Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 214 of 320
Found at i:71482670 original size:26 final size:26
Alignment explanation
Indices: 71482633--71482716 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71482623 TAATACAAAT
* *
71482633 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71482659 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71482685 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71482711 TGATAA
1 TGATAA
71482717 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:71493553 original size:26 final size:26
Alignment explanation
Indices: 71493516--71493599 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71493506 TAATACAAAT
* *
71493516 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71493542 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71493568 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71493594 TGATAA
1 TGATAA
71493600 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:71499284 original size:26 final size:26
Alignment explanation
Indices: 71499247--71499330 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71499237 TGATACAAAT
* *
71499247 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71499273 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71499299 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
71499325 TGATAA
1 TGATAA
71499331 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:71502544 original size:25 final size:25
Alignment explanation
Indices: 71502499--71502558 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
71502489 AGCATCATTG
* *
71502499 ATTTTATTTGTTTTCTTTTTAACTTT
1 ATTTTA-TTGTTTTATGTTTAACTTT
**
71502525 ATTTTATTGTTTTATGTTTATGTTT
1 ATTTTATTGTTTTATGTTTAACTTT
71502550 ATTTCTATT
1 ATTT-TATT
71502559 TTTAGTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.72
Consensus pattern (25 bp):
ATTTTATTGTTTTATGTTTAACTTT
Found at i:71502609 original size:26 final size:25
Alignment explanation
Indices: 71502572--71502626 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
71502562 AGTTGTTTTG
* * *
71502572 TTTTATTTTTATTTTCTTGTACT-TA
1 TTTTATTATTATCTT-TTGAACTATA
71502597 TTTTAATTATTATCTTTTGAACTATA
1 TTTT-ATTATTATCTTTTGAACTATA
71502623 TTTT
1 TTTT
71502627 TATGGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTATTATTATCTTTTGAACTATA
Found at i:71505903 original size:23 final size:22
Alignment explanation
Indices: 71505877--71505933 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
71505867 CAACATGAGT
71505877 AAATTAGATTGAT-TTGTACACTA
1 AAATTA-A-TGATATTGTACACTA
71505900 AAATT-ATGATATTGTACACTA
1 AAATTAATGATATTGTACACTA
71505921 AAATT-ATGATATT
1 AAATTAATGATATT
71505934 CTTTCACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.12
21 24 0.73
23 5 0.15
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTAATGATATTGTACACTA
Found at i:71505916 original size:21 final size:21
Alignment explanation
Indices: 71505886--71505933 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
71505876 TAAATTAGAT
71505886 TGAT-TTGTACACTAAAATTA
1 TGATATTGTACACTAAAATTA
71505906 TGATATTGTACACTAAAATTA
1 TGATATTGTACACTAAAATTA
71505927 TGATATT
1 TGATATT
71505934 CTTTCACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (21 bp):
TGATATTGTACACTAAAATTA
Found at i:71509683 original size:15 final size:15
Alignment explanation
Indices: 71509663--71509692 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71509653 TTCACTATTA
*
71509663 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
71509678 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
71509693 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:71511339 original size:12 final size:12
Alignment explanation
Indices: 71511289--71511364 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 12
71511279 ATTCCATAAA
*
71511289 TAATA-TTATTT
1 TAATATTTATAT
71511300 TAATAGTTTAATAT
1 TAATA-TTT-ATAT
*
71511314 TAA-ATTTAAAT
1 TAATATTTATAT
*
71511325 TAATATTTATCT
1 TAATATTTATAT
*
71511337 TAATAATATTTTAT
1 TAAT-AT-TTATAT
*
71511351 TAAT-TTAATAT
1 TAATATTTATAT
71511362 TAA
1 TAA
71511365 AGTGATTATC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
11 18 0.35
12 14 0.27
13 5 0.10
14 14 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (12 bp):
TAATATTTATAT
Found at i:71511412 original size:17 final size:16
Alignment explanation
Indices: 71511382--71511423 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
71511372 ATCTTAATGT
71511382 TAAAT-TTAATTAAAA
1 TAAATATTAATTAAAA
*
71511397 TAAATATTAGATTAAAT
1 TAAATATTA-ATTAAAA
*
71511414 TTAATATTAA
1 TAAATATTAA
71511424 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TAAATATTAATTAAAA
Found at i:71511431 original size:21 final size:21
Alignment explanation
Indices: 71511352--71511439 Score: 62
Period size: 21 Copynumber: 4.4 Consensus size: 21
71511342 ATATTTTATT
*
71511352 AATTTAATATTAAAGTGATT-
1 AATTTAATATTAAAGTAATTA
* *
71511372 -ATCTTAATGTTAAATTTAATTA
1 AAT-TTAATATTAAA-GTAATTA
* *
71511394 AAATAAATATT--AG--ATTA
1 AATTTAATATTAAAGTAATTA
71511411 AATTTAATATTAAAGTAATTA
1 AATTTAATATTAAAGTAATTA
*
71511432 AATGTAAT
1 AATTTAAT
71511440 CATAGTTGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 15
0.67 0.13 0.20
Matches are distributed among these distances:
17 13 0.26
19 4 0.08
20 11 0.22
21 15 0.30
22 6 0.12
23 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (21 bp):
AATTTAATATTAAAGTAATTA
Found at i:71513540 original size:17 final size:17
Alignment explanation
Indices: 71513518--71513554 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
71513508 TTATGTTAGG
71513518 GTGTAATTGTGTTTTAA
1 GTGTAATTGTGTTTTAA
71513535 GTGTAATTGTGTTTTAA
1 GTGTAATTGTGTTTTAA
71513552 GTG
1 GTG
71513555 GTGGCAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (17 bp):
GTGTAATTGTGTTTTAA
Found at i:71514715 original size:46 final size:47
Alignment explanation
Indices: 71514659--71514747 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 47
71514649 CACATCACAC
* *
71514659 ACCGAAGCCATAGCCCTGCCATGGTCTTATACGG-ATCACATATCAT
1 ACCGAAGCCATAGCCCAGACATGGTCTTATACGGAATCACATATCAT
* * *
71514705 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATA
1 ACCGAAGCCATAGCCCAGACATGGTCTTATACGGAATCACATA
71514748 ATCACATTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 29 0.78
47 8 0.22
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
ACCGAAGCCATAGCCCAGACATGGTCTTATACGGAATCACATATCAT
Found at i:71518932 original size:27 final size:25
Alignment explanation
Indices: 71518890--71518942 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
