGCCTGC-GGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTACGGATCTTT
* *
23384734 AAGTCCGGATACAATT
64 AAGCCCGAATACAATT
23384750 CCAGCACGAAGCCTGCG
1 CCAGCACGAAGCCTGCG
23384767 AACCTTAAGT
Statistics
Matches: 214, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.00
78 19 0.09
79 122 0.57
80 70 0.33
81 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (79 bp):
CCAGCACGAAGCCTGCGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTACGGATCTTTAA
GCCCGAATACAATT
Found at i:23384766 original size:119 final size:119
Alignment explanation
Indices: 23384409--23384766 Score: 470
Period size: 119 Copynumber: 3.0 Consensus size: 119
23384399 ACAAACCCTA
* * * * * * * * * * * *
23384409 CGGGACTTTAAGCTCAGATATAGTACCAGTACGAAGCCTGC-GGACCTTAAGTCCGAATATAGTA
1 CGGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGCAGGTCTTTAAGCCCGAATACAATT
* *
23384473 CCAGCACGAAGCCTACGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
66 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* *
23384527 CAGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGTAGGTCTTTAAGCCCGAATACAATT
1 CGGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGCAGGTCTTTAAGCCCGAATACAATT
* *
23384592 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACAAAGCCTG
66 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* * * *
23384646 CGGGTCTTTAAGCCC-GAATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAA
1 CGGGTCTTTAAGCCCAG-ATACAATTCCAGCACGA-AGCCTGCAGGTCTTTAAGCCCGAATACAA
*
23384709 TTCCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
64 TTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
23384765 CG
1 CG
23384767 AACCTTAAGT
Statistics
Matches: 210, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
118 35 0.17
119 175 0.83
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (119 bp):
CGGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGCAGGTCTTTAAGCCCGAATACAATT
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
Found at i:23384776 original size:39 final size:39
Alignment explanation
Indices: 23384434--23384783 Score: 387
Period size: 39 Copynumber: 8.9 Consensus size: 39
23384424 AGATATAGTA
* * * * *
23384434 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
23384473 CCAGCACGAAGCCTACGGATCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * *
23384512 CCAGCACGAAGCCTGCAGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * * *
23384552 CCAGCACGAAGCCTGTAGGTCTTTAAGCCCGAATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
*
23384592 CCAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
23384631 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGAATATAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * *
23384671 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATT
*
23384711 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
23384750 CCAGCACGAAGCCTGCGAACCTTAAGTCCGGATA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
23384784 TACATCAAAT
Statistics
Matches: 267, Mismatches: 39, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
39 133 0.50
40 133 0.50
41 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:23386893 original size:11 final size:13
Alignment explanation
Indices: 23386867--23386961 Score: 59
Period size: 12 Copynumber: 8.1 Consensus size: 13
23386857 ATAGGGTCTC
23386867 CAAATTCACATTT
1 CAAATTCACATTT
23386880 CAAA-TCAC-TTT
1 CAAATTCACATTT
*
23386891 CAATTTCA-ATTT
1 CAAATTCACATTT
**
23386903 CACTTTCA-ATTT
1 CAAATTCACATTT
*
23386915 -AAATTCACAATT
1 CAAATTCACATTT
23386927 C-AATTCA-ATTCT
1 CAAATTCACATT-T
23386939 C--ATTCA-A-TT
1 CAAATTCACATTT
*
23386948 CAAATTCACTTTT
1 CAAATTCACATTT
23386961 C
1 C
23386962 CACTTTCTAG
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
9 2 0.03
10 1 0.02
11 24 0.36
12 32 0.48
13 7 0.11
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (13 bp):
CAAATTCACATTT
Found at i:23386905 original size:18 final size:18
Alignment explanation
