Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 158 of 216
Found at i:49651461 original size:37 final size:37
Alignment explanation
Indices: 49651411--49651560 Score: 255
Period size: 37 Copynumber: 4.1 Consensus size: 37
49651401 GGAGAATATT
* *
49651411 AAAGAATTATGTAATGTTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
49651448 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
49651485 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
* * *
49651522 TAAGATTTATGTAATTTTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
49651559 AA
1 AA
49651561 TTTGGGTAAT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (37 bp):
AAAGACTTATGTAATATTTTTAATTATGTAGTGATTC
Found at i:49651533 original size:20 final size:19
Alignment explanation
Indices: 49651433--49651534 Score: 77
Period size: 20 Copynumber: 5.4 Consensus size: 19
49651423 AATGTTTTTA
*
49651433 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCTAAG
* * *
49651452 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCTAAG
*
49651470 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCTAAG
* * *
49651489 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCTAAG
49651507 ATTATGTAGTGATTCTAAG
1 ATTATGTAGTGATTCTAAG
49651526 ATTTATGTA
1 A-TTATGTA
49651535 ATTTTTTTAA
Statistics
Matches: 61, Mismatches: 15, Indels: 13
0.69 0.17 0.15
Matches are distributed among these distances:
17 16 0.26
18 11 0.18
19 11 0.18
20 23 0.38
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (19 bp):
ATTATGTAGTGATTCTAAG
Found at i:49651576 original size:9 final size:9
Alignment explanation
Indices: 49651559--49651598 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
49651549 GTAGTGATTC
*
49651559 AATTTGGGT
1 AATTCGGGT
49651568 AATTCGGGT
1 AATTCGGGT
*
49651577 AATTCTGGT
1 AATTCGGGT
49651586 AATTCGGGT
1 AATTCGGGT
49651595 AATT
1 AATT
49651599 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (9 bp):
AATTCGGGT
Found at i:49657237 original size:98 final size:98
Alignment explanation
Indices: 49657068--49657265 Score: 396
Period size: 98 Copynumber: 2.0 Consensus size: 98
49657058 GTCTATAGAC
49657068 AGTGGAAATTAAAGATTCCTTCCAATTCCAAACCATTTGTTTCTCATTTGTCAAGTTTATTATTT
1 AGTGGAAATTAAAGATTCCTTCCAATTCCAAACCATTTGTTTCTCATTTGTCAAGTTTATTATTT
49657133 TTATTGCAATACATTGGTATTCTTCCAAGAAAG
66 TTATTGCAATACATTGGTATTCTTCCAAGAAAG
49657166 AGTGGAAATTAAAGATTCCTTCCAATTCCAAACCATTTGTTTCTCATTTGTCAAGTTTATTATTT
1 AGTGGAAATTAAAGATTCCTTCCAATTCCAAACCATTTGTTTCTCATTTGTCAAGTTTATTATTT
49657231 TTATTGCAATACATTGGTATTCTTCCAAGAAAG
66 TTATTGCAATACATTGGTATTCTTCCAAGAAAG
49657264 AG
1 AG
49657266 GAAGTAAAAG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 100 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (98 bp):
AGTGGAAATTAAAGATTCCTTCCAATTCCAAACCATTTGTTTCTCATTTGTCAAGTTTATTATTT
TTATTGCAATACATTGGTATTCTTCCAAGAAAG
Found at i:49658046 original size:9 final size:9
Alignment explanation
Indices: 49658008--49658230 Score: 69
Period size: 10 Copynumber: 22.9 Consensus size: 9
49657998 AAATAACAAA
49658008 AATTTTCTAT
1 AATTTT-TAT
49658018 AA-TTTTATT
1 AATTTTTA-T
*
49658027 ACATATTTAT
1 A-ATTTTTAT
49658037 AATTTTTAT
1 AATTTTTAT
49658046 AACTTTTTAAT
1 AA-TTTTT-AT
* *
49658057 ACTTTTAAT
1 AATTTTTAT
49658066 AAGTTTTTAT
1 AA-TTTTTAT
49658076 AACTTTTTAAAAT
1 AA-TTTTT---AT
*
49658089 AAATTTATAT
1 -AATTTTTAT
*
49658099 ATTTTTATAT
1 AATTTT-TAT
49658109 AATTTCTTAT
1 AATTT-TTAT
49658119 --TGTTTTAT
1 AAT-TTTTAT
*
49658127 -TTTTTTAT
1 AATTTTTAT
* *
49658135 AAGTTCTAT
1 AATTTTTAT
49658144 AATTTTATAT
1 AATTTT-TAT
* *
49658154 TATTTATAT
1 AATTTTTAT
*
49658163 AATAGTTTGAT
1 AAT--TTTTAT
*
49658174 ATCTTTTTCAT
1 A-ATTTTT-AT
* *
49658185 AACATATTAAT
1 -A-ATTTTTAT
*
49658196 GATATTTTAT
1 AAT-TTTTAT
49658206 AATTTTTAT
1 AATTTTTAT
49658215 AATTTTT-T
1 AATTTTTAT
*
49658223 AATATTTA
1 AATTTTTA
49658231 ATAACAATTT
Statistics
Matches: 158, Mismatches: 32, Indels: 47
0.67 0.14 0.20
Matches are distributed among these distances:
8 20 0.13
9 53 0.34
10 55 0.35
11 17 0.11
12 5 0.03
13 6 0.04
14 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
AATTTTTAT
Found at i:49660922 original size:16 final size:16
Alignment explanation
Indices: 49660897--49660952 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
49660887 TTATTTATAT
*
49660897 TTATTCATATAATAAA
1 TTATTAATATAATAAA
*
49660913 TTATTAATATAATTAA
1 TTATTAATATAATAAA
49660929 TTATT--T-TAATAAA
1 TTATTAATATAATAAA
49660942 TTATTTAATAT
1 TTA-TTAATAT
49660953 TTAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 9 0.27
14 3 0.09
16 20 0.61
17 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:49661054 original size:15 final size:15
Alignment explanation
Indices: 49661034--49661090 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
49661024 ATTCAATATG
49661034 AATATTTTAATAATA
1 AATATTTTAATAATA
*
49661049 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
49661068 AATATATTAATAATA
1 AATATTTTAATAATA
*
49661083 AATGTTTT
1 AATATTTT
49661091 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:49666557 original size:72 final size:72
Alignment explanation
Indices: 49666440--49666587 Score: 296
Period size: 72 Copynumber: 2.1 Consensus size: 72
49666430 TGGAAGAAGA
49666440 CTTTGAAAACTGAAACCTGTATAGACCCTCATGTATGTGGCCCTCGAGGAGAATCATCCCTATCT
1 CTTTGAAAACTGAAACCTGTATAGACCCTCATGTATGTGGCCCTCGAGGAGAATCATCCCTATCT
49666505 GAATGTC
66 GAATGTC
49666512 CTTTGAAAACTGAAACCTGTATAGACCCTCATGTATGTGGCCCTCGAGGAGAATCATCCCTATCT
1 CTTTGAAAACTGAAACCTGTATAGACCCTCATGTATGTGGCCCTCGAGGAGAATCATCCCTATCT
49666577 GAATGTC
66 GAATGTC
49666584 CTTT
1 CTTT
49666588 ACAAAACACA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (72 bp):
CTTTGAAAACTGAAACCTGTATAGACCCTCATGTATGTGGCCCTCGAGGAGAATCATCCCTATCT
GAATGTC
Found at i:49668093 original size:14 final size:14
Alignment explanation
Indices: 49668074--49668112 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
49668064 TTAATACTTG
49668074 CAACTTTAACTAAC
1 CAACTTTAACTAAC
*
49668088 CAACTTCAACTAAC
1 CAACTTTAACTAAC
*
49668102 CAACTGTAACT
1 CAACTTTAACT
49668113 GAAAATACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.03, T:0.26
Consensus pattern (14 bp):
CAACTTTAACTAAC
Found at i:49669107 original size:18 final size:20
Alignment explanation
Indices: 49669067--49669111 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
49669057 CTGAATTTTG
*
49669067 TATTTTTTTCATTTTCTCCC
1 TATTTTTTTCATTTTCTACC
*
49669087 TATTTTTTT-ATTTT-TATC
1 TATTTTTTTCATTTTCTACC
49669105 TATTTTT
1 TATTTTT
49669112 GAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 5 0.22
20 9 0.39
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTTTTCATTTTCTACC
Found at i:49669236 original size:31 final size:31
Alignment explanation
Indices: 49669175--49669236 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
49669165 TTCTCATATG
*
49669175 TTACATTTTTTTTGAAAATTTTCTGATTTTT
1 TTACATTTTTTTTGAAAATTTTCTCATTTTT
*
49669206 TTACATTTTTTTTG-TAATTTTACTC-TTTTT
1 TTACATTTTTTTTGAAAATTTT-CTCATTTTT
49669236 T
1 T
49669237 ATTTTATGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (31 bp):
TTACATTTTTTTTGAAAATTTTCTCATTTTT
Found at i:49674851 original size:20 final size:20
Alignment explanation
Indices: 49674806--49674886 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 20
49674796 GCTAGTACAG
* *
49674806 GATTGCACTTCGGTGCCTCT
1 GATTGAACTTCGATGCCTCT
*
49674826 -ATTTGAACTTCGATGTCTCT
1 GA-TTGAACTTCGATGCCTCT
49674846 GATTGAA-TAATCG-TGCCTCT
1 GATTGAACT--TCGATGCCTCT
* *
49674866 -ATCTGTACTTCGATACCTCT
1 GAT-TGAACTTCGATGCCTCT
49674886 G
1 G
49674887 TTACGCATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
19 7 0.15
20 35 0.74
21 5 0.11
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (20 bp):
GATTGAACTTCGATGCCTCT
Found at i:49680563 original size:8 final size:8
Alignment explanation
Indices: 49680541--49680578 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
49680531 AAATTAGCCA
49680541 AATTTTA-
1 AATTTTAT
*
49680548 ACTTTTAT
1 AATTTTAT
49680556 AATTTTAT
1 AATTTTAT
49680564 AATTTTTAT
1 AA-TTTTAT
49680573 AATTTT
1 AATTTT
49680579 TGAATATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 6 0.22
8 13 0.48
9 8 0.30
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (8 bp):
AATTTTAT
Found at i:49680572 original size:9 final size:9
Alignment explanation
Indices: 49680550--49680579 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49680540 AAATTTTAAC
49680550 TTTTATAA-
1 TTTTATAAT
49680558 TTTTATAAT
1 TTTTATAAT
49680567 TTTTATAAT
1 TTTTATAAT
49680576 TTTT
1 TTTT
49680580 GAATATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATAAT
Found at i:49680658 original size:19 final size:19
Alignment explanation
Indices: 49680634--49680697 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
49680624 CACATTTAAT
49680634 TTTTCTAAAATTTTAATAA
1 TTTTCTAAAATTTTAATAA
* *
49680653 TTTTCTATAATAATT-ATAA
1 TTTTCTAAAAT-TTTAATAA
*
49680672 ATTTCTAATAATTTTATTATAA
1 TTTTCTAA-AATTTTA--ATAA
49680694 TTTT
1 TTTT
49680698 TATAATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 22 0.65
20 5 0.15
22 7 0.21
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTCTAAAATTTTAATAA
Found at i:49683684 original size:14 final size:14
Alignment explanation
Indices: 49683665--49683691 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49683655 ATAACGAAAT
49683665 AAATATTTAATTTG
1 AAATATTTAATTTG
49683679 AAATATTTAATTT
1 AAATATTTAATTT
49683692 TTTAGGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATATTTAATTTG
Found at i:49684905 original size:2 final size:2
Alignment explanation
Indices: 49684850--49684886 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
49684840 GAGTGTAAAT
49684850 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
49684887 AATGAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49687055 original size:21 final size:21
Alignment explanation
Indices: 49687016--49687056 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
49687006 GTTTGATATA
49687016 TTTTAAAAAAGTATTTATTAAT
1 TTTTAAAAAAG-ATTTATTAAT
49687038 TTTTAAAAAA-ATTGTATTA
1 TTTTAAAAAAGATT-TATTA
49687057 GCTTTGTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 5 0.28
22 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTTAAAAAAGATTTATTAAT
Found at i:49696970 original size:24 final size:24
Alignment explanation
Indices: 49696943--49697005 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 24
49696933 CAGCTCAAAA
*
49696943 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* * *
49696967 GAGCATCCTGATATTTGGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
* *
49696992 GAACTTCCCGTTAT
1 GAGCATCCCGTTAT
49697006 ACGGTTCTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:49697133 original size:25 final size:25
Alignment explanation
Indices: 49697105--49697228 Score: 60
Period size: 24 Copynumber: 4.9 Consensus size: 25
49697095 ATGAGCGTCA
49697105 TGATATATGGCTCTCTGGAGCTTCT
1 TGATATATGGCTCTCTGGAGCTTCT
* * *
49697130 TGATTAGAAGGCTCTTTCATGG-GCTTCC
1 TGA-TATATGGCTC--TC-TGGAGCTTCT
* * *
49697158 TGAT-TATTGCCTCTCCGTAGCTTCT
1 TGATATA-TGGCTCTCTGGAGCTTCT
* * *
49697183 TGATAT-TGGCTCGCTTGAACTTCT
1 TGATATATGGCTCTCTGGAGCTTCT
**
49697207 CCATAT-TGGCTCGTCT-GAGCTT
1 TGATATATGGCTC-TCTGGAGCTT
49697229 TCCGTTAAAG
Statistics
Matches: 72, Mismatches: 19, Indels: 17
0.67 0.18 0.16
Matches are distributed among these distances:
24 28 0.39
25 16 0.22
26 10 0.14
27 5 0.07
28 10 0.14
29 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (25 bp):
TGATATATGGCTCTCTGGAGCTTCT
Found at i:49701829 original size:35 final size:36
Alignment explanation
Indices: 49701769--49701845 Score: 129
Period size: 35 Copynumber: 2.1 Consensus size: 36
49701759 TTGTGAATAA
*
49701769 TACATATGTTAGTTTTATCTGTATTTGTTATTGTACG
1 TACA-ATGTTAGTTTTATCTATATTTGTTATTGTACG
49701806 TACAATG-TAGTTTTATCTATATTTGTTATTGTACG
1 TACAATGTTAGTTTTATCTATATTTGTTATTGTACG
49701841 TACAA
1 TACAA
49701846 CGTGCCTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 32 0.82
36 3 0.08
37 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (36 bp):
TACAATGTTAGTTTTATCTATATTTGTTATTGTACG
Found at i:49715325 original size:14 final size:14
Alignment explanation
Indices: 49715297--49715334 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
49715287 TATTAACATG
*
49715297 AAAGAAACTA-AAA
1 AAAGAAAATAGAAA
49715310 AAGAGAAAATAGAAA
1 AA-AGAAAATAGAAA
49715325 AAAGAAAATA
1 AAAGAAAATA
49715335 TATGTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 15 0.68
15 5 0.23
ACGTcount: A:0.76, C:0.03, G:0.13, T:0.08
Consensus pattern (14 bp):
AAAGAAAATAGAAA
Found at i:49719979 original size:40 final size:40
Alignment explanation
Indices: 49719896--49720158 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
49719886 TTGAATGCTG
* * * * * *
49719896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
49719936 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
49719976 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
49720016 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
49720056 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
49720096 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
49720135 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49720159 TGAACAAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:49720178 original size:79 final size:80
Alignment explanation
Indices: 49719935--49720193 Score: 220
Period size: 80 Copynumber: 3.3 Consensus size: 80
49719925 AAGTGAATAT
* * * * * * *
49719935 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * * *
49719999 TCGTGCGAGTTA-TTAA
65 TCGAACAAG-GAGCTAA
* * *
49720015 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** * ** *
49720080 CGTGCGAGTTGTTAA
66 CGAACAAGGAGCTAA
* * * *
49720095 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
49720159 TGAACAAGGAGCTAT
66 CGAACAAGGAGCTAA
*
49720174 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
49720194 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 46 0.30
80 93 0.61
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACAAGGAGCTAA
Found at i:49721749 original size:84 final size:83
Alignment explanation
Indices: 49721549--49721768 Score: 255
Period size: 84 Copynumber: 2.6 Consensus size: 83
49721539 TTACAATTAT
* * *
49721549 CAGTTTGTTTGATCTACAAATATGTTGTGCACTCACAAAAAGTTAG-AGTAATTGGAATATGTGG
1 CAGTTTGTTTG-TCTACAAATATGTTGTGCACTCACAAAAAG-TGGCAGTAACTGAAATATGTGG
* **
49721613 TTCAATCACAAACTGAGTTG
64 TTAAATCACAAACCAAGTTG
* ** * *
49721633 CAGTTTGTTTAATCTGTAAATATATTGTGCACTCACAACAAGTGGCAGTAACTGAAAATATGTGG
1 CAGTTTGTTT-GTCTACAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACTG-AAATATGTGG
49721698 TTAAATCACAAACCAAG-TG
64 TTAAATCACAAACCAAGTTG
** *
49721717 ACAGTTTGTTTGTCTACAAATATGTCATGCACTCACAAGAAGTGGCAGTAAC
1 -CAGTTTGTTTGTCTACAAATATGTTGTGCACTCACAAAAAGTGGCAGTAAC
49721769 CACAATCAGT
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
83 2 0.02
84 79 0.69
85 33 0.29
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (83 bp):
CAGTTTGTTTGTCTACAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACTGAAATATGTGGTT
AAATCACAAACCAAGTTG
Found at i:49721782 original size:85 final size:82
Alignment explanation
Indices: 49721549--49721801 Score: 247
Period size: 84 Copynumber: 3.0 Consensus size: 82
49721539 TTACAATTAT
* ****
49721549 CAGTTTGTTTGATCTACAAATATGTTGTGCACTCACAAAAAGTTAG-AGTAATTGGAATATGTGG
1 CAGTTTGTTTG-TCTACAAATATGTTGTGCACTCACAAAAAG-TGGCAGTAACCAAAATATGTGG
**
49721613 TTCAATCACAAACTGAGTTG
64 TTCAATCACAAACCAAG-TG
* ** * * *
49721633 CAGTTTGTTTAATCTGTAAATATATTGTGCACTCACAACAAGTGGCAGTAACTGAAAATATGTGG
1 CAGTTTGTTT-GTCTACAAATATGTTGTGCACTCACAAAAAGTGGCAGTAAC-CAAAATATGTGG
*
49721698 TTAAATCACAAACCAAGTG
64 TTCAATCACAAACCAAGTG
** * *
49721717 ACAGTTTGTTTGTCTACAAATATGTCATGCACTCACAAGAAGTGGCAGTAACCACAATCAGTGTG
1 -CAGTTTGTTTGTCTACAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACCAAAAT-A-TGTG
* *
49721782 GTTCAATAACGAACCAAGTG
63 GTTCAATCACAAACCAAGTG
49721802 GTAGTTTTTT
Statistics
Matches: 138, Mismatches: 25, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
83 6 0.04
84 78 0.57
85 54 0.39
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (82 bp):
CAGTTTGTTTGTCTACAAATATGTTGTGCACTCACAAAAAGTGGCAGTAACCAAAATATGTGGTT
CAATCACAAACCAAGTG
Found at i:49723970 original size:19 final size:20
Alignment explanation
Indices: 49723946--49723995 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
49723936 GCTTAACATT
*
49723946 AGTTAATTAAAATTAA-ATA
1 AGTTAATTAAAATTAATAAA
**
49723965 AGTTAATTGTAATTAATTAAA
1 AGTTAATTAAAATTAA-TAAA
49723986 AGTTAATTAA
1 AGTTAATTAA
49723996 CCTATAAAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 14 0.58
21 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (20 bp):
AGTTAATTAAAATTAATAAA
Found at i:49734764 original size:39 final size:40
Alignment explanation
Indices: 49734647--49734831 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
49734637 GCTACTCGTT
*
49734647 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
49734687 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
49734727 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
49734766 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
49734807 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49734832 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:49734815 original size:79 final size:80
Alignment explanation
Indices: 49734647--49734831 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
49734637 GCTACTCGTT
* *
49734647 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
49734711 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
49734728 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
49734791 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
49734807 CAAAGCCTTCAGGACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
49734832 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:49742747 original size:79 final size:81
Alignment explanation
Indices: 49742638--49742820 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
49742628 TACTCGTTCA
* *
49742638 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
49742701 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
49742718 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
49742781 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
