Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 27 of 144
Found at i:6685808 original size:42 final size:41
Alignment explanation
Indices: 6685749--6686446 Score: 785
Period size: 42 Copynumber: 16.5 Consensus size: 41
6685739 AAAGAAAGCA
6685749 TTCATTGCATTTAGAGGCCAGGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCA-GGTGTGGAGGTCCATTTACTT
6685791 TTCATCT-CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCAT-TGCATTTAGAGG-CCAGGTGTGGAGGTCCATTTACTT
* * *
6685833 TTCGTTGCATTTAGAGACCCAGATGTGGAGG-CTCATTTACTT
1 TTCATTGCATTTAGAG-GCCAGGTGTGGAGGTC-CATTTACTT
* * * * * *
6685875 TTCATCGCATTCAGAAGCCTAGTTATGGAGGCCCATTTAC-T
1 TTCATTGCATTTAGAGGCC-AGGTGTGGAGGTCCATTTACTT
*
6685916 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCC-AGGTGTGGAGGTCCATTTACTT
* *
6685958 TTCGTTGCATTTAGAGGCCCAGGTGTGAAGGTCCATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTCCATTTACTT
6686000 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTGCAGAGGTCTATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGT-C------C-ATTTACTT
*
6686050 TTCATTGCATTTAGAGGCTCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGC-CAGGTGTGGAGGTCCATTTACTT
6686092 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTCCATTTACTT
* * *
6686134 TTCATCGCATTTAGAGGCTTAGGTGTGGAGGTCAATTTACTT
1 TTCATTGCATTTAGAGGC-CAGGTGTGGAGGTCCATTTACTT
* * * *
6686176 TTCATCGCATATAGAGGCCCAAGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTCCATTTACTT
* * * *
6686218 TTCATCGCATTCAAAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTCCATTTACTT
* *
6686260 TTCATTGCATTCAGAGGCCCAAGTGTGGAGG-CTCATTTACTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTC-CATTTACTT
* * *
6686302 TTCATTACATTTAGAGGCCTAGGTGTGAAGGCCCATTTACCTT
1 TTCATTGCATTTAGAGGCC-AGGTGTGGAGGTCCATTTA-CTT
* * *
6686345 TT-GTTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTATTT
1 TTCATTGCATTTAGAG-GCCAGGTGTGGAGGTCCATTTACTT
* * *
6686386 TTTATTGCATTTGGAGGCCCAGGTGTGGAGGTCCATTTAGTT
1 TTCATTGCATTTAGAGG-CCAGGTGTGGAGGTCCATTTACTT
*
6686428 TTCATTGCAATTAGAGGCC
1 TTCATTGCATTTAGAGGCC
6686447 TAAGCATAGA
Statistics
Matches: 572, Mismatches: 56, Indels: 57
0.84 0.08 0.08
Matches are distributed among these distances:
41 48 0.08
42 465 0.81
43 19 0.03
49 3 0.01
50 37 0.06
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (41 bp):
TTCATTGCATTTAGAGGCCAGGTGTGGAGGTCCATTTACTT
Found at i:6686236 original size:126 final size:126
Alignment explanation
Indices: 6685749--6686446 Score: 877
Period size: 126 Copynumber: 5.5 Consensus size: 126
6685739 AAAGAAAGCA
6685749 TTCATTGCATTTAGAGG-CCAGGGTGTGGAGGTCCATTTACTTTTCATCT-CATTTAGAGGCCCA
1 TTCATTGCATTTAGAGGCCCA-GGTGTGGAGGTCCATTTACTTTTCAT-TGCATTTAGAGGCCCA
* *
6685812 GGTGTGGAGGTCCATTTACTTTTCGTTGCATTTAGAGACCCAGATGTGGAGG-CTCATTTACTT
64 GGTGTGGAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGTC-CATTTACTT
* * * * * * * *
6685875 TTCATCGCATTCAGAAGCCTAGTTATGGAGGCCCATTTAC-TTTCATTGCATTTAGAGGCCTAGG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGG
* *
6685939 TGTGGAGGTTCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGAAGGTCCATTTACTT
66 TGTGGAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
6686000 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTGCAGAGGTCTATTTACTTTTCATTGCATTTAGA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGT-C------C-ATTTACTTTTCATTGCATTTAGA
* * *
6686065 GGCTCAAGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTT
58 GGCCCAGGTGTGGAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTT
6686130 ACTT
123 ACTT
* ** * * * *
6686134 TTCATCGCATTTAGAGGCTTAGGTGTGGAGGTCAATTTACTTTTCATCGCATATAGAGGCCCAAG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGG
* * * * * *
6686199 TGTGGAGGCCCATTTACTTTTCATCGCATTCAAAGGCCCAGGTGTGGAGGCCCATTTACTT
66 TGTGGAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
6686260 TTCATTGCATTCAGAGGCCCAAGTGTGGAGG-CTCATTTACTTTTCATTACATTTAGAGGCCTAG
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTC-CATTTACTTTTCATTGCATTTAGAGGCCCAG
* * * *
6686324 GTGTGAAGGCCCATTTACCTTTT-GTTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTATTT
65 GTGTGGAGGTCCATTTA-CTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
6686386 TTTATTGCATTTGGAGGCCCAGGTGTGGAGGTCCATTTAGTTTTCATTGCAATTAGAGGCC
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCC
6686447 TAAGCATAGA
Statistics
Matches: 494, Mismatches: 63, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
124 1 0.00
125 102 0.21
126 267 0.54
127 8 0.02
132 1 0.00
133 7 0.01
134 108 0.22
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (126 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGAGGCCCAGG
TGTGGAGGTCCATTTACTTTTCGTTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:6686796 original size:6 final size:6
Alignment explanation
Indices: 6686779--6686816 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
6686769 GAGGTTTTTA
6686779 TTTCTCT TTTCTT TTTC-T TTTCTT TTTC-T TTTCTT TTT
1 TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
6686817 TGGGCTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.34
6 14 0.48
7 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:6686797 original size:11 final size:11
Alignment explanation
Indices: 6686783--6686816 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
6686773 TTTTTATTTC
6686783 TCTTTTCTTTT
1 TCTTTTCTTTT
6686794 TCTTTTCTTTT
1 TCTTTTCTTTT
6686805 TCTTTTCTTTT
1 TCTTTTCTTTT
6686816 T
1 T
6686817 TGGGCTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:6686799 original size:22 final size:22
Alignment explanation
Indices: 6686774--6686816 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6686764 AAATAGAGGT
6686774 TTTTATTTCTCTTTTCTTTTTC
1 TTTTATTTCTCTTTTCTTTTTC
* *
6686796 TTTTCTTTTTCTTTTCTTTTT
1 TTTTATTTCTCTTTTCTTTTT
6686817 TGGGCTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTATTTCTCTTTTCTTTTTC
Found at i:6686845 original size:3 final size:3
Alignment explanation
Indices: 6686837--6686867 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6686827 AAAGGCCCAA
6686837 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6686868 GGGTTTCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6687443 original size:52 final size:51
Alignment explanation
Indices: 6687387--6687596 Score: 129
Period size: 52 Copynumber: 4.2 Consensus size: 51
6687377 ATTTTTTTAG
6687387 AAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTTTTAATTATTTCAAAAT
1 AAAAGTTT-AAATTTTAAAACAAAGTTTTAATTTTTTTAATTATTTCAAAAT
* * * * *
6687439 AAAAGTTTAGATTTT-TAAGAAAGTTGTGA--TTTTT-ATTA----AAAAT
1 AAAAGTTTAAATTTTAAAACAAAGTTTTAATTTTTTTAATTATTTCAAAAT
* *** *
6687482 GGAGAAAGTTTATATTTTTAAAA-AAA-TAAAAATCTGTTTTTAATTATTTTAAAGA-
1 --A-AAAGTTTA-AATTTTAAAACAAAGTTTTAAT-T-TTTTTAATTATTTCAAA-AT
* * *
6687537 AAAA-TTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCGAAAT
1 AAAAGTTTAAATTTTAAAACAAAGTTTTAA--TTTTTTTAATTATTTCAAAAT
6687589 AAAAGTTT
1 AAAAGTTT
6687597 GGATTTTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 41
0.66 0.11 0.23
Matches are distributed among these distances:
43 5 0.04
45 1 0.01
46 10 0.09
47 11 0.09
48 7 0.06
50 23 0.20
51 18 0.15
52 32 0.27
53 5 0.04
54 1 0.01
55 3 0.03
56 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (51 bp):
AAAAGTTTAAATTTTAAAACAAAGTTTTAATTTTTTTAATTATTTCAAAAT
Found at i:6687571 original size:20 final size:20
Alignment explanation
Indices: 6687519--6687571 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
6687509 AAAAATCTGT
*
6687519 TTTTAATTATTTTAAAGAAAA
1 TTTTAATT-TTTTAAACAAAA
* * *
6687540 ATTTAAATTTTTAAACAAAG
1 TTTTAATTTTTTAAACAAAA
6687560 TTTTAATTTTTT
1 TTTTAATTTTTT
6687572 TTTAACTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTTAATTTTTTAAACAAAA
Found at i:6687573 original size:51 final size:51
Alignment explanation
Indices: 6687385--6687582 Score: 115
Period size: 51 Copynumber: 3.9 Consensus size: 51
6687375 CTATTTTTTT
* * *
6687385 AGAAAAGTTTAAAATTTTAAAACAAAGTTTTAA-TTTTTTTAATTATTTCAA
1 AGAAAAATTT-AAATTTTTAAACAAAGTTTTAATTTTTTTTAATTATTTTAA
* * * * * ** **
6687436 A-ATAAAAGTTTAGATTTTT-AAGAAAGTTGTGATTTTTATTAA--A-AATGG
1 AGA-AAAA-TTTAAATTTTTAAACAAAGTTTTAATTTTTTTTAATTATTTTAA
* * * *** *
6687484 AG-AAAGTTTATATTTTTAAA-AAAATAAAAATCTGTTTTTAATTATTTTAA
1 AGAAAAATTTAAATTTTTAAACAAAGTTTTAAT-TTTTTTTAATTATTTTAA
*
6687534 AGAAAAATTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTT
1 AGAAAAATTTAAATTTTTAAACAAAGTTTTAA-TTTTTTTTAATTATTT
6687583 CGAAATAAAA
Statistics
Matches: 102, Mismatches: 33, Indels: 23
0.65 0.21 0.15
Matches are distributed among these distances:
46 16 0.16
47 12 0.12
48 1 0.01
49 2 0.02
50 14 0.14
51 34 0.33
52 22 0.22
53 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (51 bp):
AGAAAAATTTAAATTTTTAAACAAAGTTTTAATTTTTTTTAATTATTTTAA
Found at i:6687591 original size:150 final size:150
Alignment explanation
Indices: 6687385--6687655 Score: 390
Period size: 150 Copynumber: 1.8 Consensus size: 150
6687375 CTATTTTTTT
* *
6687385 AGAAAAGTTTAAAATTTTAAAACAAAGTTTTAATTTTTTTAATTATTTCAAAATAAAAGTTTAGA
1 AGAAAAATTTAAAATTTTAAAACAAAGTTTTAATTTTTTTAACTATTTCAAAATAAAAGTTTAGA
* *
6687450 TTTTTAAG-AAAGTTGTGATTTT-TATT-AAAAATGGAGAAAG-TTTATATTTTTAAAAAAATAA
66 TTTTTAAGTAAAATAGTGATTTTCT-TTGAAAAA--GAGAAAGTTTTATATTTTTAAAAAAATAA
6687511 AAATCTGTTTTTAATTATTTTAA
128 AAATCTGTTTTTAATTATTTTAA
* * *
6687534 AGAAAAATTT-AAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCGAAATAAAAGTTTG
1 AGAAAAATTTAAAATTTTAAAACAAAGTTTTAA--TTTTTTTAACTATTTCAAAATAAAAGTTTA
6687598 GATTTTTAAGTAAAATAGTGATTTTCTTTGGAAAAAGAGAAAGTTTTATATTTTTAAA
64 GATTTTTAAGTAAAATAGTGATTTTCTTT-GAAAAAGAGAAAGTTTTATATTTTTAAA
6687656 TAAAGTTTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 11
0.86 0.06 0.09
Matches are distributed among these distances:
148 21 0.19
149 9 0.08
150 37 0.34
151 21 0.19
152 15 0.14
153 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (150 bp):
AGAAAAATTTAAAATTTTAAAACAAAGTTTTAATTTTTTTAACTATTTCAAAATAAAAGTTTAGA
TTTTTAAGTAAAATAGTGATTTTCTTTGAAAAAGAGAAAGTTTTATATTTTTAAAAAAATAAAAA
TCTGTTTTTAATTATTTTAA
Found at i:6687635 original size:99 final size:98
Alignment explanation
Indices: 6687532--6687736 Score: 277
Period size: 99 Copynumber: 2.1 Consensus size: 98
6687522 TAATTATTTT
*
6687532 AAAGAAAA-ATTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCGAAATAAAAGTT
1 AAAGAAAAGATTTAAATTTTTAAACAAAGTTTTAA-TTTTTTTTAACTATTTCAAAATAAAAGTT
* * * **
6687596 TGGATTTTTAAGTAAAATAGTGATTTTCTTTGGAA
65 T-AAATTTTAAGTAAAATAGTGATTTTCATTAAAA
* * * *
6687631 AAAGAGAAAGTTTTATATTTTTAAATAAAGTTTTGATTTTTTTTAACTATTTCAAAATAAAAGTT
1 AAAGA-AAAGATTTAAATTTTTAAACAAAGTTTTAATTTTTTTTAACTATTTCAAAATAAAAGTT
*
6687696 TAAATTTTAAGTAAAGTAGTGATTTTCATTAAAA
65 TAAATTTTAAGTAAAATAGTGATTTTCATTAAAA
6687730 AAAGAAA
1 AAAGAAA
6687737 GAAAGTTTAG
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
98 2 0.02
99 37 0.40
100 32 0.34
101 22 0.24
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (98 bp):
AAAGAAAAGATTTAAATTTTTAAACAAAGTTTTAATTTTTTTTAACTATTTCAAAATAAAAGTTT
AAATTTTAAGTAAAATAGTGATTTTCATTAAAA
Found at i:6687693 original size:100 final size:100
Alignment explanation
Indices: 6687541--6687722 Score: 285
Period size: 100 Copynumber: 1.8 Consensus size: 100
6687531 TAAAGAAAAA
* * *
6687541 TTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTA
1 TTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCAAAATAAAAGTTT-AAATTTTA
6687606 AGTAAAATAGTGATTTTCTTTGGAAAAAGAGAAAGT
65 AGTAAAATAGTGATTTTCTTTGGAAAAAGAGAAAGT
* * *
6687642 TTTATATTTTTAAATAAAGTTTTGA-TTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTAA
1 TTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTAA
*
6687706 GTAAAGTAGTGATTTTC
66 GTAAAATAGTGATTTTC
6687723 ATTAAAAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 23 0.31
100 29 0.39
101 22 0.30
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (100 bp):
TTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTAA
GTAAAATAGTGATTTTCTTTGGAAAAAGAGAAAGT
Found at i:6687721 original size:152 final size:149
Alignment explanation
Indices: 6687385--6687721 Score: 337
Period size: 152 Copynumber: 2.2 Consensus size: 149
6687375 CTATTTTTTT
* * ** *
6687385 AGAAAAGTTTAAAATTTTAAAACAAAGTTTTAA--TTTTTTTAATTATTTCAAAATAAAAGTTTA
1 AGAAAAATTT-AAATTTTTAAACAAAGTAGTAATTTTTTTTTAACTATTTCAAAATAAAAGTTTA