71518880 TTGAGTTTTA
* **
71518890 TTTTTTTTAATGTGATATTTATATT
1 TTTTTTTTAATCTGATACATATATT
71518915 TTTTTTATTCAATCTGATACATATATT
1 TTTTTT-TT-AATCTGATACATATATT
71518942 T
1 T
71518943 GATAAAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 15 0.65
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (25 bp):
TTTTTTTTAATCTGATACATATATT
Found at i:71527801 original size:6 final size:7
Alignment explanation
Indices: 71527784--71527810 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
71527774 AGGGTACCTT
71527784 TTTTTTC
1 TTTTTTC
71527791 TTTTTTC
1 TTTTTTC
71527798 TTTTTTC
1 TTTTTTC
71527805 TTTTTT
1 TTTTTT
71527811 TTCTCGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:71527802 original size:16 final size:16
Alignment explanation
Indices: 71527781--71527814 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
71527771 AGTAGGGTAC
71527781 CTTTTTTTTCTTTTTT
1 CTTTTTTTTCTTTTTT
71527797 CTTTTTTCTT-TTTTTT
1 CTTTTTT-TTCTTTTTT
71527813 CT
1 CT
71527815 CGATGACGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
CTTTTTTTTCTTTTTT
Found at i:71531461 original size:25 final size:25
Alignment explanation
Indices: 71531402--71531468 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
71531392 TCTAAATATT
*
71531402 ATATAAAAAAAATAAATATAATAAGA
1 ATAT-AAAAAAATAATTATAATAAGA
* * *
71531428 TTGTTAAAAAATAATTATAATTAA-A
1 ATATAAAAAAATAATTATAA-TAAGA
*
71531453 ATATAAAAAAAGAATT
1 ATATAAAAAAATAATT
71531469 GGATTAATTG
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
ATATAAAAAAATAATTATAATAAGA
Found at i:71532003 original size:24 final size:24
Alignment explanation
Indices: 71531976--71532030 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
71531966 TGACATAATT
*
71531976 TAAAATGAAACTTTTAAATAAAAG
1 TAAAATGAAACTTTTAAATAAAAC
71532000 TAAAATGAAACTTTTAAATAAAAC
1 TAAAATGAAACTTTTAAATAAAAC
71532024 TAAAATG
1 TAAAATG
71532031 TTGCTGCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.29
Consensus pattern (24 bp):
TAAAATGAAACTTTTAAATAAAAC
Found at i:71536567 original size:20 final size:21
Alignment explanation
Indices: 71536532--71536570 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71536522 GGACTTAATC
*
71536532 GAAAGTTCAGAAATTTTTTGT
1 GAAACTTCAGAAATTTTTTGT
71536553 GAAACTTCA-AAATTTTTT
1 GAAACTTCAGAAATTTTTT
71536571 CTAAGTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (21 bp):
GAAACTTCAGAAATTTTTTGT
Found at i:71538719 original size:21 final size:20
Alignment explanation
Indices: 71538685--71538742 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
71538675 GTTTTGTTTC
71538685 TTTATTTATTTATTTCATGT
1 TTTATTTATTTATTTCATGT
* *
71538705 TTTATTTCTTTTATTTTATGT
1 TTTATTT-ATTTATTTCATGT
71538726 TATTATATTATTATATT
1 T-TTAT-TTATT-TATT
71538743 ATTATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 12 0.39
22 6 0.19
23 6 0.19
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTTATTTATTTCATGT
Found at i:71538736 original size:13 final size:13
Alignment explanation
Indices: 71538715--71538765 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
71538705 TTTATTTCTT
* *
71538715 TTATTTTATGTTA
1 TTATATTATATTA
71538728 TTATA-T-TATTA
1 TTATATTATATTA
71538739 -TATTATTATATTA
1 TTA-TATTATATTA
71538752 TTATATTATATTA
1 TTATATTATATTA
71538765 T
1 T
71538766 AATAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.19
12 2 0.06
13 20 0.62
14 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:71538737 original size:3 final size:3
Alignment explanation
Indices: 71538725--71538776 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
71538715 TTATTTTATG
*
71538725 TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA TTA -TA TTA -TA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
71538768 TAA TTA TTA
1 TTA TTA TTA
71538777 CTTAAATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 10 0.24
3 32 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:71538744 original size:16 final size:16
Alignment explanation
Indices: 71538716--71538760 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
71538706 TTATTTCTTT
*
71538716 TATT-TTATGTTATTA
1 TATTATTATATTATTA
71538731 TATTATTATATTATTA
1 TATTATTATATTATTA
71538747 TATTATTATATTAT
1 TATTATTATATTAT
71538761 ATTATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TATTATTATATTATTA
Found at i:71547807 original size:21 final size:20
Alignment explanation
Indices: 71547719--71547813 Score: 66
Period size: 21 Copynumber: 4.6 Consensus size: 20
71547709 AAGTTTGAGT
* *
71547719 TTAGAATTTAAAATTTAAAA
1 TTAGAGTTTAAGATTTAAAA
* * *
71547739 TTCTGGGTTTAAGA-TTAAGA
1 TT-AGAGTTTAAGATTTAAAA
* * * *
71547759 TTTGAAGTTCAAAATTTAAAG
1 TTAG-AGTTTAAGATTTAAAA
71547780 TTCAGAGTTTAAGATTTAAGAA
1 TT-AGAGTTTAAGATTTAA-AA
71547802 TTAGAGTTTAAG
1 TTAGAGTTTAAG
71547814 GAAAAAAAAT
Statistics
Matches: 56, Mismatches: 14, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.27
21 35 0.62
22 4 0.07
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGAGTTTAAGATTTAAAA
Found at i:71548570 original size:21 final size:21
Alignment explanation
Indices: 71548544--71548584 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
71548534 AATTCTAAAA
71548544 CATGGTCCAATAAAATAGTGT
1 CATGGTCCAATAAAATAGTGT
71548565 CATGGTCCAATAAAATAGTG
1 CATGGTCCAATAAAATAGTG
71548585 ACTTATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (21 bp):
CATGGTCCAATAAAATAGTGT
Found at i:71555932 original size:29 final size:28
Alignment explanation
Indices: 71555856--71555932 Score: 68
Period size: 29 Copynumber: 2.6 Consensus size: 28
71555846 AAATATATAC
*
71555856 ATAAAAAAATATATCAAACAAATTAGTTAA
1 ATAAAAAAATATAT--AACAAATGAGTTAA
*
71555886 A-AATAAAATATATTTAACATAATGA-TTAA
1 ATAA-AAAA-ATATATAACA-AATGAGTTAA
71555915 TATAAAAAAATATATAAC
1 -ATAAAAAAATATATAAC
71555933 TACATATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
29 18 0.46
30 14 0.36
31 7 0.18
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (28 bp):
ATAAAAAAATATATAACAAATGAGTTAA
Found at i:71556909 original size:29 final size:29
Alignment explanation
Indices: 71556867--71556926 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
71556857 TCAGCATAAC
*
71556867 AATTACTTTGATTTTATAAGCTGTTAGGT
1 AATTACTTTGATTTTACAAGCTGTTAGGT
71556896 AATTACTTTGATTTTACAAGCTGTTAGGT
1 AATTACTTTGATTTTACAAGCTGTTAGGT
71556925 AA
1 AA
71556927 AAGTATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.45
Consensus pattern (29 bp):
AATTACTTTGATTTTACAAGCTGTTAGGT
Found at i:71571826 original size:75 final size:75
Alignment explanation
Indices: 71571729--71571906 Score: 200
Period size: 75 Copynumber: 2.4 Consensus size: 75