49742797 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
49742821 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:49742820 original size:40 final size:40
Alignment explanation
Indices: 49742617--49742820 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
49742607 CGGAATTTAA
** *
49742617 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49742657 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49742697 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49742736 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49742776 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49742816 CCGGA
1 CCGGA
49742821 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49747700 original size:37 final size:37
Alignment explanation
Indices: 49747650--49747728 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
49747640 TTATTACGAA
* *
49747650 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
49747687 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
49747724 GTCTT
1 GTCTT
49747729 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:49747925 original size:47 final size:47
Alignment explanation
Indices: 49747847--49748615 Score: 1322
Period size: 47 Copynumber: 16.3 Consensus size: 47
49747837 CCCTTCGGGA
* * * * * * *
49747847 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49747894 CCTGTCACATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49747941 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49747988 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49748035 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748082 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748129 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49748176 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748223 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49748270 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748319 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748366 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748413 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49748460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49748507 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49748554 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49748601 CTTATCACATATATA
1 CTTATCACATATATA
49748616 TACACATTCG
Statistics
Matches: 695, Mismatches: 25, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 649 0.93
49 46 0.07
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49762281 original size:31 final size:32
Alignment explanation
Indices: 49762243--49762322 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 32
49762233 AAGCTTGTTT
* *
49762243 TATTTTTAATTAATAAATAT-ATTTTTTTCAA
1 TATTTTTAATTAATAAATATCATCTTTTTAAA
* *
49762274 TTTTTTTAATT--TTAAT-TCATCTTTTTAAA
1 TATTTTTAATTAATAAATATCATCTTTTTAAA
49762303 TATTTTTAATTAATAAATAT
1 TATTTTTAATTAATAAATAT
49762323 TTTATTCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.03
29 23 0.59
31 14 0.36
32 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTTTTAATTAATAAATATCATCTTTTTAAA
Found at i:49773129 original size:23 final size:23
Alignment explanation
Indices: 49773097--49773142 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
49773087 TTAGGGGAGT
* *
49773097 TTGGATGAACGAATTGCCTAAGG
1 TTGGACGAACGAATCGCCTAAGG
49773120 TTGGACGAACGAATCGCCTAAGG
1 TTGGACGAACGAATCGCCTAAGG
49773143 CCACACGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (23 bp):
TTGGACGAACGAATCGCCTAAGG
Found at i:49773972 original size:113 final size:113
Alignment explanation
Indices: 49773774--49773997 Score: 403
Period size: 113 Copynumber: 2.0 Consensus size: 113
49773764 ATTTCCTTGT
* *
49773774 TTGTGAAAGTTGAAACTAACTTTAACATTTTGGATCTTTCGAATGTTATGTTTTAAAAAACAATA
1 TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATCTTTCGAATGTCATGTTTTAAAAAACAATA
49773839 CAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAACC
66 CAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAACC
* *
49773887 TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATCTTTTGAATGTCATGTTTTAAAAGACAATA
1 TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATCTTTCGAATGTCATGTTTTAAAAAACAATA
*
49773952 CAAAAGTTTTAGTTAAACTTGAACTCACTGCATTTTATGTGCATAA
66 CAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAA
49773998 ACTTTCAACC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (113 bp):
TTGTGAAAGTTGAAACTAACTTCAACATTTTGGATCTTTCGAATGTCATGTTTTAAAAAACAATA
CAAAAGTTTTAGTTAAACTTGAACTCAATGCATTTTATGTGCATAACC
Found at i:49777816 original size:21 final size:22
Alignment explanation
Indices: 49777790--49777831 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
49777780 ATAAAGTAAG
49777790 TTATATATTAT-TTTTATAATA
1 TTATATATTATGTTTTATAATA
*
49777811 TTATATATTATGTTTTTTAAT
1 TTATATATTATGTTTTATAAT
49777832 TCATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATATATTATGTTTTATAATA
Found at i:49777837 original size:21 final size:21
Alignment explanation
Indices: 49777792--49777837 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
49777782 AAAGTAAGTT
*
49777792 ATATATTATTTTTATAATATT
1 ATATATTATTTTTATAATATC
*
49777813 ATATATTATGTTTTTTAAT-TC
1 ATATATTAT-TTTTATAATATC
49777834 ATAT
1 ATAT
49777838 TTTAATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATATTATTTTTATAATATC
Found at i:49777973 original size:57 final size:57
Alignment explanation
Indices: 49777810--49777975 Score: 201
Period size: 57 Copynumber: 2.9 Consensus size: 57
49777800 TTTTTATAAT
* * *
49777810 ATTATATATTATGTTT-TTTAATTCATATTTTAATAATAATTATATTAAGAATATTATTAA
1 ATTATATATTAT-TTTATTAAAAT-ATA-TTTAATAATAATTATATTAA-AATATGATTAA
* * * *
49777870 ATTATATATTATTTTATTAAATTGTATTTAACAATAATTATGTTAAAATATGATTAA
1 ATTATATATTATTTTATTAAAATATATTTAATAATAATTATATTAAAATATGATTAA
*
49777927 ATTATTTATTATTTTATTAAAATATATTTAATAATAATCT-TATTAAAAT
1 ATTATATATTATTTTATTAAAATATATTTAATAATAAT-TATATTAAAAT
49777976 TTAATAACAA
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
57 52 0.55
58 19 0.20
59 5 0.05
60 18 0.19
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
ATTATATATTATTTTATTAAAATATATTTAATAATAATTATATTAAAATATGATTAA
Found at i:49779328 original size:11 final size:11
Alignment explanation
Indices: 49779312--49779343 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
49779302 CTCTAATATT
49779312 CTCACAAATTC
1 CTCACAAATTC
49779323 CTCACAAATTC
1 CTCACAAATTC
*
49779334 CTCTCAAATT
1 CTCACAAATT
49779344 TCTATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (11 bp):
CTCACAAATTC
Found at i:49781192 original size:18 final size:18
Alignment explanation
Indices: 49781169--49781211 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49781159 TGCCAGGTGC
* *
49781169 GTATCCTAGCCCTTCTAT
1 GTATCCTAACCCTTATAT
49781187 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
49781205 GTTTCCT
1 GTATCCT
49781212 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:49781467 original size:14 final size:14
Alignment explanation
Indices: 49781448--49781475 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49781438 TTATTTTTAA
49781448 TATTTTGAATATTT
1 TATTTTGAATATTT
49781462 TATTTTGAATATTT
1 TATTTTGAATATTT
49781476 GATATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
TATTTTGAATATTT
Found at i:49781475 original size:9 final size:9
Alignment explanation
Indices: 49781414--49781462 Score: 64
Period size: 9 Copynumber: 5.3 Consensus size: 9
49781404 CTCCACATTA
49781414 TTTGAATAT
1 TTTGAATAT
49781423 TTTG-ATAT
1 TTTGAATAT
49781431 TTTGATATTAT
1 TTTGA-A-TAT
*
49781442 TTTTAATAT
1 TTTGAATAT
49781451 TTTGAATAT
1 TTTGAATAT
49781460 TTT
1 TTT
49781463 ATTTTGAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.23
9 18 0.51
10 2 0.06
11 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (9 bp):
TTTGAATAT
Found at i:49781537 original size:49 final size:49
Alignment explanation
Indices: 49781455--49781703 Score: 428
Period size: 49 Copynumber: 5.1 Consensus size: 49
49781445 TAATATTTTG
*
49781455 AATATTTTATTTTGAATA-TTTGATATTATTTGATGTAATAAAATACAA
1 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
49781503 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
1 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
49781552 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
1 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
* * *
49781601 AATAGTTTATTTTGAATAATTTGATATTATTTCATTTAATAAAATACAA
1 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
* * *
49781650 AATAGTTTATTTTGAATATTTTGATATTATTTCATTTAACAAAATACAA
1 AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
49781699 AATAG
1 AATAG
49781704 CTAATATTCT
Statistics
Matches: 194, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
48 17 0.09
49 177 0.91
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (49 bp):
AATAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAA
Found at i:49785050 original size:124 final size:124
Alignment explanation
Indices: 49784825--49785110 Score: 430
Period size: 124 Copynumber: 2.3 Consensus size: 124
49784815 CCCAAACATG
*
49784825 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
* * **