Indices: 23386871--23386959 Score: 89
Period size: 17 Copynumber: 5.1 Consensus size: 18
23386861 GGTCTCCAAA
23386871 TTCACATTTCAAA-TCACT
1 TTCA-ATTTCAAATTCACT
*
23386889 TTCAATTTCAATTTCACT
1 TTCAATTTCAAATTCACT
*
23386907 TTCAATTT-AAATTCACAA
1 TTCAATTTCAAATTCAC-T
* *
23386925 TTCAA-TTC-AATTCTCA
1 TTCAATTTCAAATTCACT
23386941 TTCAA-TTCAAATTCACT
1 TTCAATTTCAAATTCACT
23386958 TT
1 TT
23386960 TCCACTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.15
17 30 0.49
18 22 0.36
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCAATTTCAAATTCACT
Found at i:23388147 original size:3 final size:3
Alignment explanation
Indices: 23388132--23388177 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
23388122 ATATATTAGT
* *
23388132 TAA TAA TAT TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
23388176 TA
1 TA
23388178 TTTAATTCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 30 0.83
4 2 0.06
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:23388178 original size:13 final size:13
Alignment explanation
Indices: 23388132--23388178 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
23388122 ATATATTAGT
*
23388132 TAATAATATTA-A
1 TAATAATATAATA
* *
23388144 TAATAATACATTA
1 TAATAATATAATA
23388157 TAATAATATAATA
1 TAATAATATAATA
23388170 TAATAATAT
1 TAATAATAT
23388179 TTAATTCACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 8 0.28
13 21 0.72
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:23389311 original size:27 final size:26
Alignment explanation
Indices: 23389281--23389334 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
23389271 AGGACTACCG
* *
23389281 ATTTACCCCTGGAGGGTAAAATGACTA
1 ATTTACCCCTCGAGCGT-AAATGACTA
* *
23389308 ATTTGCCCCTCGTGCGTAAATGACTA
1 ATTTACCCCTCGAGCGTAAATGACTA
23389334 A
1 A
23389335 CTTGTGTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
ATTTACCCCTCGAGCGTAAATGACTA
Found at i:23390029 original size:27 final size:28
Alignment explanation
Indices: 23389993--23390050 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
23389983 GGCAGCCTCG
*
23389993 CTGTAATCTGGTGGCCTAGCCACAATAT
1 CTGTAATCTGGTGACCTAGCCACAATAT
* * *
23390021 CTGT-ATCTGGTGACTTCGTCACAATAT
1 CTGTAATCTGGTGACCTAGCCACAATAT
23390048 CTG
1 CTG
23390051 GCAGCCTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (28 bp):
CTGTAATCTGGTGACCTAGCCACAATAT
Found at i:23390030 original size:66 final size:67
Alignment explanation
Indices: 23389914--23390066 Score: 258
Period size: 66 Copynumber: 2.3 Consensus size: 67
23389904 AAGGAAGCGT
23389914 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTC-TCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCGTCACAA
23389978 TA
66 TA
*
23389980 TCTGGCAGCCTCGCTGTAATCTGGTGGCCT-AGCCACA-ATATCTGTATCTGGTGACTTCGTCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCA-CCACATATATCTGT-TCTGGTGACTTCGTCAC
23390043 AATA
64 AATA
23390047 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
23390067 TTCTGTGGTG
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
65 9 0.11
66 46 0.56
67 27 0.33
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:23397909 original size:20 final size:19
Alignment explanation
Indices: 23397854--23398332 Score: 137
Period size: 20 Copynumber: 24.1 Consensus size: 19
23397844 AGATGCATAA
* *
23397854 CAGGGGCACCAAGTGTAAT
1 CAGGGGCACGAAGTGCAAT
* *
23397873 CAGGAGCACAAATGTGCAAT
1 CAGGGGCACGAA-GTGCAAT
* *
23397893 CAGGGGTATCGAAGTGCAAA
1 CAGGGGCA-CGAAGTGCAAT
* *
23397913 CAGGGGCACAGATGTGCATT
1 CAGGGGCAC-GAAGTGCAAT
* * * * *
23397933 TAAGGGTACTGAAGTACAAA
1 CAGGGGCAC-GAAGTGCAAT
23397953 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACG-AAGTGCAAT
* * *
23397973 CA-GGGTACCGAAGTACAAA
1 CAGGGGCA-CGAAGTGCAAT
23397992 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACG-AAGTGCAAT
** * *
23398012 CAAGGTTC-CGAAGTACAAA
1 C-AGGGGCACGAAGTGCAAT
* *
23398031 CATGGGCACGTAGGTGCAAT
1 CAGGGGCACG-AAGTGCAAT
* * * *
23398051 CAAGGGTACCGAAATACAAAT
1 CAGGGGCA-CGAAGTGC-AAT