71571719 ACACAACCGC
* * *
71571729 CGGTTTATCTGACTAGCACTGGGTGCAATCACCCTTGGTTTATCCAACTAGAGCTGGGCTTAC-T
1 CGGTTAATCTGACTAGCACTGGGTGCAAT-ACCCTTGGTCTATCCAACTAGAGCTGGGCTCACAT
71571793 ATAATTA-TCTT
65 -TAATTAGTCTT
* * ***
71571804 CGGTTAATCCGACTAGCACTGGGTGTAAATATTGTTGGTCTATCCAACTAGAGCTGGGCTCACAT
1 CGGTTAATCTGACTAGCACTGGGTG-CAATACCCTTGGTCTATCCAACTAGAGCTGGGCTCACAT
** *
71571869 TTTTTAGTGTT
65 TAATTAGTCTT
*
71571880 -GGTTAATCTGACTAGCACTGGGCGCAA
1 CGGTTAATCTGACTAGCACTGGGTGCAA
71571907 CCTTTTCTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
74 2 0.02
75 77 0.90
76 7 0.08
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (75 bp):
CGGTTAATCTGACTAGCACTGGGTGCAATACCCTTGGTCTATCCAACTAGAGCTGGGCTCACATT
AATTAGTCTT
Found at i:71574099 original size:37 final size:37
Alignment explanation
Indices: 71574058--71574233 Score: 289
Period size: 37 Copynumber: 4.8 Consensus size: 37
71574048 TTTGAGTACT
71574058 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
71574095 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
71574132 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
* *
71574169 TCTGATAAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
71574206 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
71574234 TAACTTCAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:71574249 original size:46 final size:44
Alignment explanation
Indices: 71574196--71574319 Score: 178
Period size: 46 Copynumber: 2.8 Consensus size: 44
71574186 GTGATAAGTG
*
71574196 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAACTTCA
1 GCTACACTTATCTGATCAAGTGA-AAAGTGATAAGTGGTAACCT-A
* *
71574242 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCTA
1 GCTACACTTATCTGATCAAGT-GAAAAGTGATAAGTGGTAACCTA
*
71574287 GCTACACTTATCTGATCAAG-GACAAGTGATAAG
1 GCTACACTTATCTGATCAAGTGAAAAGTGATAAG
71574320 AGGTCATATG
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
43 11 0.15
45 21 0.29
46 39 0.54
47 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (44 bp):
GCTACACTTATCTGATCAAGTGAAAAGTGATAAGTGGTAACCTA
Found at i:71587040 original size:3 final size:3
Alignment explanation
Indices: 71587032--71587082 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
71587022 TTTTACTGTA
*
71587032 AAT AAT AAT AAT AAT AATT ACT AA- AAT -AT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
71587075 -AT AAT AAT
1 AAT AAT AAT
71587083 TAAAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 8 0.20
3 31 0.76
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:71587152 original size:21 final size:21
Alignment explanation
Indices: 71587123--71587164 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71587113 AAGGGAAGAG
* *
71587123 GGAATGAAAACGAAAAAGAAA
1 GGAAAGAAAAAGAAAAAGAAA
*
71587144 GGAAAGAAAAAGAAAAGGAAA
1 GGAAAGAAAAAGAAAAAGAAA
71587165 AATTAGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (21 bp):
GGAAAGAAAAAGAAAAAGAAA
Found at i:71587160 original size:16 final size:15
Alignment explanation
Indices: 71587134--71587164 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
71587124 GAATGAAAAC
71587134 GAAAAAGAAAGGAAA
1 GAAAAAGAAAGGAAA
71587149 GAAAAAGAAAAGGAAA
1 GAAAAAG-AAAGGAAA
71587165 AATTAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:71589309 original size:164 final size:164
Alignment explanation
Indices: 71589038--71589360 Score: 610
Period size: 164 Copynumber: 2.0 Consensus size: 164
71589028 TGTACCCCTT
*
71589038 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCTACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
1 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
* *
71589103 TTCAAGAAAAAATTTTCGAAGTTTTCCAAAGTTACTGGTTTAGTTCCAAATTATTTCTAAAGCAT
66 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGATCCAAATTATTTCTAAAGCAT
*
71589168 GTAATGGGCCCCGTAGGTCCATATTAGGGGCATG
131 GTAATGGGCCCCGTAGGCCCATATTAGGGGCATG
71589202 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
1 TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
71589267 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGATCCAAATTATTTCTAAAGCAT
66 TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGATCCAAATTATTTCTAAAGCAT
71589332 GTAATGGGCCCCGTAGGCCCATATTAGGG
131 GTAATGGGCCCCGTAGGCCCATATTAGGG
71589361 ACTTTATGGT
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 155 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (164 bp):
TGATGCTTAAGAAATTGCAAGTCAGAATTGCCCACGGGCTGGCCACAGGGGCATGTGCCCCTAAC
TTCAAGAAAAAATTTTCAAAGTTTTCCAAAGTTACTGGTTTAGATCCAAATTATTTCTAAAGCAT
GTAATGGGCCCCGTAGGCCCATATTAGGGGCATG
Found at i:71589626 original size:29 final size:29
Alignment explanation
Indices: 71589589--71589647 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
71589579 AATTTCGAGT
71589589 GTTAAAATAAAAGAAATAATAAATAAAGA
1 GTTAAAATAAAAGAAATAATAAATAAAGA
71589618 GTTAAAATAAAAGAAATAATAAATAAAGA
1 GTTAAAATAAAAGAAATAATAAATAAAGA
71589647 G
1 G
71589648 GCAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (29 bp):
GTTAAAATAAAAGAAATAATAAATAAAGA
Found at i:71589653 original size:29 final size:29
Alignment explanation
Indices: 71589592--71589663 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
71589582 TTCGAGTGTT
**
71589592 AAAATAAAAGAAATAATAAATAAAGAGTT
1 AAAATAAAAGAAATAATAAATAAAGAGGC
71589621 AAAATAAAAGAAATAATAAATAAAGAGGC
1 AAAATAAAAGAAATAATAAATAAAGAGGC
* *
71589650 AAAATTAAATAAAT
1 AAAATAAAAGAAAT
71589664 GAGGGATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.69, C:0.01, G:0.10, T:0.19
Consensus pattern (29 bp):
AAAATAAAAGAAATAATAAATAAAGAGGC
Found at i:71591897 original size:27 final size:26
Alignment explanation
Indices: 71591846--71591897 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
71591836 CCTAATACTA
* *
71591846 ATATTTATTAAAATTATTATTAAATT
1 ATATTTAATAAAATTATTATAAAATT
71591872 ATATTTAATAATAATTATGT-TAAAAT
1 ATATTTAATAA-AATTAT-TATAAAAT
71591898 ATGATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.45
27 11 0.50
28 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATTTAATAAAATTATTATAAAATT
Found at i:71592101 original size:39 final size:40
Alignment explanation
Indices: 71592031--71592108 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
71592021 TTTCTTATAC
*
71592031 TATTACAACATCTATTCCATTCAATCAAACAAAAGAATTT
1 TATTACAACATCTATTCCATTCAATCAAACAAAACAATTT
* *
71592071 TATTACAAC-TCTGTTCCATTCCATTC-AACAAAACAATT
1 TATTACAACATCTATTCCATT-CAATCAAACAAAACAATT
71592109 GAATTACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 21 0.62
40 13 0.38
ACGTcount: A:0.41, C:0.23, G:0.03, T:0.33
Consensus pattern (40 bp):