49784890 TTGAAGCGTTTTTATACAATATTCTCAGAAATGTCAACTTGAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTATACAATATTCTCACAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * * * *
49784949 CTATTGTAGCAAAAGTGCGTCCATGTGGGAGCGATTTTAGAAATTCTTCTGATAAAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
* *
49785014 TTGAAGCGTTTTTATACTAT-TTGCTCACAAACGTCAACTCAAAATTATTTTTTTAGGAC
66 TTGAAGCGTTTTTATACAATATT-CTCACAAACGTCAACTCAAAATTATTTTTTCAGGAC
* *
49785073 CTACTGTAGGAAAAGCGCGTCCACGTGGGATCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
49785111 CTTAATAAAT
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
123 2 0.01
124 141 0.99
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAAAAATTCTTCTGATAAAGCATCCTAC
TTGAAGCGTTTTTATACAATATTCTCACAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:49785325 original size:12 final size:12
Alignment explanation
Indices: 49785297--49785335 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
49785287 AAATCCTAAA
*
49785297 AACCTTAAACTCT
1 AACCTT-AACCCT
49785310 AACCTTAACCCT
1 AACCTTAACCCT
*
49785322 AACCCTAACCCT
1 AACCTTAACCCT
49785334 AA
1 AA
49785336 AAACCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (12 bp):
AACCTTAACCCT
Found at i:49785476 original size:39 final size:40
Alignment explanation
Indices: 49785402--49785477 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
49785392 TACGTGGAAA
*
49785402 CAAAACGCGCCCTTGAGGGAGCGATTTTCGTCCACGTAAG
1 CAAAACGCGCCCTTCAGGGAGCGATTTTCGTCCACGTAAG
* *
49785442 CAAAGCGCGCCC-TCAGGGACGCGATTTTTG-CCACGT
1 CAAAACGCGCCCTTCAGGGA-GCGATTTTCGTCCACGT
49785478 CCCTTGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 12 0.38
40 20 0.62
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (40 bp):
CAAAACGCGCCCTTCAGGGAGCGATTTTCGTCCACGTAAG
Found at i:49786174 original size:19 final size:20
Alignment explanation
Indices: 49786133--49786183 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
49786123 ATGTTGGATG
49786133 AAAATTTTATATAATAAATTT
1 AAAATTTTATATAAT-AATTT
49786154 AAAATTTTAGTATAAT-A-TT
1 AAAATTTTA-TATAATAATTT
*
49786173 AAAATATTATA
1 AAAATTTTATA
49786184 AATTTTAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 10 0.36
20 1 0.04
21 9 0.32
22 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AAAATTTTATATAATAATTT
Found at i:49787711 original size:21 final size:19
Alignment explanation
Indices: 49787673--49787711 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
49787663 AATCTATATT
*
49787673 TCTCTTTATTTTATAATAA
1 TCTCTTTATTTAATAATAA
49787692 TCTCATTTATATTAATAATA
1 TCTC-TTTAT-TTAATAATA
49787712 TTGAATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
TCTCTTTATTTAATAATAA
Found at i:49789045 original size:12 final size:12
Alignment explanation
Indices: 49789028--49789063 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
49789018 TTTAACTTTA
49789028 TTTATTATTATT
1 TTTATTATTATT
49789040 TTTATTATTATT
1 TTTATTATTATT
*
49789052 TTTATTTTTATT
1 TTTATTATTATT
49789064 ATTTCTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTATTATTATT
Found at i:49789056 original size:18 final size:18
Alignment explanation
Indices: 49789029--49789076 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
49789019 TTAACTTTAT
*
49789029 TTATTATTATTTTTATTA
1 TTATTTTTATTTTTATTA
49789047 TTATTTTTATTTTTATTA
1 TTATTTTTATTTTTATTA
*
49789065 TT-TCTTTATTTT
1 TTATTTTTATTTT
49789077 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TTATTTTTATTTTTATTA
Found at i:49795553 original size:20 final size:20
Alignment explanation
Indices: 49795504--49795544 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
49795494 TCTAGCCTAA
*
49795504 ACATCAACCAAACCACTCCC
1 ACATCAAACAAACCACTCCC
49795524 ACATCAAACAAACCACTCCC
1 ACATCAAACAAACCACTCCC
49795544 A
1 A
49795545 TATTAAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.46, G:0.00, T:0.10
Consensus pattern (20 bp):
ACATCAAACAAACCACTCCC
Found at i:49798884 original size:12 final size:12
Alignment explanation
Indices: 49798862--49798894 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
49798852 GAAACCCTCA
49798862 ATATA-AATAAT
1 ATATATAATAAT
49798873 ATATATAATAAT
1 ATATATAATAAT
*
49798885 ATATGTAATA
1 ATATATAATA
49798895 GTTAAAGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:49799210 original size:21 final size:23
Alignment explanation
Indices: 49799186--49799238 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 23
49799176 ATAAAAAAAC
49799186 AAAATAATACAT-TATG-AAA-TT
1 AAAATAATA-ATATATGAAAACTT
49799207 AAAAT-ATAATATATGAAAAACTT
1 AAAATAATAATATATG-AAAACTT
49799230 AAAATAATA
1 AAAATAATA
49799239 TTACATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 5 0.19
22 3 0.11
23 7 0.26
24 3 0.11
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATAATAATATATGAAAACTT
Found at i:49800369 original size:19 final size:18
Alignment explanation
Indices: 49800328--49800369 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
49800318 TGGACTTTTA
49800328 TTTTTTTATTTTTATTTGG
1 TTTTTTTATTTTTATTT-G
*
49800347 TTTTTTGATTTTT-TTGTG
1 TTTTTTTATTTTTATT-TG
49800365 TTTTT
1 TTTTT
49800370 GGGCCCGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.81
Consensus pattern (18 bp):
TTTTTTTATTTTTATTTG
Found at i:49801471 original size:20 final size:20
Alignment explanation
Indices: 49801446--49801500 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
49801436 TGTGGTTCAA
*
49801446 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
49801466 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
49801486 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
49801501 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:49801888 original size:45 final size:45
Alignment explanation
Indices: 49801838--49802161 Score: 603
Period size: 45 Copynumber: 7.2 Consensus size: 45
49801828 CATGAAATTA
*
49801838 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
49801883 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
49801928 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
49801973 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* *
49802018 AGGAGGCATTTGACCAACATCATGCATAGTTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
49802063 AGGAAGCATTTGAACAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
49802108 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
49802153 AGGAAGCAT
1 AGGAAGCAT
49802162 CATGGCCGAA
Statistics
Matches: 270, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 270 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:49802912 original size:58 final size:56
Alignment explanation
Indices: 49802794--49802916 Score: 203
Period size: 57 Copynumber: 2.2 Consensus size: 56
49802784 AAAAAAAATC
*
49802794 AAAAAAAAAATTTGCCTACGGTCTAGGCGCGGACGAAAAGAACGTGAAAGATCCGT
1 AAAAAAAAAATTTGCCTACGGTCTAGGCGCAGACGAAAAGAACGTGAAAGATCCGT
*
49802850 AAAAAAAAAATTTTTGCCTATGGTCTAGGCG-AGACGAAAAGAACGTGAAAGATCCGT
1 AAAAAAAAAA--TTTGCCTACGGTCTAGGCGCAGACGAAAAGAACGTGAAAGATCCGT
49802907 AAAAAAAAAA
1 AAAAAAAAAA
49802917 GAGTCTGGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
56 10 0.16
57 35 0.56
58 18 0.29
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (56 bp):
AAAAAAAAAATTTGCCTACGGTCTAGGCGCAGACGAAAAGAACGTGAAAGATCCGT
Found at i:49803113 original size:22 final size:22
Alignment explanation
Indices: 49803051--49803114 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
49803041 CTTCTTTTGT
*
49803051 ATTCGGTATTAAAAAAAAGAAAA
1 ATTCGGAATTAAAAAAAA-AAAA
* **
49803074 ATTC-AAAAAAAAACAAAAAAAA
1 ATTCGGAATTAAAA-AAAAAAAA
49803096 ATTCGGAATTAAAAAAAAA
1 ATTCGGAATTAAAAAAAAA
49803115 GTGATTGAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (22 bp):
ATTCGGAATTAAAAAAAAAAAA
Found at i:49815009 original size:42 final size:42
Alignment explanation
Indices: 49814947--49815037 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
49814937 TTATTTTGTC
*
49814947 CACACGGGCAGAGACACGGGCATGTGTCTCAGCCATGTGTGA
1 CACACGGGCAGAGACACGGGCATGTATCTCAGCCATGTGTGA
* * *
49814989 CATACGGGCAGAGACACGGGCGTGTATCTCAGCCGTGTGTGA
1 CACACGGGCAGAGACACGGGCATGTATCTCAGCCATGTGTGA
49815031 CACACGG
1 CACACGG
49815038 CCATGCGCAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.16
Consensus pattern (42 bp):
CACACGGGCAGAGACACGGGCATGTATCTCAGCCATGTGTGA
Found at i:49815049 original size:42 final size:42
Alignment explanation
Indices: 49814947--49815055 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
49814937 TTATTTTGTC
* * *
49814947 CACACGGGCAGAGACACGGGCATGTGTCTCAGCCATGTGTGA
1 CACACGGCCAGAGACACGGGCGTGTATCTCAGCCATGTGTGA
* * *
49814989 CATACGGGCAGAGACACGGGCGTGTATCTCAGCCGTGTGTGA
1 CACACGGCCAGAGACACGGGCGTGTATCTCAGCCATGTGTGA
*
49815031 CACACGGCCATGCG-CACGGGCGTGT
1 CACACGGCCA-GAGACACGGGCGTGT
49815056 GGTTTGGCCG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 57 0.97
43 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.35, T:0.17
Consensus pattern (42 bp):
CACACGGCCAGAGACACGGGCGTGTATCTCAGCCATGTGTGA
Found at i:49817979 original size:20 final size:20
Alignment explanation
Indices: 49817954--49817997 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
49817944 TCTAGCCTAA
* *
49817954 ACATCAACCAAATCACTCCC
1 ACATCAAACAAACCACTCCC
*
49817974 ACATCAAACAAACCACTCTC