* *
6687448 GATTTTTAAGAAAGTTGTGATTTTTATTAAAAATGGAGAAAGTTTATATTTTTAAAAAAATAAAA
65 GATTTTTAAGAAAATAGTGATTTTTATTAAAAA-GGAGAAAGTTTATATTTTTAAAAAAATAAAA
* *
6687513 ATCTGTTTTTAATTATTTTAA
129 ATCTGTTTTTAACTATTTCAA
** * *
6687534 AGAAAAATTTAAATTTTTAAACAAAGTTTTAATTTTTTTTTAACTATTTCGAAATAAAAGTTTGG
1 AGAAAAATTTAAATTTTTAAACAAAGTAGTAATTTTTTTTTAACTATTTCAAAATAAAAGTTTAG
*
6687599 ATTTTTAAGTAAAATAGTGATTTTCT-TTGGAAAAA-GAGAAAGTTTTATATTTTTAAATAAAGT
66 ATTTTTAAG-AAAATAGTGATTTT-TATT--AAAAAGGAGAAAG-TTTATATTTTTAAA-AAAAT
**** *
6687662 TTTGAT-TTTTTTTAACTATTTCAA
125 AAAAATCTGTTTTTAACTATTTCAA
** *
6687686 A-ATAAAAGTTTAAA-TTTTAAGTAAAGTAGTGATTTT
1 AGA-AAAA-TTTAAATTTTTAAACAAAGTAGTAATTTT
6687722 CATTAAAAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
148 21 0.13
149 9 0.06
150 37 0.23
151 22 0.14
152 52 0.33
153 17 0.11
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (149 bp):
AGAAAAATTTAAATTTTTAAACAAAGTAGTAATTTTTTTTTAACTATTTCAAAATAAAAGTTTAG
ATTTTTAAGAAAATAGTGATTTTTATTAAAAAGGAGAAAGTTTATATTTTTAAAAAAATAAAAAT
CTGTTTTTAACTATTTCAA
Found at i:6687773 original size:99 final size:98
Alignment explanation
Indices: 6687567--6687802 Score: 237
Period size: 99 Copynumber: 2.4 Consensus size: 98
6687557 AAGTTTTAAT
* * * * **
6687567 TTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTGGAAA
1 TTTTTTTTAACTATTTCAAAATAAAAGTTT-AAATTTTAAGTAAAATAGTGATTTTCATTAAAAA
* * * ****
6687632 AAGAGAAAGTTTTATATTTTTAAATAAAGTTTTGA
65 AAGAGAAAGTTTTAGA-TTTTAAAAAAAATAAAAA
*
6687667 TTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTAAGTAAAGTAGTGATTTTCATTAAAAAA
1 TTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTAAGTAAAATAGTGATTTTCATTAAAAAA
6687732 AGAAAGAAAG-TTTAGA-TTTAAAAAAAATAAAAA
66 AG--AGAAAGTTTTAGATTTTAAAAAAAATAAAAA
* *
6687765 TTTGTTTTT-AGTGATTTCAAAGA-AAAAATTTAAATTTT
1 TTT-TTTTTAACT-ATTTCAAA-ATAAAAGTTTAAATTTT
6687803 TAAACAAAGT
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
98 16 0.14
99 58 0.50
100 35 0.30
101 6 0.05
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (98 bp):
TTTTTTTTAACTATTTCAAAATAAAAGTTTAAATTTTAAGTAAAATAGTGATTTTCATTAAAAAA
AGAGAAAGTTTTAGATTTTAAAAAAAATAAAAA
Found at i:6692244 original size:4 final size:4
Alignment explanation
Indices: 6692235--6692265 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
6692225 GTGCCCCAAT
*
6692235 TTCA TTCA TTCA CTCA TTCA TTCA TTCA TTC
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTC
6692266 TCTCACTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (4 bp):
TTCA
Found at i:6700464 original size:10 final size:9
Alignment explanation
Indices: 6700444--6700469 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6700434 TTAAATCAAG
6700444 AAAAAATAA
1 AAAAAATAA
6700453 AAAAAATAA
1 AAAAAATAA
6700462 AAAAAATA
1 AAAAAATA
6700470 GAAAGAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:6701498 original size:42 final size:42
Alignment explanation
Indices: 6700876--6701481 Score: 772
Period size: 42 Copynumber: 14.5 Consensus size: 42
6700866 AAAGAAAGCA
*
6700876 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
6700918 TTTATTGCATTTAAAGGCCCAGGTGTGGAGG-CCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCC-ATTTACTT
* * ** * *
6700960 TTCATTGCATTCATAGGCCTTGGTGTGGAAGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
6701002 TTCGTTGCATTTACAGGCCCAGATGTGGAGG-CTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTC-CATTTACTT
* * *
6701044 TTCGTTGCATTTAGAGGCCCAGTTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
6701086 TTCGTTGTATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
6701128 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTAC-T
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
6701169 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
6701211 CTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * * * *
6701253 CTCATCGCATTCAAAGGCCCAGGTGTGGAAGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
** * * *
6701295 TTCATCACATTCAGAGGCCTAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * **
6701337 TTCATTGCATTCAGAGACCCAGGTGTAAAGG-CTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTC-CATTTACTT
** * *
6701379 TTTTTTGCATTTAGAGGTCCAGGTGTGGAGGTCCATTTATTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* *
6701421 TTCATTGCA-TTCGAAGGCCCAGGTGTGGAGTTCCATTTACTT
1 TTCATTGCATTTAG-AGGCCCAGGTGTGGAGGTCCATTTACTT
*
6701463 TTCATTGCAATTAGAGGCC
1 TTCATTGCATTTAGAGGCC
6701482 TAAGTATAGA
Statistics
Matches: 498, Mismatches: 57, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
41 48 0.10
42 443 0.89
43 7 0.01
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:6701834 original size:16 final size:17
Alignment explanation
Indices: 6701809--6701840 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6701799 CAAATAGAGG
6701809 TTTTTATTTCTTTTTTC
1 TTTTTATTTCTTTTTTC
6701826 TTTTT-TTTCTTTTTT
1 TTTTTATTTCTTTTTT
6701841 GGGCTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTATTTCTTTTTTC
Found at i:6702828 original size:148 final size:149
Alignment explanation
Indices: 6702432--6702966 Score: 629
Period size: 148 Copynumber: 3.6 Consensus size: 149
6702422 GTTTTTTTAG
* *
6702432 AAAAGTTTAAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATT
1 AAAAGTTT-AAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAAATT
* ***** *
6702497 TTTAAG-AAAGTAATGATTTTCA-T-T--AAAATTTTTTTTTATATTTTTTAAAAAATAAAAATC
65 TTTAAGTAAAGTAGTGATTTTCATTATAAAAAAGAAAGTTTTATA-TTTTT-AAAAATAAAAATA
6702557 TGTTTTTTAGTTATTTTAAAG-
128 TGTTTTTTAGTTATTTTAAAGA
* * **
6702578 AAAAGTTTAAATTTTTAAAACAAAGTTTTTATTTTTTTAACTATTTCGAAATAAAAGTTCGAATT
1 AAAAGTTTAAATTTTT-AAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAAATT
* *
6702643 TTTAAGTAAAATAGTGATTTTCTTTA-AAAAATAGAAAGTTTTATATTTTTAAAAATAAAAATAT
65 TTTAAGTAAAGTAGTGATTTTCATTATAAAAA-AGAAAGTTTTATATTTTTAAAAATAAAAATAT
*
6702707 GTTTTTTAGTTATTTTAAGGA
129 GTTTTTTAGTTATTTTAAAGA
* * *
6702728 AAAAGTTTAAATTTTTAAATAAAGATTTGA-TTTTTTAACTATTTCGAAATAAAAATTTAAAATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAAATTT
* * * **
6702792 TAAAGTAAAGTAGTGATTTTCATTATAAAAAAGAAAGAAAGTTTAGATTTAAAAAAAATAAAAAT
66 TTAAGTAAAGTAGTGATTTTCATTATAAAAAAGAAAG---TTTTATATTT-TTAAAAATAAAAAT
* *
6702857 ATGTTTTTTAGTGATTTCAAAGA
127 ATGTTTTTTAGTTATTTTAAAGA
* **
6702880 AAAAATTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAAACTATTTC-AAATTAAAAATTTTGA
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGA-TTTTTTT-AACTATTTCGAAA-TAAAAATTTAAA
*
6702944 TTTTGAAGTAAAGTAGTGATTTT
63 TTTTTAAGTAAAGTAGTGATTTT
6702967 GTTTTAATTA
Statistics
Matches: 334, Mismatches: 38, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
145 8 0.02
146 58 0.17
147 13 0.04
148 59 0.18
149 48 0.14
150 24 0.07
151 16 0.05
152 59 0.18
154 9 0.03
155 40 0.12
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.44
Consensus pattern (149 bp):
AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAAATTT
TTAAGTAAAGTAGTGATTTTCATTATAAAAAAGAAAGTTTTATATTTTTAAAAATAAAAATATGT
TTTTTAGTTATTTTAAAGA
Found at i:6703007 original size:152 final size:148
Alignment explanation
Indices: 6702432--6702997 Score: 608
Period size: 152 Copynumber: 3.8 Consensus size: 148
6702422 GTTTTTTTAG
*
6702432 AAAAGTTTAAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTAGATT
1 AAAAGTTT-AAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATT
* * ** ***** *
6702497 TTTAAG-AAAGTAATGATTTTCATT--AAAATTTTTTTTTATATTTTTTAAAAAATAAAAATCTG
65 TTAAAGTAAAGTAGTGATTTTTTTTAAAAAAGAAAATTTTATATTTTTT-AAAAATAAAAATATG
6702559 TTTTTTAGTTATTTTAAAG-
129 TTTTTTAGTTATTTTAAAGA
* * *
6702578 AAAAGTTTAAATTTTTAAAACAAAGTTTTTATTTTTTTAACTATTTCGAAAT-AAAAGTTCGAAT
1 AAAAGTTTAAATTTTT-AAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAG-AT
* * * *
6702642 TTTTAAGTAAAATAGTGATTTTCTTTAAAAAATAGAAAGTTTTATA-TTTTTAAAAATAAAAATA
64 TTTAAAGTAAAGTAGTGATTTT-TTTTAAAAA-AGAAAATTTTATATTTTTTAAAAATAAAAATA
*
6702706 TGTTTTTTAGTTATTTTAAGGA
127 TGTTTTTTAGTTATTTTAAAGA
* * * *
6702728 AAAAGTTTAAATTTTTAAATAAAGATTTGA-TTTTTTAACTATTTCGAAATAAAAATTTAAAATT
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
* * * ***
6702792 TAAAGTAAAGTAGTGATTTTCATTATAAAAAAGAAAGAAAGTTTAGATTTAAAAAAAATAAAAAT
66 TAAAGTAAAGTAGTGATTTT--TTTTAAAAAAG--A-AAATTTTATATTTTTTAAAAATAAAAAT
* *
6702857 ATGTTTTTTAGTGATTTCAAAGA
126 ATGTTTTTTAGTTATTTTAAAGA
* *
6702880 AAAAATTTAAATTTTTAAACAAAGTTTTGATTTTTTTTAAACTATTTC-AAATTAAAAATTTTGA
1 AAAAGTTTAAATTTTTAAACAAAGTTTTGA-TTTTTTT-AACTATTTCGAAA-TAAAAATTTAGA
* *
6702944 TTTTGAAGTAAAGTAGTGATTTTGTTTTAATTAAAAGAAAATTTTTTATTTTTT
63 TTTTAAAGTAAAGTAGTGATTTT-TTTTAA--AAAAGAAAATTTTATATTTTTT
6702998 TTTAAAAAAA
Statistics
Matches: 348, Mismatches: 52, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
145 14 0.04
146 51 0.15
147 12 0.03
148 44 0.13
149 56 0.16
150 25 0.07
151 15 0.04
152 61 0.18
153 10 0.03
154 15 0.04
155 40 0.11
156 5 0.01
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (148 bp):
AAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
TAAAGTAAAGTAGTGATTTTTTTTAAAAAAGAAAATTTTATATTTTTTAAAAATAAAAATATGTT
TTTTAGTTATTTTAAAGA
Found at i:6703008 original size:29 final size:30
Alignment explanation
Indices: 6702962--6703018 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
6702952 TAAAGTAGTG
** *
6702962 ATTTTGTTTTAATTAAAAGA-AAATTTTTT
1 ATTTTGTTTTAAAAAAAAAAGAAATTTTTT
*
6702991 ATTTTTTTTTAAAAAAAAAAGAAATTTT
1 ATTTTGTTTTAAAAAAAAAAGAAATTTT
6703019 CGGCCACCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (30 bp):
ATTTTGTTTTAAAAAAAAAAGAAATTTTTT
Found at i:6712506 original size:15 final size:15
Alignment explanation
Indices: 6712469--6712509 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
6712459 TACACCCATC
*
6712469 TGATGTCATGGTCGA
1 TGATGTCGTGGTCGA
6712484 TGATGTCGTGGTCGA
1 TGATGTCGTGGTCGA
6712499 TGATGTCGTGG
1 TGATGTCGTGG
6712510 CACAGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.15, C:0.12, G:0.39, T:0.34
Consensus pattern (15 bp):
TGATGTCGTGGTCGA
Found at i:6712716 original size:17 final size:17
Alignment explanation
Indices: 6712696--6712768 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
6712686 ATTGTCACCA
6712696 CATTTCCTTTGTCATTG
1 CATTTCCTTTGTCATTG
*** *
6712713 CATTTTAATTGTCACTG
1 CATTTCCTTTGTCATTG
* * *
6712730 CATTTGCGTTATCATTG
1 CATTTCCTTTGTCATTG
*
6712747 CATTTCCATTTGTCAATG
1 CATTTCC-TTTGTCATTG
6712765 CATT
1 CATT
6712769 GAGGACAATG
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 31 0.74
18 11 0.26
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (17 bp):
CATTTCCTTTGTCATTG
Found at i:6712725 original size:34 final size:34
Alignment explanation
Indices: 6712682--6712751 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
6712672 GTAACTGTAA
* *
6712682 TTTAATTGTCACCACATTTCCTTTGTCATTGCAT
1 TTTAATTGTCACCACATTTCCGTTATCATTGCAT
** *
6712716 TTTAATTGTCACTGCATTTGCGTTATCATTGCAT
1 TTTAATTGTCACCACATTTCCGTTATCATTGCAT
6712750 TT
1 TT
6712752 CCATTTGTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (34 bp):
TTTAATTGTCACCACATTTCCGTTATCATTGCAT
Found at i:6714074 original size:26 final size:26
Alignment explanation
Indices: 6714045--6714095 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6714035 CCAGGAATGC
*
6714045 CGCTGCATGAACACGTCCAGAATTGT
1 CGCTACATGAACACGTCCAGAATTGT
**
6714071 CGCTACATGAACGTGTCCAGAATTG
1 CGCTACATGAACACGTCCAGAATTG
6714096 CGCCTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (26 bp):
CGCTACATGAACACGTCCAGAATTGT
Found at i:6740781 original size:24 final size:24
Alignment explanation
Indices: 6740746--6740939 Score: 241
Period size: 24 Copynumber: 8.1 Consensus size: 24
6740736 AAGTTCATTT
*
6740746 CGTTTACACTCGACAGCATGAATA
1 CGTTTACGCTCGACAGCATGAATA
* * *
6740770 TGTTTACGCTCGCCAGCAAGAATA
1 CGTTTACGCTCGACAGCATGAATA
6740794 CGTTTACGCTC-ACCAGCATGAATA
1 CGTTTACGCTCGA-CAGCATGAATA
*
6740818 CGTTTACGCTCGTCAGCATGAATA
1 CGTTTACGCTCGACAGCATGAATA
* * *
6740842 CGTTTACACTTGCCAGCATGAATA
1 CGTTTACGCTCGACAGCATGAATA
6740866 CGTTTACGCTC-ATCAGCATGAATA
1 CGTTTACGCTCGA-CAGCATGAATA
* *
6740890 CGTTTAAGCTCGTCAGCATGAATA
1 CGTTTACGCTCGACAGCATGAATA
*
6740914 TGTTTACGCTC-ATCAGCATGAATA
1 CGTTTACGCTCGA-CAGCATGAATA
6740938 CG
1 CG
6740940 AGAAACATTG
Statistics
Matches: 145, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