* *
23398072 -AAGGGCACATAAGTGCAAT
1 CAGGGGCAC-GAAGTGCAAT
* * * *
23398091 CAGGGGTACCAAAGTACAAA
1 CAGGGGCA-CGAAGTGCAAT
* *
23398111 CAGAGGCACATAAGTGCAAT
1 CAGGGGCAC-GAAGTGCAAT
* * * * *
23398131 CAAGTGTACCAAAGTACAAAT
1 CAGGGGCA-CGAAGTGC-AAT
* *
23398152 -AAGGGCACGTAACTGCAAT
1 CAGGGGCACG-AAGTGCAAT
* * * * *
23398171 CAAGGGTACCCAAGTACAAA
1 CAGGGGCA-CGAAGTGCAAT
23398191 CAGGGGCAC-ATTAGTGCAAT
1 CAGGGGCACGA--AGTGCAAT
* * * *
23398211 CAAGTGTACCAAAG-GACAAAT
1 CAGGGGCA-CGAAGTG-C-AAT
*
23398232 -AAGGGCACGTAAGTGCAAT
1 CAGGGGCACG-AAGTGCAAT
*
23398251 CAGGGGCACCGAAGTACAAAT
1 CAGGGGCA-CGAAGTGC-AAT
23398272 -AGGGGCACGTAAGTGCAAT
1 CAGGGGCACG-AAGTGCAAT
* * *
23398291 CAGGGGTACCGAAGTACAAA
1 CAGGGGCA-CGAAGTGCAAT
*
23398311 CAAGGGCACGTAAGTGCAAT
1 CAGGGGCACG-AAGTGCAAT
23398331 CA
1 CA
23398333 TTCAATAATT
Statistics
Matches: 329, Mismatches: 95, Indels: 71
0.66 0.19 0.14
Matches are distributed among these distances:
18 4 0.01
19 59 0.18
20 235 0.71
21 30 0.09
22 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (19 bp):
CAGGGGCACGAAGTGCAAT
Found at i:23397922 original size:40 final size:40
Alignment explanation
Indices: 23397886--23398332 Score: 540
Period size: 40 Copynumber: 11.2 Consensus size: 40
23397876 GAGCACAAAT
* * * *
23397886 GTGCAATCAGGGGTATCGAAGTGCAAACAGGGGCACAG-AT
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCAC-GTAA
* * *
23397926 GTGCATTTAAGGGTACTGAAGTACAAACAGGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
23397966 GTGCAATC-AGGGTACCGAAGTACAAACAGGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * *
23398005 GTGCAATCAA-GGTTCCGAAGTACAAACATGGGCACGTAG
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * * *
23398044 GTGCAATCAAGGGTACCGAAATACAAATAAGGGCACATAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * * *
23398084 GTGCAATCAGGGGTACCAAAGTACAAACAGAGGCACATAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * * *
23398124 GTGCAATCAAGTGTACCAAAGTACAAATAAGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * * *
23398164 CTGCAATCAAGGGTACCCAAGTACAAACAGGGGCACATTA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * * * *
23398204 GTGCAATCAAGTGTACCAAAGGACAAATAAGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* * *
23398244 GTGCAATCAGGGGCACCGAAGTACAAATAGGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
* *
23398284 GTGCAATCAGGGGTACCGAAGTACAAACAAGGGCACGTAA
1 GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
23398324 GTGCAATCA
1 GTGCAATCA
23398333 TTCAATAATT
Statistics
Matches: 349, Mismatches: 55, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
39 75 0.21
40 274 0.79
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (40 bp):
GTGCAATCAAGGGTACCGAAGTACAAACAGGGGCACGTAA
Found at i:23401974 original size:14 final size:15
Alignment explanation
Indices: 23401943--23401972 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23401933 CTTTAAAAAA
23401943 TCCCTTAAAATTTTT
1 TCCCTTAAAATTTTT
*
23401958 TCCCTTAACATTTTT
1 TCCCTTAAAATTTTT
23401973 CCTTTCACTA
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:0.23, C:0.23, G:0.00, T:0.53
Consensus pattern (15 bp):
TCCCTTAAAATTTTT
Found at i:23403489 original size:27 final size:27
Alignment explanation
Indices: 23403441--23403599 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
23403431 GCGAGGCTGC
* *
23403441 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
23403468 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
23403494 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
23403521 CAGATAATTGTGGCATAGCCACCA-AGA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
23403548 CAAATATATGTGGCAGAGCCACCA-ACT-
1 CAGATAT-TGTGGCAGAGCCACCAGA-TA
*
23403575 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
23403600 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.10
27 96 0.86
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:23403531 original size:54 final size:55
Alignment explanation