1 ACATCAAACAAACCACTCCC
49817994 ACAT
1 ACAT
49817998 TAAATATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (20 bp):
ACATCAAACAAACCACTCCC
Found at i:49839413 original size:24 final size:22
Alignment explanation
Indices: 49839372--49839436 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 22
49839362 ATTCTTCAAG
49839372 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
49839391 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
49839413 -ATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
49839434 GAT
1 GAT
49839437 TTTGTAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
19 13 0.33
21 19 0.49
22 7 0.18
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:49839418 original size:21 final size:19
Alignment explanation
Indices: 49839372--49839427 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 19
49839362 ATTCTTCAAG
49839372 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49839391 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49839410 GATATATGCAATCTTAGA
1 G--ATATGCAATCTTAGA
49839428 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:49839492 original size:16 final size:16
Alignment explanation
Indices: 49839471--49839535 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
49839461 TTCGCTGTAT
49839471 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
49839487 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
49839503 TGGAATAGAGACATAA
1 TGGAATAGAGGCGTAA
*
49839519 TGGAATAGAGCCGTAA
1 TGGAATAGAGGCGTAA
49839535 T
1 T
49839536 AGCAAATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.40, C:0.08, G:0.32, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:49843102 original size:36 final size:36
Alignment explanation
Indices: 49843027--49843102 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
49843017 TATACATACG
*
49843027 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
49843064 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
49843100 TTT
1 TTT
49843103 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:49843224 original size:23 final size:22
Alignment explanation
Indices: 49843195--49843237 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
49843185 TAATTCACAC
*
49843195 ACATATATATTTTTCTTATATGT
1 ACATATATATGTTT-TTATATGT
49843218 ACATATATATGTTTTTATAT
1 ACATATATATGTTTTTATAT
49843238 TTTATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
ACATATATATGTTTTTATATGT
Found at i:49848181 original size:12 final size:12
Alignment explanation
Indices: 49848147--49848175 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
49848137 TTGGGCCTCG
49848147 AGGGATCATATA
1 AGGGATCATATA
49848159 AGGGATCATATA
1 AGGGATCATATA
49848171 AGGGA
1 AGGGA
49848176 CAATATGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (12 bp):
AGGGATCATATA
Found at i:49859432 original size:30 final size:29
Alignment explanation
Indices: 49859398--49859511 Score: 103
Period size: 29 Copynumber: 3.9 Consensus size: 29
49859388 CATTCTTTCG
*
49859398 ATAGAGACTGCAACAATGGCTTCCTTTTTA
1 ATAGAGA-TGCAACAAAGGCTTCCTTTTTA
49859428 ATAGAGAT-CACCACAAAGGCTTCC-TTTTA
1 ATAGAGATGCA--ACAAAGGCTTCCTTTTTA
* *
49859457 ATAAAGATAGCCACAAAGGCTTCC--TTTA
1 ATAGAGAT-GCAACAAAGGCTTCCTTTTTA
*
49859485 ACAGAGATAGGC-ACAAAGGCTTCCTTT
1 ATAGAGAT--GCAACAAAGGCTTCCTTT
49859512 AACAGAGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
28 24 0.34
29 27 0.38
30 19 0.27
31 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
ATAGAGATGCAACAAAGGCTTCCTTTTTA
Found at i:49859493 original size:28 final size:28
Alignment explanation
Indices: 49859410--49859558 Score: 165
Period size: 28 Copynumber: 5.2 Consensus size: 28
49859400 AGAGACTGCA
*
49859410 ACAATGGCTTCCTTTTTAATAGAGATCA-CC
1 ACAAAGGCTTCC--TTTAATAGAGAT-AGCC
*
49859440 ACAAAGGCTTCCTTTTAATAAAGATAGCC
1 ACAAAGGCTTCC-TTTAATAGAGATAGCC
* *
49859469 ACAAAGGCTTCCTTTAACAGAGATAGGC
1 ACAAAGGCTTCCTTTAATAGAGATAGCC
* **
49859497 ACAAAGGCTTCCTTTAACAGAGATATTC
1 ACAAAGGCTTCCTTTAATAGAGATAGCC
* * *
49859525 ATAAAGGCTTCCTTTAATAAATATAGCC
1 ACAAAGGCTTCCTTTAATAGAGATAGCC
49859553 ACAAAG
1 ACAAAG
49859559 ACTTACCTAT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
28 67 0.64
29 26 0.25
30 11 0.11
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (28 bp):
ACAAAGGCTTCCTTTAATAGAGATAGCC
Found at i:49862069 original size:22 final size:22
Alignment explanation
Indices: 49862012--49862069 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
49862002 TGCATTGCGA
*
49862012 ATGAACCACCAGTAATTTGTAG
1 ATGAACCACCAGTAAGTTGTAG
* ** * *
49862034 ATAAACTGCTAGTAAGTTGTGG
1 ATGAACCACCAGTAAGTTGTAG
49862056 ATGAACCACCAGTA
1 ATGAACCACCAGTA
49862070 TTTGTATATT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (22 bp):
ATGAACCACCAGTAAGTTGTAG
Found at i:49867968 original size:41 final size:41
Alignment explanation
Indices: 49867912--49868099 Score: 177
Period size: 41 Copynumber: 4.5 Consensus size: 41
49867902 ATCCTGGTGA
*
49867912 AATCAGCACTTAGCAACCACC-TTATAATCAATGATATGGGG
1 AATCAGCACATAGCAACC-CCTTTATAATCAATGATATGGGG
* * *
49867953 AATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGG
1 AATCAGCACATAGCAACCCCTTT-ATAATCAATGATATGG-GG
** *
49867996 AATCAGCAGTTAGCAACCACC-TTATAATGAATGATACT-GGG
1 AATCAGCACATAGCAACC-CCTTTATAATCAATGATA-TGGGG
* *
49868037 AATCAGCACATAGCAACCCCTTTTTGATCAATGAT-TCGGGG
1 AATCAGCACATAGCAACCCCTTTATAATCAATGATAT-GGGG
* ** *
49868078 AATCTGCATTTAACAACCCCTT
1 AATCAGCACATAGCAACCCCTT
49868100 ACATTCAAGT
Statistics
Matches: 120, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 4 0.03
41 69 0.57
42 24 0.20
43 20 0.17
44 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AATCAGCACATAGCAACCCCTTTATAATCAATGATATGGGG
Found at i:49868002 original size:43 final size:41
Alignment explanation
Indices: 49867861--49868081 Score: 176
Period size: 41 Copynumber: 5.2 Consensus size: 41
49867851 TAACCGTTAC
* * * **
49867861 ACGGTGGAATCAGTACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGG-GGAATCAGCACATAGCAACCACCTTATAATC-AAGGAT
* * * *
49867904 CCTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 AC-GG-GGAATCAGCACATAGCAACCACCTTATAATCAAGGAT
* *
49867947 ATGGGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGGGAATCAGCACATAGCAACCACC-TT-ATAATCAAGGAT
** * *
49867989 ACGGTGGAATCAGCAGTTAGCAACCACCTTATAATGAATGAT
1 ACGG-GGAATCAGCACATAGCAACCACCTTATAATCAAGGAT
* * * *
49868031 ACTGGGAATCAGCACATAGCAACC-CCTTTTTGATCAATGAT
1 ACGGGGAATCAGCACATAGCAACCACC-TTATAATCAAGGAT
*
49868072 TCGGGGAATC
1 ACGGGGAATC
49868082 TGCATTTAAC
Statistics
Matches: 145, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
40 4 0.03
41 57 0.39
42 27 0.19
43 26 0.18
44 31 0.21
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
ACGGGGAATCAGCACATAGCAACCACCTTATAATCAAGGAT
Found at i:49868018 original size:84 final size:85
Alignment explanation
Indices: 49867898--49868059 Score: 265
Period size: 84 Copynumber: 1.9 Consensus size: 85
49867888 CTCATGTTCA
*
49867898 AAGGATCCTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATA-TGGGGAATCAGCAC
1 AAGGATACTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATACT-GGGAATCAGCAC
49867962 ATAGCAACCCCTTTCACAATC
65 ATAGCAACCCCTTTCACAATC
* * *
49867983 AAGGATAC-GGTGGAATCAGCAGTTAGCAACCACCTTATAATGAATGATACTGGGAATCAGCACA
1 AAGGATACTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATACTGGGAATCAGCACA
49868047 TAGCAACCCCTTT
66 TAGCAACCCCTTT
49868060 TTGATCAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
84 64 0.89
85 8 0.11
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (85 bp):
AAGGATACTGGTGAAATCAGCACTTAGCAACCACCTTATAATCAATGATACTGGGAATCAGCACA
TAGCAACCCCTTTCACAATC
Found at i:49868095 original size:125 final size:128
Alignment explanation
Indices: 49867861--49868099 Score: 290
Period size: 125 Copynumber: 1.9 Consensus size: 128
49867851 TAACCGTTAC
* ** * *
49867861 ACGGTGGAATCAGTACTTAGCAACCACCTCATGTTCAAAGGATCCTGGTGAAATCAGCACTTAGC
1 ACGGTGGAATCAGCACTTAGCAACCACCTCATAATCAAAGGATACTGGTGAAATCAGCACATAGC
*
49867926 AACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
66 AACCACCTTATAATCAATGATATGGGGAATCAGCACATAACAACCCCTTTCACAATCAAGGAT
* * * *
49867989 ACGGTGGAATCAGCAGTTAGCAACCACCTTATAAT-GAATGATACTGG-G-AATCAGCACATAGC
1 ACGGTGGAATCAGCACTTAGCAACCACCTCATAATCAAAGGATACTGGTGAAATCAGCACATAGC
* * * **
49868051 AACC-CCTTTTTGATCAATGAT-TCGGGGAATCTGCATTTAACAACCCCTT
66 AACCACC-TTATAATCAATGATAT-GGGGAATCAGCACATAACAACCCCTT
49868100 ACATTCAAGT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
124 3 0.03
125 51 0.54
126 1 0.01
127 9 0.10
128 30 0.32
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (128 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTCATAATCAAAGGATACTGGTGAAATCAGCACATAGC
AACCACCTTATAATCAATGATATGGGGAATCAGCACATAACAACCCCTTTCACAATCAAGGAT
Found at i:49868959 original size:16 final size:17
Alignment explanation
Indices: 49868917--49868953 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
49868907 CCAAATTACC
49868917 AAAATA-CCC-AACTTA
1 AAAATACCCCTAACTTA
49868932 AAAATACCCCTAACTTA
1 AAAATACCCCTAACTTA
49868949 AAAAT
1 AAAAT
49868954 TTCCTATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 11 0.55
