Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167833.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_105, whole genome shotgun sequence
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: 85413
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
File 2 of 3
Found at i:37754 original size:180 final size:181
Alignment explanation
Indices: 37358--37762 Score: 438
Period size: 181 Copynumber: 2.2 Consensus size: 181
37348 TTATTAAATC
* * * *
37358 ACTTATTAATTTTTGAAATATTAATAGATTAATATTATTTTATTTTGAACAAACTTATATGAATA
1 ACTTATTAATTTTTCAAATATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATATGAAGA
* * * *
37423 AAAAAATTTGTTTTACGATAAAACAAAAGATCATAATGATTTAAAATAGATAATTATTCATATAG
66 AAAAAATTTGTTTTACGACAAAACAAAAGATCATAATGATTGAAAATAGATAATTATTCAAACAG
* * * * *** * * *
37488 CTTTAACTATTTGAATTGGTTTGGTAAACAAATTTATTTTTTATATCTATT
131 CTATAACTATTTAAACTGATTCAATAAACAAATTTATTTTTAAAATCTACT
* * * * * *
37539 AGTTATTAA-ATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAG
1 ACTTATTAATTTTTCA-AATATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATATGAAG
* * * * * * * * *
37603 ATCAATAA-TTGTTTTATGACAAAACAAAAGGTTATAATGATTGGAAATATATACTTGTTCAAAC
65 A-AAAAAATTTGTTTTACGACAAAACAAAAGATCATAATGATTGAAAATAGATAATTATTCAAAC
* *
37667 AG-TATAACTATTTAAACTGATTCAATAAACAGATTTATTTTTAAAATCTCCT
129 AGCTATAACTATTTAAACTGATTCAATAAACAAATTTATTTTTAAAATCTACT
* *
37719 ACTTATTAATTTTTCAAATATTAATAAACTAGTATTATTTTATT
1 ACTTATTAATTTTTCAAATATTAATAGATTAGTATTATTTTATT
37763 CTGAATAGGC
Statistics
Matches: 181, Mismatches: 40, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
180 75 0.41
181 102 0.56
182 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (181 bp):
ACTTATTAATTTTTCAAATATTAATAGATTAGTATTATTTTATTTCGAACAAACTTATATGAAGA
AAAAAATTTGTTTTACGACAAAACAAAAGATCATAATGATTGAAAATAGATAATTATTCAAACAG
CTATAACTATTTAAACTGATTCAATAAACAAATTTATTTTTAAAATCTACT
Found at i:38656 original size:21 final size:22
Alignment explanation
Indices: 38607--38658 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
38597 TTATTTTATA
* *
38607 TATAA-AATTAATAATATTATT
1 TATAATAATTAAAAATATTAGT
*
38628 TAT-TTAATTAAAAATATT-GT
1 TATAATAATTAAAAATATTAGT
38648 TATAATAATTA
1 TATAATAATTA
38659 TTAATTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TATAATAATTAAAAATATTAGT
Found at i:38667 original size:32 final size:33
Alignment explanation
Indices: 38617--38687 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
38607 TATAAAATTA
*
38617 ATAAT-ATTATTTATTTAATTAAAAATAT-TGTT
1 ATAATAATTATTTAATTAATTAAAAATATAT-TT
* *
38649 ATAATAATTA-TTAATTAATTATAAGTATATTT
1 ATAATAATTATTTAATTAATTAAAAATATATTT
38681 ATAATAA
1 ATAATAA
38688 CAATATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 29 0.85
33 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (33 bp):
ATAATAATTATTTAATTAATTAAAAATATATTT
Found at i:38741 original size:27 final size:27
Alignment explanation
Indices: 38700--38766 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
38690 ATATAAAAAT
* *
38700 ATTAAT-ATTAGTTTATTAA-TATATTAA
1 ATTAATAATTA-TTTAGTAACTA-ATAAA
38727 ATTAATAATTATTTAGTAACTAATAAA
1 ATTAATAATTATTTAGTAACTAATAAA
38754 ATT-ATAACTTATT
1 ATTAATAA-TTATT
38767 ATAATTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 4 0.11
27 25 0.71
28 6 0.17
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (27 bp):
ATTAATAATTATTTAGTAACTAATAAA
Found at i:38848 original size:16 final size:17
Alignment explanation
Indices: 38819--38926 Score: 58
Period size: 17 Copynumber: 6.1 Consensus size: 17
38809 AATATTGTAA
38819 TATTATATAAATTAAAT
1 TATTATATAAATTAAAT
* *
38836 TATT-TATACATTATAT
1 TATTATATAAATTAAAT
* * *
38852 TAGTATAAAAATTATAT
1 TATTATATAAATTAAAT
* * *
38869 TATACAAATAATATTTAATT
1 TAT-TATATAA-A-TTAAAT
38889 TATTATAATAAAATTATAAT
1 TATTAT-AT-AAATTA-AAT
*
38909 TA-TAGTATTAATTAAAT
1 TATTA-TATAAATTAAAT
38926 T
1 T
38927 TAACAAACTT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
16 13 0.19
17 20 0.29
18 9 0.13
19 9 0.13
20 15 0.22
21 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTATATAAATTAAAT
Found at i:39218 original size:15 final size:16
Alignment explanation
Indices: 39190--39221 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
39180 TATTATAAGC
39190 AATTATTATAATAATT
1 AATTATTATAATAATT
39206 AATTATT-TAATAATT
1 AATTATTATAATAATT
39221 A
1 A
39222 TTTTAATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATTATAATAATT
Found at i:40164 original size:18 final size:19
Alignment explanation
Indices: 40138--40184 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
40128 ATTTAAAATT
*
40138 AATATATATTAT-AGTATTA
1 AATA-ATATTATAACTATTA
*
40157 AATAATA-TATAACTATTT
1 AATAATATTATAACTATTA
40175 AATAATATTA
1 AATAATATTA
40185 ATTATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 15 0.62
19 6 0.25
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
AATAATATTATAACTATTA
Found at i:41034 original size:6 final size:6
Alignment explanation
Indices: 41023--41159 Score: 58
Period size: 6 Copynumber: 23.2 Consensus size: 6
41013 ATTCATAATT
* *
41023 TTATAA TTATAA TAAT-A TTA-AA TTATTAA -TATAA CTTATAA -TAAAA
1 TTATAA TTATAA TTATAA TTATAA TTA-TAA TTATAA -TTATAA TTATAA
* * * *
41069 TAACTTAA TTATTA TTAATAA TTA-AA TTAAAA TTA-AA ATATAA TTAT-A
1 TTA--TAA TTATAA TT-ATAA TTATAA TTATAA TTATAA TTATAA TTATAA
* * * *
41117 TCAAATAA TTTTAA TTATAA CT-TAA CT-TAA TTATAA TTATAA T
1 T--TATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA T
41160 ATTAATAGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
5 34 0.34
6 46 0.46
7 14 0.14
8 6 0.06
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
TTATAA
Found at i:41329 original size:14 final size:15
Alignment explanation
Indices: 41288--41353 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 15
41278 TTATAATTAC
41288 ATATTA-TAATAATTA
1 ATATTATTAATAA-TA
* *
41303 ATATGATTCATAA-A
1 ATATTATTAATAATA
41317 ATATTATTAATAAT-
1 ATATTATTAATAATA
41331 AT-TTAATT-ATAATA
1 ATATT-ATTAATAATA
41345 AT-TTATTAA
1 ATATTATTAA
41354 ATTATTACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 10 0.24
14 22 0.52
15 5 0.12
16 5 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATATTATTAATAATA
Found at i:42180 original size:20 final size:19
Alignment explanation
Indices: 42130--42190 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
42120 TAAATAAATT
*
42130 TTAAATAATTGTTTATTATA
1 TTAAATAATT-ATTATTATA
* *
42150 TTTAATTATTATTATTATTA
1 TTAAATAATTATTATTA-TA
42170 TTAAATAATTATT-TTA-A
1 TTAAATAATTATTATTATA
42187 TTAA
1 TTAA
42191 TTATTTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.14
19 9 0.26
20 21 0.60
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTAAATAATTATTATTATA
Found at i:42196 original size:13 final size:13
Alignment explanation
Indices: 42163--42197 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
42153 AATTATTATT
42163 ATTATTATTAAATA
1 ATTATT-TTAAATA
*
42177 ATTATTTTAATTA
1 ATTATTTTAAATA
42190 ATTATTTT
1 ATTATTTT
42198 TATTTTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTATTTTAAATA
Found at i:42388 original size:13 final size:13
Alignment explanation
Indices: 42370--42394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42360 TAATTTATTC
42370 AATAATTAGATTA
1 AATAATTAGATTA
42383 AATAATTAGATT
1 AATAATTAGATT
42395 TTTTGTATTA
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
AATAATTAGATTA
Found at i:42535 original size:11 final size:11
Alignment explanation
Indices: 42519--42567 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
42509 TAAATTTTAA
42519 ATATTTATATT
1 ATATTTATATT
42530 ATATTT-TAATT
1 ATATTTAT-ATT
42541 A-ATTATATATT
1 ATATT-TATATT
*
42552 ATAATTATATT
1 ATATTTATATT
42563 ATATT
1 ATATT
42568 ATTATTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 4 0.12
11 25 0.78
12 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTATATT
Found at i:42537 original size:20 final size:22
Alignment explanation
Indices: 42504--42554 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
42494 ATTAGTTTTA
*
42504 ATAT-TTAAATTTTAAAT-ATT
1 ATATATTATATTTTAAATAATT
*
42524 -TATATTATATTTTAATTAATT
1 ATATATTATATTTTAAATAATT
42545 ATATATTATA
1 ATATATTATA
42555 ATTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 3 0.12
20 11 0.42
21 3 0.12
22 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATATTATATTTTAAATAATT
Found at i:42558 original size:13 final size:13
Alignment explanation
Indices: 42519--42581 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 13
42509 TAAATTTTAA
42519 ATAT-TTAT-ATT
1 ATATATTATAATT
*
42530 ATATTTTAATTAATT
1 ATATATT-A-TAATT
42545 ATATATTATAA-T
1 ATATATTATAATT
42557 -TATATTAT-ATT
1 ATATATTATAATT
42568 AT-TATT-TAATT
1 ATATATTATAATT
42579 ATA
1 ATA
42582 ACAATTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
10 2 0.05
11 22 0.51
12 4 0.09
13 4 0.09
14 2 0.05
15 9 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTATAATT
Found at i:42754 original size:19 final size:20
Alignment explanation
Indices: 42709--42757 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
42699 AAAATATTTA
*
42709 TTAATAATTA-TTAAAATAT
1 TTAATAAATATTTAAAATAT
**
42728 TTTTTAAATATTTAAAA-AT
1 TTAATAAATATTTAAAATAT
42747 TTAATAAATAT
1 TTAATAAATAT
42758 ATTTATTTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATAAATATTTAAAATAT
Found at i:43690 original size:180 final size:179
Alignment explanation
Indices: 43328--43925 Score: 629
Period size: 181 Copynumber: 3.3 Consensus size: 179
43318 TTGATCGATA
* ** *
43328 AGAAACAATTGTTTTACAACAAAATA-AAAATGTCATAACAATTTGAAATAGATAATAGTTCAAA
1 AGAAACAATTGTTTTATAA-AAAA-ACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAA
* * * *
43392 TGAAT-A-AGACTATTTGAACTGATTCGGTAAACTAATTAATTTTTTAAATCTTCA-ACTTATTA
64 -CAATCATA-ACTATTTGAACTG-TTCAGTAAACAAATTTATTTTTTAAATCTT-ATACTTATTA
* * *
43454 ATTTTTAGAATGTTAA-TATATTAGTATTATTTTATTCCAAATAAACTTTATGAAT
125 ATTTTTGGAATATTAATTA-ATTAGTATTATTTTATTCCAAATAAGCTTTATGAAT
* *
43509 AGAAACAATTATTTTATAAAAAAACAAAA-GATCATAATGATTTGAAATAAATAATTGTTCAAAC
1 AGAAACAATTGTTTTATAAAAAAACAAAATG-TCATAATGATTTGAAATAGATAATTGTTCAAAC
* *
43573 AATCATAACTATTTGAACTCGCTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TT
65 AATCATAACTATTTGAACT-GTTCAGTAAACAAATTTATTTTTTAAATCTTATACTTATTAATTT
* *
43637 TTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAAT
129 TTGGAATATTAATTAATTAGTATTATTTTATTCCAAATAAGCTT-TATGAAT
* * * * *
43689 AGAAACAATTGGTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCGAAT
1 AGAAACAATTGTTTTATAAAAAAACAAAAT-GTCATAATGATTTGAAATAGATAATTGTTCAAAC
* * * * * ** * *
43754 AGTCATAACTATTTGAATGTGTTTAGAAAATAGCTTTATTTTCTAAA-ATTATACTTATTAATTT
65 AATCATAACTATTTGAA-CTGTTCAGTAAACAAATTTATTTTTTAAATCTTATACTTATTAATTT
* * * * *
43818 TTGGAATATTAATAAATTTA-TATTATTTTATTCAAAATACGCTTATAGGAAC
129 TTGGAATATTAATTAA-TTAGTATTATTTTATTCCAAATAAGCTT-TATGAAT
* * * * **
43870 AGAACCGATTGTTTTATGACAAAACAAAATGTCATAATTTTTTGAAATAGATAATT
1 AGAAACAATTGTTTTATAAAAAAACAAAATGTCATAATGATTTGAAATAGATAATT
43926 ATTTAGATAG
Statistics
Matches: 356, Mismatches: 48, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
179 44 0.12
180 153 0.43
181 154 0.43
182 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (179 bp):
AGAAACAATTGTTTTATAAAAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAACA
ATCATAACTATTTGAACTGTTCAGTAAACAAATTTATTTTTTAAATCTTATACTTATTAATTTTT
GGAATATTAATTAATTAGTATTATTTTATTCCAAATAAGCTTTATGAAT
Found at i:43795 original size:181 final size:181
Alignment explanation
Indices: 43328--43947 Score: 634
Period size: 180 Copynumber: 3.4 Consensus size: 181
43318 TTGATCGATA
** * ** *
43328 AGAAACAATTGTTTTACAACAAAATAAAAAT-GTCATAACAATTTGAAATAGATAATAGTTCAAA
1 AGAAACAATTGTTTTATGACAAAA-CAAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAA
* * * * * *
43392 T-G-AATAAGACTATTTGAACT-GATTCGGTAAACTAATTAATTTTTTAAATCTTCA-ACTTATT
65 TAGTCAT-A-ACTATTTGAACTCG-CTCAGAAAACAAATTTATTTTTTAAATCTT-ATACTTATT
* * *
43453 AATTTTTAGAATGTTAA-TATATTAGTATTATTTTATTCCAAATAAACTTTATGAAT
126 AATTTTTGGAATATTAATTA-ATTAGTATTATTTTATTCCAAATAAGCTTTATGAAT
* * * * * *
43509 AGAAACAATTATTTTATAAAAAAACAAAA-GATCATAATGATTTGAAATAAATAATTGTTCAAAC
1 AGAAACAATTGTTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
* * *
43573 AATCATAACTATTTGAACTCGCTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TT
66 AGTCATAACTATTTGAACTCGCTCAGAAAACAAATTTATTTTTTAAATCTTATACTTATTAATTT
* *
43637 TTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAAT
131 TTGGAATATTAATTAATTAGTATTATTTTATTCCAAATAAGCTT-TATGAAT
* *
43689 AGAAACAATTGGTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCGAAT
1 AGAAACAATTGTTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
* * * * ** * *
43754 AGTCATAACTATTTGAA-TGTGTTTAGAAAATAGCTTTATTTTCTAAA-ATTATACTTATTAATT
66 AGTCATAACTATTTGAACT-CGCTCAGAAAACAAATTTATTTTTTAAATCTTATACTTATTAATT
* * * * *
43817 TTTGGAATATTAATAAATTTA-TATTATTTTATTCAAAATACGCTTATAGGAAC
130 TTTGGAATATTAATTAA-TTAGTATTATTTTATTCCAAATAAGCTT-TATGAAT
* * ** * * *
43870 AGAACCGATTGTTTTATGACAAAACAAAAT-GTCATAATTTTTTGAAATAGATAATTATTTAGAT
1 AGAAACAATTGTTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
43934 AGTCATAACTATTT
66 AGTCATAACTATTT
43948 CGACTTGATC
Statistics
Matches: 370, Mismatches: 58, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
179 39 0.11
180 167 0.45
181 159 0.43
182 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (181 bp):
AGAAACAATTGTTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
AGTCATAACTATTTGAACTCGCTCAGAAAACAAATTTATTTTTTAAATCTTATACTTATTAATTT
TTGGAATATTAATTAATTAGTATTATTTTATTCCAAATAAGCTTTATGAAT
Found at i:44007 original size:453 final size:452
Alignment explanation
Indices: 43509--44399 Score: 1107
Period size: 453 Copynumber: 2.0 Consensus size: 452
43499 CTTTATGAAT
* ** *
43509 AGAAACAATTATTTTATAAAAAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAA-C
1 AGAAACAATTATTTTACAAAAAAACAAAAGATCATAACAATTTGAAATAAATAATAGTTCAAATC
* * * **
43573 AATCATAACTATTTGAACTCG-CTCAGTAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-T
66 AAT-ATAACGATTTGAACT-GACTCAGTAAACAAATTAAGTTTTTAAATCTTCAACTTATTAATT
* *
43636 TTTGGAATATTAAT-TAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAATAGAAACAATTG
129 TTTAGAATATTAATAT-ATTAGAATTATTTTATTCCAAATAAACTTGTTTGAATAGAAACAATTG
* * * * * *
43700 GTTTATGACAAAACAAAATGGTCATAATGATTTGAAATAGATAATTGTTCGAATAGTCATAACTA
193 GTTTATAACAAAACAAAA-GATCATAACGATTTGAAATAAATAATTGTTCAAATAATCA-AACTA
* *** * **
43765 TTTGAATGTGTTTAGA-AAATAGCTTTATTTTCTAAA-ATTATACTTATTAATTTTTGGAATATT
256 TTTGAA-CTCACTAGATAAACAAATTTATTTTCTAAATATTATACTTATTAA-TTTTGGAATATT
* * * * *
43828 AATAAATTTA-TATTATTTTATTCAAAATACGCTTATAGGAACAGAACCGATTGTTTTATGACAA
319 AATAAA-TTAGAATTATTTTATTCAAAATAAGCTTATAGGAACAGAAACAATTGGTTTATGACAA
** * *
43892 AACAAAAT-GTCATAATTTTTTGAAATAGATAATTATTTAGATAGTCATAACTATTTCGACTTGA
383 AAC-AAATGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTCGACTTGA
43956 TCAATA
447 TCAATA
* * * *
43962 AGAAACAATTGTTTTACAACAAAATAAAATG-TCATAACAATTTGAAATAGATAATAGTTCAAAT
1 AGAAACAATTATTTTACAAAAAAACAAAA-GATCATAACAATTTGAAATAAATAATAGTTCAAAT
** * * * *
44026 GGATGTGACGATTTGAACTGATTCAGTAAACTAATTAAGTTTTTAAATCTTCAACTTATTAATTT
65 CAATATAACGATTTGAACTGACTCAGTAAACAAATTAAGTTTTTAAATCTTCAACTTATTAATTT
* * *
44091 TTAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTTTGAATAGAAACAATTGTT
130 TTAGAATATTAATATATTAGAATTATTTTATTCCAAATAAACTTGTTTGAATAGAAACAATTGGT
*
44156 TTATAACAAAACAAAAGATTATAACGATTTGAAATAAATAATTGTTCAAATAATCAAACTATTTG
195 TTATAACAAAACAAAAGATCATAACGATTTGAAATAAATAATTGTTCAAATAATCAAACTATTTG
* * * * *
44221 AACTCACTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTTGGAATATTAATTAA
260 AACTCACTAGATAAACAAATTTATTTTCTAAATATTATACTTATTAATTTTGGAATATTAATAAA
* * ** *
44286 TTAGAATTATTTTATTCCAAATAAGCTTGTTTGAATAGAAACAATTGGTTTATGACAAAACAAAT
325 TTAGAATTATTTTATTCAAAATAAGCTTATAGGAACAGAAACAATTGGTTTATGACAAAACAAAT
*
44351 GGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAACTATTT
390 GGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
44400 GAATGTGTTT
Statistics
Matches: 371, Mismatches: 58, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
451 11 0.03
452 135 0.36
453 146 0.39
454 78 0.21
455 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (452 bp):
AGAAACAATTATTTTACAAAAAAACAAAAGATCATAACAATTTGAAATAAATAATAGTTCAAATC
AATATAACGATTTGAACTGACTCAGTAAACAAATTAAGTTTTTAAATCTTCAACTTATTAATTTT
TAGAATATTAATATATTAGAATTATTTTATTCCAAATAAACTTGTTTGAATAGAAACAATTGGTT
TATAACAAAACAAAAGATCATAACGATTTGAAATAAATAATTGTTCAAATAATCAAACTATTTGA
ACTCACTAGATAAACAAATTTATTTTCTAAATATTATACTTATTAATTTTGGAATATTAATAAAT
TAGAATTATTTTATTCAAAATAAGCTTATAGGAACAGAAACAATTGGTTTATGACAAAACAAATG
GTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTCGACTTGATCAATA
Found at i:44332 original size:179 final size:180
Alignment explanation
Indices: 43962--44641 Score: 672
Period size: 180 Copynumber: 3.8 Consensus size: 180
43952 TTGATCAATA
* * * *
43962 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
1 AGAAACAATTGTTTTATAACAAAACAAAATGTCATAACGATTTGAAATAGATAATTGTTCAAAT-
* * * * * * * **
44027 GAT-GTGACGATTTGAACTGATTC-AGTAAACTAATTAAGTTTTTAAATCTTCAACTTATTAATT
65 AATCATAACTATTTGAACTGATTCGA-TAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT
* *
44090 TTTAGAATGTTAA-TATATTAGTATTATTTTATTCCAAATAAACTTGTTTGAAT
129 TTTGGAATATTAATTA-ATTAGTATTATTTTATTCCAAAT-AACTTGTTTGAAT
* *
44143 AGAAACAATTGTTTTATAACAAAACAAAA-GATTATAACGATTTGAAATAAATAATTGTTCAAAT
1 AGAAACAATTGTTTTATAACAAAACAAAATG-TCATAACGATTTGAAATAGATAATTGTTCAAAT
* *
44207 AATCA-AACTATTTGAACTCACTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TT
65 AATCATAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTT
*
44270 TTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAAT
130 TTGGAATATTAATTAATTAGTATTATTTTATTCCAAATAA-CTTGTTTGAAT
* * *
44322 AGAAACAATTGGTTTATGACAAAAC-AAATGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
1 AGAAACAATTGTTTTATAACAAAACAAAAT-GTCATAACGATTTGAAATAGATAATTGTTCAAAT
* * * * * ** * * * *
44386 AGTCATAACTATTTGAATGTGTTTAGA-AAATAGCTTTATCTTCTAAA-ATTATACTTATTAATT
65 AATCATAACTATTTGAA-CTGATTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATT
* * **
44449 TTTGGAATATTAATAAATTTA-TATTATTTTATTCAAAATACACTTGCATGAAT
129 TTTGGAATATTAATTAA-TTAGTATTATTTTATTCCAAATA-ACTTGTTTGAAT
* * * * *
44502 A-AAACCAATT-CTTT-TGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGTTTAAAT
1 AGAAA-CAATTGTTTTATAACAAAACAAAATGTCATAACGATTTGAAATAGATAATTGTTCAAAT
* * * * *
44564 AGTCATAACTATTTCAACTTGA-TCGATAAGA-AAATTCATTTTTTTTAATTCTGTTACTCT-TT
65 AATCATAACTATTTGAAC-TGATTCGATAA-ACAAATT--TATTTTTTAAATCTTTTACT-TATT
44626 AATTTTTGGAATATTA
125 AATTTTTGGAATATTA
44642 TTTTAAATTT
Statistics
Matches: 419, Mismatches: 59, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
177 3 0.01
178 69 0.16
179 125 0.30
180 133 0.32
181 88 0.21
182 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (180 bp):
AGAAACAATTGTTTTATAACAAAACAAAATGTCATAACGATTTGAAATAGATAATTGTTCAAATA
ATCATAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAATTTT
TGGAATATTAATTAATTAGTATTATTTTATTCCAAATAACTTGTTTGAAT
Found at i:44556 original size:178 final size:180
Alignment explanation
Indices: 43962--44582 Score: 613
Period size: 179 Copynumber: 3.5 Consensus size: 180
43952 TTGATCAATA
* ** * ** * *
43962 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAGATAATAGTTCAAATG
1 AGAAACAATTGCTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAATA
* * * * * * * * *
44027 GAT-GTGACGATTTGAACTGATTCAG-TAAACTAATTAAGT-TTTTAAATCTTCA-ACTTATTAA
66 G-TCATAACTATTTGAACTCACT-AGATAAACAAATTTA-TCTTCTAAATATT-ATACTTATTAA
* * *
44088 TTTTTAGAATGTTAATATATTAGTATTATTTTATTCCAAATAAACTTGTTTGAAT
127 TTTTTGGAATATTAATAAATTAGTATTATTTTATTCCAAAT-AACTTGTTTGAAT
* * * * *
44143 AGAAACAATTGTTTTATAACAAAACAAAA-GATTATAACGATTTGAAATAAATAATTGTTCAAAT
1 AGAAACAATTGCTTTATGACAAAACAAAATG-TCATAATGATTTGAAATAGATAATTGTTCAAAT
* * * * * *
44207 AATCA-AACTATTTGAACTCACTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAA-TT
65 AGTCATAACTATTTGAACTCACTAGATAAACAAATTTATCTTCTAAATATTATACTTATTAATTT
* *
44270 TTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGCTTGTTTGAAT
130 TTGGAATATTAATAAATTAGTATTATTTTATTCCAAATAA-CTTGTTTGAAT
*
44322 AGAAACAATTGGTTTATGACAAAAC-AAATGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
1 AGAAACAATTGCTTTATGACAAAACAAAAT-GTCATAATGATTTGAAATAGATAATTGTTCAAAT
* *** * **
44386 AGTCATAACTATTTGAATGTGTTTAGA-AAATAGCTTTATCTTCTAAA-ATTATACTTATTAATT
65 AGTCATAACTATTTGAA-CTCACTAGATAAACAAATTTATCTTCTAAATATTATACTTATTAATT
* **
44449 TTTGGAATATTAATAAATTTA-TATTATTTTATTCAAAATACACTTGCATGAAT
129 TTTGGAATATTAATAAA-TTAGTATTATTTTATTCCAAATA-ACTTGTTTGAAT
* *
44502 A-AAACCAATT-CTTT-TGACAAAACAAAATGTCATAATGTTTTGAAATAGATAATTGTTTAAAT
1 AGAAA-CAATTGCTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAAT
*
44564 AGTCATAACTATTTCAACT
65 AGTCATAACTATTTGAACT
44583 TGATCGATAA
Statistics
Matches: 375, Mismatches: 50, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
177 1 0.00
178 62 0.17
179 127 0.34
180 121 0.32
181 64 0.17
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (180 bp):
AGAAACAATTGCTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTGTTCAAATA
GTCATAACTATTTGAACTCACTAGATAAACAAATTTATCTTCTAAATATTATACTTATTAATTTT
TGGAATATTAATAAATTAGTATTATTTTATTCCAAATAACTTGTTTGAAT
Found at i:45921 original size:12 final size:12
Alignment explanation
Indices: 45887--45921 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
45877 AATATTATTA
*
45887 TTAATTAGTAGT
1 TTAATTAATAGT
45899 TTAATTAAATAGT
1 TTAATT-AATAGT
45912 TTAATTAATA
1 TTAATTAATA
45922 TTCTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (12 bp):
TTAATTAATAGT
Found at i:46663 original size:19 final size:20
Alignment explanation
Indices: 46639--46682 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
46629 TATAATAATA
*
46639 AATTAT-TATCTATTTATT-T
1 AATTATGTAT-TATGTATTAT
46658 AATTATGTATTATGTATTAT
1 AATTATGTATTATGTATTAT
46678 AATTA
1 AATTA
46683 ATATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTATGTATTATGTATTAT
Found at i:46692 original size:23 final size:23
Alignment explanation
Indices: 46614--46693 Score: 56
Period size: 26 Copynumber: 3.3 Consensus size: 23
46604 AAAATATAAC
46614 AATTATAGTA-TATAATATAATAATA
1 AATTAT-GTATTATAAT-TAAT-ATA
* *
46639 AATTAT-TATCTATTTATTTAATTATG
1 AATTATGTAT-TA--TAATTAA-TATA
*
46665 TATTATGTATTATAATTAATATA
1 AATTATGTATTATAATTAATATA
46688 AATTAT
1 AATTAT
46694 TAATAATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
23 10 0.23
24 6 0.14
25 8 0.19
26 12 0.28
27 7 0.16
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (23 bp):
AATTATGTATTATAATTAATATA
Found at i:47016 original size:18 final size:18
Alignment explanation
Indices: 46985--47019 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46975 TACTAATTTG
*
46985 TATATAATAGAATTAATA
1 TATATAATACAATTAATA
*
47003 TATATAATTCAATTAAT
1 TATATAATACAATTAAT
47020 TATGAATAAT
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:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATAATACAATTAATA
Found at i:47165 original size:8 final size:9
Alignment explanation
Indices: 47128--47203 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 9
47118 ATAAATTCGT
47128 ATTAAT-TA
1 ATTAATATA
*
47136 TTTAATATA
1 ATTAATATA
47145 A-TAGA-AT-
1 ATTA-ATATA
47152 ATTAAT-TA
1 ATTAATATA
*
47160 ATTAATATT
1 ATTAATATA
47169 ATT-ATATA
1 ATTAATATA
47177 ATTAA-ATTA
1 ATTAATA-TA
47186 A-TAATATA
1 ATTAATATA
47194 A-TAATATA
1 ATTAATATA
47202 AT
1 AT
47204 ATTTATTGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
7 3 0.06
8 39 0.72
9 12 0.22
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (9 bp):
ATTAATATA
Found at i:47171 original size:17 final size:18
Alignment explanation
Indices: 47151--47200 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
47141 TATAATAGAA
47151 TATTAAT-TAATTAATAT
1 TATTAATATAATTAATAT
47168 TATT-ATATAATTAA-AT
1 TATTAATATAATTAATAT
*
47184 TAATAATATAA-TAATAT
1 TATTAATATAATTAATAT
47201 AATATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTAATATAATTAATAT
Found at i:47190 original size:25 final size:26
Alignment explanation
Indices: 47131--47203 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
47121 AATTCGTATT
*
47131 AATTATTTAATATAATAGA-AT-ATT-
1 AATTAATTAATATAATA-ATATAATTA
* *
47155 AATTAATTAATATTATTATATAATTA
1 AATTAATTAATATAATAATATAATTA
47181 AATTAA-TAATATAATAATATAAT
1 AATTAATTAATATAATAATATAAT
47204 ATTTATTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 16 0.39
25 18 0.44
26 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (26 bp):
AATTAATTAATATAATAATATAATTA
Found at i:47274 original size:21 final size:21
Alignment explanation
Indices: 47232--47290 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
47222 AATATATAAA
47232 AATATTATATAATTATCCTAAT
1 AATATTA-ATAATTATCCTAAT
* **
47254 AATATTAATCATTATGTTAAT
1 AATATTAATAATTATCCTAAT
47275 AATATTAAGTAATTAT
1 AATATTAA-TAATTAT
47291 TAATATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
AATATTAATAATTATCCTAAT
Found at i:47296 original size:17 final size:16
Alignment explanation
Indices: 47273--47318 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
47263 CATTATGTTA
47273 ATAATATTAAGTAATT