24 145 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (24 bp):
CGTTTACGCTCGACAGCATGAATA
Found at i:6740865 original size:72 final size:72
Alignment explanation
Indices: 6740746--6740939 Score: 298
Period size: 72 Copynumber: 2.7 Consensus size: 72
6740736 AAGTTCATTT
* * *
6740746 CGTTTACACTCGACAGCATGAATATGTTTACGCTCGCCAGCAAGAATACGTTTACGCTCACCAGC
1 CGTTTACGCTCGTCAGCATGAATATGTTTACGCTCGCCAGCATGAATACGTTTACGCTCACCAGC
6740811 ATGAATA
66 ATGAATA
* * * *
6740818 CGTTTACGCTCGTCAGCATGAATACGTTTACACTTGCCAGCATGAATACGTTTACGCTCATCAGC
1 CGTTTACGCTCGTCAGCATGAATATGTTTACGCTCGCCAGCATGAATACGTTTACGCTCACCAGC
6740883 ATGAATA
66 ATGAATA
* **
6740890 CGTTTAAGCTCGTCAGCATGAATATGTTTACGCTCATCAGCATGAATACG
1 CGTTTACGCTCGTCAGCATGAATATGTTTACGCTCGCCAGCATGAATACG
6740940 AGAAACATTG
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (72 bp):
CGTTTACGCTCGTCAGCATGAATATGTTTACGCTCGCCAGCATGAATACGTTTACGCTCACCAGC
ATGAATA
Found at i:6746197 original size:51 final size:51
Alignment explanation
Indices: 6746128--6746312 Score: 255
Period size: 51 Copynumber: 3.6 Consensus size: 51
6746118 GAAAGGGGTC
6746128 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTT
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTT
* * *
6746179 CGATGACTAAGAGTCATCGTGAGTAAATGAATCCTTTACGGATTATAGGTC
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTT
* * * * * *
6746230 CGATGACTAAGCGTCATCGTGAGTAAATGAATCCATGATGAATT-AAGGGT
1 CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTT
* *
6746280 CTGATGACTCAGTGTCATCGTGAGTATATGAAT
1 C-GATGACTAAGTGTCATCGTGAGTAAATGAAT
6746313 TCCTATACAG
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
50 4 0.03
51 115 0.97
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (51 bp):
CGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTT
Found at i:6746300 original size:102 final size:103
Alignment explanation
Indices: 6746123--6746358 Score: 291
Period size: 102 Copynumber: 2.3 Consensus size: 103
6746113 TAAACGAAAG
* * * *
6746123 GGGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAAGGTTCGATGACTA
1 GGGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTTCGATGACTA
* * **
6746188 AGAGTCATCGTGAGTAAATGAA-TCCTTTACGGATTATA
66 AGAGTCATCGTGAGTAAATGAATTCCTATACAGAACA-A
* *
6746226 -GGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCATGATGAATT-AAGGGTCTGATGACT
1 GGGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTTC-GATGACT
* * *
6746289 CAGTGTCATCGTGAGTATATGAATTCCTATACAGAACAA
65 AAGAGTCATCGTGAGTAAATGAATTCCTATACAGAACAA
6746328 GGGGTCCGATGACTATA-CGTCATCGTGAGTA
1 -GGGTCCGATGACTA-AGCGTCATCGTGAGTA
6746359 TTAAATGAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
101 6 0.05
102 71 0.62
103 10 0.09
104 27 0.23
105 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (103 bp):
GGGTCCGATGACTAAGCGTCATCGTGAGTAAATGAATCCATGACGAATTAAAGGTTCGATGACTA
AGAGTCATCGTGAGTAAATGAATTCCTATACAGAACAA
Found at i:6751756 original size:9 final size:9
Alignment explanation
Indices: 6751725--6751776 Score: 68
Period size: 9 Copynumber: 5.6 Consensus size: 9
6751715 ATATATATAT
*
6751725 AAGAAATAA
1 AAGAAACAA
*
6751734 AAGAATAAAGA
1 AAGAA-ACA-A
6751745 AAGAAACAA
1 AAGAAACAA
6751754 AAGAAACAA
1 AAGAAACAA
6751763 AAGAAACAA
1 AAGAAACAA
6751772 AAGAA
1 AAGAA
6751777 GGAAGAACAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
9 29 0.74
10 4 0.10
11 6 0.15
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (9 bp):
AAGAAACAA
Found at i:6752852 original size:37 final size:38
Alignment explanation
Indices: 6752752--6752854 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 38
6752742 GACCTTGAGT
* **
6752752 CGATGAGACACTGGGTGTCATTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTC---ACTTTACTTCGGATAGAGC
** * ** *
6752793 CGATGAGGTACTGGATACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
6752830 CGATGAGACACTGGGTGTCACTTTA
1 CGATGAGACACTGGGTGTCACTTTA
6752855 TTGCTTTGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 20 0.42
38 14 0.29
41 14 0.29
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
Found at i:6755040 original size:24 final size:24
Alignment explanation
Indices: 6755013--6755069 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
6755003 CATCTAACCG
*
6755013 TTGACTTTTATCGACCTTTGACCA
1 TTGACTTTTATCGACCGTTGACCA
* * *
6755037 TTGACTTTGATCGATCGTTGACCG
1 TTGACTTTTATCGACCGTTGACCA
*
6755061 TTAACTTTT
1 TTGACTTTT
6755070 TTGGAAAGCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (24 bp):
TTGACTTTTATCGACCGTTGACCA
Found at i:6765545 original size:33 final size:33
Alignment explanation
Indices: 6765469--6765545 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 33
6765459 CCTATTTACT
* * * ** *
6765469 TAAAATAAATAATTTTAGTCAAAATGAAATTAG
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
*
6765502 GAAAAT-AACAAATTTAATCAAAACAAAATTAA
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
6765534 TAAAATAAACAA
1 TAAAATAAACAA
6765546 CTTTGCTAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.62, C:0.06, G:0.05, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAATCAAAACAAAATTAA
Found at i:6766341 original size:19 final size:20
Alignment explanation
Indices: 6766317--6766355 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6766307 GTAACCAAGT
6766317 CTAA-TTTATTTATTCACAA
1 CTAATTTTATTTATTCACAA
6766336 CTAATTTTTATTTATTCACA
1 CTAA-TTTTATTTATTCACA
6766356 TGATTTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (20 bp):
CTAATTTTATTTATTCACAA
Found at i:6776270 original size:33 final size:33
Alignment explanation
Indices: 6776194--6776270 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 33
6776184 CCTATTTACT
* * ** *
6776194 TAAAATAAATAATTTTAATCAAAATGAAATTAG
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
*
6776227 GAAAAT-AACAAATTTAATCAAAACAAAATTAA
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
6776259 TAAAATAAACAA
1 TAAAATAAACAA
6776271 CTTTGACTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 26 0.72
33 10 0.28
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAATCAAAACAAAATTAA
Found at i:6778759 original size:33 final size:33
Alignment explanation
Indices: 6778683--6778759 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 33
6778673 CCTATTTACT
* * ** *
6778683 TAAAATAAATAATTTTAATCAAAATGAAATTAG
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
*
6778716 GAAAAT-AACAAATTTAATCAAAACAAAATTAA
1 TAAAATAAACAAATTTAATCAAAACAAAATTAA
6778748 TAAAATAAACAA
1 TAAAATAAACAA
6778760 CTTTGACTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 26 0.72
33 10 0.28
ACGTcount: A:0.64, C:0.06, G:0.04, T:0.26
Consensus pattern (33 bp):
TAAAATAAACAAATTTAATCAAAACAAAATTAA
Found at i:6787131 original size:27 final size:28
Alignment explanation
Indices: 6787099--6787154 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
6787089 TTTTACAATG
6787099 TATAACTATTAATAAT-ATAATATAATA
1 TATAACTATTAATAATAATAATATAATA
*
6787126 TATAACTATTACTAATACATAATATAATA
1 TATAACTATTAATAATA-ATAATATAATA
6787155 ATATTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
29 11 0.42
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (28 bp):
TATAACTATTAATAATAATAATATAATA
Found at i:6787142 original size:22 final size:23
Alignment explanation
Indices: 6787108--6787159 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
6787098 GTATAACTAT
*
6787108 TAATAATA-TAAT-ATAATAT-A
1 TAATATTACTAATAATAATATAA
6787128 TAACTATTACTAATACATAATATAA
1 TAA-TATTACTAATA-ATAATATAA
6787153 TAATATT
1 TAATATT
6787160 TTATAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 4 0.15
22 4 0.15
24 11 0.42
25 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (23 bp):
TAATATTACTAATAATAATATAA
Found at i:6787155 original size:42 final size:41
Alignment explanation
Indices: 6787108--6787205 Score: 106
Period size: 42 Copynumber: 2.4 Consensus size: 41
6787098 GTATAACTAT
6787108 TAATAATATAATATAATATATAACTATTACTAATACATAATA
1 TAATAATATAATATAATATATAACTATTACTAATACATAA-A
** * * * * *
6787150 TAATAATATTTTATAATGTATTAGTATTATTAGTACATAAA
1 TAATAATATAATATAATATATAACTATTACTAATACATAAA
* *
6787191 AAATATTATAATATA
1 TAATAATATAATATA
6787206 TAACTTTTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 12 0.27
42 33 0.73
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (41 bp):
TAATAATATAATATAATATATAACTATTACTAATACATAAA
Found at i:6788507 original size:19 final size:21
Alignment explanation
Indices: 6788485--6788530 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
6788475 TATTAACACA
6788485 TTTTTATTA-TTTTAA-GAAT
1 TTTTTATTATTTTTAATGAAT
6788504 TTTTT-TTATTTTTAATGAAT
1 TTTTTATTATTTTTAATGAAT
6788524 TATTTTA
1 T-TTTTA
6788531 ATACATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 5 0.22
21 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTTTTATTATTTTTAATGAAT
Found at i:6788523 original size:20 final size:18
Alignment explanation
Indices: 6788484--6788529 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
6788474 ATATTAACAC
*
6788484 ATTTTTATTATTTTAAGA
1 ATTTTTTTTATTTTAAGA
6788502 ATTTTTTTTATTTTTAATGA
1 ATTTTTTTTA-TTTTAA-GA
6788522 ATTATTTT
1 ATT-TTTT
6788530 AATACATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 6 0.25
20 5 0.21
21 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
ATTTTTTTTATTTTAAGA
Found at i:6788966 original size:21 final size:23
Alignment explanation
Indices: 6788917--6788967 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
6788907 TTTTTAACTA
*
6788917 TAGTTTTTTAAAAATATTAGTAT
1 TAGTTTTTTAAAAATATTAGAAT
*
6788940 TA--TTTTTAAAATTA-TA-AAT
1 TAGTTTTTTAAAAATATTAGAAT
6788959 TAGTTTTTT
1 TAGTTTTTT
6788968 TTATAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 4 0.17
20 2 0.08
21 16 0.67
23 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (23 bp):
TAGTTTTTTAAAAATATTAGAAT
Found at i:6796047 original size:6 final size:6
Alignment explanation
Indices: 6796036--6796129 Score: 143
Period size: 6 Copynumber: 15.7 Consensus size: 6
6796026 TCATGGTTTT
6796036 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA
* * * * *
6796084 CCATCA CCATCA CCATCT CCATCT CCATCT CCATCT CCATCT CCAT
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCAT
6796130 ATAAGTTGAG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 87 1.00
ACGTcount: A:0.28, C:0.50, G:0.00, T:0.22
Consensus pattern (6 bp):
CCATCA
Found at i:6799738 original size:104 final size:103
Alignment explanation
Indices: 6799601--6799951 Score: 353
Period size: 104 Copynumber: 3.4 Consensus size: 103
6799591 ATCGCAAGCC
* * ** * * *
6799601 TTAAATCAACTAGCCTTAATAATATTAGTTGTGAACATAGGTCAGTGAGCTGTTAGGAATTGCGA
1 TTAAATCAACTAGCCTTAATAACATCAACTGTGAACGTAGGTCAGTGAGCTGTTAAGAGTTGCGA
* **
6799666 TCTTAAATCAGCGAACTCAAATGATCAGAGACTGCGATA
66 TCTTAAATCAGCGAACTCAAATAATC-GAGGTTGCGATA
* * * * * ** * *
6799705 TTAAATTAGCTAGCCTTAATAATATCAACTGTGAACGTAGATCAGCGATTTGTTAAGAGTTACAA
1 TTAAATCAACTAGCCTTAATAACATCAACTGTGAACGTAGGTCAGTGAGCTGTTAAGAGTTGCGA
** *
6799770 TCTTAAATCAGTTAACTCAAATAATCGAAGGTTGCGATT
66 TCTTAAATCAGCGAACTCAAATAATCG-AGGTTGCGATA
* * * * * * * *
6799809 TTAAAT-AATTAGCCTTAATAACATTAGCCGTGAACGCAAGTCAGTGAGCTATTAAGAGTTGTGA
1 TTAAATCAACTAGCCTTAATAACATCAACTGTGAACGTAGGTCAGTGAGCTGTTAAGAGTTGCGA
* * * * *
6799873 TATTAAATCAACGAACTCAAATAATCGGAGGTTACAATC
66 TCTTAAATCAGCGAACTCAAATAATC-GAGGTTGCGATA
6799912 TTAAATCAACTAGCCTTAATAACATCAACTGTGAACGTAG
1 TTAAATCAACTAGCCTTAATAACATCAACTGTGAACGTAG
6799952 AAATGACAAT
Statistics
Matches: 195, Mismatches: 49, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
103 79 0.41
104 116 0.59
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (103 bp):
TTAAATCAACTAGCCTTAATAACATCAACTGTGAACGTAGGTCAGTGAGCTGTTAAGAGTTGCGA
TCTTAAATCAGCGAACTCAAATAATCGAGGTTGCGATA
Found at i:6803944 original size:23 final size:24
Alignment explanation
Indices: 6803906--6803966 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
6803896 TCCGAGAAGT
*
6803906 AGAAAAG-GAAGAAAA-T-TAGAG
1 AGAAAAGAGGAGAAAATTGTAGAG
*
6803927 AGAAAAGAGGAGAGAAATTGTAGGG
1 AGAAAAGAGGAGA-AAATTGTAGAG
*
6803952 AGAAAAGATGAGAAA
1 AGAAAAGAGGAGAAA
6803967 TTTTTTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
22 4 0.12
23 3 0.09
24 3 0.09
25 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (24 bp):
AGAAAAGAGGAGAAAATTGTAGAG
Found at i:6808899 original size:23 final size:24