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATACCCCTAACTTA
Found at i:49871023 original size:42 final size:42
Alignment explanation
Indices: 49870943--49871023 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
49870933 CGTTTTCTCT
* **
49870943 ATGTCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGTCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
49870985 ATGTCATAGCCCAGCTATGGTCTTACACAGTA-GCACATA
1 ATGTCATAGCCCAACTATGGTCTTACACA-TATGCACATA
49871024 CCACACCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGTCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:49873792 original size:41 final size:41
Alignment explanation
Indices: 49873690--49874008 Score: 259
Period size: 41 Copynumber: 7.6 Consensus size: 41
49873680 GTTACATGGT
** * **
49873690 GGAATCAACACTTAGCAACCACCTTATGTTCAAAGGACCCCGG
1 GGAATCAACACTTAGCAACCACCTTATAATC-AATGA-TACGG
* *
49873733 TCGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
* * * *
49873775 GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGATACTGT
1 GGAATCAACACTTAGCAACCACC-TT-ATAATCAATGATAC-GG
* * * *
49873818 GGAATTAGCACTTAGCAACCACCTTATAATCAATGATTCCG
1 GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
* * *
49873859 GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAACACTTAGCAACCACC-TT-ATAATCAATGATACGG
**
49873901 TGGAATCGGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
* * * * * *
49873943 GGAATCAACACATAGTAACC-CCTTTTTGATCAATGATTCGA
1 GGAATCAACACTTAGCAACCACC-TTATAATCAATGATACGG
** *
49873984 GGAATCTGCACTTAGTAACC-CCTTA
1 GGAATCAACACTTAGCAACCACCTTA
49874009 CATTCAAATA
Statistics
Matches: 221, Mismatches: 45, Indels: 22
0.77 0.16 0.08
Matches are distributed among these distances:
40 8 0.04
41 87 0.39
42 52 0.24
43 43 0.19
44 31 0.14
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (41 bp):
GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
Found at i:49873847 original size:84 final size:84
Alignment explanation
Indices: 49873730--49873967 Score: 413
Period size: 84 Copynumber: 2.8 Consensus size: 84
49873720 CAAAGGACCC
*
49873730 CGGTCGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
49873795 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* * * *
49873814 CTGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATTCCGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
49873879 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
49873898 CGGTGGAATCGGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGTAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
49873963 CCTTT
66 CCTTT
49873968 TTGATCAATG
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 143 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:49876701 original size:53 final size:53
Alignment explanation
Indices: 49876616--49876878 Score: 310
Period size: 53 Copynumber: 4.9 Consensus size: 53
49876606 AAAACTAAAT
* * * * *
49876616 TTCCTCATATGATTCCATAACCCACCAATTATGGTTTTACATGATATGGGCTTC
1 TTCC-CATATGATGCCATAACCCACCAGTTACGGTCTTACATGATATGGTCTTC
* * *
49876670 TTCCCATATGATGCCATAACCCACCAGTTATGGTTTTACATGATATGGTTTTC
1 TTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACATGATATGGTCTTC
* * * * ** * *
49876723 TTCTCATATAATGTCATGACCCACCAGTTACAATCTTACACGATATGGTATTC
1 TTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACATGATATGGTCTTC
* * *
49876776 TTTCCATATGATGCCATAACCGACTAGTTACGGTCTTACATGATATGGTCTTC
1 TTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACATGATATGGTCTTC
* * * *
49876829 TTCCCTTATGATGTCATAACTCACCAGTTACGATCTTACATGATATGGTC
1 TTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACATGATATGGTC
49876879 CTTAAATGTC
Statistics
Matches: 177, Mismatches: 32, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
53 173 0.98
54 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (53 bp):
TTCCCATATGATGCCATAACCCACCAGTTACGGTCTTACATGATATGGTCTTC
Found at i:49879250 original size:29 final size:29
Alignment explanation
Indices: 49879208--49879263 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
49879198 CTTCTTCCGC
*
49879208 TTCCTCTATTCAATTGTTTATCATTCAGT
1 TTCCTCCATTCAATTGTTTATCATTCAGT
49879237 TTCCTCCATTCAATTGTTTATCATTCA
1 TTCCTCCATTCAATTGTTTATCATTCA
49879264 TTATTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.50
Consensus pattern (29 bp):
TTCCTCCATTCAATTGTTTATCATTCAGT
Found at i:49879263 original size:15 final size:15
Alignment explanation
Indices: 49879215--49879263 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
49879205 CGCTTCCTCT
49879215 ATTCAATTGTTTATC
1 ATTCAATTGTTTATC
*
49879230 ATTC-A--GTTTCCTCC
1 ATTCAATTGTTT-AT-C
49879244 ATTCAATTGTTTATC
1 ATTCAATTGTTTATC
49879259 ATTCA
1 ATTCA
49879264 TTATTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
12 4 0.15
13 1 0.04
14 6 0.22
15 11 0.41
16 1 0.04
17 4 0.15
ACGTcount: A:0.24, C:0.20, G:0.06, T:0.49
Consensus pattern (15 bp):
ATTCAATTGTTTATC
Found at i:49885005 original size:30 final size:30
Alignment explanation
Indices: 49884971--49885031 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
49884961 TCTCAACACA
49884971 TTATATCATTCAGTCAAACATTCTCATATC
1 TTATATCATTCAGTCAAACATTCTCATATC
49885001 TTATATCATTCAGTCAAACATTCTCATATC
1 TTATATCATTCAGTCAAACATTCTCATATC
49885031 T
1 T
49885032 CATAACTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (30 bp):
TTATATCATTCAGTCAAACATTCTCATATC
Found at i:49886790 original size:33 final size:33
Alignment explanation
Indices: 49886753--49887029 Score: 128
Period size: 33 Copynumber: 8.3 Consensus size: 33
49886743 TGGCCCTGTC
* *
49886753 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
** * * *
49886786 ATGGTCTTACCATCAGAATGTCATAGCCCAGCT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
** *** * *
49886819 ATGGTCTTATATAT-ATACACTGCCATGGTCCAACC
1 ATGGTCTTACGT-TCATA-A-TGCCATAACCCAGCT
* * * * *
49886854 ATGGTCTCACGTTTATAGTGCCATAACCCGGTT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
* * *
49886887 ATGGTCTTAC-TATCAGAATGTCATAGCCCAGCT
1 ATGGTCTTACGT-TCATAATGCCATAACCCAGCT
** * ** * *
49886920 ATGGTCTTATATAT-ATACACTGCCATGATGCAACC
1 ATGGTCTTACGT-TCATA-A-TGCCATAACCCAGCT
* * ** *
49886955 ATGGTCTTATGTTCATAGTGCCATAACCTGGTT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
** * *
49886988 ATGGTCTTACCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTACGTTCATAATGCCATAACCCAGCT
49887021 ATGGTCTTA
1 ATGGTCTTA
49887030 TATAAATGAA
Statistics
Matches: 172, Mismatches: 63, Indels: 18
0.68 0.25 0.07
Matches are distributed among these distances:
32 1 0.01
33 119 0.69
34 8 0.05
35 44 0.26
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAATGCCATAACCCAGCT
Found at i:49886913 original size:101 final size:101
Alignment explanation
Indices: 49886752--49887033 Score: 483
Period size: 101 Copynumber: 2.8 Consensus size: 101
49886742 ATGGCCCTGT
*
49886752 CATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
1 CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
*
49886817 CTATGGTCTTATATATATACACTGCCATGGTCCAAC
66 CTATGGTCTTATATATATACACTGCCATGATCCAAC
* * *
49886853 CATGGTCTCACGTTTATAGTGCCATAACCCGGTTATGGTCTTACTATCAGAATGTCATAGCCCAG
1 CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
*
49886918 CTATGGTCTTATATATATACACTGCCATGATGCAAC
66 CTATGGTCTTATATATATACACTGCCATGATCCAAC
* * *
49886954 CATGGTCTTATGTTCATAGTGCCATAACCTGGTTATGGTCTTACCATCAGAATGCCATAGCCCAG
1 CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
49887019 CTATGGTCTTATATA
66 CTATGGTCTTATATA
49887034 AATGAAAACA
Statistics
Matches: 169, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 169 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (101 bp):
CATGGTCTTACGTTCATAGTGCCATAACCCGGTTATGGTCTTACCATCAGAATGTCATAGCCCAG
CTATGGTCTTATATATATACACTGCCATGATCCAAC
Found at i:49888572 original size:13 final size:13
Alignment explanation
Indices: 49888556--49888580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49888546 CCCTTTATGT
49888556 TTCTCCTTAAATG
1 TTCTCCTTAAATG
49888569 TTCTCCTTAAAT
1 TTCTCCTTAAAT
49888581 AACAAATGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.48
Consensus pattern (13 bp):
TTCTCCTTAAATG
Found at i:49890761 original size:45 final size:45
Alignment explanation
Indices: 49890690--49890864 Score: 133
Period size: 45 Copynumber: 3.9 Consensus size: 45
49890680 TAATTCATCG
* * * * *
49890690 TTCCAAAG-AATGTCATGGCATTTTTCAACCATGGTCTTATTCAT
1 TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTTATTCAT
49890734 TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTTGA-TCAT
1 TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTT-ATTCAT
* * * * * **
49890779 TACCGATGT-GATGCCATAATATCTTTCAACTATGGTCTTATTTGT
1 TTCCAAAGTAG-TGTCATAGTATCTTTCAACTATGGTCTTATTCAT
* * * * * *
49890824 AT-CAGATTCAATGTCATAATATCTTTCAACTATAGTCTTAT
1 TTCCAAAGT-AGTGTCATAGTATCTTTCAACTATGGTCTTAT
49890865 ATAGTTTTTA
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
44 12 0.12
45 91 0.88
46 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (45 bp):
TTCCAAAGTAGTGTCATAGTATCTTTCAACTATGGTCTTATTCAT
Found at i:49894012 original size:4 final size:4
Alignment explanation
Indices: 49894003--49894029 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49893993 ATGTATACAC
49894003 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