1 ATAATATTAAGTAATT
*
47289 ATTAATATTAATTAAATT
1 A-TAATATTAAGT-AATT
47307 ATAA-ATTAAGTA
1 ATAATATTAAGTA
47319 CTTTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 7 0.27
17 13 0.50
18 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATAATATTAAGTAATT
Found at i:47432 original size:20 final size:18
Alignment explanation
Indices: 47385--47434 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
47375 ATTAGTTACT
*
47385 TAATAATTATCAATTATA
1 TAATAATTATCAAATATA
47403 TGAATAAATTATCCAAATATTA
1 T-AAT-AATTAT-CAAATA-TA
47425 TAATAATTAT
1 TAATAATTAT
47435 AATAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 12 0.44
21 8 0.30
22 3 0.11
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAATTATCAAATATA
Found at i:47676 original size:25 final size:25
Alignment explanation
Indices: 47629--47676 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47619 TTAATTAAAA
* *
47629 TATAAATATTTAATTAAAGTATTAT
1 TATAAATAATTAATTAAACTATTAT
*
47654 TATAAATAATTAATTATACTATT
1 TATAAATAATTAATTAAACTATT
47677 TATTTTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TATAAATAATTAATTAAACTATTAT
Found at i:48133 original size:32 final size:33
Alignment explanation
Indices: 48092--48166 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
48082 ATATTCATTT
48092 TAATAATATATAATTGAAAA-TTATA-ATTTATA
1 TAATAATATATAATTGAAAATTTATATA-TTATA
* * *
48124 TAATAATATATATTTTAAAATTTATATATTATT
1 TAATAATATATAATTGAAAATTTATATATTATA
48157 TAA-AATATAT
1 TAATAATATAT
48167 TTAAGACTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 25 0.66
33 12 0.32
34 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (33 bp):
TAATAATATATAATTGAAAATTTATATATTATA
Found at i:48318 original size:23 final size:25
Alignment explanation
Indices: 48263--48318 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
48253 AATATATATT
*
48263 ATTATAATAAATAATTAATTTATTAA
1 ATTAT-ATAAATAATTAATTTAATAA
48289 A-TA-ATAAATAATT-A-TTAATAA
1 ATTATATAAATAATTAATTTAATAA
48310 ATTATATAA
1 ATTATATAA
48319 CAATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 3 0.11
23 14 0.52
25 2 0.07
26 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTATATAAATAATTAATTTAATAA
Found at i:48970 original size:27 final size:26
Alignment explanation
Indices: 48940--48993 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 26
48930 TAATGTCAAC
48940 AATACTAATATGATTATAATATA-AAAT
1 AATA-TAATAT-ATTATAATATATAAAT
*
48967 AATATTATATATTATAATATATAAAT
1 AATATAATATATTATAATATATAAAT
48993 A
1 A
48994 TTATTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 11 0.44
26 10 0.40
27 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AATATAATATATTATAATATATAAAT
Found at i:48976 original size:26 final size:26
Alignment explanation
Indices: 48947--49006 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
48937 AACAATACTA
48947 ATATGATTATAATATA-AAATAATATT
1 ATAT-ATTATAATATATAAATAATATT
*
48973 ATATATTATAATATATAAATATTATT
1 ATATATTATAATATATAAATAATATT
*
48999 ATTTATTA
1 ATATATTA
49007 AAATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 11 0.35
26 20 0.65
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
ATATATTATAATATATAAATAATATT
Found at i:49000 original size:19 final size:17
Alignment explanation
Indices: 48976--49024 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
48966 TAATATTATA
48976 TATTATAATATATAAATAT
1 TATTATAATAT-TAAA-AT
*
48995 TATTAT-TTATTAAAAT
1 TATTATAATATTAAAAT
*
49011 TATTATAATTTTAA
1 TATTATAATATTAA
49025 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.31
17 9 0.35
18 3 0.12
19 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTATAATATTAAAAT
Found at i:49391 original size:18 final size:19
Alignment explanation
Indices: 49338--49391 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
49328 TATTAAAAAG
*
49338 GAATTATTA-GATTAATTA
1 GAATTATTATTATTAATTA
* *
49356 GAATTAATAATTAATAATTA
1 GAATT-ATTATTATTAATTA
49376 -AATTATTATTATTAAT
1 GAATTATTATTATTAAT
49392 ATTATATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 15 0.52
19 7 0.24
20 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (19 bp):
GAATTATTATTATTAATTA
Found at i:49679 original size:15 final size:15
Alignment explanation
Indices: 49655--49767 Score: 70
Period size: 15 Copynumber: 7.4 Consensus size: 15
49645 AATGTTATAA
*
49655 TATATAAAATAATTT
1 TATATTAAATAATTT
49670 TATATTAAATAATTT
1 TATATTAAATAATTT
* * *
49685 TATTTTATATATTTT
1 TATATTAAATAATTT
* * *
49700 TAATTTTAATTAATTA
1 T-ATATTAAATAATTT
49716 T-TA-TAAATATATTAT
1 TATATTAAATA-ATT-T
* * *
49731 AATAATATAATTATTT
1 TATATTA-AATAATTT
49747 TATATATAAATAA-TT
1 TATAT-TAAATAATTT
49762 TATATT
1 TATATT
49768 GTTATTTAAG
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
13 5 0.07
14 5 0.07
15 34 0.45
16 21 0.28
17 7 0.09
18 3 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATTAAATAATTT
Found at i:49749 original size:19 final size:20
Alignment explanation
Indices: 49717--49767 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
49707 AATTAATTAT
*
49717 TATAAATATATTATA-ATAA
1 TATAATTATATTATATATAA
*
49736 TATAATTATTTTATATATAA
1 TATAATTATATTATATATAA
49756 -ATAATTTATATT
1 TATAA-TTATATT
49768 GTTATTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATATTATATATAA
Found at i:50673 original size:19 final size:20
Alignment explanation
Indices: 50651--50689 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
50641 AAAAAGCAAC
* *
50651 AATTAATTAATTAT-ATTAT
1 AATTAAATAAATATAATTAT
50670 AATTAAATAAATATAATTAT
1 AATTAAATAAATATAATTAT
50690 TTATTAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAAATAAATATAATTAT
Found at i:51407 original size:19 final size:20
Alignment explanation
Indices: 51370--51417 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
51360 AATAAACATT
51370 TAAATAATAACTATTATTTA
1 TAAATAATAACTATTATTTA
51390 TAAAT-ATAA-TATTAATTTA
1 TAAATAATAACTATT-ATTTA
51409 T-AATAATAA
1 TAAATAATAA
51418 ATTACTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.27
19 14 0.54
20 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATAATAACTATTATTTA
Found at i:51434 original size:19 final size:19
Alignment explanation
Indices: 51412--51455 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
51402 TAATTTATAA
51412 TAATAAAT-TACTAATAAAT
1 TAATAAATATACT-ATAAAT
**
51431 TAATATTTATACTATAAAT
1 TAATAAATATACTATAAAT
51450 TAATAA
1 TAATAA
51456 CAATAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATAAATATACTATAAAT
Found at i:51562 original size:14 final size:14
Alignment explanation
Indices: 51543--51577 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
51533 TTCATTATAG
*
51543 TAATTATTAATAAT
1 TAATTAATAATAAT
51557 TAATTAATAATAAT
1 TAATTAATAATAAT
51571 TAATTAA
1 TAATTAA
51578 CCATCAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATTAATAATAAT
Found at i:52315 original size:24 final size:25
Alignment explanation
Indices: 52281--52330 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
52271 AAATTATGAC
* *
52281 AATTTATAATTA-ATATTTATTATA
1 AATTTAAAATTAGATATTTATAATA
*
52305 AATTTAAAATTAGTTATTTATAATA
1 AATTTAAAATTAGATATTTATAATA
52330 A
1 A
52331 TTATATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
AATTTAAAATTAGATATTTATAATA
Found at i:52975 original size:6 final size:6
Alignment explanation
Indices: 52964--53048 Score: 61
Period size: 6 Copynumber: 13.7 Consensus size: 6
52954 TTATAAATTG
* *
52964 AATATT AATATT AATTATT AATATT TATATA AATATT -ATAATT AATA-T
1 AATATT AATATT AA-TATT AATATT AATATT AATATT AAT-ATT AATATT
53012 AAT-TAT ATATATT GAATATT AA-ATAT AATATTT AATA
1 AATAT-T A-ATATT -AATATT AATAT-T AATA-TT AATA
53049 ATTTTATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
5 8 0.12
6 31 0.48
7 22 0.34
8 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:53029 original size:62 final size:64
Alignment explanation
Indices: 52950--53076 Score: 158
Period size: 62 Copynumber: 2.0 Consensus size: 64
52940 TATTTATTTT
52950 TAATTTATAAATTGAATATT-AATATTAAT-TATTAAT-A-TTTAT-ATAA-ATATTATAATTAA
1 TAATTTATAAATTGAATATTAAATA-TAATAT-TTAATAATTTTATAATAATA-ATTATAATTAA
53009 TA
63 TA
* *
53011 TAATTATATATATTGAATATTAAATATAATATTTAATAATTTTATAATAATAATTATAGTTAATA
1 TAATT-TATAAATTGAATATTAAATATAATATTTAATAATTTTATAATAATAATTATAATTAATA
53076 T
1 T
53077 TATTCGAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
61 5 0.09
62 23 0.40
63 6 0.11
64 5 0.09
65 17 0.30
66 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (64 bp):
TAATTTATAAATTGAATATTAAATATAATATTTAATAATTTTATAATAATAATTATAATTAATA
Found at i:53187 original size:16 final size:16
Alignment explanation
Indices: 53157--53199 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
53147 ATCTATACAT
*
53157 TATTAATTA-ATATTA
1 TATTTATTATATATTA
53172 TATTTATTATATATTA
1 TATTTATTATATATTA
*
53188 TAATTA-TATATA
1 TATTTATTATATA
53200 ATAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTATTATATATTA
Found at i:53195 original size:13 final size:13
Alignment explanation
Indices: 53150--53216 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
53140 TTACTAAATC
*
53150 TATACATTATTAAT
1 TATATATTA-TAAT
53164 TA-ATATTATATTTAT
1 TATATATTATA---AT
53179 TATATATTATAAT
1 TATATATTATAAT
* *
53192 TATATATAATAAA
1 TATATATTATAAT
53205 TATATAATTATA
1 TATAT-ATTATA
53217 TTAATTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.05
13 23 0.52
14 7 0.16
15 4 0.09
16 8 0.18
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATATTATAAT
Found at i:53208 original size:26 final size:26
Alignment explanation
Indices: 53179--53237 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
53169 TTATATTTAT
53179 TATAT-ATTATAATT-ATATATAATAAA
1 TATATAATTAT-ATTAAT-TATAATAAA
**
53205 TATATAATTATATTAATTATAATATT
1 TATATAATTATATTAATTATAATAAA
53231 TATATAA
1 TATATAA
53238 GTAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATATAATTATATTAATTATAATAAA
Found at i:53703 original size:16 final size:16
Alignment explanation
Indices: 53664--53697 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
53654 GTTATTCATG
*
53664 ATATTATATTTAATTA
1 ATATTATATTTAAATA
53680 ATATTATATTTAAATA
1 ATATTATATTTAAATA
53696 AT
1 AT
53698 TGTATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTATATTTAAATA
Found at i:54671 original size:177 final size:177
Alignment explanation
Indices: 53844--55211 Score: 907
Period size: 180 Copynumber: 7.6 Consensus size: 177
53834 AATCAGTAAG
* * * * * *
53844 AGATTTAAAAAGTAAATCTGCTTACCAAACCATTTCAAATAGTTTTGACTATTTGAATAATTATC
1 AGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATC
* * * * * **
53909 TATTTCAAATCATTATAA-CATTTATTTTGTCATCAAATAATT-TGTTCTATTTATACTATTTTA
66 TATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGT-TTC-ATTAATACAAGCTTA
** * * * *
53972 TTCAAAATAAAATAATGCAAATTTAATAATA-TTCCAAAACTTAATAACCAAA
129 TT-GGAATAAAATAATACTAATTTATTAATATTTCCAAAA-TTAATAA--GAA
* * * ** * * ** * * * *
54024 AAATTTTAAAAATAAATCTAATTACGGAACCAA-TTCAAATAGTTAAAACTATATAAATGACTAT
1 AGATTTAAAAAATAAATATGTTTAC-CAAACAAGTTCAAATAGTTATGACTATTTGAATAATTAT
** * * ** * **
54088 CTATTTCAAATTGTTATGACCTTTTCTTTCATCATAAAACAATTGTCTT-GTTTGTACAAGCTTA
65 CTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGT-TTCATTAATACAAGCTTA
* * * *
54152 TT-CATATTAAAATAATACTAATTTCA-TAATATTT-AAAAATTAGTAAGTA
129 TTGGA-A-TAAAATAATACTAATTT-ATTAATATTTCCAAAATTAATAAGAA
* * * * * * * * **
54201 AGATATTAAAAAACTAAATTTATCTATCGAATC-ATTTCAAATGGTTAAGACTATTAAAATAATT
1 AGAT-TTAAAAAA-TAAATATGTTTA-CCAAACAAGTTCAAATAGTTATGACTATTTGAATAATT
* * * * * *
54265 ATATACTTCAAATCATTTTGACCATTTT-TTTAGTCATAAAA-AATTGTTTCAATTCATACAAGC
63 ATCTATTTCAAATCATTATAACC-TTTTATTTTGTCATAAAACAATTGTTTC-ATTAATACAAGC
** * * * **
54328 TTATTCATAATAAATTATTACTAATTTATTAACATTTGGAAAATTAATAAGAAA
126 TTATT-GGAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAAG-AA
* * * * * *
54382 GAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTTATTATTATTTGAACAATTGT
1 -AGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAATAATTAT
* *
54447 CTATTTAAAAAT-GTTATAACCTTTTGA-TTTGTCATAAAACAATTGTTTCAGTTAATACAAGCT
65 CTATTT-CAAATCATTATAACCTTTT-ATTTTGTCATAAAACAATTGTTTCA-TTAATACAAGCT
* *
54510 TAGATGGAATAAAATAATACTAATTTATTAATATTTCCTAAATTAATAAG-A
127 TA-TTGGAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAAGAA
* * * * *
54561 A-ATTTAAAAAATAAATTTGTTTACCAAATC-AGTTAAAATAATTATGTCCATTTGAATAATTAT
1 AGATTTAAAAAATAAATATGTTTACCAAA-CAAGTTCAAATAGTTATGACTATTTGAATAATTAT
* * * **
54624 CTATTTCAAATCATTATGATCTTTTATTTTGTCATAATACAATTGTTTTTTTATCATACAAGCTT
65 CTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCATTA--ATACAAGCTT
** * * *
54689 ATTCAAAATAAAATAATACTAATTGATTAATATTT-CAAAAATAATAGGTAA