TATTACAACATCTATTCCATTCAATCAAACAAAACAATTT
Found at i:71593879 original size:17 final size:17
Alignment explanation
Indices: 71593857--71593891 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
71593847 ATATATATAT
*
71593857 ATATATATGCTTGATGA
1 ATATATATACTTGATGA
71593874 ATATATATACTTGATGA
1 ATATATATACTTGATGA
71593891 A
1 A
71593892 AAAATCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (17 bp):
ATATATATACTTGATGA
Found at i:71594171 original size:16 final size:16
Alignment explanation
Indices: 71594150--71594189 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
71594140 GATATAATTA
71594150 AATAAAAT-TTATTTT
1 AATAAAATATTATTTT
*
71594165 AATTAAAATATTATTTC
1 AA-TAAAATATTATTTT
71594182 AATAAAAT
1 AATAAAAT
71594190 GGTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 12 0.55
17 8 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAAAATATTATTTT
Found at i:71594497 original size:20 final size:20
Alignment explanation
Indices: 71594474--71594515 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
71594464 TCTTTTAACG
71594474 TTTTTTCTTTGGTTCTTACT
1 TTTTTTCTTTGGTTCTTACT
71594494 TTTTTTCTTTGGTTCTTACT
1 TTTTTTCTTTGGTTCTTACT
71594514 TT
1 TT
71594516 CTTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTTTCTTTGGTTCTTACT
Found at i:71594524 original size:20 final size:20
Alignment explanation
Indices: 71594481--71594524 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
71594471 ACGTTTTTTC
* *
71594481 TTTGGTTCTTACTTTTTTTC
1 TTTGGTTCTTACTTTCTTTA
71594501 TTTGGTTCTTACTTTCTTTA
1 TTTGGTTCTTACTTTCTTTA
71594521 TTTG
1 TTTG
71594525 ATGGAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.14, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTGGTTCTTACTTTCTTTA
Found at i:71597093 original size:38 final size:38
Alignment explanation
Indices: 71597050--71597126 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
71597040 TTTTAGTTGT
71597050 AGTTGACATTTTTATTAAAAGTAAAGACTAAATTGATA
1 AGTTGACATTTTTATTAAAAGTAAAGACTAAATTGATA
71597088 AGTTGACATTTTTATTAAAAGTAAAGACTAAATTGATA
1 AGTTGACATTTTTATTAAAAGTAAAGACTAAATTGATA
71597126 A
1 A
71597127 AAAATATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.36
Consensus pattern (38 bp):
AGTTGACATTTTTATTAAAAGTAAAGACTAAATTGATA
Found at i:71607244 original size:58 final size:58
Alignment explanation
Indices: 71607154--71607269 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
71607144 GCAGCATGGG
71607154 GTAACCCTCGTTCACTGCACCTCCCTATTTATTAATCTAGTTTAAGTAACCTTGGTTA
1 GTAACCCTCGTTCACTGCACCTCCCTATTTATTAATCTAGTTTAAGTAACCTTGGTTA
*
71607212 GTAACCCTCGTTTACTGCACCTCCCTATTTATTAATCTAGTTTAAGTAACCTTGGTTA
1 GTAACCCTCGTTCACTGCACCTCCCTATTTATTAATCTAGTTTAAGTAACCTTGGTTA
71607270 TACACCAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (58 bp):
GTAACCCTCGTTCACTGCACCTCCCTATTTATTAATCTAGTTTAAGTAACCTTGGTTA
Found at i:71607654 original size:18 final size:17
Alignment explanation
Indices: 71607621--71607654 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71607611 ATAAATGGGC
*
71607621 TAATTTAGACTTTATTA
1 TAATTTAGAATTTATTA
71607638 TAATTTAGAGATTTATT
1 TAATTTAGA-ATTTATT
71607655 TTATTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (17 bp):
TAATTTAGAATTTATTA
Found at i:71612375 original size:17 final size:17
Alignment explanation
Indices: 71612353--71612387 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
71612343 TTTTATATTC
71612353 AGCGAAAAACTAAGTGT
1 AGCGAAAAACTAAGTGT
71612370 AGCGAAAAACTAAGTGT
1 AGCGAAAAACTAAGTGT
71612387 A
1 A
71612388 CTCAATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.17
Consensus pattern (17 bp):
AGCGAAAAACTAAGTGT
Found at i:71626658 original size:40 final size:40
Alignment explanation
Indices: 71626549--71626735 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
71626539 ATTCGGATTG
* *
71626549 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
71626589 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
71626628 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
71626668 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-CT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
71626707 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
71626736 AGCTAGTAGC
Statistics
Matches: 138, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 66 0.48
40 72 0.52
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:71626749 original size:79 final size:79
Alignment explanation
Indices: 71626549--71626768 Score: 306
Period size: 79 Copynumber: 2.8 Consensus size: 79
71626539 ATTCGGATTG
71626549 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAG-CTATA-TCCGGGCTAAGCCCGAAGGC
71626612 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
** * *
71626628 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATATCCGGGCTAAG-CCCGAAGGC
71626692 ATTTGTGCGAGTT-CT
64 ATTTGTGCGAGTTACT
* *
71626707 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATATCC-GGCTAAACTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGCTAAGC-CCGAAGG
71626769 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
77 1 0.01
78 15 0.12
79 85 0.68
80 24 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:71626768 original size:39 final size:39
Alignment explanation
Indices: 71626553--71626758 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 39
71626543 GGATTGATAA
*
71626553 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
71626593 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
71626632 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* *
71626672 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
* *
71626711 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
71626751 CC-GGCTAA
1 CCGGGCTAA
71626759 ACTCCGAAGG
Statistics
Matches: 153, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
39 76 0.50
40 77 0.50
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:71628947 original size:5 final size:5
Alignment explanation
Indices: 71628939--71628967 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
71628929 CAATCACAAC
71628939 CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
71628968 TCAATACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:71636877 original size:40 final size:40
Alignment explanation
Indices: 71636798--71636879 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
71636788 ATGAAGATGT
* * *
71636798 TTAAAAATATTTATTTATTATTTTATATTTTTAATTTTTA
1 TTAAAAATACTTATTTATTATTTTAGATTTTTAAATTTTA
*
71636838 TTAAAAATACTT-TTTATTTTTATTAGA-TTTTAGAATTTTA
1 TTAAAAATACTTATTTATTATT-TTAGATTTTTA-AATTTTA
71636878 TT
1 TT