Alignment explanation
Indices: 6808861--6808921 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
6808851 TCCGAGAAGT
*
6808861 AGAAAAG-GAAGAAAA-T-TAGAG
1 AGAAAAGAGGAGAAAATTGTAGAG
*
6808882 AGAAAAGAGGAGAGAAATTGTAGGG
1 AGAAAAGAGGAGA-AAATTGTAGAG
*
6808907 AGAAAAGATGAGAAA
1 AGAAAAGAGGAGAAA
6808922 TTTTTCTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 7 0.21
22 4 0.12
23 3 0.09
24 3 0.09
25 16 0.48
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (24 bp):
AGAAAAGAGGAGAAAATTGTAGAG
Found at i:6811428 original size:2 final size:2
Alignment explanation
Indices: 6811421--6811460 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6811411 TTCAATTTGA
6811421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6811461 TGGTCTCAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6815885 original size:3 final size:3
Alignment explanation
Indices: 6815877--6815918 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
6815867 AACGGTGCTC
*
6815877 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6815919 ATTCTCGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6822303 original size:25 final size:24
Alignment explanation
Indices: 6822246--6822304 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
6822236 AAAAATAGGT
* *
6822246 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
6822269 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
6822293 TATTTTAATAAT
1 TATATT-ATAAT
6822305 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:6822374 original size:57 final size:59
Alignment explanation
Indices: 6822278--6822432 Score: 187
Period size: 57 Copynumber: 2.7 Consensus size: 59
6822268 ATATATTATA
* * *
6822278 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATATTATTAAATT-ATATATT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAAATATAATTAAATTAAT-TAAT
* *
6822338 A-TTTTATT-AATTTTATTTCATAATAATTATATT-AAAATATAATTAAATTAATTAAT
1 ATTTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAAATTAATTAAT
6822394 ATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAA
1 ATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAA
6822433 TTTAATAAGA
Statistics
Matches: 83, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
56 19 0.23
57 26 0.31
58 23 0.28
59 14 0.17
60 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (59 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAAATATAATTAAATTAATTAAT
Found at i:6822407 original size:26 final size:26
Alignment explanation
Indices: 6822378--6822448 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
6822368 ATTAAAATAT
* *
6822378 AATTA-AATTAATTAATATTTTTATTA
1 AATTATAATTAA-TAATAATCTTATTA
*
6822404 AATTATATTTAATAATAATCTTATTAA
1 AATTATAATTAATAATAATCTTATT-A
*
6822431 AATT-TAA-TAAGAATAATC
1 AATTATAATTAATAATAATC
6822449 CTCTAACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 10 0.26
26 18 0.47
27 10 0.26
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
AATTATAATTAATAATAATCTTATTA
Found at i:6822433 original size:58 final size:57
Alignment explanation
Indices: 6822269--6822438 Score: 193
Period size: 58 Copynumber: 2.9 Consensus size: 57
6822259 TCTAATATTA
* * *
6822269 TATATTATAATTTTTACTAATTCATATTTTAATAATAATTATATTAAAAATATTATTAAAT
1 TATATAAT-ATTTTTATTAATT-ATA-TTTAATAATAATTATATT-AAAATATAATTAAAT
* * *
6822330 TATATATTA-TTTTATTAATTTTATTTCATAATAATTATATTAAAATATAATTAAAT
1 TATATAATATTTTTATTAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
*
6822386 TA-ATTAATATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTAAT
1 TATA-TAATATTTTTATT-AATTATATTTAATAATAAT-TATATTAAAATATAAT
6822439 AAGAATAATC
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
55 1 0.01
56 20 0.21
57 24 0.25
58 32 0.34
59 11 0.12
60 1 0.01
61 6 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (57 bp):
TATATAATATTTTTATTAATTATATTTAATAATAATTATATTAAAATATAATTAAAT
Found at i:6822615 original size:16 final size:16
Alignment explanation
Indices: 6822594--6822633 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6822584 TGAATTACTG
* *
6822594 ATTACAGTTCTATTTC
1 ATTACAGCTCTATTCC
*
6822610 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
6822626 ATTACAGC
1 ATTACAGC
6822634 GAACCAAACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6826831 original size:21 final size:22
Alignment explanation
Indices: 6826806--6826852 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
6826796 ATCAAACAAG
* *
6826806 ATTTACCCAA-TTCAAAATATC
1 ATTTACACAATTTCAAAAGATC
*
6826827 ATTTATACAATTTCAAAAGATC
1 ATTTACACAATTTCAAAAGATC
6826849 ATTT
1 ATTT
6826853 CAAAAACATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
ATTTACACAATTTCAAAAGATC
Found at i:6827384 original size:50 final size:51
Alignment explanation
Indices: 6827294--6827389 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 51
6827284 AAACATGATT
* **
6827294 ACAGAACGTTTAAGCTCGTTAGCTATTTAGAATCAAAATG-ATCGTAATAG
1 ACAGAACGTTTAAGCTCGTCAGCTATACAGAATCAAAATGAATCGTAATAG
* *
6827344 ACAGAACGTTTAAGCTCGTCAGCTATACAGAGTCAGAATGAATCGT
1 ACAGAACGTTTAAGCTCGTCAGCTATACAGAATCAAAATGAATCGT
6827390 GTCAGGCTCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 35 0.88
51 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (51 bp):
ACAGAACGTTTAAGCTCGTCAGCTATACAGAATCAAAATGAATCGTAATAG
Found at i:6827808 original size:216 final size:216
Alignment explanation
Indices: 6827429--6827864 Score: 644
Period size: 216 Copynumber: 2.0 Consensus size: 216
6827419 AACCATTCAT
* *
6827429 ATAACACTAGCTTGGTCAGAGCTAGGTAACGTAATAAACAACAACGGTTAACTACTCTCAGCTAA
1 ATAACACTAGCTTGGCCAGAGCTAGGTAACGTAATAAACAAAAACGGTTAACTACTCTCAGCTAA
* ** * * *
6827494 ATCTGTGTCTCACTTTATCTTGAGTCTGTAACACATGCAAGATCTCGTTTAGAACGTTTACGCTC
66 ATCCGTGTCTCACTTTATCCCGAGTCTGCAACACATGCAAGATCTCATTGAGAACGTTTACGCTC
* *
6827559 ATAAGCTAAATAGATAAAAATATCACGTTTGAAGACTTTTATTAGATCCATCGTAACTTCTTCAA
131 ATAAGCTAAACAGATAAAAATATCACGTTTGAAGACTTTTATTAGACCCATCGTAACTTCTTCAA
*
6827624 AATCACTTATTTATACTTCTA
196 AATCACTTATTTACACTTCTA
* * * *
6827645 ATAAGACTAGCTTGGCCAGAGTTAGGTAATGTAATAAACAAAAACGGTTAGCTACTCTCAGCTAA
1 ATAACACTAGCTTGGCCAGAGCTAGGTAACGTAATAAACAAAAACGGTTAACTACTCTCAGCTAA
* * *
6827710 ATCCGTGTCTCACTTTATCCCGAGT-TCGCAGCACATGGAGGATCTCATTCGA-AACGTTTACGC
66 ATCCGTGTCTCACTTTATCCCGAGTCT-GCAACACATGCAAGATCTCATT-GAGAACGTTTACGC
* *
6827773 TCATCAA-CTAAACAGATAGAAATATCGCGTTTGAAGACTTTTATTAGACCCATCGTAACTTCTT
129 TCAT-AAGCTAAACAGATAAAAATATCACGTTTGAAGACTTTTATTAGACCCATCGTAACTTCTT
6827837 CAAAATCACTTATTTACACTTCTA
193 CAAAATCACTTATTTACACTTCTA
6827861 ATAA
1 ATAA
6827865 AATTAGCTAC
Statistics
Matches: 197, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
215 1 0.01
216 193 0.98
217 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (216 bp):
ATAACACTAGCTTGGCCAGAGCTAGGTAACGTAATAAACAAAAACGGTTAACTACTCTCAGCTAA
ATCCGTGTCTCACTTTATCCCGAGTCTGCAACACATGCAAGATCTCATTGAGAACGTTTACGCTC
ATAAGCTAAACAGATAAAAATATCACGTTTGAAGACTTTTATTAGACCCATCGTAACTTCTTCAA
AATCACTTATTTACACTTCTA
Found at i:6830607 original size:18 final size:17
Alignment explanation
Indices: 6830584--6830626 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
6830574 GGATGGTAAC
6830584 CTATGATTAAGTCATAAT
1 CTATGATTAAGT-ATAAT
*
6830602 CTATGATTAAGTATACT
1 CTATGATTAAGTATAAT
6830619 CTTATGAT
1 C-TATGAT
6830627 CTGAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (17 bp):
CTATGATTAAGTATAAT
Found at i:6837561 original size:35 final size:35
Alignment explanation
Indices: 6837510--6837667 Score: 132
Period size: 35 Copynumber: 4.6 Consensus size: 35
6837500 ATCTAGATAA
* *
6837510 ATATTAAACTACATTTAATATCTCATATTAATATT
1 ATATTAAATTAAATTTAATATCTCATATTAATATT
* *
6837545 ATATTAAATTAAATTTAGTATCTCATATTATTATT
1 ATATTAAATTAAATTTAATATCTCATATTAATATT
* * * * *
6837580 AAATT-AA-TAAA-ATACTATCT-AGATAAATATT
1 ATATTAAATTAAATTTAATATCTCATATTAATATT
* *
6837611 ATATTAAATTTAATATTT-ATAT-TAATATCTAGATA-A
1 ATATTAAA-TTAA-ATTTAATATCTCATAT-TA-ATATT
6837647 ATATTAAATTAAATTTAATAT
1 ATATTAAATTAAATTTAATAT
6837668 TAAATCATTA
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
31 12 0.12
32 9 0.09
33 4 0.04
34 10 0.10
35 50 0.51
36 10 0.10
37 3 0.03
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.46
Consensus pattern (35 bp):
ATATTAAATTAAATTTAATATCTCATATTAATATT
Found at i:6837626 original size:12 final size:12
Alignment explanation
Indices: 6837611--6837679 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
6837601 GATAAATATT
*
6837611 ATATTAAATTTA
1 ATATTAAATTAA
*
6837623 ATATTTATATT-A
1 ATA-TTAAATTAA
*
6837635 ATATCTAGA-TAA
1 ATAT-TAAATTAA
6837647 ATATTAAATTAA
1 ATATTAAATTAA
6837659 AT-TTAATATTAA
1 ATATTAA-ATTAA
6837671 ATCATTAAA
1 AT-ATTAAA
6837680 ACAATATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
11 9 0.19
12 27 0.57
13 7 0.15
14 4 0.09
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (12 bp):
ATATTAAATTAA
Found at i:6850288 original size:50 final size:51
Alignment explanation
Indices: 6850231--6850359 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
6850221 GTTAGTGAAC
* * *
6850231 TTAAATAAATATAAATATTTATATTAAAA-CA-AGATCTCAATAAAATTA-A
1 TTAAATAAATATTAATATTTATATTAAAATCATAGATCTAAAT-AAATAACA
* *
6850280 TATAAATAAATATTTATATTTATA-TAAAATCATTAGATTTAAATAAATAACA
1 T-TAAATAAATATTAATATTTATATTAAAATCA-TAGATCTAAATAAATAACA
*
6850332 TTAAATAAATATTCATATTTAT-TTAAAA
1 TTAAATAAATATTAATATTTATATTAAAA
6850360 AAATTAGATA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
49 6 0.09
50 22 0.32
51 30 0.44
52 10 0.15
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (51 bp):
TTAAATAAATATTAATATTTATATTAAAATCATAGATCTAAATAAATAACA
Found at i:6858490 original size:59 final size:59
Alignment explanation
Indices: 6858382--6858520 Score: 140
Period size: 59 Copynumber: 2.4 Consensus size: 59
6858372 TTGGATACTC
* * * * * * *
6858382 AGGGGTAAAAGGGTAATTTTTCGTTAAAATTGGGTCAAAATCAGGATTTTGTAA-AGTT
1 AGGGGTAAAATGGTAATTTTTCGTAAAAATCGGGTAAAAATCAGAATTTTATAAGACTT
* * *
6858440 CGGGGGTAAAATGGTAATTTTTGGTAAAAATCGGGTTAAAAATGA-AATTTTATAAGACTT
1 -AGGGGTAAAATGGTAATTTTTCGTAAAAATCGGG-TAAAAATCAGAATTTTATAAGACTT
6858500 AGGGGTAAAAAT-GTAATTTTT
1 AGGGGT-AAAATGGTAATTTTT
6858521 AGAAATTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
59 51 0.77
60 15 0.23
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (59 bp):
AGGGGTAAAATGGTAATTTTTCGTAAAAATCGGGTAAAAATCAGAATTTTATAAGACTT
Found at i:6858541 original size:30 final size:30
Alignment explanation
Indices: 6858502--6858772 Score: 272
Period size: 30 Copynumber: 9.1 Consensus size: 30
6858492 TAAGACTTAG
* *
6858502 GGGTAAAAATGTAATTTTTAGAAA-TTTTT
1 GGGTCAAAATGTAATTTTTAGAAAGTTTTA
* * *
6858531 GAGGTTAAAATATAA-TTTTAGAGA-TATTTA
1 G-GGTCAAAATGTAATTTTTAGAAAGT-TTTA
*
6858561 GGGTCAAAATGTAATTTTTAAAAAGTTTT-
1 GGGTCAAAATGTAATTTTTAGAAAGTTTTA
*
6858590 GAGGTCAAAATATAATTTTTAGAAAGTTTTA
1 G-GGTCAAAATGTAATTTTTAGAAAGTTTTA
*
6858621 GGGTCAAAATGTAATTTTTA-AAACATTTTA
1 GGGTCAAAATGTAATTTTTAGAAA-GTTTTA
* *
6858651 GGGTTAAAATGTAATTTTTAAAAAAGTTTTA
1 GGGTCAAAATGTAATTTTT-AGAAAGTTTTA
* *
6858682 GGGTTATAAA--TAATTTTTAGAAAGTTTTG
1 GGGTCA-AAATGTAATTTTTAGAAAGTTTTA
* *
6858711 GGGTCAAAATATAGTTTTTAGAAAGTTTTA
1 GGGTCAAAATGTAATTTTTAGAAAGTTTTA
* *
6858741 GGGTTAAAATGTAA-CTTTAGAAAAG-TTTA
1 GGGTCAAAATGTAATTTTTAG-AAAGTTTTA
6858770 GGG
1 GGG
6858773 GGTTAAAACA
Statistics
Matches: 206, Mismatches: 23, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
28 3 0.01
29 51 0.25
30 132 0.64
31 14 0.07
32 6 0.03
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.40
Consensus pattern (30 bp):
GGGTCAAAATGTAATTTTTAGAAAGTTTTA
Found at i:6858776 original size:90 final size:88
Alignment explanation
Indices: 6858498--6858780 Score: 320
Period size: 90 Copynumber: 3.1 Consensus size: 88
6858488 TTTATAAGAC
* * * * * * *
6858498 TTAGGGGTAAAAATGTAATTTTTAGAAATTTTTGAGGTTAAAATATAATTTTAGAGATATTTAGG
1 TTAGGGGTTAAAATATAATTTTTAGAAAGTTTTGGGGTCAAAATATATTTTTAGAAAT-TTTAGG
*
6858563 GTCAAAATGTAATTTTTAAAAAGT
65 GTTAAAATGTAATTTTTAAAAAGT
* * * * * *
6858587 TTTGAGGTCAAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATGTAATTTTTAAAACATTTTAG
1 TTAGGGGTTAAAATATAATTTTTAGAAAGTTTTGGGGTCAAAATAT-ATTTTTAGAA-ATTTTAG
6858652 GGTTAAAATGTAATTTTTAAAAAAGTT
64 GGTTAAAATGTAATTTTT-AAAAAG-T
*
6858679 TTA-GGGTTATAA-ATAATTTTTAGAAAGTTTTGGGGTCAAAATATAGTTTTTAGAAAGTTTTAG