128 ATT-GGAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAAG-AA
* * *
54740 CAGATTTAAACAATAAATATGTTTACCAAACCAGTTCAAATAATTATGACTATTTGAA-AATTAT
1 -AGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAATAATTAT
* * * ** * * * *
54804 CAATCTCAAATCGTTA-AAATTTTTGTTTTGTCATAAAACAATTGTTTCTAATCATAGAAGCTTA
65 CTATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTC-ATTAATACAAGCTTA
* * * *
54868 TTCGG-TTAAAAATAATACTAATTTAATAATATTTCAAAAATTAAT-A-AC
129 TT-GGAAT-AAAATAATACTAATTTATTAATATTTCCAAAATTAATAAGAA
* * * * * ** * **
54916 AGATTTAAAAATTAAATATGTTTGCTAAACTAGTTCAAATAGTAAAAACAATTAAAATAATTATC
1 AGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATC
* * * * * *
54981 TATTTCAAAT-AGTTCA-AACCTTTTGTTTAGTCATAAAATATTTGTTTCATGTATTATAAGCTT
66 TATTTCAAATCA-TT-ATAACCTTTTATTTTGTCATAAAACAATTGTTTCAT-TAATACAAGCTT
* * * * **
55044 ATTTGGAATAAAATAATCCAAATTTATGAACATTTGGAAAATTAATAAGCAAA
128 A-TTGGAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAAG--AA
* * * *
55097 AGATTTGAAAAATTAAATTTGTTTACCAAACAAGTTTAAAAAGTTATGACTATTT-AATCAATTA
1 AGATTT-AAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAAT-AATTA
* * * * * **
55161 T-TTTTATAAAATCGTTATGACCTTTTCTTTTGAGATAAAACAATTGTTTCA
64 TCTATT-TCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCA
55212 ATTCAAAAAA
Statistics
Matches: 927, Mismatches: 205, Indels: 110
0.75 0.17 0.09
Matches are distributed among these distances:
175 45 0.05
176 27 0.03
177 173 0.19
178 98 0.11
179 151 0.16
180 189 0.20
181 160 0.17
182 84 0.09
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.39
Consensus pattern (177 bp):
AGATTTAAAAAATAAATATGTTTACCAAACAAGTTCAAATAGTTATGACTATTTGAATAATTATC
TATTTCAAATCATTATAACCTTTTATTTTGTCATAAAACAATTGTTTCATTAATACAAGCTTATT
GGAATAAAATAATACTAATTTATTAATATTTCCAAAATTAATAAGAA
Found at i:55863 original size:181 final size:181
Alignment explanation
Indices: 55244--56787 Score: 1208
Period size: 181 Copynumber: 8.6 Consensus size: 181
55234 TAAAAAGAAT
* * * ** * * *
55244 TTAATAAGTAGGAG-TTTAAAAAAATAAATTTGTTTATCGGGCAAATTCAAATACTTACGACTAT
1 TTAATAAGTAAGAGATTT-AAAAAATAAATTTATTTACCGAACCAATTCAAATAGTTATGACTAT
* * * *
55308 TTGAACAATTGTCTATTTAAAATCATTATGA-----TGTTTTGTCATAAAATAATTGTTTC-ACT
65 TTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-T
* * *
55367 TCATACGAGCTTATTCAAAATAAAATAATTCTAATTTATTAATATTCCAAAAA
129 TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAA
* * * ** * * *
55420 TTAATAAG---G-GATTTAAAAAGTGAATCTATTTA-CGAAATTAGTTCAAATAATTATG-GTCA
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCG-AACCAATTCAAATAGTTATGACT-A
* * * * * * *
55479 TTTCAACAATTATTTATTTCAAATCGTTATCACCTTTTGTTTGGTCATATAACAATCAT-TTTTT
64 TTTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAAT--TGTTTCT
* * * * *
55543 A-TCATACATGAC-TA-TCTGAAATAAAATATTAATAATAATTTATTCATCTTTCAAAAA
127 ATTCATACAAG-CTTATTC-AAAAT-AAA-A-TAATACTAATTTATTAATATTTCAAAAA
* * *
55600 -T--TAA-TAAGAGATTTAAAAAATGAATTTGTTTACCAAACCAATTCAAATAGTTATGACTATT
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCAATTCAAATAGTTATGACTATT
* * * * * *
55661 TGAATAATTCTATACTTCAAATCATTATAACCTTTTGTTTTGTCATAAAACGATTATTTCTATTC
66 TGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTC
* * * *
55726 ATACAAGCTTATTCAAAATAAAACAATACTAATCTAATAATATTCCAAAAA
131 ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAA
* * * * *
55777 TTAATAACTAAGGGATTTAAAAAATAAATTTATTTGCCGAACCAATTCAAATAGTTAAGACTATA
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCAATTCAAATAGTTATGACTATT
* ** * *
55842 TGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTCTTGTCATAAAACAATT-TTCTCAATT
66 TGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTT-TCTATT
* * * ** *
55906 CATGCTAGCTTTTTTGAAATAAAATAA-AATGAATTTATTAATATTTCAAAAA
130 CATACAAGCTTATTCAAAATAAAATAATACT-AATTTATTAATATTTCAAAAA
* * * * * *
55958 CTAATAAGTAAGAGATTTAAAAAAT-AATTATGTTTACCTAACCAGTTCAAAAAATTAT-ACTAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATT-TATTTACCGAACCAATTCAAATAGTTATGACTAT
* * * * * * *
56021 TTGAACAATTATATGTTTCAAATCATTATTACTTTTTGTTTTGTCATACAACAAATGTTTTTGTT
65 TTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATT
* * * * * *
56086 TATATAAGTTTATTCAGAATAAAGTAATACTAATCTATTAATATTTCAAAAA
130 CATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAA
* * * * *** * * *
56138 TTAATAAGT----GATTTAGACAATAAATCTATGTATTAAACTAGTTCAAATACTTATGACTATT
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCAATTCAAATAGTTATGACTATT
* * *** *
56199 T-ACACAATTATTTATTTCAAATCATTATGACTTTTTGTTTTGTTGCAAAATAATTGTTTCTATT
66 TGA-ACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATT
* * * **
56263 CATACAAGCTTATTTACATTAAAATAATACTAATTTATTAATATTTTGAAAA
130 CATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAA
* * * * ** * * * * *
56315 TTAGTAAGTAAAAAATTTTAAAAATATGTTTA-CTA-C--ACTAGA-TCAAATAATCATGACAAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCA-ATTCAAATAGTTATGACTAT
* * * * * * * *
56375 TTGAATAATTATCTATTTCGAATCGTTATGACCTTTTGATTTGTCATAAAAGAGTTGTTT-TGGT
65 TTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-AT
* ** * *
56439 TCATATAAGCTTATTTGAAATAAAATAATATTAATTTATTAATATTTCTAAAA
129 TCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAA
* * ** * * *
56492 TTAATAAGTAAAAGATTTAAATAATAAATTCGTTTATCG-AGCAAGTTCAAATAGTTATTACTAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCAA-TTCAAATAGTTATGACTAT
56556 TTGAACAATTATATATTTCAAAT-ATTTATG-CTCTTTTGTTTTGTCATAAAACAATTGTTTCTA
65 TTGAACAATTATATATTTCAAATCA-TTATGAC-CTTTTGTTTTGTCATAAAACAATTGTTTCTA
* * *** *
56619 TTCACACAAGTTTATTTGGAATAAAATAATACTAATTTATTATTA-TTCTAAAAA
128 TTCATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTC-AAAAA
* * * * * * * *
56673 TTAATAAGTTAGAGATTTAAAAAATAAATCTGTTTACTGAA-CAAGTTTAAATAGTCATGTCCAT
1 TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCAA-TTCAAATAGTTATGACTAT
* * * * * *
56737 TTGAACTATTATTTATTTCAAATCGTTATGACATTTTGTTTTATTATAAAA
65 TTGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAA
56788 TAATACCAAT
Statistics
Matches: 1076, Mismatches: 235, Indels: 109
0.76 0.17 0.08
Matches are distributed among these distances:
171 3 0.00
172 55 0.05
173 4 0.00
176 42 0.04
177 300 0.28
178 13 0.01
179 16 0.01
180 238 0.22
181 402 0.37
182 3 0.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (181 bp):
TTAATAAGTAAGAGATTTAAAAAATAAATTTATTTACCGAACCAATTCAAATAGTTATGACTATT
TGAACAATTATATATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTC
ATACAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAA
Found at i:56892 original size:138 final size:141
Alignment explanation
Indices: 56639--56897 Score: 310
Period size: 138 Copynumber: 1.8 Consensus size: 141
56629 TTTATTTGGA
* * *
56639 ATAAAATAATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATCT
1 ATAAAATAATACCAATTTATTACTATTCTAAAAATTAAT-AG-TAGAGATTTAAAAAATAAAGCT
* * * * * *
56704 GTTTACTGAACAAGTTTAAATAGTCATGTCCATTTGAACTATTATTTATTTCAAATCGTTATGAC
64 GTTTACTGAACAAGTTCAAATAGTCAAGACCATTAGAACAATTATCTATTTCAAATCGTTATGAC
56769 ATTTTGTTTTATT
129 ATTTTGTTTTATT
* * *
56782 ATAAAATAATACCAATTTATTACTATTTTGAAAATTAAT-G-AG-GATTT-AAAAATAAAAGGTG
1 ATAAAATAATACCAATTTATTACTATTCTAAAAATTAATAGTAGAGATTTAAAAAAT-AAAGCTG
* ** * *
56843 TTTTCTGAAGTAGTTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAAT
65 TTTACTGAACAAGTTCAAATAGTCAAGACCATTAGAACAATTATCTATTTCAAAT
56898 TATTCTGATC
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
137 6 0.06
138 54 0.55
139 2 0.02
141 1 0.01
143 35 0.36
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (141 bp):
ATAAAATAATACCAATTTATTACTATTCTAAAAATTAATAGTAGAGATTTAAAAAATAAAGCTGT
TTACTGAACAAGTTCAAATAGTCAAGACCATTAGAACAATTATCTATTTCAAATCGTTATGACAT
TTTGTTTTATT
Found at i:57441 original size:355 final size:353
Alignment explanation
Indices: 56877--57933 Score: 989
Period size: 355 Copynumber: 3.0 Consensus size: 353
56867 AAGACTATTA
* * * * * * * ***
56877 GAACAATTATCTATTTCAAATTATTCTGATCTTTTGTTTAGTCAAAAAATAATTGTTTTAGTTCA
1 GAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTC-ATAAACAATTTTTTTTCATCA
** * * * *
56942 TACAAGCTTATTCAAAATATAGTAATACTAATTTATTAAAATTTAAAAAATTAATAAGAA-ATTT
65 TACAAGCTTATTCGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA-AAGATTT
** * * ** * * *
57006 TTAAAAAATCTATTTACCGAATAAGTTCAAATAGTTATGACTATTTGAACAATCATCTAGTTAAA
129 AAAAAAAAT-TTTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAA
* * *
57071 ATCGTTATGACCTTTTATTTTATCATAAAACAACTGTTTCAATACATAAAAGTTT-TTCCAAAGT
193 ATCGTTATAACCTTTTATTTTATCATAAAACAAATGTTTCTATACATAAAAGTTTATT-CAAA-T
** * ** *
57135 AAAATAATATTGCTTTATTAATATTTCCAAAATTAAGAAGTTGGAGTTTTAAAAAATAAATCAGT
256 AAAATAATATTAATTTATTAATATTTCAAAAATTAAGAAGTAAGAGATTTAAAAAATAAATCAGT
* * *
57200 TTA-TCAAATTA-TTCAAACAATCATGGCCATTT
321 TTACT-AAACTAGTTCAAACAATCAAGGCCATAT
* *
57232 GAATAATTATCTATTTCAAATCATTGTGAACTTTTGTTTTGTCATAAACAATTTTTTTTCATCAT
1 GAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCATAAACAATTTTTTTTCATCAT
* * *
57297 ACAAGCCTATTTGGAATAAAATAATACTAATTTACTAATATTTCAAAAATTAATAAAAGATTTAA
66 ACAAGCTTATTCGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAAAGATTTAA
* * *
57362 AAAGTAAATTTTTTACTGAACCAGTTCACATTGTTATGACTATTTGAACAATTATATATTTCAAA
131 AAA--AAATTTTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAA
* * * * * * * * *
57427 TTGTTATAACCTTTTGTTATCTCATAAAACAATTATTTCTATTCACACAAGTTTATTCAAAATAA
194 TCGTTATAACCTTTTATTTTATCATAAAACAAATGTTTCTATACATAAAAGTTTATTC-AAATAA
* * * * * ***
57492 AATAATACTAATATAATAATA-TTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTTTT
258 AATAATATTAATTTATTAATATTTC-AAAAATTAAGAAGTAAGAGATTTAAAAAATAAATCAGTT
* * * * *
57556 TACTGAACTAGTTCAAATATTTAAGGCTATAT
322 TACTAAACTAGTTCAAACAATCAAGGCCATAT
* * * *
57588 GAACAATTCTTTATTTCAAATCATTATGACCTTTTGTTTTGTCGTAAAACAA-TTTTTTTCATTT
1 GAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCAT-AAACAATTTTTTTTCA--T
* * * * * *
57652 CTTAGTAA-CTTATTCGGAATAAATTAAAACAAATTTATTAATATTTCAAAACTTAATAAGCAAA
63 CATA-CAAGCTTATTCGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAT----AAA
** * *
57716 AGATTTAAAAAACAATTCAGTTTGCCT-AACCAATTCAAATAATTATGACTATTTGAACAATTAT
123 AGATTTAAAAAA-AATT---TTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTAT
** ** * * *
57780 CTATTTCAAATCGTTATATTCTTTTATTTTGCCATAAAACAAATGTTT-TGTACATATAAGTTTG
184 CTATTTCAAATCGTTATAACCTTTTATTTTATCATAAAACAAATGTTTCTATACATAAAAGTTTA
** * *
57844 TTCAGAATAAAATAATATTAATTTATTAATATTTTGAAAATTAAGAAGTAAGAAATTTAAAAAGT
249 TTCA-AATAAAATAATATTAATTTATTAATATTTCAAAAATTAAGAAGTAAGAGATTTAAAAAAT
* * *
57909 AAAACTGTTTACTAAACCAGTTCAA
313 AAATCAGTTTACTAAACTAGTTCAA
57934 GTAAGAAATT
Statistics
Matches: 565, Mismatches: 115, Indels: 37
0.79 0.16 0.05
Matches are distributed among these distances:
353 2 0.00
354 73 0.13
355 183 0.32
356 73 0.13
357 6 0.01
358 46 0.08
359 2 0.00
360 1 0.00
361 5 0.01
362 96 0.17
363 73 0.13
364 5 0.01
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (353 bp):
GAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGTCATAAACAATTTTTTTTCATCAT
ACAAGCTTATTCGGAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAAAGATTTAA
AAAAAATTTTTTACTGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
GTTATAACCTTTTATTTTATCATAAAACAAATGTTTCTATACATAAAAGTTTATTCAAATAAAAT
AATATTAATTTATTAATATTTCAAAAATTAAGAAGTAAGAGATTTAAAAAATAAATCAGTTTACT
AAACTAGTTCAAACAATCAAGGCCATAT
Found at i:57775 original size:182 final size:178
Alignment explanation
Indices: 56856--57887 Score: 650
Period size: 175 Copynumber: 5.8 Consensus size: 178
56846 TCTGAAGTAG
* * * * * * *
56856 TTCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATTATTCTGATCTTTTGTTTAGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * * ** * * * *
56921 AAAAATAATTGTTTT-AGTTCATACAAGCTTATTCAAAATATAGTAATACTAATTTATTAAAATT
66 TAAAACAATTTTTTTCATTTCATACAAGCTTATTCGGAATAAAATAATACTAATTTAATAATATT
* * ** * * *
56985 TAAAAAATTAAT-A-AGAA-ATTTTTAAAAAATCTATTTACCGAA-TAA
131 TCAAAAATTAATAACAAAAGATTTAAAAAAAAT-TTTTTACTGAACCAA
* * * * * * *
57030 GTTCAAATAGTTATGACTATTTGAACAATCATCTAGTTAAAATCGTTATGACCTTTTATTTTATC
1 -TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTC
* * * * * * ** * ** *
57095 ATAAAACAA-CTGTTTCAATACATAAAAG-TTTTTCCAAAGTAAAATAATATTGCTTTATTAATA
65 ATAAAACAATTTTTTTCATTTCATACAAGCTTATTCGGAA-TAAAATAATACTAATTTAATAATA
* * **** * ** * ***
57158 TTTCCAAAATTAAGAAGTTGGAGTTTTAAAAAATAAATCAGTTTA-TCAAATTA
129 TTTCAAAAATTAATAA-CAAAAGATTT-AAAAA-AAAT-TTTTTACTGAACCAA
* * * * * * *
57211 TTCAAACAATCATGGCCATTTGAATAATTATCTATTTCAAATCATTGTGAACTTTTGTTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * *
57276 T-AAACAATTTTTTTTCA--TCATACAAGCCTATTTGGAATAAAATAATACTAATTTACTAATAT