71636880 TTTAATTATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 13 0.36
40 23 0.64
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (40 bp):
TTAAAAATACTTATTTATTATTTTAGATTTTTAAATTTTA
Found at i:71638674 original size:106 final size:106
Alignment explanation
Indices: 71638534--71638743 Score: 332
Period size: 106 Copynumber: 2.0 Consensus size: 106
71638524 GGGGTATTTA
* * *
71638534 ATAAACCGTAATTTATACATATTTTTACACCATGTTTAACACATTTTATGGATGATTTCCCATTA
1 ATAAACAGTAAATTATACATATTTTTACACCATGTTTAACACATTTAATGGATGATTTCCCATTA
*
71638599 GAATTGGTGAATTCGATGCTCCTACTGCTTTAATTTCATTG
66 GAATTGGTGAATTCGATGCTCCTAATGCTTTAATTTCATTG
*** *
71638640 ATAAACAGTAAATTATACATATTTTTATC-CCATGTTTAGTGCATTTAATGGATGATTTCTCATT
1 ATAAACAGTAAATTATACATATTTTTA-CACCATGTTTAACACATTTAATGGATGATTTCCCATT
71638704 AGAATTGGTGAATTCGATGCTCCTAATGCTTTAATTTCAT
65 AGAATTGGTGAATTCGATGCTCCTAATGCTTTAATTTCAT
71638744 GTTTTATACT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 94 0.99
107 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (106 bp):
ATAAACAGTAAATTATACATATTTTTACACCATGTTTAACACATTTAATGGATGATTTCCCATTA
GAATTGGTGAATTCGATGCTCCTAATGCTTTAATTTCATTG
Found at i:71661035 original size:24 final size:24
Alignment explanation
Indices: 71660985--71661038 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
71660975 AATCGAATTT
*
71660985 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
71661009 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
71661033 GCACAC
1 GCACAC
71661039 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:71667242 original size:47 final size:47
Alignment explanation
Indices: 71667183--71667275 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
71667173 AAGAGGAAGA
*
71667183 GGCCAAAGTGAAAACCTGCAAAGGGCGCTTTGAGAC-CTAATAAAAAG
1 GGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTC-AATAAAAAG
* *
71667230 GGCCAAAGTGAAAACCCGCAAAGGGTGTTTTGAGACTCAATAAAAA
1 GGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAATAAAAA
71667276 TGAAAAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 41 0.98
48 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (47 bp):
GGCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAATAAAAAG
Found at i:71668547 original size:43 final size:45
Alignment explanation
Indices: 71668492--71668587 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 45
71668482 AGCCACCAGC
* * **
71668492 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AG-T
1 CTTATCTCTCTGAGATAGCAAGAAAGCAGACTGAAGAATGAAGAT
* *
71668535 CTTATCTTTCTGAGATAGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGATAGCAAGAAAGCAGACTGAAGAATGAAGAT
71668580 CTTATCTC
1 CTTATCTC
71668588 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 34 0.77
44 2 0.05
45 8 0.18
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGAGATAGCAAGAAAGCAGACTGAAGAATGAAGAT
Found at i:71668706 original size:170 final size:172
Alignment explanation
Indices: 71668399--71669008 Score: 692
Period size: 170 Copynumber: 3.5 Consensus size: 172
71668389 TGGTGAAGTC
** * * * ** * *
71668399 AGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGATGATGAATCTTATCTCCATGTGTC
1 AGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATT
* * *
71668464 GGCAATGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
65 GGCAATGGAGCAGATTTAAG---TCAGCC-TATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGA
* * *
71668529 ATGAGTCTTATCTTTCTGAGATAGCAAGAAAGCAGACTGAAGATTGA
126 TTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* *
71668576 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTATAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATTG
* *
71668641 GCAATGGAGCAGATTTCAGTCA-CC-ATCTCTCTGATGTAGCAAGAGAGCAGGTTGAAGATTGAG
66 GCAATGGAGCAGATTTAAGTCAGCCTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGATTGAG
* *
71668704 TCTTATC-TTCATAAGGTAGCAAGGAAGCAGACTGAAGTTTGA
131 TCTTATCTTTC-TGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* *
71668746 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATTG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATTG
* * ** * * *
71668811 TCAATTGAGCATTTTTGCCACT-AGCCTTATCTCTCTGAAGTAGCAAGAGGGCAGGTTGAAGTAA
66 GCAATGGAGCAGATTT--AAGTCAGCC-TATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAG--A
* * *
71668875 TTG-GTCTTATCTTCCTGAGGTAGCAAGGAAGTAGATTGAAGATTGA
126 TTGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * * * ** *
71668921 GGATCTTGTTTCCCTTAAGCAGTTGTGGAACA-AGTCAAAGACAGCAAATCTTATCTCCATGTAT
1 AGATCTTATCTCCC-TAAGCAGTAGTGGAGCAGA-TCAAAGATGGCGAATCTTATCTCCATGTAT
71668985 TGGCAATGGAGCAGATTTAAGTCA
64 TGGCAATGGAGCAGATTTAAGTCA
71669009 TCAGCCTTGT
Statistics
Matches: 372, Mismatches: 49, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
169 3 0.01
170 146 0.39
171 1 0.00
172 7 0.02
173 2 0.01
174 33 0.09
175 48 0.13
176 117 0.31
177 15 0.04
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (172 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATTG
GCAATGGAGCAGATTTAAGTCAGCCTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGATTGAG
TCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
Found at i:71675230 original size:28 final size:28
Alignment explanation
Indices: 71675148--71675324 Score: 245
Period size: 27 Copynumber: 6.4 Consensus size: 28
71675138 GAGATTGGCG
* *
71675148 CTAAGTGTGCGAGTTTAAAT-TGTGCAGCA
1 CTAAGTGTGCGAGTTTGACTATGT--AGCA
*
71675177 CTAAGTGTGCGA-ATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
71675204 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
71675232 CTAAGTGTGCGAG-TTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
*
71675259 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
* *
71675287 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGACTATGTAGCA
*
71675314 CTGAGTGTGCG
1 CTAAGTGTGCG
71675325 GACTTAATAT
Statistics
Matches: 138, Mismatches: 7, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
27 66 0.48
28 57 0.41
29 15 0.11
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGACTATGTAGCA
Found at i:71675243 original size:55 final size:55
Alignment explanation
Indices: 71675148--71675324 Score: 266
Period size: 55 Copynumber: 3.2 Consensus size: 55
71675138 GAGATTGGCG
* *
71675148 CTAAGTGTGCGAGTTTAAAT-TGTGCAGCACTAAGTGTGCGAATTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGAATATGT--AGCACTAAGTGTGCGAGTTGACTATGTAGCA
*
71675204 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCA
* * *
71675259 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCA
*
71675314 CTGAGTGTGCG
1 CTAAGTGTGCG
71675325 GACTTAATAT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