1 TTAGGGGTTAAAATATAATTTTTAGAAAGTTTTGGGGTCAAAATATA-TTTTTAGAAA-TTTTAG
*
6858742 GGTTAAAATGTAA-CTTTAGAAAAGT
64 GGTTAAAATGTAATTTTTA-AAAAGT
6858767 TTAGGGGGTTAAAA
1 TTA-GGGGTTAAAA
6858781 CACTATTTTT
Statistics
Matches: 163, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
88 5 0.03
89 47 0.29
90 94 0.58
91 14 0.09
92 3 0.02
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (88 bp):
TTAGGGGTTAAAATATAATTTTTAGAAAGTTTTGGGGTCAAAATATATTTTTAGAAATTTTAGGG
TTAAAATGTAATTTTTAAAAAGT
Found at i:6859907 original size:24 final size:22
Alignment explanation
Indices: 6859878--6859937 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 22
6859868 AACGTTTCAC
6859878 TTATATTATTATTAATAATATTTA
1 TTATATTA-TATTAATAATA-TTA
*
6859902 TTATATTATA--AACAATATTA
1 TTATATTATATTAATAATATTA
6859922 TTA-ATTACTATTAATA
1 TTATATTA-TATTAATA
6859938 CCTTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 4 0.13
20 8 0.26
21 6 0.19
22 3 0.10
23 2 0.06
24 8 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATATTATATTAATAATATTA
Found at i:6860612 original size:6 final size:6
Alignment explanation
Indices: 6860582--6860687 Score: 66
Period size: 6 Copynumber: 19.0 Consensus size: 6
6860572 TATATTAAGT
* **
6860582 TTTAAA -TT-AA TTCAAA TTT-AA -TTAAA TTTAAA TTTAAA -GCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*** * *
6860625 TTTAAA TTTAAA AAGAAA TTTAAA TTTAAA -ATAAA TTTAAA --TCAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
6860670 TTTAAA CTTAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA
6860688 ATCGAAGCCT
Statistics
Matches: 72, Mismatches: 20, Indels: 16
0.67 0.19 0.15
Matches are distributed among these distances:
4 7 0.10
5 14 0.19
6 51 0.71
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:6860627 original size:17 final size:16
Alignment explanation
Indices: 6860590--6860666 Score: 82
Period size: 17 Copynumber: 4.6 Consensus size: 16
6860580 GTTTTAAATT
* **
6860590 AATTCAAATTTAATTA
1 AATTTAAATTTAAAGA
6860606 AATTTAAATTTAAAGCA
1 AATTTAAATTTAAAG-A
6860623 AATTTAAATTTAAAAAGA
1 AATTTAAATTT--AAAGA
*
6860641 AATTTAAATTTAAAATA
1 AATTTAAATTT-AAAGA
6860658 AATTTAAAT
1 AATTTAAAT
6860667 CAATTTAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
16 12 0.22
17 26 0.48
18 12 0.22
19 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTTAAATTTAAAGA
Found at i:6861117 original size:92 final size:92
Alignment explanation
Indices: 6860954--6861181 Score: 404
Period size: 92 Copynumber: 2.5 Consensus size: 92
6860944 TGATGTCGAG
* * *
6860954 GCTTTATCTTGCTCTTACTATAACTTCGGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
1 GCTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACT
6861019 TCAAGAGGATAAGAATTGACGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
6861046 GCTTCATCTTGCTCTTACTATAACCTT-AGAGAGATAAAGGTTCGTTATCCAACTTTACTATAAC
1 GCTTCATCTTGCTCTTACTATAA-CTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAAC
*
6861110 TTTAAGAGGATAAGAATTGACGTTTGAA
65 TTCAAGAGGATAAGAATTGACGTTTGAA
6861138 GCTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGGTTCG
1 GCTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGGTTCG
6861182 CTATTTTTGA
Statistics
Matches: 130, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
91 3 0.02
92 124 0.95
93 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (92 bp):
GCTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGGTTCGTTATCCAACTTTACTATAACT
TCAAGAGGATAAGAATTGACGTTTGAA
Found at i:6873147 original size:30 final size:28
Alignment explanation
Indices: 6873113--6873456 Score: 164
Period size: 30 Copynumber: 11.7 Consensus size: 28
6873103 TAAAATCAGG
6873113 ATTTTTGTAAAGTTTGAGGGTAAAATGGTA
1 ATTTTTG-AAAGTTTGAGGGTAAAAT-GTA
** * *
6873143 A-TTTTGATAA-AATCAGGGTTAAAAATGGA
1 ATTTTTGA-AAGTTTGAGGG-T-AAAATGTA
* * *
6873172 A-TTTTGTAAGACTTG-GGGGAAAATGTA
1 ATTTTTGAAAG-TTTGAGGGTAAAATGTA
*
6873199 ATTTTTAGAAAGTTTTG-GGGTTAAAATATA
1 ATTTTT-GAAAG-TTTGAGGG-TAAAATGTA
* *
6873229 ATTTTAGAGAAATTT-AGGGTTAAAATGTA
1 ATTTTTGA-AAGTTTGAGGG-TAAAATGTA
** * *
6873258 ATTTTCAAAAAGTTTTG-GGGTCAGAATATA
1 ATTTT-TGAAAG-TTTGAGGGT-AAAATGTA
*
6873288 ATTTTTAGAAAGTTTTG-GGGTTAAATGTA
1 ATTTTT-GAAAG-TTTGAGGGTAAAATGTA
* *
6873317 ATTTTTAGAAAGTTTTAGGGTTAAAATATA
1 ATTTTT-GAAAGTTTGAGGG-TAAAATGTA
* *
6873347 ATTTTTAGAAAGTTTTAGGGTCAAAATATA
1 ATTTTT-GAAAGTTTGAGGGT-AAAATGTA
* * *
6873377 ATTTTTAAAAAGTTTTAGGGTTAAAATATA
1 ATTTTT-GAAAGTTTGAGGG-TAAAATGTA
* * *
6873407 ATTTTCAGAAAGTTTTAAGGTCAAAATGTA
1 ATTTT-TGAAAGTTTGAGGGT-AAAATGTA
* *
6873437 ATTTTGGAGAAGTTTAAGGG
1 ATTTTTGA-AAGTTTGAGGG
6873457 GTTAAAATAC
Statistics
Matches: 254, Mismatches: 38, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
27 8 0.03
28 15 0.06
29 78 0.31
30 152 0.60
31 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.39
Consensus pattern (28 bp):
ATTTTTGAAAGTTTGAGGGTAAAATGTA
Found at i:6873260 original size:59 final size:60
Alignment explanation
Indices: 6873191--6873482 Score: 351
Period size: 59 Copynumber: 4.9 Consensus size: 60
6873181 GACTTGGGGG
* *
6873191 AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAA-TTTTAGAGAA-ATTTAGGGTT
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTTAGA-AAGTTTTAGGGTC
* * * * *
6873250 AAAATGTAATTTTCAAAAAGTTTTGGGGTCAGAATATAATTTTTAGAAAGTTTTGGGGT-
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTTAGAAAGTTTTAGGGTC
* *
6873309 TAAATGTAATTTTTAGAAAGTTTTAGGGTTAAAATATAATTTTTAGAAAGTTTTAGGGTC
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTTAGAAAGTTTTAGGGTC
* * * * *
6873369 AAAATATAATTTTTAAAAAGTTTTAGGGTTAAAATATAATTTTCAGAAAGTTTTAAGGTC
1 AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTTAGAAAGTTTTAGGGTC
* * * *
6873429 AAAATGTAA-TTTTGGAGAAGTTTAAGGGGTTAAAATACT-ATTTTTGGATAGTTT
1 AAAATGTAATTTTTAGA-AAGTTT-TGGGGTTAAAATA-TAATTTTTAGAAAGTTT
6873483 AAGGACTTTC
Statistics
Matches: 201, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
59 94 0.47
60 83 0.41
61 23 0.11
62 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (60 bp):
AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTTAGAAAGTTTTAGGGTC
Found at i:6873304 original size:89 final size:89
Alignment explanation
Indices: 6873191--6873441 Score: 353
Period size: 89 Copynumber: 2.8 Consensus size: 89
6873181 GACTTGGGGG
* *
6873191 AAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTAGAGAA-ATTTAGGGTTAAAAT
1 AAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTAGA-AAGTTTTAGGGTTAAAAT
*
6873255 GTAATTTTCAAAAAGTTTTGGGGTC
65 GTAATTTTCAAAAAGTTTTAGGGTC
* *
6873280 AGAATATAATTTTTAGAAAGTTTTGGGGTT-AAATGTAATTTTTAGAAAGTTTTAGGGTTAAAAT
1 AAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATATAA-TTTTAGAAAGTTTTAGGGTTAAAAT
* * *
6873344 ATAATTTTTAGAAAGTTTTAGGGTC
65 GTAATTTTCAAAAAGTTTTAGGGTC
* * * *
6873369 AAAATATAATTTTTAAAAAGTTTTAGGGTTAAAATATAATTTTCAGAAAGTTTTAAGGTCAAAAT
1 AAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTT-AGAAAGTTTTAGGGTTAAAAT
6873434 GTAATTTT
65 GTAATTTT
6873442 GGAGAAGTTT
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
88 9 0.06
89 101 0.71
90 33 0.23
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (89 bp):
AAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATATAATTTTAGAAAGTTTTAGGGTTAAAATG
TAATTTTCAAAAAGTTTTAGGGTC
Found at i:6875312 original size:6 final size:6
Alignment explanation
Indices: 6875282--6875394 Score: 80
Period size: 6 Copynumber: 20.2 Consensus size: 6
6875272 TATATTAAGT
* * **
6875282 TTTAAA -TT-AA TTCAAA TTT-AA -TTAAA TTTAAA TTTGAA -GCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* **
6875325 TTTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
6875372 --TCAA TTTAAA CTTAAT TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T
6875395 CGAAGCCTAA
Statistics
Matches: 79, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
4 7 0.09
5 13 0.16
6 59 0.75
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:6875315 original size:11 final size:11
Alignment explanation
Indices: 6875282--6875394 Score: 69
Period size: 11 Copynumber: 10.6 Consensus size: 11
6875272 TATATTAAGT
6875282 TTTAAATT-AA
1 TTTAAATTAAA
* *
6875292 TTCAAATTTAA
1 TTTAAATTAAA
6875303 -TTAAATTTAAA
1 TTTAAA-TTAAA
* **
6875314 TTTGAAGCAAA
1 TTTAAATTAAA
6875325 TTTAAATTTAAA
1 TTTAAA-TTAAA
*
6875337 TTTAAAATAAA
1 TTTAAATTAAA
*
6875348 TTTAAATTTAA
1 TTTAAATTAAA
6875359 ---AAA-TAAA
1 TTTAAATTAAA
*
6875366 TTTAAA-TCAA
1 TTTAAATTAAA
*
6875376 TTTAAACTTAAT
1 TTTAAA-TTAAA
6875388 TTTAAAT
1 TTTAAAT
6875395 CGAAGCCTAA
Statistics
Matches: 78, Mismatches: 16, Indels: 17
0.70 0.14 0.15
Matches are distributed among these distances:
7 3 0.04
8 3 0.04
10 23 0.29
11 28 0.36
12 21 0.27
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:6875333 original size:23 final size:23
Alignment explanation
Indices: 6875303--6875359 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
6875293 TCAAATTTAA
* *
6875303 TTAAATTTAAATTTGAAGCAAAT
1 TTAAATTTAAATTTAAAACAAAT
*
6875326 TTAAATTTAAATTTAAAATAAAT
1 TTAAATTTAAATTTAAAACAAAT
6875349 TTAAATTTAAA
1 TTAAATTTAAA
6875360 AATAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
TTAAATTTAAATTTAAAACAAAT
Found at i:6875354 original size:29 final size:28
Alignment explanation
Indices: 6875322--6875394 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
6875312 AATTTGAAGC
6875322 AAATTTAAATTTAAATTTAAAATAAATTT
1 AAATTTAAATTTAAATTT-AAATAAATTT
** *
6875351 AAATTTAAAAATAAATTTAAATCAATTT
1 AAATTTAAATTTAAATTTAAATAAATTT
* *
6875379 AAACTTAATTTTAAAT
1 AAATTTAAATTTAAAT
6875395 CGAAGCCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATTTAAATTTAAATTTAAATAAATTT
Found at i:6875365 original size:23 final size:23
Alignment explanation
Indices: 6875322--6875365 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6875312 AATTTGAAGC
**
6875322 AAATTTAAATTTAAATTTAAAAT
1 AAATTTAAATTTAAAAATAAAAT
6875345 AAATTTAAATTTAAAAATAAA
1 AAATTTAAATTTAAAAATAAA
6875366 TTTAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATTTAAATTTAAAAATAAAAT
Found at i:6879609 original size:135 final size:135
Alignment explanation
Indices: 6879418--6879690 Score: 546
Period size: 135 Copynumber: 2.0 Consensus size: 135
6879408 TGTCCGTGGT
6879418 AAAGGGTGAAAGGTTCACTAGCTTAGTTAGGTTCGCCAAACATGTGCAAAATCGTTGAAGGACAC
1 AAAGGGTGAAAGGTTCACTAGCTTAGTTAGGTTCGCCAAACATGTGCAAAATCGTTGAAGGACAC
6879483 ACGTAAGGTATGTGGTGTAGGTATAACATACCTTAAATTGCATATATATGAATATGTTTTTATAT
66 ACGTAAGGTATGTGGTGTAGGTATAACATACCTTAAATTGCATATATATGAATATGTTTTTATAT
6879548 ATTAA
131 ATTAA
6879553 AAAGGGTGAAAGGTTCACTAGCTTAGTTAGGTTCGCCAAACATGTGCAAAATCGTTGAAGGACAC
1 AAAGGGTGAAAGGTTCACTAGCTTAGTTAGGTTCGCCAAACATGTGCAAAATCGTTGAAGGACAC
6879618 ACGTAAGGTATGTGGTGTAGGTATAACATACCTTAAATTGCATATATATGAATATGTTTTTATAT
66 ACGTAAGGTATGTGGTGTAGGTATAACATACCTTAAATTGCATATATATGAATATGTTTTTATAT
6879683 ATTAA
131 ATTAA
6879688 AAA
1 AAA
6879691 ATATATATGT
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 138 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32
Consensus pattern (135 bp):
AAAGGGTGAAAGGTTCACTAGCTTAGTTAGGTTCGCCAAACATGTGCAAAATCGTTGAAGGACAC
ACGTAAGGTATGTGGTGTAGGTATAACATACCTTAAATTGCATATATATGAATATGTTTTTATAT
ATTAA
Found at i:6884579 original size:6 final size:6
Alignment explanation
Indices: 6884568--6884604 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
6884558 TTGTTGTCTG
* *
6884568 TAGGGA TAGGGA TAGGGC TAGGGA TAGGGA TTGGGA T
1 TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA T
6884605 TTTATTATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.27, C:0.03, G:0.49, T:0.22
Consensus pattern (6 bp):
TAGGGA
Found at i:6885205 original size:19 final size:20
Alignment explanation
Indices: 6885167--6885206 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6885157 ATACATTAAA
* *
6885167 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAAATCGTAAT
6885187 TTAAAAAAATAAAT-GTAAT
1 TTAAAAAAATAAATCGTAAT
6885206 T
1 T
6885207 ATCTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (20 bp):
TTAAAAAAATAAATCGTAAT
Found at i:6885243 original size:16 final size:17
Alignment explanation
Indices: 6885214--6885246 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6885204 ATTATCTTTA
6885214 AAAAAATTAATTCAGTAG
1 AAAAAATT-ATTCAGTAG
6885232 AAAAAATT-TTCAGTA
1 AAAAAATTATTCAGTA
6885247 AACAAACGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.30