66 TAAAACAA-TTTTTTTCATTTCATACAAGCTTATTCGGAATAAAATAATACTAATTTAATAATAT
*
57338 TTCAAAAATTAAT---AAAAGATTTAAAAAGTAAATTTTTTACTGAACCAG
130 TTCAAAAATTAATAACAAAAGATTTAAAAA--AAATTTTTTACTGAACCAA
* ** * ** * * *
57386 TTCACATTGTTATGACTATTTGAACAATTATATATTTCAAATTGTTATAACCTTTTGTTATCTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * ** *
57451 TAAAACAA-TTATTTC-TATTCACACAAGTTTATTCAAAATAAAATAATACTAATATAATAATA-
66 TAAAACAATTTTTTTCAT-TTCATACAAGCTTATTCGGAATAAAATAATACTAATTTAATAATAT
* * *
57513 TTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTTTTTACTGAACTAG
130 TTC-AAAAATTAATAAC-AAAAGATTT-AAAAA-AAA-TTTTTTACTGAACCAA
* * * * * * *
57567 TTCAAATATTTAAGGCTATATGAACAATTCTTTATTTCAAATCATTATGACCTTTTGTTTTGTCG
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
* * * * * *
57632 TAAAACAATTTTTTTCATTTCTTAGTAA-CTTATTCGGAATAAATTAAAACAAATTTATTAATAT
66 TAAAACAATTTTTTTCATTTCATA-CAAGCTTATTCGGAATAAAATAATACTAATTTAATAATAT
* **
57696 TTCAAAACTTAATAAGCAAAAGATTTAAAAAACAATTCAGTTTGCCT-AACCAA
130 TTCAAAAATTAATAA-CAAAAGATTTAAAAAA-AATT---TTTTACTGAACCAA
* * * *
57749 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTAT-ATTCTTTTATTTTGCC
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGA-CCTTTTGTTTTGTC
* * * * * * * * * *
57813 ATAAAACAAATGTTTT--GTACATATAAGTTTGTTCAGAATAAAATAATATTAATTTATTAATAT
65 ATAAAACAATTTTTTTCATTTCATACAAGCTTATTCGGAATAAAATAATACTAATTTAATAATAT
**
57876 TTTGAAAATTAA
130 TTCAAAAATTAA
57888 GAAGTAAGAA
Statistics
Matches: 655, Mismatches: 166, Indels: 67
0.74 0.19 0.08
Matches are distributed among these distances:
174 26 0.04
175 163 0.25
176 53 0.08
178 2 0.00
179 51 0.08
180 119 0.18
181 104 0.16
182 125 0.19
183 12 0.02
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.40
Consensus pattern (178 bp):
TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCA
TAAAACAATTTTTTTCATTTCATACAAGCTTATTCGGAATAAAATAATACTAATTTAATAATATT
TCAAAAATTAATAACAAAAGATTTAAAAAAAATTTTTTACTGAACCAA
Found at i:57950 original size:43 final size:43
Alignment explanation
Indices: 57889--57976 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
57879 GAAAATTAAG
*
57889 AAGTAAGAAATTTAAAAAGTAAAACTGTTTACTAAACCAGTTC
1 AAGTAAGAAATTTAAAAAGTAAAACTATTTACTAAACCAGTTC
*
57932 AAGTAAGAAATTTAAAAAGTAAAATTATTTACTAAACCAGTTC
1 AAGTAAGAAATTTAAAAAGTAAAACTATTTACTAAACCAGTTC
57975 AA
1 AA
57977 TTAGTTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (43 bp):
AAGTAAGAAATTTAAAAAGTAAAACTATTTACTAAACCAGTTC
Found at i:58182 original size:18 final size:19
Alignment explanation
Indices: 58154--58202 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 19
58144 CTGACCAGTG
*
58154 CAAATAGTTATGACTATTT
1 CAAATAATTATGACTATTT
58173 -AAATAATTAT--CTATTT
1 CAAATAATTATGACTATTT
*
58189 CAAATCATTATGAC
1 CAAATAATTATGAC
58203 CTTTTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.24
17 9 0.36
18 9 0.36
19 1 0.04
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (19 bp):
CAAATAATTATGACTATTT
Found at i:58357 original size:177 final size:175
Alignment explanation
Indices: 57935--58570 Score: 548
Period size: 180 Copynumber: 3.6 Consensus size: 175
57925 CCAGTTCAAG
* * * * * *
57935 TAAGAAATTTAAAAAGTAAAAT-TATTTA-CTAAACCAGTTCAATTAGTTATAACTATTTGAACA
1 TAAGAGATTTAAAAAAT-AAATCTATTTATC-AAACAAGTTCAAATAATTATGACTATTTGAACA
* * * * * * * *
57998 ATTATTTGTTTCAAATCATTATGACCATTTGTATTGTCATAAAATAATTATTTATGTTCATACGG
64 ATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCACAAAATAATT-TTTCTATTCATACAG
* * * *
58063 TCTTATTCGGAATAAAATAATACTAATTTATCAATATT-TTAAAATTAA
128 -CTTATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAA
* * *** ** * * * *
58111 TAAGTAATAGATTTAAAAAATGAATCAATTGGGCTGACCAGTGCAAATAGTTATGACTATTTAAA
1 TAAG----AGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAATTATGACTATTTGAA
* * *
58176 TAATTATCTATTTCAAATCATTATGACCTTTTGTTTTATCACAAAATAATTGTTTCTATAT-GTA
62 CAATTATCTATTTCAAATCATTATGACCTTTTGTTTTGTCACAAAATAATT-TTTCTAT-TCATA
* * *
58240 CTAGCTTATTTGAAATAATATAATTCTATTTTATTAATATTCTAAAAATTAA
125 C-AGCTTATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAA
* *
58292 TAAGAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAATTATGACAATTTGAATAAT
1 TAAGAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAATTATGACTATTTGAACAAT
* ** * * *
58357 TATCTATTTCTAATCGCTATAAACCTTTT-TTTTGTC-CTAAAACAAAATTTTCTATTCATACAA
66 TATCTATTTCAAATCATTAT-GACCTTTTGTTTTGTCAC-AAAA-TAATTTTTCTATTCATAC-A
* * * *
58420 GCTTATTTCAAATAAAATTATACAAATTTATTAATATTC-AGACAACTAATAA
127 GCTTATTTGAAATAAAATAATACTAATTTATTAATATTCTA-A-AA--ATTAA
* * * *
58472 GTAAAAGATTTAAAAAATAAATCTATTTATCAAATAAGTTTAACTAATTATGACTATTTGAACAA
1 -TAAGAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAATTATGACTATTTGAACAA
* ** *
58537 TTATTTATTTCAAATTGTTATGACTTTTTGTTTT
65 TTATCTATTTCAAATCATTATGACCTTTTGTTTT
58571 CGCATGACAC
Statistics
Matches: 370, Mismatches: 71, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
176 7 0.02
177 121 0.33
178 12 0.03
179 3 0.01
180 132 0.36
181 95 0.26
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (175 bp):
TAAGAGATTTAAAAAATAAATCTATTTATCAAACAAGTTCAAATAATTATGACTATTTGAACAAT
TATCTATTTCAAATCATTATGACCTTTTGTTTTGTCACAAAATAATTTTTCTATTCATACAGCTT
ATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAA
Found at i:59016 original size:17 final size:18
Alignment explanation
Indices: 58985--59026 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
58975 CACAATTATT
*
58985 AATTATTAATTAAAAATA
1 AATTATTAATAAAAAATA
59003 AATTA-TAATAAAAAATA
1 AATTATTAATAAAAAATA
*
59020 AACTATT
1 AATTATT
59027 TGTTATGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATTAATAAAAAATA
Found at i:59359 original size:17 final size:15
Alignment explanation
Indices: 59323--59369 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
59313 ATACAGTTAG
59323 AATTAA-TTTAATTA
1 AATTAATTTTAATTA
59337 AA-TAATTTTAATTA
1 AATTAATTTTAATTA
59351 TCAATTAATTTATAATTA
1 --AATTAATTT-TAATTA
59369 A
1 A
59370 TAAAAACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
16 3 0.11
17 6 0.21
18 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATTTTAATTA
Found at i:59973 original size:16 final size:16
Alignment explanation
Indices: 59952--59983 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59942 TTATTAGATT
59952 AATATTATTTATTTTG
1 AATATTATTTATTTTG
59968 AATATTATTTATTTTG
1 AATATTATTTATTTTG
59984 TTCAGTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
AATATTATTTATTTTG
Found at i:60439 original size:11 final size:10
Alignment explanation
Indices: 60394--60443 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
60384 AGATTTAAAA
60394 AATTAAATA-
1 AATTAAATAT
60403 AATTAGAATAT
1 AATTA-AATAT
* *
60414 ATTTAATTAT
1 AATTAAATAT
60424 AATTAAATATT
1 AATTAAATA-T
60435 AATTAAATA
1 AATTAAATA
60444 AACTAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 5 0.15
10 15 0.44
11 14 0.41
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
AATTAAATAT
Found at i:60584 original size:22 final size:22
Alignment explanation
Indices: 60565--60618 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
60555 GATTTTTACT
*
60565 TAATTATTATTATATATTTATA
1 TAATTAATATTATATATTTATA
*
60587 TAATTAATATTATATTAATTATA
1 TAATTAATATTATA-TATTTATA
60610 -ATATTAATA
1 TA-ATTAATA
60619 ATTAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TAATTAATATTATATATTTATA
Found at i:60615 original size:23 final size:23
Alignment explanation
Indices: 60565--60627 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
60555 GATTTTTACT
* *
60565 TAATTATTATTATA-TATTTATA
1 TAATTAATATTATATTAATTATA
60587 TAATTAATATTATATTAATTATA
1 TAATTAATATTATATTAATTATA
60610 -ATATTAATAATTA-ATTAA
1 TA-ATTAAT-ATTATATTAA
60628 AACCAATTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 14 0.39
23 18 0.50
24 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTAATATTATATTAATTATA
Found at i:60624 original size:19 final size:17
Alignment explanation
Indices: 60591--60626 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
60581 TTTATATAAT
60591 TAATATTATATTAATTA
1 TAATATTATATTAATTA
60608 TAATATTAATAATTAATTA
1 TAATATT-AT-ATTAATTA
60627 AAACCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATATTATATTAATTA
Found at i:60746 original size:18 final size:18
Alignment explanation
Indices: 60715--60778 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
60705 ATAATCTTTA
**
60715 TAATAATTCTTATAATAT
1 TAATAATTAATATAATAT
60733 TAATAATTAATATAAT-T
1 TAATAATTAATATAATAT
* *
60750 TATTCAATTAAACAATAATAT
1 TAAT-AATT-AA-TATAATAT
60771 TAATAATT
1 TAATAATT
60779 TAGATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
17 4 0.11
18 18 0.49
19 2 0.05
20 9 0.24
21 4 0.11
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATAATTAATATAATAT
Found at i:62778 original size:6 final size:6
Alignment explanation
Indices: 62767--62814 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
62757 ACTTACAAAC
* *
62767 ATAAAT ATAAAT ATAAAT ATAAATT CTAGAGAT ACAAAT ATAAAT ATA
1 ATAAAT ATAAAT ATAAAT ATAAA-T ATA-A-AT ATAAAT ATAAAT ATA
62815 TAGATTACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 27 0.77
7 4 0.11
8 3 0.09
9 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (6 bp):
ATAAAT
Found at i:63881 original size:182 final size:179
Alignment explanation
Indices: 63507--63921 Score: 423
Period size: 183 Copynumber: 2.3 Consensus size: 179
63497 GCATAGAGAG
* * * * *
63507 AATAAAATAATACTAATTTATTAATATTTCCTAAAA--TAATAAGAAATTT---AAACATAAATT
1 AATAAAATAATACTAATTTAATAATAGTT-C-AAAATTTAATAAGAGATTTAAAAAAAATAAATA
* ** ** * * *
63567 TGTTTATAGAATCAATTAAAATAATTATGCCCATTTGAATGATTATTTGTTTCAAATCGTTATGA
64 TGTTTATAGAATCAATTAAAATAATTATGACCATTTGAACAATTATCAGTCTCAAATCATTAAGA
* * * * *
63632 CCTTTTGTTCTGTCATAAAATATTTGTTTTTGATCTTACAAGCTTATTCGA
129 CCTTTTGTTCTGTCATAAAACAATTATTTTTGATCATAAAAGCTTATTCGA
* **
63683 AATAAAATATTACTAATTTTTTAATAGTTCAAAAATTAATAAGTAAGAGATTTAAAAAAAATAAA
1 AATAAAATAATACTAATTTAATAATAGTTC-AAAATT--TAA-TAAGAGATTTAAAAAAAATAAA
* * * * *
63748 TATGTTTATTGAATCAGTTCAAATAGTTATGACTATTTGAACAATTATCAGTCTCAAATCATTAA
62 TATGTTTATAGAATCAATTAAAATAATTATGACCATTTGAACAATTATCAGTCTCAAATCATTAA
* *
63813 GATC-TTTGTTTTGTCATAAAACAATTATTTATT-ATCATAAAAGCTTATTC-A
127 GACCTTTTGTTCTGTCATAAAACAATTATTT-TTGATCATAAAAGCTTATTCGA
** *
63864 GTTAAAAATAATACTAATTTAATAATATTTCAAAATTTAATAAGAGATTTAAAAAAAA
1 AAT-AAAATAATACTAATTTAATAATAGTTCAAAATTTAATAAGAGATTTAAAAAAAA
63922 AATTTTTTGC
Statistics
Matches: 196, Mismatches: 33, Indels: 18
0.79 0.13 0.07
Matches are distributed among these distances:
175 5 0.03
176 26 0.13
178 18 0.09
179 6 0.03
180 9 0.05
181 8 0.04
182 60 0.31
183 64 0.33
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (179 bp):
AATAAAATAATACTAATTTAATAATAGTTCAAAATTTAATAAGAGATTTAAAAAAAATAAATATG
TTTATAGAATCAATTAAAATAATTATGACCATTTGAACAATTATCAGTCTCAAATCATTAAGACC
TTTTGTTCTGTCATAAAACAATTATTTTTGATCATAAAAGCTTATTCGA
Found at i:64205 original size:25 final size:26
Alignment explanation
Indices: 64171--64229 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
64161 TAATTTTCAT
*
64171 TAAATTATTAATATAGA-ATTAATTAA
1 TAAATAATTAATATAGATATTAA-TAA
*
64197 T-AATAATTAATATTGATATTAATAA
1 TAAATAATTAATATAGATATTAATAA
64222 TAAATAAT
1 TAAATAAT
64230 ATTAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
TAAATAATTAATATAGATATTAATAA
Found at i:64220 original size:22 final size:22
Alignment explanation
Indices: 64192--64239 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
64182 TATAGAATTA
* *
64192 ATTAATAATAATTAATATTGAT
1 ATTAATAATAAATAATATTAAT
64214 ATTAATAATAAATAATATTAAT
1 ATTAATAATAAATAATATTAAT
64236 ATTA
1 ATTA
64240 TTATTAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTAATAATAAATAATATTAAT
Found at i:64820 original size:181 final size:181
Alignment explanation
Indices: 64566--65210 Score: 579
Period size: 181 Copynumber: 3.6 Consensus size: 181
64556 TTAATTTTTA
* * * * * * * *
64566 AAATACTAATAATTTAATATTATTTTATTTTGAACAAACTTATATGAACAAAAACATTTGTTTTA
1 AAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGAAAAACAATTGTTTTA
** * *
64631 CAACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAA
66 TGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAA
* * * * ** *
64696 TTGGTTTGGTAAACAAATTTATTTTTTAAAT-TTATCAGTTATTAA-ATTTC
131 CTGATTCGATAAACAAATTTATTTTTTAAATCTCCT-ACTTATTAACATTTC
* * * * * *
64746 ATAATATTACTAGATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGATAAATAATTATTTT
1 A-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGAAAAACAATTGTTTT
* * * * ** *
64811 ATGACAAAACAAAAGGTTATAACGATTGGAAATATATAATGGTTCAAATAGTCATAACTATTTGA