55 92 0.81
56 18 0.16
57 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (55 bp):
CTAAGTGTGCGAGTTTGAATATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCA
Found at i:71676969 original size:15 final size:15
Alignment explanation
Indices: 71676949--71676979 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71676939 ATAGTTGGGC
*
71676949 TATTGGGCTTTAGGT
1 TATTGGGCATTAGGT
71676964 TATTGGGCATTAGGT
1 TATTGGGCATTAGGT
71676979 T
1 T
71676980 TAGCAGATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.32, T:0.45
Consensus pattern (15 bp):
TATTGGGCATTAGGT
Found at i:71683508 original size:16 final size:16
Alignment explanation
Indices: 71683487--71683523 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
71683477 CTCTAGCGAT
71683487 GCCCCTAAATATCTCA
1 GCCCCTAAATATCTCA
71683503 GCCCCTAAATATCTCA
1 GCCCCTAAATATCTCA
71683519 GCCCC
1 GCCCC
71683524 ATTCGACCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.43, G:0.08, T:0.22
Consensus pattern (16 bp):
GCCCCTAAATATCTCA
Found at i:71690891 original size:15 final size:15
Alignment explanation
Indices: 71690871--71690900 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
71690861 AATAAGCCAT
71690871 ATTATGTATATAAAC
1 ATTATGTATATAAAC
71690886 ATTATGTATATAAAC
1 ATTATGTATATAAAC
71690901 CTACAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTATGTATATAAAC
Found at i:71692950 original size:21 final size:21
Alignment explanation
Indices: 71692921--71692963 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71692911 AAAACACGCG
71692921 AACAAAAGCTCATAAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
* * *
71692942 AACAGAAGCTCGTGAGAGCTA
1 AACAAAAGCTCATAAGAGCTA
71692963 A
1 A
71692964 TCCACCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (21 bp):
AACAAAAGCTCATAAGAGCTA
Found at i:71695084 original size:14 final size:14
Alignment explanation
Indices: 71695065--71695095 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71695055 TTGTGTGTTC
71695065 TTTATTTTATTTTA
1 TTTATTTTATTTTA
*
71695079 TTTATTTTCTTTTA
1 TTTATTTTATTTTA
71695093 TTT
1 TTT
71695096 TTCATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:71700493 original size:11 final size:11
Alignment explanation
Indices: 71700477--71700502 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
71700467 ATTAATGACA
71700477 TAAAAAATTAT
1 TAAAAAATTAT
71700488 TAAAAAATTAT
1 TAAAAAATTAT
71700499 TAAA
1 TAAA
71700503 TAATAAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAAATTAT
Found at i:71703984 original size:95 final size:95
Alignment explanation
Indices: 71703818--71704008 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
71703808 ATGTGATTGG
*
71703818 GTACTGGTCCGTATGTCCTACTGGTGGCTAAGTTATCCGGCATGTGCTGCGGATTCTCGTCAGCT
1 GTACTGGTCCGTATGTCCTACTGGTGGCTAAGTTATCCGGCATGTGCTGCCGATTCTCGTCAGCT
71703883 TATGTGAGCAACACCGTGTAGCTTCGTCAT
66 TATGTGAGCAACACCGTGTAGCTTCGTCAT
*
71703913 GTACTGGTCCGTATGTCCTACTGGTGGCTGAGTTATCCGGCATGTGCTGCCGATTCTCGTCAGCT
1 GTACTGGTCCGTATGTCCTACTGGTGGCTAAGTTATCCGGCATGTGCTGCCGATTCTCGTCAGCT
*
71703978 TGTGTGAGCAACACCGTGTAGCTTCGTCAT
66 TATGTGAGCAACACCGTGTAGCTTCGTCAT
71704008 G
1 G
71704009 AGTGTCAGCT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (95 bp):
GTACTGGTCCGTATGTCCTACTGGTGGCTAAGTTATCCGGCATGTGCTGCCGATTCTCGTCAGCT
TATGTGAGCAACACCGTGTAGCTTCGTCAT
Found at i:71704695 original size:2 final size:2
Alignment explanation
Indices: 71704690--71704726 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
71704680 TGCATATATA
71704690 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
71704727 AAATGCCCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:71707981 original size:21 final size:21
Alignment explanation
Indices: 71707934--71707984 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
71707924 GACATGGTGT
*
71707934 TGAAGAAGCCACGTGGGAGCC
1 TGAAGAAGCCACGTGGGAACC
** *
71707955 CAAAGAAGCCATGTGGGAACC
1 TGAAGAAGCCACGTGGGAACC
71707976 TGAAGAAGC
1 TGAAGAAGC
71707985 TATGAGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.33, T:0.10
Consensus pattern (21 bp):
TGAAGAAGCCACGTGGGAACC
Found at i:71709911 original size:18 final size:18
Alignment explanation
Indices: 71709877--71710064 Score: 103
Period size: 18 Copynumber: 10.1 Consensus size: 18
71709867 TCATTAACTC
* *
71709877 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
71709894 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
**
71709912 TCAGTAACAATCAAATAT
1 TCAGTAACAATCAGTTAT
* * *
71709930 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
71709948 TCAGTATCGATCAATTGATCGGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
71709974 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
71709992 TCAGTAA-AATTAGATAT
1 TCAGTAACAATCAGTTAT
*
71710009 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
71710028 TTAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
71710046 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
71710064 T
1 T
71710065 TTATACCTTT
Statistics
Matches: 126, Mismatches: 32, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
17 19 0.15
18 74 0.59
19 16 0.13
21 2 0.02
22 1 0.01
23 2 0.02
26 12 0.10
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:71711848 original size:5 final size:5
Alignment explanation
Indices: 71711840--71711875 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
71711830 TTTAGTTTAT
71711840 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
71711876 AACATAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:71711908 original size:8 final size:8
Alignment explanation
Indices: 71711895--71711923 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
71711885 TATCTTTATT
71711895 ATATAATA
1 ATATAATA
71711903 ATATAATA
1 ATATAATA
71711911 ATATAATA
1 ATATAATA
71711919 ATATA
1 ATATA
71711924 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:71716019 original size:18 final size:18
Alignment explanation
Indices: 71715998--71716058 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
71715988 GAACAATTAT
*
71715998 TTATTCAATAACAGTCAG
1 TTATTCAATAACAATCAG
** *
71716016 TTATTCGGTAACAATCAA
1 TTATTCAATAACAATCAG
* * *
71716034 ATATTCAATAATAACCAG
1 TTATTCAATAACAATCAG
71716052 TTATTCA
1 TTATTCA
71716059 GTATCGATCA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (18 bp):
TTATTCAATAACAATCAG
Found at i:71716141 original size:19 final size:18
Alignment explanation
Indices: 71716077--71716172 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 18
71716067 CAATTGATCG
* * *
71716077 GTTATCCAGTAACAGTCA
1 GTTATTCAGTAACAATTA
*
71716095 ATTATTCAGTAA-AATTA