Consensus pattern (17 bp):
AAAAAATTATTCAGTAG
Found at i:6892010 original size:676 final size:676
Alignment explanation
Indices: 6890719--6892066 Score: 2464
Period size: 676 Copynumber: 2.0 Consensus size: 676
6890709 TACTAACTAT
*
6890719 TACATTGACTGATATTCCCCCTGCTCAACCCAAAAAATGAGTTAAAGAGACTACATTTAGTTTAT
1 TACATTGACTAATATTCCCCCTGCTCAACCCAAAAAATGAGTTAAAGAGACTACATTTAGTTTAT
6890784 CACGACATCGAGCAAAACTACTAAAAGCTAAGGGCTTAGTAAAGACATCTACAATCTGATCTTTA
66 CACGACATCGAGCAAAACTACTAAAAGCTAAGGGCTTAGTAAAGACATCTACAATCTGATCTTTA
* *
6890849 CCAGGTACATGATTAACTTGAAGCTCCCCGCTCAGCACTTTTCCTCGAACAAAATGAATATCTAA
131 CCAGGTACATGATTAACCTGAAGCTCCCCGCTCAACACTTTTCCTCGAACAAAATGAATATCTAA
6890914 CTCCACATGCTTCACACGTCCATGCAACACAGGAGTTGTTGCCAAAGACATCATACTCAAGTTGT
196 CTCCACATGCTTCACACGTCCATGCAACACAGGAGTTGTTGCCAAAGACATCATACTCAAGTTGT
* *
6890979 CACACCAGATAATTGGTACCCCTAATAGTACTACTCCAATCTCACTTAACAACGAGCTGAACCAT
261 CACACCAGATAACTGGTACCCCTAACAGTACTACTCCAATCTCACTTAACAACGAGCTGAACCAT
* *
6891044 GTTACTTCAGATACCACATTAGCTAGACTCCGATATTCAGCTTCTGTGATAGAATTAGAGACGAC
326 GTTACTTCAGATACCACATTAGCTAGACTCCGATATTCAGCTTCTGTGATAGAACTAGAGACAAC
*
6891109 ACCTTGCTTCCTAGACACCCAACTGACCAAATTATTTCCAAGATAAACACAAAAACCTGAAGTGG
391 ACCTTGCTTCCTAGACACCCAACTGACCAAATTATTTCCAAGATAAACACAAAAACCTAAAGTGG
6891174 ACTTTTTATCCTCAAGACAACTAGCCCAATCAGCATCAGAAAACTCAGTTAATGTAACTTTGGAA
456 ACTTTTTATCCTCAAGACAACTAGCCCAATCAGCATCAGAAAACTCAGTTAATGTAACTTTGGAA
*
6891239 GGTTGAAACACCACTCCATAATCCAAAGCGCCTTTAACATACCTGAGTATATGCTTAACTGCACT
521 GGTCGAAACACCACTCCATAATCCAAAGCGCCTTTAACATACCTGAGTATATGCTTAACTGCACT
*
6891304 CCAATGACAGTCATGAGGCTGATGCATATACTGACTTATCTTGTTCACAGCAAAGGTAATGCCAG
586 CCAATGACAGTCATGAGGCTGATGCATATACTGACTTACCTTGTTCACAGCAAAGGTAATGCCAG
*
6891369 GCCTGGTGAGACACAAATACTGTAAA
651 GCCTAGTGAGACACAAATACTGTAAA
*
6891395 TACATTGACTAATATTCCCTCTGCTCAACCCAAAAAATGAGTTAAAGAGACTACATTTAGTTTAT
1 TACATTGACTAATATTCCCCCTGCTCAACCCAAAAAATGAGTTAAAGAGACTACATTTAGTTTAT
* *
6891460 CACGACATCGAGCAAAACTACTAAAAGCTAAGGGCTTAGTGAAGACATCTGCAATCTGATCTTTA
66 CACGACATCGAGCAAAACTACTAAAAGCTAAGGGCTTAGTAAAGACATCTACAATCTGATCTTTA
*
6891525 CCAGGTACATGATTAACCTGAAGCTCCCCGCTCAACACTTTTCCTTGAACAAAATGAATATCTAA
131 CCAGGTACATGATTAACCTGAAGCTCCCCGCTCAACACTTTTCCTCGAACAAAATGAATATCTAA
* * *
6891590 CTCCACATGCTTCACACGTCCATGCAACACAGGATTTGTTGTCAAAGACATCGTACTCAAGTTGT
196 CTCCACATGCTTCACACGTCCATGCAACACAGGAGTTGTTGCCAAAGACATCATACTCAAGTTGT
* *
6891655 CACACCAGATAACTGGTACCTCTGACAGTACTACTCCAATCTCACTTAACAACGAGCTGAACCAT
261 CACACCAGATAACTGGTACCCCTAACAGTACTACTCCAATCTCACTTAACAACGAGCTGAACCAT
6891720 GTTACTTCAGATACCACATTAGCTAGACTCCGATATTCAGCTTCTGTGATAGAACTAGAGACAAC
326 GTTACTTCAGATACCACATTAGCTAGACTCCGATATTCAGCTTCTGTGATAGAACTAGAGACAAC
* *
6891785 ACCTTGCTTCCTAGACGCCCAACTGGCCAAATTATTTCCAAGATAAACACAAAAACCTAAAGTGG
391 ACCTTGCTTCCTAGACACCCAACTGACCAAATTATTTCCAAGATAAACACAAAAACCTAAAGTGG
6891850 ACTTTTTATCCTCAAGACAACTAGCCCAATCAGCATCAGAAAACTCAGTTAATGTAACTTTGGAA
456 ACTTTTTATCCTCAAGACAACTAGCCCAATCAGCATCAGAAAACTCAGTTAATGTAACTTTGGAA
*
6891915 GGTCGAAACACCACTCCATAATCCAAAGTGCCTTTAACATACCTGAGTATACT-CTTAACTGCAC
521 GGTCGAAACACCACTCCATAATCCAAAGCGCCTTTAACATACCTGAGTATA-TGCTTAACTGCAC
6891979 TCCAATGACAGTCATGAGGCTGATGCATATACTGACTTACCTTGTTCACAGCAAAGGTAATGCCA
585 TCCAATGACAGTCATGAGGCTGATGCATATACTGACTTACCTTGTTCACAGCAAAGGTAATGCCA
*
6892044 GGTCTAGTGAGACACAAATACTG
650 GGCCTAGTGAGACACAAATACTG
6892067 GAAACCCTCA
Statistics
Matches: 647, Mismatches: 24, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
676 646 1.00
677 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (676 bp):
TACATTGACTAATATTCCCCCTGCTCAACCCAAAAAATGAGTTAAAGAGACTACATTTAGTTTAT
CACGACATCGAGCAAAACTACTAAAAGCTAAGGGCTTAGTAAAGACATCTACAATCTGATCTTTA
CCAGGTACATGATTAACCTGAAGCTCCCCGCTCAACACTTTTCCTCGAACAAAATGAATATCTAA
CTCCACATGCTTCACACGTCCATGCAACACAGGAGTTGTTGCCAAAGACATCATACTCAAGTTGT
CACACCAGATAACTGGTACCCCTAACAGTACTACTCCAATCTCACTTAACAACGAGCTGAACCAT
GTTACTTCAGATACCACATTAGCTAGACTCCGATATTCAGCTTCTGTGATAGAACTAGAGACAAC
ACCTTGCTTCCTAGACACCCAACTGACCAAATTATTTCCAAGATAAACACAAAAACCTAAAGTGG
ACTTTTTATCCTCAAGACAACTAGCCCAATCAGCATCAGAAAACTCAGTTAATGTAACTTTGGAA
GGTCGAAACACCACTCCATAATCCAAAGCGCCTTTAACATACCTGAGTATATGCTTAACTGCACT
CCAATGACAGTCATGAGGCTGATGCATATACTGACTTACCTTGTTCACAGCAAAGGTAATGCCAG
GCCTAGTGAGACACAAATACTGTAAA
Found at i:6893225 original size:21 final size:22
Alignment explanation
Indices: 6893179--6893239 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
6893169 TGATCTAAGG
* *
6893179 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
6893200 AAAAATAAAAGAAAATAGAACT
1 AAAAATAAAAGAAAATAGAACT
*
6893222 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
6893240 GGAAGTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:6893230 original size:15 final size:16
Alignment explanation
Indices: 6893205--6893234 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6893195 GAATTAAAAA
6893205 TAAAAGAAAATAGAAC
1 TAAAAGAAAATAGAAC
6893221 TAAAAG-AAATAGAA
1 TAAAAGAAAATAGAA
6893235 AATAGGGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
TAAAAGAAAATAGAAC
Found at i:6895595 original size:21 final size:21
Alignment explanation
Indices: 6895569--6895608 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6895559 ATAGATGCCT
*
6895569 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTACTTTTGAAAATCCA
*
6895590 CAGTTTACTTTTGGAAATC
1 CAGTTTACTTTTGAAAATC
6895609 TATAGATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
CAGTTTACTTTTGAAAATCCA
Found at i:6896471 original size:22 final size:22
Alignment explanation
Indices: 6896426--6896486 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
6896416 GATCTAAGGA
* *
6896426 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAACT
*
6896447 AAAAATAAAAGAAAATATAACT
1 AAAAATAAAAGAAAATAGAACT
*
6896469 AAAAGA-AATAGAAAATAG
1 AAAA-ATAAAAGAAAATAG
6896487 GGAAGTCGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 11 0.33
22 21 0.64
23 1 0.03
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAACT
Found at i:6897310 original size:19 final size:19
Alignment explanation
Indices: 6897286--6897328 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6897276 AAACATAAAT
6897286 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
6897305 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
6897324 TAAAT
1 TAAAT
6897329 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:6901290 original size:97 final size:97
Alignment explanation
Indices: 6901115--6901308 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 97
6901105 AACCTTGGAA
* * * *
6901115 AAGGATATTCGATTATCTCGATTTGAAGAAAAGTCGTGCCTAGTAAGTTAAGGCACAAATTTTTA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAAATTTCA
* * *
6901180 ATACCAGAGATAAAGAAACATTGCCTTGATTT
66 AAACCAGAAATAAAGAAACATTGCCTCGATTT
* *
6901212 AAGGGTATTCGATTAT-TCCGATTTGAAGAAAAATCGCGTCTAGTAAGTTAAGGCACAAAATTTC
1 AAGGATATTCGATTATCT-CGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAAATTTC
* *
6901276 AAAACTC-GAAATAAAGGAATATTGCCTCGATTT
65 AAAAC-CAGAAATAAAGAAACATTGCCTCGATTT
6901309 TAAAGGTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 1 0.01
97 82 0.98
98 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAAATTTCA
AAACCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:6901561 original size:29 final size:29
Alignment explanation
Indices: 6901521--6901591 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
6901511 AACGAAGTCA
* **
6901521 AAAAT-GTGATTTTCGGATGCTT-GGGGGC
1 AAAATGGTAATTTTCGGATG-TTCGGGAAC
* *
6901549 AAAATGGTAATTTTTGGATGTTCGGGAAT
1 AAAATGGTAATTTTCGGATGTTCGGGAAC
6901578 AAAATGGTAATTTT
1 AAAATGGTAATTTT
6901592 TTGACACTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.19
29 29 0.81
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.37
Consensus pattern (29 bp):
AAAATGGTAATTTTCGGATGTTCGGGAAC
Found at i:6901592 original size:29 final size:29
Alignment explanation
Indices: 6901549--6901654 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 29
6901539 GCTTGGGGGC
6901549 AAAATGGTAATTTTTGGATGTTCGGGAAT
1 AAAATGGTAATTTTTGGATGTTCGGGAAT
* *** *
6901578 AAAATGGTAATTTTTTGACACTCAAGGAA-
1 AAAATGGTAATTTTTGGATGTTC-GGGAAT
**
6901607 AAAATGGTAATTTTTGGATGTTCGAGGGGT
1 AAAATGGTAATTTTTGGATGTTCG-GGAAT
*
6901637 AAAAAGGTAATTTTTGGA
1 AAAATGGTAATTTTTGGA
6901655 AAATTCAGGG
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
29 40 0.66
30 21 0.34
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGATGTTCGGGAAT
Found at i:6901648 original size:30 final size:30
Alignment explanation
Indices: 6901606--6901892 Score: 175
Period size: 29 Copynumber: 9.6 Consensus size: 30
6901596 CACTCAAGGA
*
6901606 AAAAATGGTAATTTTTGGATGTTCGAGGGGT
1 AAAAA-GGTAATTTTTGGAAGTTCGAGGGGT
*
6901637 AAAAAGGTAATTTTTGGAAAATTC-A-GGGT
1 AAAAAGGTAATTTTTGG-AAGTTCGAGGGGT
* *
6901666 CAAAAATGTAA-TTTTGGACA-TTTGA-GGGT
1 -AAAAAGGTAATTTTTGGA-AGTTCGAGGGGT
* * ** *
6901695 AAAATGGTGATTTTTGGGTGTTTG-GGGGT
1 AAAAAGGTAATTTTTGGAAGTTCGAGGGGT
* * *
6901724 AAAATGGTAATTTTTGAAAGTTC-AGGGGCA
1 AAAAAGGTAATTTTTGGAAGTTCGAGGGG-T
* * * *
6901754 AAAAATGTGATTTTTTGGAAGTT-TAAGGGT
1 AAAAAGGT-AATTTTTGGAAGTTCGAGGGGT
* * *
6901784 AAAACGATAATTTTTGAAAGTTCG-GGGGT
1 AAAAAGGTAATTTTTGGAAGTTCGAGGGGT
*
6901813 AAAATA--TAATTTTGGTGAAGTTCGA-GGGT
1 AAAA-AGGTAATTTTTG-GAAGTTCGAGGGGT
* * *
6901842 AAAAATGTAATTTTTGTAAAGTTTTGAGGGGT
1 AAAAAGGTAATTTTTG-GAAG-TTCGAGGGGT
* *
6901874 CAAAATGTAATTTTTGGAA
1 AAAAAGGTAATTTTTGGAA
6901893 AGTTTAAGGA
Statistics
Matches: 201, Mismatches: 36, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
28 19 0.09
29 87 0.43
30 45 0.22
31 31 0.15
32 19 0.09
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (30 bp):
AAAAAGGTAATTTTTGGAAGTTCGAGGGGT
Found at i:6901670 original size:29 final size:29
Alignment explanation
Indices: 6901549--6901893 Score: 104
Period size: 29 Copynumber: 11.7 Consensus size: 29
6901539 GCTTGGGGGC
**
6901549 AAAATGGTAATTTTTGG-ATGTTC-GGGAAT
1 AAAATGGTAATTTTTGGAAAATTCAGGG--T
* * * **
6901578 AAAATGGTAATTTTTTG-ACACTCAAGGAA
1 AAAATGGTAATTTTTGGAAAATTC-AGGGT
**
6901607 AAAATGGTAATTTTTGG-ATGTTCGAGGGGT
1 AAAATGGTAATTTTTGGAAAATTC-A-GGGT
*
6901637 AAAAAGGTAATTTTTGGAAAATTCAGGGT
1 AAAATGGTAATTTTTGGAAAATTCAGGGT
* * *
6901666 CAAAAAT-GTAA-TTTTGGACATTTGAGGGT
1 --AAAATGGTAATTTTTGGAAAATTCAGGGT
* **** **
6901695 AAAATGGTGATTTTTGGGTGTTTGGGGGT
1 AAAATGGTAATTTTTGGAAAATTCAGGGT
* *
6901724 AAAATGGTAATTTTT-GAAAGTTCAGGGGCAA
1 AAAATGGTAATTTTTGGAAAATTCA-GGG--T
* ** *
6901755 AAAAT-GTGATTTTTTGGAAGTTTAAGGGT
1 AAAATGGT-AATTTTTGGAAAATTCAGGGT
* * * *
6901784 AAAACGATAATTTTT-GAAAGTTCGGGGGT
1 AAAATGGTAATTTTTGGAAAATTC-AGGGT
* * *
6901813 AAAAT-ATAA-TTTTGGTGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGG-AAAATTC-AGGGT
* * *
6901842 AAAAAT-GTAATTTTTGTAAAGTTTTGAGGGGT
1 -AAAATGGTAATTTTTGGAAA--ATTCA-GGGT
6901874 CAAAAT-GTAATTTTTGGAAA
1 -AAAATGGTAATTTTTGGAAA
6901894 GTTTAAGGAC
Statistics
Matches: 239, Mismatches: 55, Indels: 41
0.71 0.16 0.12
Matches are distributed among these distances:
27 9 0.04
28 16 0.07
29 118 0.49
30 36 0.15
31 30 0.13
32 30 0.13
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAAAATTCAGGGT
Found at i:6901769 original size:60 final size:60
Alignment explanation
Indices: 6901695--6901816 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
6901685 ATTTGAGGGT
** ** * *
6901695 AAAATGGTGATTTTTGGGTGTTTGGGGGTAAAATGGTAATTTTTGAAAGTTCAGGGGCAA
1 AAAATGGTGATTTTTGGAAGTTTAAGGGTAAAACGATAATTTTTGAAAGTTCAGGGGCAA
* *
6901755 AAAAT-GTGATTTTTTGGAAGTTTAAGGGTAAAACGATAATTTTTGAAAGTTCGGGGGTAA
1 AAAATGGTGA-TTTTTGGAAGTTTAAGGGTAAAACGATAATTTTTGAAAGTTCAGGGGCAA
6901815 AA
1 AA
6901817 TATAATTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 4 0.08
60 49 0.92
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (60 bp):
AAAATGGTGATTTTTGGAAGTTTAAGGGTAAAACGATAATTTTTGAAAGTTCAGGGGCAA
Found at i:6902972 original size:6 final size:6
Alignment explanation
Indices: 6902963--6903034 Score: 75
Period size: 6 Copynumber: 13.0 Consensus size: 6
6902953 TTTTTATTTT
* *
6902963 TATTAA TATT-- TATTAA TATTAT TATTAA TATT-- TATTAA TATTAT
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
*
6903007 TATTAA TATTAT TATT-- TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA
6903035 AACGTTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 12 0.22