65 ATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGA
*
64876 ACTGATTCGATAAACAAATTTATTTTTTAAATCTCCTACTTATTAACTTTTC
130 ACTGATTCGATAAACAAATTTATTTTTTAAATCTCCTACTTATTAACATTTC
* **
64928 AAATATTAATAAATTAGTATTATTTTATTTTGAATAGGCTTGTATGCTGAAAAACAATTGTTTTA
1 AAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGAAAAACAATTGTTTTA
* * *
64993 TGACAAAACAAAAGTTCATAATGATTTGAAATAGATAATTGTTTAAAT-GCC----C-A--T-AA
66 TGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAA
* * * * *
65049 -TTATT---TAAACTAATTTATTTTTTAAATCT-TTAACTTA-TCA-ATTGTT
131 CTGATTCGATAAACAAATTTATTTTTTAAATCTCCT-ACTTATTAACATT-TC
* * * ** * ***
65095 ATAATAGTAATAAAGTAATATTATTTTATTTCAAATAAGCTTTTATGAACTGAAACAATTGTTTT
1 A-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGAAAAACAATTGTTTT
* * * ** * *
65160 ATGATAAAATATAAGGTCATAACAATTTTAAATAGATAATTGTTCAAATAG
65 ATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAG
65211 TAAAAAATAT
Statistics
Matches: 382, Mismatches: 76, Indels: 25
0.79 0.16 0.05
Matches are distributed among these distances:
166 2 0.01
167 5 0.01
168 120 0.31
169 1 0.00
171 4 0.01
172 2 0.01
173 1 0.00
175 1 0.00
176 1 0.00
180 3 0.01
181 235 0.62
182 7 0.02
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (181 bp):
AAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTGTATGAAGAAAAACAATTGTTTTA
TGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAA
CTGATTCGATAAACAAATTTATTTTTTAAATCTCCTACTTATTAACATTTC
Found at i:65195 original size:168 final size:167
Alignment explanation
Indices: 64886--65208 Score: 402
Period size: 168 Copynumber: 1.9 Consensus size: 167
64876 ACTGATTCGA
* * * *
64886 TAAACAAATTTATTTTTTAAATCTCCTACTTATTAACTTTTCAAATATTAATAAATTAGTATTAT
1 TAAACAAATTTATTTTTTAAATCTCCTACTTATCAACTTTTCAAATAGTAATAAAGTAATATTAT
** * * **
64951 TTTATTTTGAATAGGCTTGTATGCTGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAATG
66 TTTATTTCAAATAAGCTTGTATGCTG-AAAACAATTGTTTTATGACAAAACAAAAGGTCATAACA
*
65016 ATTTGAAATAGATAATTGTTTAAATGCCCATAATTATT
130 ATTTGAAATAGATAATTGTTCAAATGCCCATAATTATT
* *
65054 TAAACTAATTTATTTTTTAAATCT-TTAACTTATCAA-TTGTT-ATAATAGTAATAAAGTAATAT
1 TAAACAAATTTATTTTTTAAATCTCCT-ACTTATCAACTT-TTCA-AATAGTAATAAAGTAATAT
* * * *
65116 TATTTTATTTCAAATAAGCTTTTATGAACTG-AAACAATTGTTTTATGATAAAATATAAGGTCAT
63 TATTTTATTTCAAATAAGCTTGTATG--CTGAAAACAATTGTTTTATGACAAAACAAAAGGTCAT
*
65180 AACAATTTTAAATAGATAATTGTTCAAAT
126 AACAATTTGAAATAGATAATTGTTCAAAT
65209 AGTAAAAAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
167 4 0.03
168 125 0.95
170 3 0.02
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (167 bp):
TAAACAAATTTATTTTTTAAATCTCCTACTTATCAACTTTTCAAATAGTAATAAAGTAATATTAT
TTTATTTCAAATAAGCTTGTATGCTGAAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAA
TTTGAAATAGATAATTGTTCAAATGCCCATAATTATT
Found at i:66126 original size:185 final size:176
Alignment explanation
Indices: 65688--66309 Score: 529
Period size: 177 Copynumber: 3.4 Consensus size: 176
65678 TAATTTTTAA
* *
65688 ATAAATTTA-TTTTTAAAATTTTTACTTATTAATTTTTGGAACATTAATAAATTTATATTATTTT
1 ATAAATTTATTTTTTAAAATTTTTACTTATTAATTTTTGGAATATTAATAAATTAATATTATTTT
* * * * *
65752 -GTTTGAAATAAGCTTAAATGAATAGAACCAATTGTTTTATTACAAAACAAAAAGTTGCAATGTT
66 AATTCG-AATAAGC-TAAATGAATAGAAACAATTGTTTTATTACAAAACAAAAAGTTACAATGAT
*
65816 TTGAAATAGATAATTATTAAGATAGTCATAACTATTTGAACTTGTTTG
129 TTGAAATAGATAAATATTAAGATAGTCATAACTATTTGAACTTGTTTG
* * *
65864 ATAACAAATTTATTTTTT-TAA-TTCT-CTT-TGTAATTTTTGGAATATTAATAAATTAGTATTA
1 AT---AAATTTATTTTTTAAAATTTTTACTTAT-TAATTTTTGGAATATTAATAAATTAATATTA
* * * *
65925 TTTTATTTCAAATAAGCTAACATGAATTGAAACAATTGTTTTATTACAAAACAAAATGTTACAAT
62 TTTTAATTCGAATAAGCTAA-ATGAATAGAAACAATTGTTTTATTACAAAACAAAAAGTTACAAT
* *
65990 GATTTGAAGTATAATTATTCAAATAGTTCAA-ATAGTCATGACTATTTGAACTTGTTTG
126 GATTTGAA--AT-A-GA-T-AAATA-TT-AAGATAGTCATAACTATTTGAACTTGTTTG
* * * * *
66048 GTAAACTTATTTTTTAAAATCTTTTACTTATTAATTGTT-AAGATATTAATAAATCAATATTATT
1 ATAAATTTATTTTTTAAAAT-TTTTACTTATTAATTTTTGGA-ATATTAATAAATTAATATTATT
* * * * * *
66112 TTAATTCGAATAAGCTCATAT-AGATGGAAACAATTGTTTTATGATAAAACAAAAAAGTCATAA-
64 TTAATTCGAATAAGCT-AAATGA-ATAGAAACAATTGTTTTATTACAAAAC-AAAAAGTTACAAT
* * * * *
66175 GAATTTTGAAATAAATAATTATTTAGATAGTCATAACGATTT-ATATTTGTTTG
126 G-A-TTTGAAATAGATAAATATTAAGATAGTCATAACTATTTGA-ACTTGTTTG
* **
66228 ATAAACAGATTTA-TTTTT-AAATCTTTTACTTATTAATTGTCTT--AATACTAATAAATTTGTA
1 AT--A-A-ATTTATTTTTTAAAAT-TTTTACTTATTAATT-T-TTGGAATATTAATAAATTAATA
66289 TTATTTT-ATTCGAAGTAAGCT
59 TTATTTTAATTCGAA-TAAGCT
66310 TATATGAACA
Statistics
Matches: 365, Mismatches: 46, Indels: 64
0.77 0.10 0.13
Matches are distributed among these distances:
176 6 0.02
177 89 0.24
178 5 0.01
179 13 0.04
180 31 0.08
181 24 0.07
182 51 0.14
183 12 0.03
184 41 0.11
185 75 0.21
186 12 0.03
187 6 0.02
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (176 bp):
ATAAATTTATTTTTTAAAATTTTTACTTATTAATTTTTGGAATATTAATAAATTAATATTATTTT
AATTCGAATAAGCTAAATGAATAGAAACAATTGTTTTATTACAAAACAAAAAGTTACAATGATTT
GAAATAGATAAATATTAAGATAGTCATAACTATTTGAACTTGTTTG
Found at i:66795 original size:13 final size:13
Alignment explanation
Indices: 66777--66850 Score: 59
Period size: 13 Copynumber: 6.1 Consensus size: 13
66767 ATTTTAATTA
66777 ATTAATATATATT
1 ATTAATATATATT
66790 ATTAAT-TA-A--
1 ATTAATATATATT
* * *
66799 AATAATATTTATA
1 ATTAATATATATT
*
66812 ATTACTA-ATATT
1 ATTAATATATATT
66824 ATTAATATATATT
1 ATTAATATATATT
* *
66837 ATCATTATATATT
1 ATTAATATATATT
66850 A
1 A
66851 GGATAGTTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
9 5 0.11
10 1 0.02
11 2 0.04
12 11 0.23
13 28 0.60
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATATATATT
Found at i:66813 original size:18 final size:19
Alignment explanation
Indices: 66763--66826 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
66753 ATAAATTTTT
66763 TAATATTT-TAATTAATTAA
1 TAATATTTATAATTAA-TAA
66782 T-ATATATTATTAATTAA-AA
1 TAATAT-TTA-TAATTAATAA
*
66801 TAATATTTATAATTACTAA
1 TAATATTTATAATTAATAA
*
66820 TATTATT
1 TAATATT
66827 AATATATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 10 0.26
19 17 0.45
20 4 0.11
21 7 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATTTATAATTAATAA
Found at i:66815 original size:22 final size:21
Alignment explanation
Indices: 66770--66815 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
66760 TTTTAATATT
* *
66770 TTAATTAATTAATATATATTA
1 TTAATTAAATAATATATATAA
*
66791 TTAATTAAAATAATATTTATAA
1 TTAATT-AAATAATATATATAA
66813 TTA
1 TTA
66816 CTAATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTAAATAATATATATAA
Found at i:67077 original size:23 final size:23
Alignment explanation
Indices: 67046--67096 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
67036 ATTTAATTTA
*
67046 TATTTAATT-AATATAAACTAGTT
1 TATTGAATTAAATATAAA-TAGTT
*
67069 TATTGAATTAAATTTAAATAGTT
1 TATTGAATTAAATATAAATAGTT
67092 TATTG
1 TATTG
67097 TTATCGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (23 bp):
TATTGAATTAAATATAAATAGTT
Found at i:67783 original size:23 final size:23
Alignment explanation
Indices: 67732--67824 Score: 74
Period size: 23 Copynumber: 4.3 Consensus size: 23
67722 AAAATAAATA
*
67732 AATATTATA-TAAT-TAAT-AATT
1 AATATTATATTAATATTATCAA-T
* * *
67753 AATTTTATAATTAATATTTTGAAT
1 AATATTAT-ATTAATATTATCAAT
67777 AA-A-T-TATTAATATTATCAAT
1 AATATTATATTAATATTATCAAT
*
67797 AATATTATATTAATATTATTAAT
1 AATATTATATTAATATTATCAAT
67820 -ATATT
1 AATATT
67825 TAGTAATCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 15 0.26
21 9 0.16
22 8 0.14
23 19 0.33
24 5 0.09
25 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
AATATTATATTAATATTATCAAT
Found at i:67787 original size:20 final size:21
Alignment explanation
Indices: 67762--67824 Score: 67
Period size: 20 Copynumber: 3.0 Consensus size: 21
67752 TAATTTTATA
* *
67762 ATTAATATTTTGAATAA-ATT
1 ATTAATATTATCAATAATATT
67782 ATTAATATTATCAATAATATTAT
1 ATTAATATTATCAATAATA-T-T
*
67805 ATTAATATTATTAAT-ATATT
1 ATTAATATTATCAATAATATT
67825 TAGTAATCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 16 0.43
21 2 0.05
22 4 0.11
23 15 0.41
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAATATTATCAATAATATT
Found at i:67816 original size:32 final size:31
Alignment explanation
Indices: 67732--67821 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 31
67722 AAAATAAATA
* *
67732 AATATTATATAATTAATAATTAATTTTATAATT
1 AATATTATATAA-T-ATTATTAATATTATAATT
*
67765 AATATTTTGAATAA-ATTATTAATATTATCAA-T
1 AATATTAT--ATAATATTATTAATATTAT-AATT
67797 AATATTATATTAATATTATTAATAT
1 AATATTATA-TAATATTATTAATAT
67822 ATTTAGTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
30 1 0.02
31 3 0.06
32 31 0.65
33 9 0.19
35 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
AATATTATATAATATTATTAATATTATAATT
Found at i:69197 original size:180 final size:182
Alignment explanation
Indices: 68844--69354 Score: 511
Period size: 180 Copynumber: 2.8 Consensus size: 182
68834 GATAATTGTG
* * * *
68844 ACTATTTG-AATAATTATTTATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTATT
1 ACTATCTGAAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTA
** ** * * * * * * * * *
68908 TTTGTTCATAAAAGCTTATTTGGATTAAAATAATATTAATTTATTAATATTTAGATAATTAATAA
66 TTAATAAATAAAAGCTTATTTGAAATAAAACAATACTAACTTATCAATATTCAAAAAATTAATAA
*
68973 GTAAAAGATTTAAAAAATAAATATGTTTATCAAATAAATTCAAATAGTAATA
131 GTAAAAGATTTAAAAAATAAATATGTTTATCAAACAAATTCAAATAGTAATA
* * *
69025 ACTATCT-AAATAATTATCTATTTCAAATTGTTTTGATCTTTTGTTTTGTCATAAAA-AATTGTA
1 ACTATCTGAAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTA
* * *
69088 TTAATAAATATAGGCTTATTTGAAATAAAACAATACTAACTTATCAATATTCAAAAAATTAATGA
66 TTAATAAATAAAAGCTTATTTGAAATAAAACAATACTAACTTATCAATATTCAAAAAATTAATAA
* * * * *
69153 GTAAGAGATTTAAAAAATAAATTTGTTTA-CGAAACAAGTTCAAATAGTTATG
131 GTAAAAGATTTAAAAAATAAATATGTTTATC-AAACAAATTCAAATAGTAATA
* * * * *
69205 ACTATTTGAAA-AATTATCTATTTCAAATCATTAAGACCTTTTATTTTGTCATAAAATAATTGT-
1 ACTATCTGAAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTA
** * * * * * **
69268 TTACATTCATACAAGCTTATTTTG-AAGAAAATAATA-TAAATTTAAT-AATATTCTAAGGATTA
66 TTA-ATAAATAAAAGCTTA-TTTGAAATAAAACAATACT-AACTT-ATCAATATTCAAAAAATTA
*
69330 ACAAGTAAAA-ATTTAAAAAATAAAT
127 ATAAGTAAAAGATTTAAAAAATAAAT
69355 CTATATTAGT
Statistics
Matches: 273, Mismatches: 49, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
179 1 0.00
180 162 0.59
181 104 0.38
182 6 0.02
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (182 bp):
ACTATCTGAAATAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTA
TTAATAAATAAAAGCTTATTTGAAATAAAACAATACTAACTTATCAATATTCAAAAAATTAATAA
GTAAAAGATTTAAAAAATAAATATGTTTATCAAACAAATTCAAATAGTAATA
Found at i:69907 original size:17 final size:18
Alignment explanation
Indices: 69871--69911 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
69861 TATATATCAT
*
69871 TATTAATAAGGATTAATAA
1 TATTAATAA-GATAAATAA
69890 TATTAATAA-ATAAATAA
1 TATTAATAAGATAAATAA
69907 TATTA
1 TATTA
69912 GTTTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
TATTAATAAGATAAATAA
Found at i:70115 original size:26 final size:26
Alignment explanation
Indices: 70085--70145 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
70075 AAAACAATTG
70085 TTATTAATAATTTGTATATT-AAATAA
1 TTATTAATAATTT-TATATTGAAATAA
*
70111 TTATTAATAATTTTTTATTGAAATAA
1 TTATTAATAATTTTATATTGAAATAA
70137 TTATTAATA
1 TTATTAATA
70146 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
TTATTAATAATTTTATATTGAAATAA
Found at i:70284 original size:19 final size:20
Alignment explanation
Indices: 70248--70291 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
70238 ATATTATTCT
*
70248 ATTATATAAGCAAATTATAA
1 ATTATATAAACAAATTATAA
70268 ATTATATAAAC-AATTATAA
1 ATTATATAAACAAATTATAA
*
70287 TTTAT
1 ATTAT
70292 CTAATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTATATAAACAAATTATAA
Found at i:70383 original size:21 final size:21
Alignment explanation
Indices: 70349--70389 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
70339 ATATATAACA
*
70349 ATAATAAATAAATTATTAATG
1 ATAATAAATAAATTAATAATG
* *
70370 ATAATAATTTAATTAATAAT
1 ATAATAAATAAATTAATAAT
70390 ATTTATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAATAAATAAATTAATAATG
Found at i:70567 original size:18 final size:18
Alignment explanation
Indices: 70513--70569 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
70503 TAGTTATAAC
70513 ATTATAA-TACATATAATA
1 ATTATAAGTAC-TATAATA
*
70531 ATAAT-AGTA-TATAATTA
1 ATTATAAGTACTATAA-TA
70548 ATTATAAGTACTATAATA
1 ATTATAAGTACTATAATA
70566 ATTA
1 ATTA
70570 GTAATAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 16 0.48
19 5 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTATAAGTACTATAATA
Found at i:70577 original size:32 final size:34
Alignment explanation
Indices: 70513--70577 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 34
70503 TAGTTATAAC
70513 ATTATAATACATATAATAATAATAGTATATAATTA
1 ATTATAATACATATAATAAT-ATAGTATATAATTA
70548 ATTATAAGTAC-TATAATAAT-TAGTA-ATAAT
1 ATTATAA-TACATATAATAATATAGTATATAAT
70578 CTTAAACTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.17
33 5 0.17
35 16 0.55
36 3 0.10
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (34 bp):
ATTATAATACATATAATAATATAGTATATAATTA
Found at i:71359 original size:18 final size:17
Alignment explanation
Indices: 71318--71366 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
71308 AACAAAAGTT
*
71318 CATAATGATTTGAAATAG
1 CATAATTATTT-AAATAG
71336 -ATAATTATTTAAATAG
1 CATAATTATTTAAATAG
71352 CCATAATTATTTAAA
1 -CATAATTATTTAAA
71367 CTGATTCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 6 0.21
17 9 0.32
18 13 0.46
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (17 bp):
CATAATTATTTAAATAG
Found at i:71425 original size:181 final size:178
Alignment explanation
Indices: 70791--71817 Score: 798
Period size: 176 Copynumber: 5.8 Consensus size: 178
70781 AATTTAGTAC
* * * * ** * * *
70791 GATTTGAAATAAATAAATGTTCAAATTGTTATAACTAATTGAACT-AGTAT-GGTAAATAGATTT
1 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTGA-T-TCGATAAACAGATTT
* * *
70854 ATTTATTAAA--TCT-CTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTCGAAC
64 ATTT-TTAAATCTCTACTTATTAATTTTTGTAATATTAATAAATTAGTATTATTTTATTTCGAAT
* * ** * * *
70916 AAACTTATATGAACAAAAACATTTGTTTTACGATAAAATAAAAGGTCATAAC
128 AAGCTTGTATG-ATGAAAACAATTGTTTTATGATAAAATAAAAGGTCATAAT
* * * * *
70968 GATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAA-TTAGTTCGGTAAACAAATTTA
1 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTGA-TTCGATAAACAGATTTA
* * * ** * *
71032 TTTTTAAATCTATTAGTTATTAAATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAATA
65 TTTTTAAATCT-CTACTTATTAATTTTTGTAATATTAATAAATTAGTATTATTTTATTTCGAATA
* *
71097 AGCTTGTATGAAGATAAATAATTGTTTTATGATAAAATAAAAGG---T--T
129 AGCTTGTATGATGA-AAACAATTGTTTTATGATAAAATAAAAGGTCATAAT
* * * *
71143 GATTGGAAATATATAATTGTTCAAATAGCCATAACTATTTGAATTGATAT-GATAAACAGATTTA
1 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTGAT-TCGATAAACAGATTTA
**
71207 TTTTTTAAATCTCCTACTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTA-TTCTGAA
65 -TTTTTAAATCT-CTACTTATTAATTTTTGTAATATTAATAAATTAGTATTATTTTATTTC-GAA
* * * *
71271 TAGGCTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAAT
127 TAAGCTTGTATGATG-AAAACAATTGTTTTATGATAAAATAAAAGGTCATAAT
* * * **
71324 GATTTGAAATAGATAATTATTTAAATAGCCATAATTATTTAAACTGATTCGATAAATTGATTTAT
1 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTGATTCGATAAACAGATTTAT
* * *
71389 GTTTTAAATCTCTAACTTATCAATTTTTGTAATATTAATAAAGTAATATTATTTTATTTC-AGAT
66 -TTTTAAATCTCT-ACTTATTAATTTTTGTAATATTAATAAATTAGTATTATTTTATTTCGA-AT
* *
71453 AAGCTTTTATGAACTG-AAACAATTGTTTTATGATAAAATATAAGGTCATAAT
128 AAGCTTGTATG-A-TGAAAACAATTGTTTTATGATAAAATAAAAGGTCATAAT
* * * * * * * *
71505 TATTTTAAATGGATAATTGTTCAAATAGTCAAAAATATTTGAACTTG-TTC-AGTAAATAGATTT
1 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAAC-TGATTCGA-TAAACAGATTT
* * * *
71568 -TTTTTCTAAT-T-T-CTTAATAATTTTT-TGAATGTTAATAAATTAGTATTATTTTATTTCAAA
64 ATTTTT-AAATCTCTACTTATTAATTTTTGT-AATATTAATAAATTAGTATTATTTTATTTCGAA
* ** * * *
71628 TAAGCATGTATGAGTTG-AAGTAATTATTTTATGACT-AAACAAAAGGTCAAAAT
127 TAAGCTTGTATGA--TGAAAACAATTGTTTTATGA-TAAAATAAAAGGTCATAAT
* * * *** * * *
71681 AATTTTAAATAGATAATTGATT-TAATAGTTTTAACTATTTGAATTGATTC-AGCAAACACATTT
1 GATTTGAAATAGATAATT-ATTCAAATAGCCATAACTATTTGAACTGATTCGA-TAAACAGATTT
* * * * * *
71744 ATTTTTTAAAAC-CTTACTTATTAATGTTTAG-AATATTATTAATTTAGCAATATTTTACTCTT-
64 A-TTTTTAAATCTC-TACTTATTAAT-TTTTGTAATATTAATAAATTAGTATTATTTTA-T-TTC
71806 GAATAAGCTTGT
124 GAATAAGCTTGT
71818 TGAACATAAA
Statistics
Matches: 687, Mismatches: 120, Indels: 82
0.77 0.13 0.09
Matches are distributed among these distances:
175 58 0.08
176 222 0.32
177 60 0.09
178 7 0.01
179 10 0.01
180 114 0.17
181 206 0.30
182 8 0.01
183 2 0.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (178 bp):
GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTGATTCGATAAACAGATTTAT
TTTTAAATCTCTACTTATTAATTTTTGTAATATTAATAAATTAGTATTATTTTATTTCGAATAAG
CTTGTATGATGAAAACAATTGTTTTATGATAAAATAAAAGGTCATAAT
Found at i:71591 original size:357 final size:350
Alignment explanation
Indices: 70842--71705 Score: 889
Period size: 357 Copynumber: 2.4 Consensus size: 350
70832 AACTAGTATG
* * * *
70842 GTAAATAGATTTATTTATTAAATCTCTTATTAATTTTTGAAATATTAATAAATTAATATTATTTT
1 GTAAATAGATTTATTT-TTTAATTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTT
* * * ** * * * * *
70907 ATTTCGAACAAACTTATATGAACAAAAACATTTGTTTTACGATAAAATAAAAGGTCATAACGATT
65 ATTTCGAATAAGCTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATT
* * * * * *
70972 TGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTAGTTCGGTAAACAAATTTATTTTT
130 TGAAATAGATAATTATTTAAATAGCCATAACTATTTAAATGAGTTCGATAAACAAATTTATTTTT
* * * * * * *
71037 AAATCTATTAGTTATTAAATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAATAAGCTT
195 AAATCTATAACTTATCAAATTTCATAATATTAATAAAGTAATATTATTTTATTTCGAATAAGCTT
* *
71102 GTATGAAGATAAATAATTGTTTTATGATAAAATAAAAGGTTGATTGGAAATATATAATTGTTCAA
260 GTATGAAGATAAACAATTGTTTTATGATAAAATAAAAGGTTGATTGGAAATAGATAATTGTTCAA
* *
71167 ATAGCCATAACTATTTGAATTGATAT
325 ATAGCCAAAAATATTTGAATTGATAT
*
71193 GATAAACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTCAAATATTAATAAATTAGTATT
1 G-TAAATAGATTTATTTTTT-AAT-T--T-CTTATTAATTTTTCAAATATTAATAAATTAGTATT
* *
71258 ATTTTA-TTCTGAATAGGCTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATA
60 ATTTTATTTC-GAATAAGCTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATA
* ***
71322 ATGATTTGAAATAGATAATTATTTAAATAGCCATAATTATTTAAACTGA-TTCGATAAATTGATT
124 ATGATTTGAAATAGATAATTATTTAAATAGCCATAACTATTTAAA-TGAGTTCGATAAACAAATT
* * **
71386 TATGTTTTAAATCTCTAACTTATCAATTTTTGTAATATTAATAAAGTAATATTATTTTATTTC-A
188 TAT-TTTTAAATCTATAACTTATCAAATTTCATAATATTAATAAAGTAATATTATTTTATTTCGA
* * * * **
71450 GATAAGCTTTTATGAA-CTGAAACAATTGTTTTATGATAAAATATAAGGTCATAATTATTTTAAA
252 -ATAAGCTTGTATGAAGAT-AAACAATTGTTTTATGATAAAATAAAAGG---T--TGATTGGAAA
* * *
71514 TGGATAATTGTTCAAATAGTCAAAAATATTTGAACTTGTTCA-
310 TAGATAATTGTTCAAATAGCCAAAAATATTTGAA-TTGAT-AT
* ** *
71556 GTAAATAGATTT-TTTTTCTAATTTCTTAATAATTTTTTGAATGTTAATAAATTAGTATTATTTT
1 GTAAATAGATTTATTTTT-TAATTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTT
* * ** * * * *
71620 ATTTCAAATAAGCATGTATGAGTTG--AAGTAATTATTTTATGACTAAACAAAAGGTCAAAATAA
65 ATTTCGAATAAGCTTGTATGA--TGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGA
*
71683 TTTTAAATAGATAATTGATTTAA
128 TTTGAAATAGATAATT-ATTTAA
71706 TAGTTTTAAC
Statistics
Matches: 423, Mismatches: 67, Indels: 39
0.80 0.13 0.07
Matches are distributed among these distances:
351 3 0.01
352 17 0.04
355 4 0.01
356 137 0.32
357 187 0.44
358 10 0.02
359 2 0.00
360 2 0.00
361 8 0.02
362 47 0.11
363 5 0.01
364 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (350 bp):
GTAAATAGATTTATTTTTTAATTTCTTATTAATTTTTCAAATATTAATAAATTAGTATTATTTTA
TTTCGAATAAGCTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGATTT
GAAATAGATAATTATTTAAATAGCCATAACTATTTAAATGAGTTCGATAAACAAATTTATTTTTA
AATCTATAACTTATCAAATTTCATAATATTAATAAAGTAATATTATTTTATTTCGAATAAGCTTG
TATGAAGATAAACAATTGTTTTATGATAAAATAAAAGGTTGATTGGAAATAGATAATTGTTCAAA
TAGCCAAAAATATTTGAATTGATAT
Found at i:72765 original size:13 final size:13
Alignment explanation
Indices: 72744--72777 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
72734 TTTATAATAC
72744 TAATAAATAATTGT
1 TAAT-AATAATTGT
*
72758 TAATAATAATTTT
1 TAATAATAATTGT
72771 TAATAAT
1 TAATAAT
72778 TTAAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATAATAATTGT
Found at i:73167 original size:181 final size:179
Alignment explanation
Indices: 72796--73189 Score: 437
Period size: 181 Copynumber: 2.2 Consensus size: 179
72786 TATAAATAAT
* * *
72796 TATAACTATTTGAACTGGA-TCAATAAATAGATTTTTTTTTCTAAATCTCTTATTAATTCTTGAA
1 TATAACTATTTGAACTTGATTCAGTAAATAGATTTATTTTTCTAAATCTCTTATTAATTCTTGAA
* *
72860 ATATTAAAAAATTAGTATTATTTTATTTAGAAAAATCTTATTTGTTGAAAAACAATTGTTTTATG
66 ATATTAAAAAAGTAGTATTATTTTATTTAGAAAAATCTTATTTGATGAAAAACAATTGTTTTATG
* * *
72925 ACAAAACAAAAGGTAATAATGATTTAAAATAGATAGTTGTTTAAATGGC
131 ACAAAACAAAAGGTAATAATGATTTAAAATAGATAATTATTGAAATGGC
* * *
72974 TATGATTATTTGAA-TTGATTCAGTAAACT-GATTTATTTTT-TAAATCTCTTGTTTATTAATTT
1 TATAACTATTTGAACTTGATTCAGTAAA-TAGATTTATTTTTCTAAATCTC----TTATTAATTC
* * * * * *
73036 TTGAAATATTAATAAAGTAGTATTATTTTATTTTGGATAA-GTT-TTT-ATGAACTAAAACAGTT
61 TTGAAATATTAAAAAAGTAGTATTATTTTATTTAGAAAAATCTTATTTGATG-A--AAAACAATT
* ** * * *
73098 GTTTTATGACAAAGCAACTGGTCATAATGATTTTAAATAGATAATTATTGAAATAG-
123 GTTTTATGACAAAACAAAAGGTAATAATGATTTAAAATAGATAATTATTGAAATGGC
73154 TCATAACTATTTGAACTTG-TTCAGTAAATAGATTTA
1 T-ATAACTATTTGAACTTGATTCAGTAAATAGATTTA
73190 CTAAATAATA
Statistics
Matches: 179, Mismatches: 25, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
177 11 0.06
178 31 0.17
179 5 0.03
180 4 0.02
181 125 0.70
182 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (179 bp):
TATAACTATTTGAACTTGATTCAGTAAATAGATTTATTTTTCTAAATCTCTTATTAATTCTTGAA
ATATTAAAAAAGTAGTATTATTTTATTTAGAAAAATCTTATTTGATGAAAAACAATTGTTTTATG
ACAAAACAAAAGGTAATAATGATTTAAAATAGATAATTATTGAAATGGC
Found at i:73796 original size:18 final size:18
Alignment explanation
Indices: 73756--73801 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
73746 TTTTGTTGAT
* *
73756 ATTAATTAACATTTAATA
1 ATTAATTAATATTGAATA
* *
73774 TTTAATTAATATTGATTA
1 ATTAATTAATATTGAATA
73792 ATTAATTAAT
1 ATTAATTAAT
73802 TATAATAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAATTAATATTGAATA
Found at i:74123 original size:21 final size:21
Alignment explanation
Indices: 74099--74154 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
74089 ATTGTTAATA
74099 ATTAACAATAAATAATAATTT
1 ATTAACAATAAATAATAATTT
* *
74120 ATTAA-ATTTAATAAATAATTT
1 ATTAACAATAAAT-AATAATTT
*
74141 A-TAAC-ATAATTAAT
1 ATTAACAATAAATAAT
74155 TATAATAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
19 3 0.11
20 11 0.39
21 14 0.50
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTAACAATAAATAATAATTT
Found at i:74250 original size:36 final size:35
Alignment explanation
Indices: 74190--74267 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
74180 ATTAAAGTTA
** *
74190 TTAATTATTTTAATAATTTATAATACTAATAATAT
1 TTAATTATCCTAATAATTTATAATAATAATAATAT
* *
74225 TATAATTATCCTAATAA-TTACTAATAATGATTATAT
1 T-TAATTATCCTAATAATTTA-TAATAATAATAATAT
74261 TTAATTA
1 TTAATTA
74268 ATATTATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 10 0.28
36 26 0.72
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (35 bp):
TTAATTATCCTAATAATTTATAATAATAATAATAT
Found at i:74270 original size:30 final size:28
Alignment explanation
Indices: 74195--74270 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 28
74185 AGTTATTAAT
* *
74195 TATTTTAA-TAATTTATAATACTAATAA
1 TATTATAATTAATTAATAATACTAATAA
74222 TATTATAATT-ATCCTAATAATTACTAATAA
1 TATTATAATTAAT--TAATAA-TACTAATAA
*
74252 TGATTATATTTAATTAATA
1 T-ATTATAATTAATTAATA
74271 TTATATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 9 0.22
28 1 0.03
29 5 0.12
30 15 0.38
31 8 0.20
32 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (28 bp):
TATTATAATTAATTAATAATACTAATAA
Found at i:75557 original size:23 final size:22
Alignment explanation
Indices: 75531--75576 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
75521 ATTATAAATT
*
75531 TATTTTTTTAATAATTTAATTAA
1 TATTATTTTAATAATTT-ATTAA
*
75554 TATTATTTTGATAATTTATTAA
1 TATTATTTTAATAATTTATTAA
75576 T
1 T
75577 TTAATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTATTTTAATAATTTATTAA
Found at i:75568 original size:26 final size:28
Alignment explanation
Indices: 75516--75568 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 28
75506 AATATTATAT
**
75516 ATTTAATTATAAATTTATTTTTTTAATA
1 ATTTAATTATAAATTTATTTTGATAATA
*
75544 ATTTAATTA-ATA-TTATTTTGATAAT
1 ATTTAATTATAAATTTATTTTGATAAT
75569 TTATTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 11 0.50
27 2 0.09
28 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTAATTATAAATTTATTTTGATAATA
Found at i:76206 original size:28 final size:28
Alignment explanation
Indices: 76136--76210 Score: 77
Period size: 30 Copynumber: 2.7 Consensus size: 28
76126 AGTTAAATAC
* *
76136 AATT-AAATT-ATAATATTGTATTTAAT
1 AATTAAAATTAATTATATTATATTTAAT
76162 AATTAATAATTATATTATATTATATTATAAT