Indices: 23403459--23403599 Score: 209
Period size: 54 Copynumber: 2.6 Consensus size: 55
23403449 GTGACGAAGT
* * *
23403459 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAGACAAATATATGTGGCAGAGC
23403513 CACCAGATCAGATAATTGTGGCATAGCCACCA-AGACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAGACAAATATATGTGGCAGAGC
23403567 CACCA-ACTCAGATAATTGTGGCATAGCCACCAG
1 CACCAGA-TCAGATAATTGTGGCATAGCCACCAG
23403600 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (55 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAGACAAATATATGTGGCAGAGC
Found at i:23406037 original size:79 final size:81
Alignment explanation
Indices: 23405901--23406085 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
23405891 TTGAATGATG
* * *
23405901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
* *
23405965 TGTGGGAGATGCTA-A
66 TGTGCGAGATACTATA
* * * **
23405980 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23406042 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
23406060 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23406086 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:23406051 original size:40 final size:40
Alignment explanation
Indices: 23405901--23406085 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
23405891 TTGAATGATG
* * * *
23405901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
23405941 TCCGGACTAAGAT-CCGAAGGCATTTGTGGGAGATGCTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23405981 TCCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23406020 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23406061 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23406086 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 32 0.27
40 78 0.66
41 9 0.08
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23408389 original size:26 final size:26
Alignment explanation
Indices: 23408358--23408465 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
23408348 TGAAATGCCC
23408358 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
23408384 ATCATGGAACACTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
23408410 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
23408436 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
23408462 ATCA
1 ATCA
23408466 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 2 0.03
26 72 0.97
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:23409501 original size:25 final size:24
Alignment explanation
Indices: 23409444--23409501 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
23409434 AGAAGTAAAG
23409444 AAGAAA-AAAAAGAGAAAGATGGA
1 AAGAAAGAAAAAGAGAAAGATGGA
*
23409467 AAGATTAGAAAAAGAGAAAAGA-GTGA
1 AAGA-AAGAAAAAGAG-AAAGATG-GA
23409493 AAGAAAGAA
1 AAGAAAGAA
23409502 GAGATGAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 4 0.14
24 1 0.03
25 13 0.45
26 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (24 bp):
AAGAAAGAAAAAGAGAAAGATGGA
Found at i:23412382 original size:50 final size:50
Alignment explanation
Indices: 23412192--23412385 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
23412182 TCCATTGTGA
* * *
23412192 GTCACGTGTGTAGTACTAAGTGCAGGCTACT-CTGCGTACCCG-TTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTAC-GCGTACCAGATTGA--TAG
* * ** * * * *
23412243 ATCACGTGTGTAGTACTAAGTGCAGGTTACTACATGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAG
* *
23412293 GTCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAG
* * *
23412343 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
23412386 GAGCTTCGGT
Statistics
Matches: 117, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
50 81 0.69
51 34 0.29
52 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATTGATAG
Found at i:23413737 original size:35 final size:35
Alignment explanation
Indices: 23413689--23413758 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
23413679 TTTTTTTCTT
* *
23413689 TTTATTCTTTCACGGTTGGAGTCGTGGGCACGACG