6 43 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (6 bp):
TATTAA
Found at i:6902972 original size:12 final size:12
Alignment explanation
Indices: 6902957--6903034 Score: 96
Period size: 12 Copynumber: 7.0 Consensus size: 12
6902947 CCTTTATTTT
*
6902957 TATTTTTATTAA
1 TATTATTATTAA
6902969 TA-T-TTATTAA
1 TATTATTATTAA
6902979 TATTATTATTAA
1 TATTATTATTAA
6902991 TA-T-TTATTAA
1 TATTATTATTAA
6903001 TATTATTATTAA
1 TATTATTATTAA
6903013 TATTATTATT--
1 TATTATTATTAA
*
6903023 TATTAATATTAA
1 TATTATTATTAA
6903035 AACGTTATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
10 27 0.46
11 4 0.07
12 28 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:6902982 original size:22 final size:22
Alignment explanation
Indices: 6902957--6903034 Score: 113
Period size: 22 Copynumber: 3.5 Consensus size: 22
6902947 CCTTTATTTT
*
6902957 TATTTTTATTAATATTTATTAA
1 TATTATTATTAATATTTATTAA
6902979 TATTATTATTAATATTTATTAA
1 TATTATTATTAATATTTATTAA
*
6903001 TATTATTATTAATA-TTATTATT
1 TATTATTATTAATATTTATTA-A
*
6903023 TATTAATATTAA
1 TATTATTATTAA
6903035 AACGTTATTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
21 6 0.12
22 46 0.88
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTATTAATATTTATTAA
Found at i:6902987 original size:28 final size:28
Alignment explanation
Indices: 6902951--6903032 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 28
6902941 TCATTTCCTT
*
6902951 TATTTTTATTTTTATTAATATTTATTAA
1 TATTATTATTTTTATTAATATTTATTAA
6902979 TATTATTATTAATATTTATTAATATTATTATTAA
1 TATTATTA-T--T-TTTATTAATA-T-TTATTAA
6903013 TATTATTA--TTTATTAATATT
1 TATTATTATTTTTATTAATATT
6903033 AAAACGTTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 17 0.36
29 1 0.02
31 1 0.02
32 10 0.21
33 1 0.02
34 15 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TATTATTATTTTTATTAATATTTATTAA
Found at i:6903033 original size:28 final size:28
Alignment explanation
Indices: 6902973--6903034 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
6902963 TATTAATATT
*
6902973 TATTAATATTATTATTAATATTTATTAA
1 TATTAATATTAATATTAATATTTATTAA
* *
6903001 TATTATTATTAATATTATTATTTATTAA
1 TATTAATATTAATATTAATATTTATTAA
6903029 TATTAA
1 TATTAA
6903035 AACGTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTAATATTAATATTAATATTTATTAA
Found at i:6903797 original size:40 final size:40
Alignment explanation
Indices: 6903727--6903802 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
6903717 ATTTTAATTT
*
6903727 AAATAAATTTAAACTTACATTTATAATAAATTTAAATTCC
1 AAATAAATTTAAACTTACATATATAATAAATTTAAATTCC
*
6903767 AAATAGATTTAAACTTA-ATATA-AACTTAAATTTAAA
1 AAATAAATTTAAACTTACATATATAA--TAAATTTAAA
6903803 ATAAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 2 0.06
39 4 0.12
40 26 0.81
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (40 bp):
AAATAAATTTAAACTTACATATATAATAAATTTAAATTCC
Found at i:6903813 original size:23 final size:23
Alignment explanation
Indices: 6903722--6903813 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 23
6903712 TGGACATTTT
6903722 AATTT-AAATAAATTTAAACTTA
1 AATTTAAAATAAATTTAAACTTA
* *
6903744 CATTTATAATAAATTTAAA-TTCCAAA
1 AATTTAAAATAAATTTAAACTT----A
* * *
6903770 TAGATTTAAACTTAATATAAACTTA
1 -A-ATTTAAAATAAATTTAAACTTA
6903795 AATTTAAAATAAATTTAAA
1 AATTTAAAATAAATTTAAA
6903814 TTTTGTTGGG
Statistics
Matches: 52, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
22 6 0.12
23 27 0.52
24 1 0.02
25 1 0.02
26 1 0.02
28 14 0.27
29 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (23 bp):
AATTTAAAATAAATTTAAACTTA
Found at i:6903816 original size:17 final size:17
Alignment explanation
Indices: 6903745--6903816 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
6903735 TTAAACTTAC
*
6903745 ATTTATAATAAATTTAA
1 ATTTAAAATAAATTTAA
** *
6903762 ATTCCAAATAGATTTAA
1 ATTTAAAATAAATTTAA
* * *
6903779 ACTTAATATAAACTTAA
1 ATTTAAAATAAATTTAA
6903796 ATTTAAAATAAATTTAA
1 ATTTAAAATAAATTTAA
6903813 ATTT
1 ATTT
6903817 TGTTGGGCCA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (17 bp):
ATTTAAAATAAATTTAA
Found at i:6904864 original size:27 final size:27
Alignment explanation
Indices: 6904832--6904894 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
6904822 GGGAAACATT
6904832 TGAAAATGATTATGATTTTCTACAAAA
1 TGAAAATGATTATGATTTTCTACAAAA
6904859 TGAAAATGATTATGATTTTCTACAAAA
1 TGAAAATGATTATGATTTTCTACAAAA
6904886 TGAAAATGA
1 TGAAAATGA
6904895 AAATGGAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (27 bp):
TGAAAATGATTATGATTTTCTACAAAA
Found at i:6907353 original size:3 final size:3
Alignment explanation
Indices: 6907347--6907395 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
6907337 GATGATGATG
6907347 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6907395 A
1 A
6907396 AGGATGAACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6913875 original size:19 final size:19
Alignment explanation
Indices: 6913851--6913892 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
6913841 CAAAATTCGA
6913851 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
6913870 AATAAAAACTAATAAATAT
1 AATAAAAAATAATAAATAT
6913889 AATA
1 AATA
6913893 TTGAGCACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:6918409 original size:22 final size:22
Alignment explanation
Indices: 6918384--6918425 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6918374 TTGCATTTAA
6918384 GATAGACATTGTTATAGTTTGT
1 GATAGACATTGTTATAGTTTGT
* *
6918406 GATAGATATTGTTATTGTTT
1 GATAGACATTGTTATAGTTT
6918426 TAAGGCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.50
Consensus pattern (22 bp):
GATAGACATTGTTATAGTTTGT
Found at i:6918815 original size:36 final size:36
Alignment explanation
Indices: 6918775--6918846 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
6918765 TTCACTAGGA
* * * *
6918775 CTTTGGCCTTGTTTTCATGTGCACGTTGGGGTTGAT
1 CTTTGACCTTGTCTTCATGTGCACCTCGGGGTTGAT
6918811 CTTTGACCTTGTCTTCATGTGCACCTCGGGGTTGAT
1 CTTTGACCTTGTCTTCATGTGCACCTCGGGGTTGAT
6918847 TGCTGACCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.10, C:0.21, G:0.28, T:0.42
Consensus pattern (36 bp):
CTTTGACCTTGTCTTCATGTGCACCTCGGGGTTGAT
Found at i:6918854 original size:36 final size:36
Alignment explanation
Indices: 6918781--6918855 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
6918771 AGGACTTTGG
* * * *
6918781 CCTTGTTTTCATGTGCACGTTGGGGTTGATCTTTGA
1 CCTTGTCTTCATGTGCACCTCGGGGTTGATCTCTGA
6918817 CCTTGTCTTCATGTGCACCTCGGGGTTGAT-TGCTGA
1 CCTTGTCTTCATGTGCACCTCGGGGTTGATCT-CTGA
6918853 CCT
1 CCT
6918856 CATCTCCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.11, C:0.23, G:0.27, T:0.40
Consensus pattern (36 bp):
CCTTGTCTTCATGTGCACCTCGGGGTTGATCTCTGA
Found at i:6919339 original size:173 final size:173
Alignment explanation
Indices: 6919050--6919391 Score: 675
Period size: 173 Copynumber: 2.0 Consensus size: 173
6919040 CGGTCACACG
6919050 AAATATATCCTTGGTGAAGGTGTCGGTGAAAGGATTGATTGCGCATGTTGTGGTGCTTTTGTAAA
1 AAATATATCCTTGGTGAAGGTGTCGGTGAAAGGATTGATTGCGCATGTTGTGGTGCTTTTGTAAA
6919115 ATAAATTGGTATGATTATGTTGGTGCAGGGAATGATTACACGTGTTGTGGTGTTGGTGTAAAATA
66 ATAAATTGGTATGATTATGTTGGTGCAGGGAATGATTACACGTGTTGTGGTGTTGGTGTAAAATA
*
6919180 AATTGATGCATGTTGTGATGCTGGTTTAAAATAAAATGGTTTA
131 AATTGATGCATGTTGTGATGATGGTTTAAAATAAAATGGTTTA
6919223 AAATATATCCTTGGTGAAGGTGTCGGTGAAAGGATTGATTGCGCATGTTGTGGTGCTTTTGTAAA
1 AAATATATCCTTGGTGAAGGTGTCGGTGAAAGGATTGATTGCGCATGTTGTGGTGCTTTTGTAAA
6919288 ATAAATTGGTATGATTATGTTGGTGCAGGGAATGATTACACGTGTTGTGGTGTTGGTGTAAAATA
66 ATAAATTGGTATGATTATGTTGGTGCAGGGAATGATTACACGTGTTGTGGTGTTGGTGTAAAATA
6919353 AATTGATGCATGTTGTGATGATGGTTTAAAATAAAATGG
131 AATTGATGCATGTTGTGATGATGGTTTAAAATAAAATGG
6919392 GTTAGTGATA
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
173 168 1.00
ACGTcount: A:0.28, C:0.06, G:0.29, T:0.37
Consensus pattern (173 bp):
AAATATATCCTTGGTGAAGGTGTCGGTGAAAGGATTGATTGCGCATGTTGTGGTGCTTTTGTAAA
ATAAATTGGTATGATTATGTTGGTGCAGGGAATGATTACACGTGTTGTGGTGTTGGTGTAAAATA
AATTGATGCATGTTGTGATGATGGTTTAAAATAAAATGGTTTA
Found at i:6920007 original size:17 final size:17
Alignment explanation
Indices: 6919953--6920021 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 17
6919943 AATAAGTTTG
*
6919953 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTTA
* * * *
6919970 AATTCATTTTGAGTTTG
1 AATTTATTTTAAATTTA
*
6919987 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
6920004 AA-TT-TTTTAAATTAA
1 AATTTATTTTAAATTTA
6920019 AAT
1 AAT
6920022 AAAATTAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.28
16 2 0.05
17 26 0.67
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:6920041 original size:18 final size:19
Alignment explanation
Indices: 6920018--6920055 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6920008 TTTTAAATTA
6920018 AAAT-AAAATTAAAAGTCC
1 AAATAAAAATTAAAAGTCC
*
6920036 AAATAAAAATTCAAAGTCC
1 AAATAAAAATTAAAAGTCC
6920055 A
1 A
6920056 GACCCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATAAAAATTAAAAGTCC
Found at i:6920128 original size:26 final size:26
Alignment explanation
Indices: 6920096--6920146 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6920086 GCCCAATTAC
**
6920096 AAACAGGCTTAAATAGCCCAAACACG
1 AAACAGGCACAAATAGCCCAAACACG
*
6920122 AAACAGGCACAAATGGCCCAAACAC
1 AAACAGGCACAAATAGCCCAAACAC
6920147 TAAAGCACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.08
Consensus pattern (26 bp):
AAACAGGCACAAATAGCCCAAACACG
Found at i:6921975 original size:29 final size:30
Alignment explanation
Indices: 6921855--6922265 Score: 217
Period size: 30 Copynumber: 13.9 Consensus size: 30
6921845 CCTAGAAGAT
* * * *
6921855 CCTTGAACTATCCAAAAATTATATTTTTGA-
1 CCTTAAACTTTCCAAAAATTACA-TTTTAAC
* * *
6921885 CCTCAAACTTTTCAAAAATCACATTTTAAC
1 CCTTAAACTTTCCAAAAATTACATTTTAAC
* *
6921915 CCCTAAACTTTCCAAAAATTACATTTTGAC
1 CCTTAAACTTTCCAAAAATTACATTTTAAC
* *
6921945 CCTTAAACTTTCCAAAAATTACGTTTTACC
1 CCTTAAACTTTCCAAAAATTACATTTTAAC
* *
6921975 CCTTGAAC-TTCACAAAAATTACATTTTTAC
1 CCTTAAACTTTC-CAAAAATTACATTTTAAC
* * *
6922005 CCTTTAACTTT-AAAAAATTCCATTTTAAC
1 CCTTAAACTTTCCAAAAATTACATTTTAAC
* *
6922034 CC-TAAATTTTCCAAAAATTACATTTTCAC
1 CCTTAAACTTTCCAAAAATTACATTTTAAC
** * * * *
6922063 CCTCGAAC-CTCCAAAAATTCCCTTTTTGA-
1 CCTTAAACTTTCCAAAAATT-ACATTTTAAC
* * *
6922092 CCTTGAAC-TTCCAAAATTTAC-TATTTGAC
1 CCTTAAACTTTCCAAAAATTACAT-TTTAAC
* ** * *
6922121 CCCTGGA-TGTT-CAAAAATTCCATTTATGAC
1 CCTTAAACT-TTCCAAAAATTACATTT-TAAC
*
6922151 CC-TAAAATTTCCAAAAAATTACCATTTT-AC
1 CCTTAAACTTTCC-AAAAATTA-CATTTTAAC
** *
6922181 CCCCAAA-TATT-CAAAAATTACATTTTTTAC
1 CCTTAAACT-TTCCAAAAATTACA-TTTTAAC
* * *
6922211 CC-CAAACTTTTCAAAGATTACCATTTT-AC
1 CCTTAAACTTTCCAAAAATTA-CATTTTAAC
*** *
6922240 CCTCGGA-TGTCCAAAAATTACATTTT
1 CCTTAAACTTTCCAAAAATTACATTTT
6922266 TGCCCTCAAG
Statistics
Matches: 303, Mismatches: 54, Indels: 50
0.74 0.13 0.12
Matches are distributed among these distances:
27 1 0.00
28 20 0.07
29 119 0.39
30 141 0.47
31 17 0.06
32 5 0.02
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
CCTTAAACTTTCCAAAAATTACATTTTAAC
Found at i:6922255 original size:59 final size:60
Alignment explanation
Indices: 6922017--6922302 Score: 178
Period size: 58 Copynumber: 4.9 Consensus size: 60
6922007 TTTAACTTTA
* * * * * ** *
6922017 AAAAATTCCA-TTTTAACCCTAAATTTTCC-AAAAATTA-CATTTTCACCCTCGAACCTCC
1 AAAAATTACATTTTTGACCCCAAAATTTCCAAAAAATTACCATTTT-ACCCTCGGATGTTC
* * *** * * * *
6922075 AAAAATTCCCTTTTTGA-CCTTGAACTTCC-AAAATTTACTATTTGACCC-CTGGATGTTC
1 AAAAATTACATTTTTGACCCCAAAATTTCCAAAAAATTACCATTTTACCCTC-GGATGTTC
* * * * ** *
6922133 AAAAATTCCATTTATGACCCTAAAATTTCCAAAAAATTACCATTTTACCCCCAAATATTC
1 AAAAATTACATTTTTGACCCCAAAATTTCCAAAAAATTACCATTTTACCCTCGGATGTTC
* * * * *
6922193 AAAAATTACATTTTTTACCCCAAACTTTTC-AAAGATTACCATTTTACCCTCGGATGTCC
1 AAAAATTACATTTTTGACCCCAAAATTTCCAAAAAATTACCATTTTACCCTCGGATGTTC
*** *
6922252 AAAAATTACATTTTTG-CCCTC-AAGCGT-CAAAAAATTACCGTTTTACCCTCG
1 AAAAATTACATTTTTGACCC-CAAAATTTCCAAAAAATTACCATTTTACCCTCG
6922303 ACCTCCACAA
Statistics
Matches: 178, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
57 2 0.01
58 73 0.41
59 57 0.32
60 45 0.25
61 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (60 bp):
AAAAATTACATTTTTGACCCCAAAATTTCCAAAAAATTACCATTTTACCCTCGGATGTTC
Found at i:6922266 original size:29 final size:29
Alignment explanation
Indices: 6921925--6922328 Score: 134