1 AATTAA-AATTA-ATTATATTATATT-TAAT
76193 AA-TAAAATTAATTA-ATTA
1 AATTAAAATTAATTATATTA
76211 AAGTTAAGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
26 4 0.10
27 5 0.12
28 8 0.19
29 5 0.12
30 14 0.33
31 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
AATTAAAATTAATTATATTATATTTAAT
Found at i:76861 original size:17 final size:17
Alignment explanation
Indices: 76827--76864 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
76817 ATATAGTATT
*
76827 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
76844 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
76861 ATTA
1 ATTA
76865 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:78016 original size:19 final size:20
Alignment explanation
Indices: 77994--78033 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
77984 AAAGATTAAT
*
77994 AAATTAGTATTA-ATAATTA
1 AAATTAGCATTATATAATTA
78013 AAATTAGCATTATATAATTA
1 AAATTAGCATTATATAATTA
78033 A
1 A
78034 TTATATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (20 bp):
AAATTAGCATTATATAATTA
Found at i:78105 original size:19 final size:19
Alignment explanation
Indices: 78081--78145 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
78071 ATCTTATAAA
78081 TATTATTAATAATAAATTT
1 TATTATTAATAATAAATTT
*
78100 TATTATTAATACTAAAATTAT
1 TATTATTAATAAT-AAATT-T
* * *
78121 TAATATTAGT-A-AAATTA
1 TATTATTAATAATAAATTT
78138 TATTATTA
1 TATTATTA
78146 TGGAATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
17 7 0.18
18 5 0.13
19 12 0.32
20 5 0.13
21 9 0.24
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTATTAATAATAAATTT
Found at i:78122 original size:18 final size:18
Alignment explanation
Indices: 78081--78142 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
78071 ATCTTATAAA
*
78081 TATTATTAATAATAAATTT
1 TATTATTAATAATAAA-AT
*
78100 TATTATTAATACTAAAAT
1 TATTATTAATAATAAAAT
* * *
78118 TATTAATATTAGTAAAAT
1 TATTATTAATAATAAAAT
78136 TA-TATTA
1 TATTATTA
78143 TTATGGAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
17 4 0.11
18 18 0.49
19 15 0.41
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TATTATTAATAATAAAAT
Found at i:78306 original size:27 final size:28
Alignment explanation
Indices: 78265--78326 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
78255 AATAATTATA
78265 ATAATTAGTTAATAACAA-AAGTATTGTT
1 ATAATTAGTTAATAACAATAAGTATT-TT
*
78293 ATAATTA-TTAATAACAATAATTATTTT
1 ATAATTAGTTAATAACAATAAGTATTTT
*
78320 ATTATTA
1 ATAATTA
78327 AACTAATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (28 bp):
ATAATTAGTTAATAACAATAAGTATTTT
Found at i:78453 original size:25 final size:25
Alignment explanation
Indices: 78408--78456 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
78398 AAGTTTAATT
78408 AATATTTTATGAGTAACAATTTTAA
1 AATATTTTATGAGTAACAATTTTAA
* *
78433 AATATTATTATTATTAA-AATTTTA
1 AATATT-TTATGAGTAACAATTTTA
78457 TTAATGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (25 bp):
AATATTTTATGAGTAACAATTTTAA
Found at i:78706 original size:23 final size:24
Alignment explanation
Indices: 78680--78726 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
78670 ATTAATTAAA
78680 AATAAT-ATTAATTAAATAT-TTTT
1 AATAATCATT-ATTAAATATATTTT
78703 AATAATCATTATTAAATATATTTT
1 AATAATCATTATTAAATATATTTT
78727 TACTAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
AATAATCATTATTAAATATATTTT
Found at i:79149 original size:17 final size:17
Alignment explanation
Indices: 79127--79161 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
79117 CCATTTATGA
79127 AATATTAGA-TAATTAAT
1 AATATTA-ATTAATTAAT
79144 AATATTAATTAATTAAT
1 AATATTAATTAATTAAT
79161 A
1 A
79162 TTTTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AATATTAATTAATTAAT
Found at i:79555 original size:18 final size:19
Alignment explanation
Indices: 79522--79558 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
79512 TTGTTTACCA
79522 GACAAGTTTAAATAATTAT
1 GACAAGTTTAAATAATTAT
*
79541 GACAA-TTTGAATAATTAT
1 GACAAGTTTAAATAATTAT
79559 TTATTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (19 bp):
GACAAGTTTAAATAATTAT
Found at i:79767 original size:181 final size:178
Alignment explanation
Indices: 79461--80128 Score: 633
Period size: 181 Copynumber: 3.7 Consensus size: 178
79451 TTTTAATACC
* * * * * * *
79461 AATTTATCAATATTTTGAAAATTAATAATTGAGAGATTTAAAAAAATGAATTTGTTTA-CCAGAC
1 AATTTATTAATATTATGAAAATTAATAAGTAAAAGATTT-AAAAAATAAATTTGTTTATCGA-AC
* * * * *
79525 AAGTTTAAATAATTATGACAATTTGAATAATTATTTATTTGAAATCAATATAACCTTTTGTTTTA
64 AAGTTCAAAT-ATTATGACAATTTGAATAATTATTTATTTCAAATCATTAT-ACTTTTTGTTTTG
* *
79590 TCATAAAATAATTTTTTTTGTTCATACAAGCTTATTTTGAATAAAATAATAT
127 TCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTTGAATAAAATAATAT
* * * *
79642 AAATTTATTAATATTAAGACAATTAATAAGTAAAAGATTTAAAAAATAAATTTATTTATCGAATA
1 -AATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAACA
* ** *
79707 AGTTCAAATCATTATGACTATTTGAATAATTATTTATTTCAAATTGTTATGACTTTTTGTTTTGC
65 AGTTCAAAT-ATTATGACAATTTGAATAATTATTTATTTCAAATCATTAT-ACTTTTTGTTTTGT
* * * *
79772 CATAAAACAATTGTTTCTGTTCATACAAGGTTATTCTGATTAAAATAATATT
128 CATAAAACAATTGTTTTTGTTCATACAAGCTTATTTTGAATAAAATAATA-T
* * * * * * *
79824 AATTTATTAAT-TTTTGACAATTAATAAATAGAAGATTTAAAAAATAAATATGTGTATTGAACAA
1 AATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAACAA
* ** ** * *
79888 GTTGAAATAGCCATGACAATTTGAATAATTAACTATTTCAAATCATTATATCTGTTTGTTTTGTA
66 GTTCAAATA-TTATGACAATTTGAATAATTATTTATTTCAAATCATTATA-CTTTTTGTTTTGTC
* * * *
79953 ATAAAACAATTGTTTTAGTTCAAATAAGCTTA-TTTGAAATAAAATAAAACT
129 ATAAAACAATTGTTTTTGTTCATACAAGCTTATTTTG-AATAAAATAATA-T
* * * * * * * *
80004 AATTGATTAATATTATGAAAATTAATGAGTAAGAGAATTAAAAAATGAATATGTTT-GCCAACCA
1 AATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAA-CA
* * * * * * * *
80068 TGTTCAAATAGTTATGACTATCTAAACAATTATTTATTTTAAAACATTATGACCTTTTGTT
65 AGTTCAAATA-TTATGACAATTTGAATAATTATTTATTTCAAATCATTAT-ACTTTTTGTT
80129 AAAGATTCAA
Statistics
Matches: 394, Mismatches: 84, Indels: 17
0.80 0.17 0.03
Matches are distributed among these distances:
179 5 0.01
180 144 0.37
181 209 0.53
182 36 0.09
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (178 bp):
AATTTATTAATATTATGAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTATCGAACAA
GTTCAAATATTATGACAATTTGAATAATTATTTATTTCAAATCATTATACTTTTTGTTTTGTCAT
AAAACAATTGTTTTTGTTCATACAAGCTTATTTTGAATAAAATAATAT
Found at i:81569 original size:11 final size:11
Alignment explanation
Indices: 81539--81576 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
81529 AAATTTTTTT
81539 TTAAAT-TTAA
1 TTAAATATTAA
81549 TTAAA-A-TAA
1 TTAAATATTAA
81558 TTAAATATTAA
1 TTAAATATTAA
81569 TTAAATAT
1 TTAAATAT
81577 AGGACTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.32
10 6 0.24
11 11 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTAAATATTAA
Found at i:82012 original size:180 final size:177
Alignment explanation
Indices: 81730--82181 Score: 414
Period size: 177 Copynumber: 2.5 Consensus size: 177
81720 AAACTTGTTC
* * * * * *
81730 AATTAGTTATAACTATTTGAACAATTATTTATTTCAAATCATTATGACCATTTGTATTATCATAA
1 AATT-GTTATGACTATTTGAATAATTATTTATTTCAAATCATTATAACCTTTTGTTTTATCACAA
* * * *
81795 AATAATTATTTCTATTCATACAGTCTTATTCGAAATAA-AGCAATACTAGTTTATCAATATTTTG
65 AACAATTATTTCTATTCATACAGACTTATTCGAAATAATA-CAATACTAGTTTATCAATATTCTA
* * **
81859 AAA-TTAATAAGTAATAGATTTAAAAAATGAATCAATTGGCCTG-ACTAGTGCA
129 AAAGTTAATAAG----AGATTTAAAAAATGAATCAATT-GACTGAACAAGTAAA
* *
81911 AATTGTTATGACTGTTTGAATAATTATTTATTTCCAATCATTATAACCTTTTGTTTTATCACAAA
1 AATTGTTATGACTATTTGAATAATTATTTATTTCAAATCATTATAACCTTTTGTTTTATCACAAA
* * * ** * * * * **
81976 CCAATTGTTTCTGTTTGTACTA-ACTTATTTGAAATAATATAATTCTATTTTATTGATATTCTAA
66 ACAATTATTTCTATTCATAC-AGACTTATTCGAAATAATACAATACTAGTTTATCAATATTCTAA
* * *
82040 AAGTTAATAAGAGATTTAAAAAATGAATCTATTTATTGAACAAGTAAA
130 AAGTTAATAAGAGATTTAAAAAATGAATCAATTGACTGAACAAGTAAA
** * * ** *
82088 AATAATTATGACTATTTGAATAATTATCTATTTCTAATCGCTATAACCTTTTGTTTTGTC-CTAA
1 AATTGTTATGACTATTTGAATAATTATTTATTTCAAATCATTATAACCTTTTGTTTTATCAC-AA
*
82152 AACAA-AATTTTCTATTCATACA-AGCTTATT
65 AACAATTA-TTTCTATTCATACAGA-CTTATT
82182 TCAAATTAAA
Statistics
Matches: 220, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
176 5 0.02
177 101 0.46
180 100 0.45
181 14 0.06
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (177 bp):
AATTGTTATGACTATTTGAATAATTATTTATTTCAAATCATTATAACCTTTTGTTTTATCACAAA
ACAATTATTTCTATTCATACAGACTTATTCGAAATAATACAATACTAGTTTATCAATATTCTAAA
AGTTAATAAGAGATTTAAAAAATGAATCAATTGACTGAACAAGTAAA
Found at i:82120 original size:16 final size:17
Alignment explanation
Indices: 82088--82120 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
82078 AACAAGTAAA
82088 AATAATTATGACTATTTG
1 AATAATTAT-ACTATTTG
82106 AATAATTAT-CTATTT
1 AATAATTATACTATTT
82121 CTAATCGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
AATAATTATACTATTTG
Found at i:82925 original size:21 final size:22
Alignment explanation
Indices: 82891--82931 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
82881 TTAATCAATT
* *
82891 ATATATAATTATAATTAATAAA
1 ATATATAATAATAACTAATAAA
82913 ATAT-TAATAATAACTAATA
1 ATATATAATAATAACTAATA
82932 GTCTAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATATAATAATAACTAATAAA
Found at i:83324 original size:11 final size:11
Alignment explanation
Indices: 83310--83336 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
83300 AATATTAAGT
83310 ATTTATTTATA
1 ATTTATTTATA
83321 ATTTATTTATA
1 ATTTATTTATA
83332 ATTTA
1 ATTTA
83337 ATATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTATTTATA
Found at i:84280 original size:22 final size:21
Alignment explanation
Indices: 84255--84330 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 21
84245 TGATTAATCC
84255 TTAAATATTAATCTAATTCATT
1 TTAAATATTAATC-AATTCATT
* *
84277 TTAAAT-TTAATAGAAATAGCATT
1 TTAAATATTAAT--CAAT-TCATT
*
84300 TTAAATTAATAA-CAATT-ATT
1 TTAAA-TATTAATCAATTCATT
84320 TTAAATATTAA
1 TTAAATATTAA
84331 AAATTATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.12
20 8 0.19
21 5 0.12
22 12 0.28
23 9 0.21
24 1 0.02
25 3 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
TTAAATATTAATCAATTCATT
Found at i:84337 original size:19 final size:20
Alignment explanation
Indices: 84269--84339 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 20
84259 ATATTAATCT
84269 AATTCATTTTAAATTTAATAGAA
1 AATT-ATTTTAAA-TTAATA-AA
** *
84292 ATAGCATTTTAAATTAATAAC
1 A-ATTATTTTAAATTAATAAA
*
84313 AATTATTTTAAA-TATTAAA
1 AATTATTTTAAATTAATAAA
84332 AATTATTT
1 AATTATTT
84340 ATATTTAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 13 0.32
20 9 0.22
21 2 0.05
22 6 0.15
23 9 0.22
24 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTATTTTAAATTAATAAA
Found at i:84514 original size:6 final size:6
Alignment explanation
Indices: 84500--84587 Score: 54
Period size: 6 Copynumber: 14.0 Consensus size: 6
84490 CTATTCAGCC
* * * *
84500 ATTATT ATTAAT ATTAAT AATTCAAT ATTATT ATTAAA ATATAAT AATAAT
1 ATTAAT ATTAAT ATTAAT -ATT-AAT ATTAAT ATTAAT AT-TAAT ATTAAT
* *
84551 ATTATT A-AAAT ATTAAT -TTAAAT AATTAAT AATTAAT
1 ATTAAT ATTAAT ATTAAT ATT-AAT -ATTAAT -ATTAAT
84588 TATTTTTAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.08
6 34 0.53
7 20 0.31
8 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:84528 original size:20 final size:19
Alignment explanation
Indices: 84500--84645 Score: 77
Period size: 20 Copynumber: 7.5 Consensus size: 19
84490 CTATTCAGCC
*
84500 ATTATTATTAATATTAATA
1 ATTAATATTAATATTAATA
*
84519 ATTCAATATTATTATTAA-A
1 ATT-AATATTAATATTAATA
* *
84538 ATATAATAATAATATTATTA
1 AT-TAATATTAATATTAATA
84558 A--AATATTAAT-TTAAATA
1 ATTAATATTAATATT-AATA
**
84575 ATTAATAATTAATTATTTTTA
1 ATTAAT-ATTAA-TATTAATA
* *
84596 ATTAACAAAATAATATTAAATA
1 ATT-A-ATATTAATATT-AATA
* *
84618 A-TAATATTTCATATTATTA
1 ATTAATA-TTAATATTAATA
*
84637 CTTAATATT
1 ATTAATATT
84646 TCTATGATAT
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
16 2 0.02
17 12 0.13
19 27 0.28
20 32 0.34
21 11 0.12
22 10 0.11
23 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAATATTAATATTAATA
Found at i:84548 original size:22 final size:24
Alignment explanation
Indices: 84500--84568 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 24
84490 CTATTCAGCC
*
84500 ATTATTATTAATATTAATAATTCAAT
1 ATTATTATTAA-AAT-ATAATTCAAT
84526 ATTATTATTAAAATATAA-T-AAT
1 ATTATTATTAAAATATAATTCAAT
*
84548 AATATTATTAAAATATTAATT
1 ATTATTATTAAAATA-TAATT
84569 TAAATAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 17 0.44
23 4 0.10
24 5 0.13
25 2 0.05
26 11 0.28
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTATTATTAAAATATAATTCAAT
Done.