49894030 GGAGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:49898791 original size:22 final size:22
Alignment explanation
Indices: 49898761--49898818 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
49898751 TGTAACTCAC
49898761 TCACACGGGCGTGTGCATCTTAT
1 TCACACGGGCGTGTGCATCTT-T
*
49898784 T-ACACGGGCGTGTGCCTCTTT
1 TCACACGGGCGTGTGCATCTTT
49898805 TCACACGGGCGTGT
1 TCACACGGGCGTGT
49898819 AGACCTCCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 2 0.06
22 30 0.91
23 1 0.03
ACGTcount: A:0.14, C:0.28, G:0.29, T:0.29
Consensus pattern (22 bp):
TCACACGGGCGTGTGCATCTTT
Found at i:49902538 original size:6 final size:6
Alignment explanation
Indices: 49902529--49902581 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
49902519 GTCTAAGAAA
49902529 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
49902577 ATAAA
1 ATAAA
49902582 ATGAAAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:49902734 original size:31 final size:30
Alignment explanation
Indices: 49902673--49902789 Score: 90
Period size: 33 Copynumber: 3.9 Consensus size: 30
49902663 ATAACTAAAT
49902673 AGCAT-AAATAAATTAAATTAAAATTAAAATATA
1 AGCATAAAATAAA--AAA-TAAAAT-AAAATATA
*
49902706 AGCATAAGAATAAAAAATAAAATAAAATAGATT
1 AGCATAA-AATAAAAAATAAAATAAAAT--ATA
49902739 AG--TAAAAT-AAAAAT-AAAT--AATATA
1 AGCATAAAATAAAAAATAAAATAAAATATA
49902763 A-CA-AATAATAAAAAATAAAATAAAATA
1 AGCATAA-AATAAAAAATAAAATAAAATA
49902790 AAGGAAATGA
Statistics
Matches: 71, Mismatches: 2, Indels: 26
0.72 0.02 0.26
Matches are distributed among these distances:
24 5 0.07
25 3 0.04
26 9 0.13
27 4 0.06
28 4 0.06
29 10 0.14
30 3 0.04
31 8 0.11
32 6 0.08
33 12 0.17
34 1 0.01
35 6 0.08
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (30 bp):
AGCATAAAATAAAAAATAAAATAAAATATA
Found at i:49902778 original size:22 final size:22
Alignment explanation
Indices: 49902743--49902785 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49902733 TAGATTAGTA
*
49902743 AAATAAAAATAAATAATATAAC
1 AAATAAAAATAAATAAAATAAC
49902765 AAATAATAAA-AAATAAAATAA
1 AAATAA-AAATAAATAAAATAA
49902786 AATAAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAAAAATAAATAAAATAAC
Found at i:49902801 original size:5 final size:5
Alignment explanation
Indices: 49902678--49902791 Score: 52
Period size: 5 Copynumber: 20.4 Consensus size: 5
49902668 TAAATAGCAT
* *
49902678 AAATA AATTA AATTA AAATTA AAATA TAAGCATA AGAATAAA AAATA AAATA
1 AAATA AAATA AAATA AAA-TA AAATA -AA--ATA A-AAT--A AAATA AAATA
* *
49902730 AAATA GATTAGTA AAATA AAA-A TAAATA ATATAA CAAATA ATAA-A AAATA
1 AAATA -A--AATA AAATA AAATA -AAATA AAAT-A -AAATA A-AATA AAATA
49902780 AAATA AAATA AA
1 AAATA AAATA AA
49902792 GGAAATGAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 32
0.70 0.05 0.26
Matches are distributed among these distances:
4 3 0.03
5 52 0.60
6 15 0.17
7 8 0.09
8 9 0.10
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:49903175 original size:51 final size:51
Alignment explanation
Indices: 49903097--49903205 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
49903087 TGAGTCTAGG
* * *
49903097 CCGTGTGTGATTTCCTTCGCTTTTCCCACGTTCGTGTG-GAATCCCACACGC
1 CCGTGTGTGATTTCCTTCGCTTCTCCCACGTACATGTGAG-ATCCCACACGC
* *
49903148 CCGTGTGTGATTTCCTTTGCTTCTCCCACGTACATGTGAGATCCTACACGC
1 CCGTGTGTGATTTCCTTCGCTTCTCCCACGTACATGTGAGATCCCACACGC
*
49903199 CCATGTG
1 CCGTGTG
49903206 GCTCGGTCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.14, C:0.32, G:0.21, T:0.33
Consensus pattern (51 bp):
CCGTGTGTGATTTCCTTCGCTTCTCCCACGTACATGTGAGATCCCACACGC
Found at i:49913883 original size:12 final size:12
Alignment explanation
Indices: 49913866--49913895 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49913856 CCTCACGCGC
49913866 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
49913878 CCGTGTGCTAGG
1 CCGTGTGCCAGG
49913890 CCGTGT
1 CCGTGT
49913896 AACAACCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:49914989 original size:30 final size:29
Alignment explanation
Indices: 49914955--49915041 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
49914945 TCGACAGTCA
*
49914955 AAGCTATCCCTTATCATAATTTGATAGCTG
1 AAGCTATCCCTT-TCATAATTTGATAGCCG
* * *
49914985 AAGCTATCCTTCTTCATAAATCGATAGCCG
1 AAGCTATCCCT-TTCATAATTTGATAGCCG
*
49915015 AAGCCATCCCTCTTCA-AAGTTTGATAG
1 AAGCTATCCCT-TTCATAA-TTTGATAG
49915042 TCGTCACAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
29 2 0.04
30 44 0.94
31 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (29 bp):
AAGCTATCCCTTTCATAATTTGATAGCCG
Found at i:49922929 original size:15 final size:15
Alignment explanation
Indices: 49922909--49922985 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
49922899 TTATGGAAAG
*
49922909 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
49922924 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
49922938 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
49922954 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
49922969 TCAAAGATATGGGTA
1 TCAAATATATGGATA
49922984 TC
1 TC
49922986 GAGATATTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:49922937 original size:30 final size:30
Alignment explanation
Indices: 49922901--49922985 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
49922891 ATCTGTATTT
* *
49922901 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
49922931 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
49922961 TTGGAAAATCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
49922986 GAGATATTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:49927591 original size:15 final size:15
Alignment explanation
Indices: 49927571--49927642 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
49927561 TTATGGAAAG
*
49927571 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
49927586 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
49927600 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
49927616 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
*
49927631 TCAAAGATATGG
1 TCAAATATATGG
49927643 GTATTGAGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
14 8 0.18
15 28 0.64
16 8 0.18
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:49927599 original size:30 final size:30
Alignment explanation
Indices: 49927563--49927646 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
49927553 ATCCGTATTT
* *
49927563 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
49927593 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
49927623 TTGGAAAATCAAAGATATGGGTAT
1 ATGGAAAGTCAAAGATATGGGTAT
49927647 TGAGATATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.27
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:49933427 original size:35 final size:35
Alignment explanation
Indices: 49933383--49933465 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 35
49933373 ACGCTGGCCG
* *
49933383 GTAATATCGACAATAAATATGTCTAGCACTAGTCA
1 GTAAAATCGACAATAAATATGTCCAGCACTAGTCA
* *
49933418 GTAAAATCGACAATAAATGTGTCCAGCACTAGTCG
1 GTAAAATCGACAATAAATATGTCCAGCACTAGTCA
* *
49933453 GTATAACCGACAA
1 GTAAAATCGACAA
49933466 ATCGAGTGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (35 bp):
GTAAAATCGACAATAAATATGTCCAGCACTAGTCA
Found at i:49936182 original size:16 final size:16
Alignment explanation
Indices: 49936161--49936191 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49936151 TTTTTTATTA
*
49936161 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
49936177 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
49936192 ACATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:49947119 original size:21 final size:21
Alignment explanation
Indices: 49947095--49947134 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49947085 AAGAAAAAAC
49947095 AAAA-AGCAACAGAAAAAGAGA
1 AAAATAGC-ACAGAAAAAGAGA
*
49947116 AAAATAGCAGAGAAAAAGA
1 AAAATAGCACAGAAAAAGA
49947135 TTTTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.70, C:0.07, G:0.20, T:0.03
Consensus pattern (21 bp):
AAAATAGCACAGAAAAAGAGA
Found at i:49950620 original size:19 final size:17
Alignment explanation
Indices: 49950597--49950642 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
49950587 GGTTAATTAG
49950597 TAAAAATTTTTAAAATT
1 TAAAAATTTTTAAAATT
**
49950614 ATAAAAAGTTAATAAAATT
1 -TAAAAA-TTTTTAAAATT
49950633 TAAAAATTTT
1 TAAAAATTTT
49950643 ATCATGAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAAATTTTTAAAATT
Found at i:49951683 original size:21 final size:23
Alignment explanation
Indices: 49951659--49951702 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
49951649 GAAATAAAAC
*
49951659 TCAAAAAAAGTT-TAAAT-TATT
1 TCAAAAAAAATTATAAATATATT
49951680 TCAAAAAAAATTATAAATATATT
1 TCAAAAAAAATTATAAATATATT
49951703 CAACTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 5 0.25
23 4 0.20
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
TCAAAAAAAATTATAAATATATT
Found at i:49957065 original size:18 final size:18
Alignment explanation
Indices: 49957033--49957067 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49957023 TTGTTTATGG
**
49957033 CTCCAAAAGTGCTTTTGC
1 CTCCAAAAGAACTTTTGC
49957051 CTCCAAAAGAACTTTTG
1 CTCCAAAAGAACTTTTG