1 TTTATTCTGTCACGGCTGGAGTCGTGGGCACGACG
23413724 TTTATTCTGTCACGGCTGGAGTCGTGGGCACGACG
1 TTTATTCTGTCACGGCTGGAGTCGTGGGCACGACG
23413759 CTGGGCACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.14, C:0.21, G:0.33, T:0.31
Consensus pattern (35 bp):
TTTATTCTGTCACGGCTGGAGTCGTGGGCACGACG
Found at i:23420512 original size:13 final size:12
Alignment explanation
Indices: 23420492--23420521 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
23420482 AATAATTTCT
23420492 AAAAAAAGAAAA
1 AAAAAAAGAAAA
23420504 AAAAGAAAGAAAA
1 AAAA-AAAGAAAA
23420517 AAAAA
1 AAAAA
23420522 GAGTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:23420517 original size:36 final size:35
Alignment explanation
Indices: 23420455--23420541 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 35
23420445 GTTCAACAAA
* * *
23420455 AAAAAAGAGACAAAAAAAGCACAAAAAAATA-ATTTC
1 AAAAAA-AGA-AAAAAAAGAACAAAAAAAAAGAGTTC
*
23420491 TAAAAAAAGAAAAAAAAGAAAGAAAAAAAAAGAGTTC
1 -AAAAAAAGAAAAAAAAG-AACAAAAAAAAAGAGTTC
*
23420528 AAAAAAATAAAAAA
1 AAAAAAAGAAAAAA
23420542 TAAAAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
35 8 0.19
36 25 0.58
37 10 0.23
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (35 bp):
AAAAAAAGAAAAAAAAGAACAAAAAAAAAGAGTTC
Found at i:23421347 original size:35 final size:35
Alignment explanation
Indices: 23421291--23421361 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
23421281 TTTTTTCTTT
*
23421291 TTATTCTATCACAGGTTGAGTCGTGGGCACGACGC
1 TTATTCTATCACAGGTGGAGTCGTGGGCACGACGC
*
23421326 TTATTCTGTCAC-GGCTGGAGTCGTGGGCACGACGC
1 TTATTCTATCACAGG-TGGAGTCGTGGGCACGACGC
23421361 T
1 T
23421362 GGGCACGACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.17, C:0.24, G:0.31, T:0.28
Consensus pattern (35 bp):
TTATTCTATCACAGGTGGAGTCGTGGGCACGACGC
Found at i:23429439 original size:19 final size:20
Alignment explanation
Indices: 23429411--23429448 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23429401 TTATGGGTTT
23429411 AGCATCTATAA-GCTTACTA
1 AGCATCTATAATGCTTACTA
*
23429430 AGCATGTATAATGCTTACT
1 AGCATCTATAATGCTTACT
23429449 CGATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
AGCATCTATAATGCTTACTA
Found at i:23430681 original size:6 final size:7
Alignment explanation
Indices: 23430664--23430688 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23430654 CTACAAAGGC
23430664 TTTTTTA
1 TTTTTTA
23430671 TTTTTTA
1 TTTTTTA
23430678 TTTTTTA
1 TTTTTTA
23430685 TTTT
1 TTTT
23430689 CTCTTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:23430695 original size:14 final size:14
Alignment explanation
Indices: 23430663--23430696 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23430653 ACTACAAAGG
*
23430663 CTTTTTTATTTTTT
1 CTTTTTTATTTTCT
*
23430677 ATTTTTTATTTTCT
1 CTTTTTTATTTTCT
23430691 CTTTTT
1 CTTTTT
23430697 AGTTTGTGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (14 bp):
CTTTTTTATTTTCT
Found at i:23431727 original size:20 final size:20
Alignment explanation
Indices: 23431702--23431739 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23431692 GTTGAACCGC
*
23431702 TAAAAACCGATCAAACTATT
1 TAAAAACCAATCAAACTATT
*
23431722 TAAAAACCAATTAAACTA
1 TAAAAACCAATCAAACTA
23431740 GGCTAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.18, G:0.03, T:0.24
Consensus pattern (20 bp):
TAAAAACCAATCAAACTATT
Found at i:23432111 original size:46 final size:46
Alignment explanation
Indices: 23432053--23432156 Score: 147
Period size: 46 Copynumber: 2.3 Consensus size: 46
23432043 TGGTGTAAGT
* * *
23432053 CTCAAGGTCCAATTTTAGACCCAT-GAATATGATGGGCTTTCATTAC
1 CTCAAGGCCCAATTTTAGACCCATAG-ATATGATGGGCTTACACTAC
*
23432099 CTCAAGGCCCAATTTTAGACCCATAGATGTGATGGGCTTACACTAC
1 CTCAAGGCCCAATTTTAGACCCATAGATATGATGGGCTTACACTAC
*
23432145 CTCAAAGCCCAA
1 CTCAAGGCCCAA
23432157 CAATAAGGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
46 51 0.98
47 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (46 bp):
CTCAAGGCCCAATTTTAGACCCATAGATATGATGGGCTTACACTAC
Done.