Period size: 29 Copynumber: 13.8 Consensus size: 29
6921915 CCCTAAACTT
* ** *
6921925 TCCAAAAATTACATTTTGACCCTTAAACTT
1 TCCAAAAATTACATTTTTACCCTCGAA-TG
* *
6921955 TCCAAAAATTAC-GTTTTACCCCTTGAACT-
1 TCCAAAAATTACATTTTTA-CCCTCGAA-TG
**
6921984 TCACAAAAATTACATTTTTACCCTTTAACT-
1 TC-CAAAAATTACATTTTTACCCTCGAA-TG
** * * * *
6922014 TTAAAAAATTCCATTTTAACCCT-AAATTT
1 TCCAAAAATTACATTTTTACCCTCGAA-TG
* **
6922043 TCCAAAAATTACATTTTCACCCTCGAACC
1 TCCAAAAATTACATTTTTACCCTCGAATG
* * *
6922072 TCCAAAAATTCCCTTTTTGA-CCTTGAACT-
1 TCCAAAAATTACATTTTT-ACCCTCGAA-TG
* * *
6922101 TCCAAAATTTAC-TATTTGACCC-CTGGATG
1 TCCAAAAATTACAT-TTTTACCCTC-GAATG
* * * ** *
6922130 TTCAAAAATTCCATTTATGACCCTAAAATT
1 TCCAAAAATTACATTT-TTACCCTCGAATG
* * *
6922160 TCCAAAAAATTACCA-TTTTACCCCCAAATA
1 TCC-AAAAATTA-CATTTTTACCCTCGAATG
* * *
6922190 TTCAAAAATTACATTTTTTACCC-CAAACTT
1 TCCAAAAATTACA-TTTTTACCCTCGAA-TG
* * *
6922220 TTCAAAGATTACCA-TTTTACCCTCGGATG
1 TCCAAAAATTA-CATTTTTACCCTCGAATG
* *
6922249 TCCAAAAATTACATTTTTGCCCTC-AAGCG
1 TCCAAAAATTACATTTTTACCCTCGAA-TG
* ** **
6922278 TCAAAAAATTACCGTTTTACCCTCG-ACC
1 TCCAAAAATTACATTTTTACCCTCGAATG
*
6922306 TCCACAAATTACCA-TTTTACCCT
1 TCCAAAAATTA-CATTTTTACCCT
6922329 GGGCATCCAA
Statistics
Matches: 289, Mismatches: 60, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
28 30 0.10
29 154 0.53
30 87 0.30
31 16 0.06
32 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCTCGAATG
Found at i:6922323 original size:28 final size:28
Alignment explanation
Indices: 6922222--6922342 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 28
6922212 CCAAACTTTT
* *
6922222 CAAAGATTACCATTTTACCCTCGGATGTC
1 CAAAAATTACCATTTTACCCTC-GACGTC
* *
6922251 CAAAAATTA-CATTTTTGCCCTCAAGCGTC
1 CAAAAATTACCA-TTTTACCCTCGA-CGTC
* * *
6922280 AAAAAATTACCGTTTTACCCTCGACCTC
1 CAAAAATTACCATTTTACCCTCGACGTC
* * * *
6922308 CACAAATTACCATTTTACCCTGGGCATC
1 CAAAAATTACCATTTTACCCTCGACGTC
6922336 CAAAAAT
1 CAAAAAT
6922343 CGTATTTTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
28 34 0.47
29 38 0.52
30 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (28 bp):
CAAAAATTACCATTTTACCCTCGACGTC
Found at i:6929325 original size:39 final size:39
Alignment explanation
Indices: 6929277--6929356 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
6929267 TTCAAGGAAG
6929277 AATGAGATCATTATGGCCTAGGGTACAAACCGGATGCAA
1 AATGAGATCATTATGGCCTAGGGTACAAACCGGATGCAA
*
6929316 AATGGGATCATTATGGCCTAGGGTACAAACCGGATGCAA
1 AATGAGATCATTATGGCCTAGGGTACAAACCGGATGCAA
6929355 AA
1 AA
6929357 CAAAAGAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.20
Consensus pattern (39 bp):
AATGAGATCATTATGGCCTAGGGTACAAACCGGATGCAA
Found at i:6933161 original size:16 final size:16
Alignment explanation
Indices: 6933142--6933172 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6933132 GGCAGAATGG
6933142 ATCCAAGCTCGATATA
1 ATCCAAGCTCGATATA
6933158 ATCCAAGCTCGATAT
1 ATCCAAGCTCGATAT
6933173 GATCAGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
ATCCAAGCTCGATATA
Found at i:6934732 original size:209 final size:209
Alignment explanation
Indices: 6934372--6935659 Score: 1626
Period size: 209 Copynumber: 6.2 Consensus size: 209
6934362 CAATGAGCTG
* ** * * * *
6934372 GTCATCTTCCCGATGAGATACAAAGAAGTATACCAACTCAATGAAGTCAAGCTCAAAGTGAGCAA
1 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCAA
* * *
6934437 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGA-AGTTACC
66 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA-ATGGTTAGC
* * * * * * * *
6934501 TTTCTGATGAGATACAGAGAAGTGAGCCAGATCCGTCTTCCTGATAAGACACAGAGAAGTGGATC
130 TTCCTGATGAGATACTGAGAAGTGAGCCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
*
6934566 AAAACAAGAGATGCA
195 AAAACAAGTGATGCA
* * *
6934581 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAAAGCTCAATGTGAGCCA
1 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAG-CA
* * * * * *
6934646 AA-CTTC-AAACTTCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCAATAAAGTGATTAG
65 AATCTTCGAACCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG
* * * *
6934709 CTTCCTGATAAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAGATACAAAGAAGCGGAT
129 CTTCCTGATGAGATACTGAGAAGTGAGCCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
*
6934774 TAAAACAAGTGATGCTG
194 TAAAACAAGTGATGC-A
* * * * *
6934791 GTCATCTTCCTGATGAGATA-TAGAGAAGTATACCAACTAAATGAACCCAAGCTCAAAGTGAGCA
1 GTCATCTTCCTGATGAGATACT-GAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCA
* * * *
6934855 AATTTTCGAACCCTAACTTCCTTATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGC
65 AATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
6934920 TTCCTGATGAGATACTGAGAAGTG-GACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
130 TTCCTGATGAGATACTGAGAAGTGAG-CCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
* * *
6934984 TGAACCAAGTGATGCG
194 TAAAACAAGTGATGCA
* *
6935000 GTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGTAA
1 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCAA
*
6935065 ATCTTCGAACCCTAGCTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
66 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
* * *
6935130 TCCTGATGAGATAC-----------CCAAATTCGTCTTCCTGATGAGATATAGAAAAGCGGATTG
131 TCCTGATGAGATACTGAGAAGTGAGCCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTA
*
6935184 AAACAAGTAATGCA
196 AAACAAGTGATGCA
* * *
6935198 GTCATCTTCCTGATAAGATGCTGAGAAGAAGACCAAATCAATGAAGTCAAGCTCAAAGTGAGCAA
1 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCAA
** *
6935263 ATCTTCGAACCCCGGCTTTCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
66 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
6935328 TCCTGATGAGATACTGAGAAGTG-GACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
131 TCCTGATGAGATACTGAGAAGTGAG-CCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
* *
6935392 GAAACAAGTGATGCG
195 AAAACAAGTGATGCA
* * ** *
6935407 GTCATCTTCTTGATGAGGTGTTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCGA
1 GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCAA
* * * * ** *
6935472 ATCTTCGAACCCCAGCTTCTTAATGAGATACTGAGGAGCAGGTCGAAGCAATAAAGCGGTTACCT
66 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
* * ** *
6935537 TCCTGATAAGATA-TAGAGAAGTGAACCGGA-TCTGTCTTCCTGATGAGATACAGAGAAGTGGAT
131 TCCTGATGAGATACT-GAGAAGTGAGCCAAATTC-GTCTTCCTGATGAGATACAGAGAAGCGGAT
*
6935600 CAAAACAAGTGATG-A
194 TAAAACAAGTGATGCA
* *
6935615 GGTCATCTTCCTGATGAGATACTGAGAAGTAGGCCAAATCAATGA
1 -GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGA
6935660 CACCAAACCA
Statistics
Matches: 944, Mismatches: 111, Indels: 48
0.86 0.10 0.04
Matches are distributed among these distances:
198 184 0.19
208 7 0.01
209 570 0.60
210 179 0.19
211 4 0.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
GTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAGCTCAAAGTGAGCAA
ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
TCCTGATGAGATACTGAGAAGTGAGCCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTA
AAACAAGTGATGCA
Found at i:6935366 original size:407 final size:408
Alignment explanation
Indices: 6934372--6935549 Score: 1569
Period size: 407 Copynumber: 2.9 Consensus size: 408
6934362 CAATGAGCTG
* * * * * *
6934372 GTCATCTTCCCGATGAGATACAAAGAAGTATACCAACTCAATGAAGTCAAGCTCAAAGTGAGCAA
1 GTCATCTTCCTGATAAGATATAGAGAAGAAGACCAACTCAATGAAGTCAAGCTCAAAGTGAGCAA
* * *
6934437 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAGA-AGTTACC
66 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA-ATGGTTAGC
* * * * * * *
6934501 TTTCTGATGAGATACAGAGAAGT-GAGCCAGATCCGTCTTCCTGATAAGACACAGAGAAGTGGAT
130 TTCCTGATGAGATACTGAGAAGTGGA-CCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
** * * * * *
6934565 CAAAACAAGAGATGCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAATGAAACAA
194 TGAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCA
* * * * *
6934630 AGCTCAATGTGAGCCAAA-CTTC-AAACTTCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAA
259 AGCTCAAAGTGAG-CAAATCTTCGAACCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAA
*
6934693 GCAATAAAGTGATTAGCTTCCTGATAAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAG
322 GCAATAAAGTGGTTAGCTTCC---T--G--A-TGAG-A-T-AACCAAATTCATCTTCCTGATGAG
* *
6934758 ATACAAAGAAGCGGATTAAAACAAGTGATGCTG
376 ATACAAAGAAGCGGATTAAAACAAGTAATGCTA
* * * * **
6934791 GTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTAAATGAACCCAAGCTCAAAGTGAGCAA
1 GTCATCTTCCTGATAAGATATAGAGAAGAAGACCAACTCAATGAAGTCAAGCTCAAAGTGAGCAA
* * * *
6934856 ATTTTCGAACCCTAACTTCCTTATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCT
66 ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
6934921 TCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
131 TCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
*
6934986 AACCAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCAAG
196 AAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCAAG
* *
6935051 CTCAAAGTGAGTAAATCTTCGAACCCTAGCTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAA
261 CTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * * *
6935116 TAAAATGGTTAGCTTCCTGATGAGATACCCAAATTCGTCTTCCTGATGAGATATAGAA-AAGCGG
326 TAAAGTGGTTAGCTTCCTGATGAGATAACCAAATTCATCTTCCTGATGAGATACA-AAGAAGCGG
*
6935180 ATTGAAACAAGTAATGC-A
390 ATTAAAACAAGTAATGCTA
* *
6935198 GTCATCTTCCTGATAAGATGCT-GAGAAGAAGACCAAATCAATGAAGTCAAGCTCAAAGTGAGCA
1 GTCATCTTCCTGATAAGAT-ATAGAGAAGAAGACCAACTCAATGAAGTCAAGCTCAAAGTGAGCA
** *
6935262 AATCTTCGAACCCCGGCTTTCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
65 AATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGC
6935327 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
130 TTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
* * *
6935392 GAAACAAGTGATGCGGTCATCTTCTTGATGAGGTGTTGAGAAGAAGACCAAATCAATGAAGCCAA
195 GAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCAA
* * * * *
6935457 GCTCAAAGTGAGCGAATCTTCGAACCCCAGCTTCTTAATGAGATACTGAGGAGCAGGTCGAAGCA
260 GCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * *
6935522 ATAAAGCGGTTACCTTCCTGATAAGATA
325 ATAAAGTGGTTAGCTTCCTGATGAGATA
6935550 TAGAGAAGTG
Statistics
Matches: 680, Mismatches: 73, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
407 320 0.47
408 48 0.07
409 3 0.00
410 1 0.00
411 4 0.01
412 1 0.00
414 1 0.00
416 1 0.00
418 4 0.01
419 291 0.43
420 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (408 bp):
GTCATCTTCCTGATAAGATATAGAGAAGAAGACCAACTCAATGAAGTCAAGCTCAAAGTGAGCAA
ATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
TCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTG
AAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGACCAAATCAATGAAGCCAAG
CTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAGTGGTTAGCTTCCTGATGAGATAACCAAATTCATCTTCCTGATGAGATACAAAGAAGCGGA
TTAAAACAAGTAATGCTA
Found at i:6935985 original size:17 final size:17
Alignment explanation
Indices: 6935963--6936033 Score: 88
Period size: 17 Copynumber: 4.2 Consensus size: 17
6935953 AATAAGTTTG
*
6935963 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTTA
* * *
6935980 AATTTATTTTGAGTTTG
1 AATTTATTTTAAATTTA
*
6935997 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
6936014 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
6936031 AAT
1 AAT
6936034 AAAATTAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 44 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:6936000 original size:34 final size:34
Alignment explanation
Indices: 6935957--6936023 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
6935947 TTTTTAAATA
*
6935957 AGTTTGAATTTATTTTAAATTCAAATTTATTTTG
1 AGTTTGAATTTACTTTAAATTCAAATTTATTTTG
*
6935991 AGTTTGAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTGAATTTACTTTAAATTCAAATTTATTTT
6936024 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAATTCAAATTTATTTTG
Found at i:6936108 original size:26 final size:26
Alignment explanation
Indices: 6936078--6936129 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
6936068 GACCCAATTA
6936078 CAAACAGGC-CTAAATAGCCCAAACAC
1 CAAACAGGCAC-AAATAGCCCAAACAC
*
6936104 CAAACAGGCACAAATGGCCCAAACAC
1 CAAACAGGCACAAATAGCCCAAACAC
6936130 TAAAGCACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.46, C:0.35, G:0.13, T:0.06
Consensus pattern (26 bp):
CAAACAGGCACAAATAGCCCAAACAC
Done.