49957068 AAATGCAATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (18 bp):
CTCCAAAAGAACTTTTGC
Found at i:49957583 original size:20 final size:21
Alignment explanation
Indices: 49957546--49957585 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49957536 AGGAAATAGT
*
49957546 TTTTTTTTTTTAATTCATTTCA
1 TTTTTTTTTTT-ACTCATTTCA
49957568 TTTTTTTTTTT-CTCATTT
1 TTTTTTTTTTTACTCATTT
49957586 GAACACTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTTTACTCATTTCA
Found at i:49962019 original size:11 final size:11
Alignment explanation
Indices: 49962003--49962035 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
49961993 TGAAATTTCA
49962003 CATCATCCTCG
1 CATCATCCTCG
49962014 CATCATCCTCG
1 CATCATCCTCG
*
49962025 CATCATACTCG
1 CATCATCCTCG
49962036 TTAACTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.21, C:0.42, G:0.09, T:0.27
Consensus pattern (11 bp):
CATCATCCTCG
Found at i:49962895 original size:88 final size:88
Alignment explanation
Indices: 49962746--49962923 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 88
49962736 CCACGAGGTG
* * * *
49962746 TGGCATGGTGGTTATTCCCCTTGTGCCTCAACCATGTAGTTGAGAGTTCAACCTTGTTCATGGGA
1 TGGCATGGTGGCTATTCCCCTTATGCCTCAACCATGTAGTTGAGAGTTCAACCTCGCTCATGGGA
* *
49962811 ATGTAACACATTTTGTGGCTGGT
66 ATGGAACACATTTTGTGGCTAGT
*
49962834 TGGCATGGTGGCTATTCTCCTTATGCCTCAACCATGTAGTTGAGAGTTCAACCTCGCTCATGGGA
1 TGGCATGGTGGCTATTCCCCTTATGCCTCAACCATGTAGTTGAGAGTTCAACCTCGCTCATGGGA
49962899 ATGGAACACATTTTGTGGCTAGT
66 ATGGAACACATTTTGTGGCTAGT
49962922 TG
1 TG
49962924 TTTTATCTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (88 bp):
TGGCATGGTGGCTATTCCCCTTATGCCTCAACCATGTAGTTGAGAGTTCAACCTCGCTCATGGGA
ATGGAACACATTTTGTGGCTAGT
Found at i:49967192 original size:33 final size:33
Alignment explanation
Indices: 49967150--49967234 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
49967140 TGCTCTATGT
* *
49967150 TTGGCGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
** * *
49967183 TTGGTGTGTTGGAGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
49967216 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-TTGGTTGGA
49967235 ATGATGATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 28 0.67
34 7 0.17
35 7 0.17
ACGTcount: A:0.12, C:0.09, G:0.40, T:0.39
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCGTATGAGCA
Found at i:49970755 original size:20 final size:22
Alignment explanation
Indices: 49970718--49970758 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49970708 TAGAAGGTTT
*
49970718 TTAAAAATATTTTAAAGTTTTG
1 TTAAAAATATCTTAAAGTTTTG
49970740 TTAAAAAT-TCTT-AAGTTTT
1 TTAAAAATATCTTAAAGTTTT
49970759 AATGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (22 bp):
TTAAAAATATCTTAAAGTTTTG
Found at i:49971870 original size:39 final size:39
Alignment explanation
Indices: 49971827--49971925 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
49971817 AACATGTTTT
* * **
49971827 TGAGTATTGCAATATATGCTTGAACGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAACATTATGCAATTATA
* * *
49971866 TGAGTATTGCGGTTTGTGCTTGAACATTATGCAATTATA
1 TGAGTATTGCGATATATGCTTGAACATTATGCAATTATA
* * *
49971905 TGTGTAATGTGATATATGCTT
1 TGAGTATTGCGATATATGCTT
49971926 AAAAGTGAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAACATTATGCAATTATA
Found at i:49979229 original size:28 final size:28
Alignment explanation
Indices: 49979166--49979291 Score: 218
Period size: 28 Copynumber: 4.5 Consensus size: 28
49979156 ATATTAAGTC
* *
49979166 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
49979193 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
49979221 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
49979249 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
49979277 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49979292 GTACAATTTA
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.23
28 74 0.77
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:49979785 original size:12 final size:12
Alignment explanation
Indices: 49979768--49979793 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49979758 TGGGCATACT
49979768 TATGTATATATA
1 TATGTATATATA
49979780 TATGTATATATA
1 TATGTATATATA
49979792 TA
1 TA
49979794 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:49981451 original size:36 final size:36
Alignment explanation
Indices: 49981396--49981523 Score: 116
Period size: 36 Copynumber: 3.5 Consensus size: 36
49981386 ACATTGATAT
* *
49981396 TCCAACCAAAACACACCAGATGCTTATACGAGCTAA
1 TCCAACCGAAACACACCAGATGCTTATAAGAGCTAA
* * * *
49981432 TCCATCCGAAACACACCAGATGCTCATATGAGAC-AG
1 TCCAACCGAAACACACCAGATGCTTATAAGAG-CTAA
* **
49981468 TCCACCCGATAACACACCA-ATGGCTTCGAAGAGCTAA
1 TCCAACCGA-AACACACCAGAT-GCTTATAAGAGCTAA
*
49981505 TCTAACCGAAAACACACCA
1 TCCAACCG-AAACACACCA
49981524 AAGCAAGAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
36 40 0.54
37 33 0.45
38 1 0.01
ACGTcount: A:0.39, C:0.32, G:0.13, T:0.16
Consensus pattern (36 bp):
TCCAACCGAAACACACCAGATGCTTATAAGAGCTAA
Found at i:49985051 original size:28 final size:28
Alignment explanation
Indices: 49985019--49985095 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
49985009 AGTACAATGA
*
49985019 GGGCCTTAGCCCAATTCAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGT
* *
49985047 GGGCCTTAGCCCAATACAATATCAGTGT
1 GGGCCTTAGCCCAATACAGTAGCAGTGT
49985075 GGGCCTTAGCCCAATACAGTA
1 GGGCCTTAGCCCAATACAGTA
49985096 ACATTACATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTAGCAGTGT
Found at i:49985497 original size:27 final size:27
Alignment explanation
Indices: 49985466--49985769 Score: 317
Period size: 27 Copynumber: 11.3 Consensus size: 27
49985456 GGGTATAAAA
49985466 ATCATTTTACCCTAT-GGGGGTATTTTG
1 ATCATTTTACCCT-TCGGGGGTATTTTG
* *
49985493 GTCATTTTACCATTC-GGGGTATTTT-
1 ATCATTTTACCCTTCGGGGGTATTTTG
* * *
49985518 AGTTATTTTACCCTTCAGGGGTATTTCG
1 A-TCATTTTACCCTTCGGGGGTATTTTG
* *
49985546 GTCATTTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTTG
* *
49985573 ATCATTTTATCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTTG
* * * *
49985600 ATCATTTTACCATTTGGAGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTTG
* * * *
49985627 GTCATTTTACCCTTTGAGGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTTG
*
49985654 ATCATTTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTTG
* ** * *
49985681 GTCATTTTACCCTTCAAGGATATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTTG
*
49985708 ATCATTTTACCCTTCAGGGGTATTTTG
1 ATCATTTTACCCTTCGGGGGTATTTTG
* * * *
49985735 TTCATTTTGCGCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGGGGGTATTTTG
49985762 ATCATTTT
1 ATCATTTT
49985770 TTTCCATAAA
Statistics
Matches: 233, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.10
27 210 0.90
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
ATCATTTTACCCTTCGGGGGTATTTTG
Found at i:49986536 original size:18 final size:18
Alignment explanation
Indices: 49986513--49986549 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
49986503 CTATTCAGTC
*
49986513 AAAATAAAACAAGAGAAA
1 AAAATAAAAAAAGAGAAA
*
49986531 AAAATAAAAAAAGGGAAA
1 AAAATAAAAAAAGAGAAA
49986549 A
1 A
49986550 GCAGGAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAATAAAAAAAGAGAAA
Found at i:49988976 original size:195 final size:195
Alignment explanation
Indices: 49988644--49989034 Score: 764
Period size: 195 Copynumber: 2.0 Consensus size: 195
49988634 TATTATATAT
49988644 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
1 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
*
49988709 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACGATTCAACCAAAATTGTAAG
66 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACAATTCAACCAAAATTGTAAG
*
49988774 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTTTTTAGATTTCGCAATTCATGCTAAA
131 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
49988839 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
1 ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
49988904 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACAATTCAACCAAAATTGTAAG
66 TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACAATTCAACCAAAATTGTAAG
49988969 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
131 GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
49989034 A
1 A
49989035 CATGGCATAC
Statistics
Matches: 194, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 194 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (195 bp):
ATAACACAAAAATCCATTAATATATATTATATATAAAATAAAGCCCATGTATATATTTTATAGGT
TTATGCATTTTGCACTATTAAAATCGCATAGTGTATATACTCAACAATTCAACCAAAATTGTAAG
GATTTGCACAAGGAAGAGCTCGCAAGACACACTTCGACTCTTTAGATTTCGCAATTCATGCTAAA
Found at i:49990165 original size:26 final size:25
Alignment explanation
Indices: 49990106--49990165 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
49990096 ATACCATAAT
*
49990106 TATTTAATTTAATTATTATTTTTAC
1 TATTTAATCTAATTATTATTTTTAC
*
49990131 TATTATTAA-CTAATTATTTATTTTATCC
1 TA-T-TTAATCTAATTA-TTATTTT-TAC
49990159 TATTTAA
1 TATTTAA
49990166 ATTCCTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
25 2 0.07
26 11 0.38
27 12 0.41
28 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTAATCTAATTATTATTTTTAC
Done.