1 GTTATTCAGTAACAATTA
*
71716112 GATATTCAGTAACAATTAA
1 GTTATTCAGTAACAATT-A
* * *
71716131 GTTATTTAGTAACAGTCA
1 GTTATTCAGTAACAATTA
*
71716149 -TTCATTCAGTGACAATTA
1 GTT-ATTCAGTAACAATTA
71716167 GTTATT
1 GTTATT
71716173 TTATACCTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
17 15 0.25
18 29 0.48
19 16 0.27
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
GTTATTCAGTAACAATTA
Found at i:71716415 original size:42 final size:44
Alignment explanation
Indices: 71716356--71716446 Score: 141
Period size: 42 Copynumber: 2.1 Consensus size: 44
71716346 GTAACAGTAT
71716356 AGTAACAATATCCGACACACAAAGTGCCGAATC-G-ACGGTAAC
1 AGTAACAATATCCGACACACAAAGTGCCGAATCGGAACGGTAAC
* *
71716398 AGTAATAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAAC
1 AGTAACAATATCCGACACACAAAGTGCCGAATCGG-AACGGTAAC
71716443 AGTA
1 AGTA
71716447 GCGGTAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 31 0.70
43 1 0.02
45 12 0.27
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (44 bp):
AGTAACAATATCCGACACACAAAGTGCCGAATCGGAACGGTAAC
Found at i:71718004 original size:5 final size:5
Alignment explanation
Indices: 71718003--71718093 Score: 182
Period size: 5 Copynumber: 18.2 Consensus size: 5
71717993 TATATATAAT
71718003 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
71718053 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
71718094 AACAATCTTT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 86 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:71723783 original size:22 final size:22
Alignment explanation
Indices: 71723744--71723788 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
71723734 TTTTAACATA
* *
71723744 TTAATAATTTTATACATAGATT
1 TTAATAAATTGATACATAGATT
* *
71723766 TTAATAAATTGATTCATATATT
1 TTAATAAATTGATACATAGATT
71723788 T
1 T
71723789 CATATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAATAAATTGATACATAGATT
Found at i:71737359 original size:42 final size:42
Alignment explanation
Indices: 71737297--71737376 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
71737287 TAAAATCAAC
71737297 CCAACCCCATGCAATACAACATACAATACATGACATGCTAAA
1 CCAACCCCATGCAATACAACATACAATACATGACATGCTAAA
*
71737339 CCAACCCCATGCAATGCAACATACAATACATGACATGC
1 CCAACCCCATGCAATACAACATACAATACATGACATGC
71737377 CATCTCATGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.16
Consensus pattern (42 bp):
CCAACCCCATGCAATACAACATACAATACATGACATGCTAAA
Found at i:71737376 original size:21 final size:21
Alignment explanation
Indices: 71737313--71737376 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
71737303 CCATGCAATA
71737313 CAACATACAATACATGACATG
1 CAACATACAATACATGACATG
* **
71737334 CTAA-A-CCAACCCCATG-CAATG
1 C-AACATACAA-TACATGAC-ATG
71737355 CAACATACAATACATGACATG
1 CAACATACAATACATGACATG
71737376 C
1 C
71737377 CATCTCATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
20 6 0.19
21 19 0.61
22 6 0.19
ACGTcount: A:0.44, C:0.30, G:0.09, T:0.17
Consensus pattern (21 bp):
CAACATACAATACATGACATG
Found at i:71746037 original size:18 final size:19
Alignment explanation
Indices: 71746002--71746038 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
71745992 TATATTATTT
*
71746002 TTAATAATTTTTTGACATA
1 TTAATAATTTTATGACATA
71746021 TTAATAATTTTAT-ACATA
1 TTAATAATTTTATGACATA
71746039 GATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAATAATTTTATGACATA
Found at i:71746060 original size:22 final size:22
Alignment explanation
Indices: 71746021--71746065 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
71746011 TTTTGACATA
* *
71746021 TTAATAATTTTATACATAGATT
1 TTAATAAATTGATACATAGATT
* *
71746043 TTAATAAATTGATTCATATATT
1 TTAATAAATTGATACATAGATT
71746065 T
1 T
71746066 CATATTAAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
TTAATAAATTGATACATAGATT
Found at i:71747107 original size:14 final size:14
Alignment explanation
Indices: 71747090--71747117 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
71747080 TAGCTAAAAT
71747090 AACATTAGATGTAC
1 AACATTAGATGTAC
71747104 AACATTAGATGTAC
1 AACATTAGATGTAC
71747118 CATCGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
AACATTAGATGTAC
Found at i:71757101 original size:54 final size:54
Alignment explanation
Indices: 71757043--71757263 Score: 173
Period size: 54 Copynumber: 4.1 Consensus size: 54
71757033 TTTACCCTAT
** * *
71757043 AGGGGTATGTCGGTCATTTTAC-ACTACAAGGGTATTTTAATAATTTTACAAATC
1 AGGGGTATGTCAATAATTTTACAAAT-CAAGGGTATTTTAATAATTTTACAAATC
* * * *
71757097 AGGGGTGTTTCAATAATTTTACAAATTAAGGGTATTTTAGTAATTTTACAAATC
1 AGGGGTATGTCAATAATTTTACAAATCAAGGGTATTTTAATAATTTTACAAATC
* * * * *
71757151 -GATGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAA--TTACACAATC
1 AG-GGGTATGTCAATAATTTTACAAATCAAGGGTATTTTAATAATTTTACA-AATC
* ** ** ***
71757204 -GAGGGTATTTTGATAATTTTACAAATCGGGGGTATTTCGGTAATTTTACAAATC
1 AG-GGGTATGTCAATAATTTTACAAATCAAGGGTATTTTAATAATTTTACAAATC
*
71757258 AAGGGT
1 AGGGGT
71757264 GTTTCGGTAA
Statistics
Matches: 138, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 5 0.04
53 41 0.30
54 85 0.62
55 7 0.05
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
AGGGGTATGTCAATAATTTTACAAATCAAGGGTATTTTAATAATTTTACAAATC
Found at i:71757269 original size:27 final size:27
Alignment explanation
Indices: 71757071--71757276 Score: 222
Period size: 27 Copynumber: 7.7 Consensus size: 27
71757061 TTACACTACA
* *
71757071 AGGGTATTTTAATAATTTTACAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* * **
71757097 AGGGGTGTTTCAATAATTTTACAAATTA
1 A-GGGTATTTCAGTAATTTTACAAATCG
*
71757125 AGGGTATTTTAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
71757152 ATGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
71757179 AGGGTATTTCAATAA--TTACACAATCG
1 AGGGTATTTCAGTAATTTTACA-AATCG
*
71757205 AGGGTATTT-TGATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
71757232 GGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
71757259 AGGGTGTTTCGGTAATTT
1 AGGGTATTTCAGTAATTT
71757277 CTCTTTATTA
Statistics
Matches: 154, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.03
26 18 0.12
27 124 0.81
28 7 0.05
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:71757275 original size:80 final size:79
Alignment explanation
Indices: 71757071--71757268 Score: 263
Period size: 80 Copynumber: 2.5 Consensus size: 79
71757061 TTACACTACA
* * * *
71757071 AGGGTATTTTAATAATTTTACAAATCAGGGGTGTTTCAATAATTTTACAAATTAAGGGTATTTTA
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCAATAA--TTACAAATCAAGGGTATTTTA
71757136 GTAATTTTACAAATCG
64 GTAATTTTACAAATCG
* * * *
71757152 ATGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTACACAATCGAGGGTATTTT-G
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCAATAATTACA-AATCAAGGGTATTTTAG
71757216 ATAATTTTACAAATCG
65 -TAATTTTACAAATCG
* *
71757232 GGGGTATTTCGGTAATTTTACAAATCAAGGGTGTTTC
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTC
71757269 GGTAATTTCT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 6 0.06
80 60 0.59
81 36 0.35
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (79 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGGTGTTTCAATAATTACAAATCAAGGGTATTTTAGT
AATTTTACAAATCG
Found at i:71760137 original size:48 final size:48
Alignment explanation
Indices: 71760085--71760179 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
71760075 AGGTTTATCA
* * *
71760085 TTTTTTTGATTTAAGCAATGAAAATGATACTTAAGTTTTTGGTCATCC
1 TTTTTTTGATTTAAGAAATGAAAAGGATACTCAAGTTTTTGGTCATCC
71760133 TTTTTTTGATTTAAGAAATGAAAAGGATACTCAAGTTTTTGGTCATC
1 TTTTTTTGATTTAAGAAATGAAAAGGATACTCAAGTTTTTGGTCATC
71760180 GATTCAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (48 bp):
TTTTTTTGATTTAAGAAATGAAAAGGATACTCAAGTTTTTGGTCATCC
Found at i:71762152 original size:17 final size:18
Alignment explanation
Indices: 71762119--71762154 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
71762109 CATGTGTGCA
71762119 AATAATAAACATATATTT
1 AATAATAAACATATATTT
*
71762137 AATAATAAA-TTATATTT
1 AATAATAAACATATATTT
71762154 A
1 A
71762155 CTTATTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATAAACATATATTT
Found at i:71762249 original size:19 final size:21
Alignment explanation
Indices: 71762204--71762252 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
71762194 ATATTATATA
*
71762204 AAACATAAAGAATAAATAAAGG
1 AAACA-AAAGAATAAAGAAAGG
71762226 AAACAAAAGAA-AAAGAAA-G
1 AAACAAAAGAATAAAGAAAGG
71762245 AAACAAAA
1 AAACAAAA
71762253 ATGGGACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 6 0.23
22 5 0.19
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (21 bp):
AAACAAAAGAATAAAGAAAGG
Found at i:71766814 original size:15 final size:16
Alignment explanation
Indices: 71766783--71766816 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
71766773 TATAATATTT
*
71766783 ATAATTATTCTTTTTA
1 ATAATTATTATTTTTA
71766799 ATAA-TATTATTTTTA
1 ATAATTATTATTTTTA
71766814 ATA
1 ATA
71766817 TTTAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATAATTATTATTTTTA
Found at i:71768205 original size:18 final size:18
Alignment explanation
Indices: 71768184--71768270 Score: 102
Period size: 18 Copynumber: 4.8 Consensus size: 18
71768174 CGTTTACGAT
*
71768184 ACTATTCATGTATACGGC
1 ACTATTCACGTATACGGC
*
71768202 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
* * *
71768220 ACTGTTTACGTATATGGC
1 ACTATTCACGTATACGGC
*
71768238 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
* *
71768256 ACTGTTTACGTATAC
1 ACTATTCACGTATAC
71768271 AGTAGTTGGG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:71768240 original size:36 final size:36
Alignment explanation
Indices: 71768193--71768270 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
71768183 TACTATTCAT
71768193 GTATACGGCACTATTCACGTATACGGTACTGTTTAC
1 GTATACGGCACTATTCACGTATACGGTACTGTTTAC
*
71768229 GTATATGGCACTATTCACGTATACGGTACTGTTTAC
1 GTATACGGCACTATTCACGTATACGGTACTGTTTAC
71768265 GTATAC
1 GTATAC
71768271 AGTAGTTGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (36 bp):
GTATACGGCACTATTCACGTATACGGTACTGTTTAC
Found at i:71775433 original size:3 final size:3
Alignment explanation
Indices: 71775425--71775460 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
71775415 CAACTATACT
*
71775425 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
71775461 GTAAACTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:71785692 original size:248 final size:248
Alignment explanation
Indices: 71785254--71785746 Score: 785
Period size: 248 Copynumber: 2.0 Consensus size: 248
71785244 TCTTCTCATG
*
71785254 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCAGTATTCACTCGTAGT
1 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCAGTATTCACTCGTAGC
* * * *
71785319 ATGCGATATCATTTTCCTAATTTTAAACCTGTCTTTAGTAGATGTTTTTGCCTACTTGATTCATA
66 ATGCGATATCATCTTCCTAATTCTAAACCAGTCTTTAGTAGATGTTTCTGCCTACTTGATTCATA
* *
71785384 GATACATAAAATCTTGTTCTTGGTTCTTCCTTGAGTATTTTGTCCCGGAAAGAATTTTAGATAGC
131 AATACATAAAATCTTGTTCTTGGTTCTTCATTGAGTATTTTGTCCCGGAAAGAATTTTAGATAGC
71785449 CAATGGAAATTTTCTGGGAAATAAGGTGTGAGACAAAAAAGTATCATGGAGCT
196 CAATGGAAATTTTCTGGGAAATAAGGTGTGAGACAAAAAAGTATCATGGAGCT
** *
71785502 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTTGGTATTCAAC-CGTGG
1 GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCAGTATTC-ACTCGTAG
71785566 CATGCGATATCATCTTCCTAATTCTAAA-CAGCTCTTTAGTAGATGTTTCTGCCTACTTGATTCA
65 CATGCGATATCATCTTCCTAATTCTAAACCAG-TCTTTAGTAGATGTTTCTGCCTACTTGATTCA
* * *
71785630 TAAATACATAAAATCTTGTT-TGTGGTTCTTCATTGTGTGTTTTGTCCCGGTAAGAATTTTAGAT
129 TAAATACATAAAATCTTGTTCT-TGGTTCTTCATTGAGTATTTTGTCCCGGAAAGAATTTTAGAT
* * * *
71785694 AGCCGATGGAAGTTTTTTGGGAAATAAGGTGTGAGACGAAAAAGTATCATGGA
193 AGCCAATGGAAATTTTCTGGGAAATAAGGTGTGAGACAAAAAAGTATCATGGA
71785747 AGCCCTAGGA
Statistics
Matches: 225, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
247 3 0.01
248 220 0.98
249 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (248 bp):
GTAAGCATTTCATTGACATGGATTGCAGCATATGAACTTTGTTTGATTCAGTATTCACTCGTAGC
ATGCGATATCATCTTCCTAATTCTAAACCAGTCTTTAGTAGATGTTTCTGCCTACTTGATTCATA
AATACATAAAATCTTGTTCTTGGTTCTTCATTGAGTATTTTGTCCCGGAAAGAATTTTAGATAGC
CAATGGAAATTTTCTGGGAAATAAGGTGTGAGACAAAAAAGTATCATGGAGCT
Found at i:71794010 original size:22 final size:22
Alignment explanation
Indices: 71793956--71794013 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
71793946 ATTAAGTTTC
* *
71793956 TCCTCTTTTCTTTCTTTTCTGAT
1 TCCTCTCTT-TTTCTTCTCTGAT
71793979 TCTCTCTCTTTTTCTTCTCTTG-T
1 TC-CTCTCTTTTTCTTCTC-TGAT
71794002 TCCTCTCTTTTT
1 TCCTCTCTTTTT
71794014 TGGTTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 10 0.32
23 13 0.42
24 8 0.26
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (22 bp):
TCCTCTCTTTTTCTTCTCTGAT
Found at i:71799853 original size:45 final size:46
Alignment explanation
Indices: 71799801--71799911 Score: 188
Period size: 46 Copynumber: 2.4 Consensus size: 46
71799791 ATCACCTGTC
* *
71799801 CTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGCCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
*
71799846 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTATCA
1 CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
71799892 CTTGATCAGATAAGTGTAGC
1 CTTGATCAGATAAGTGTAGC
71799912 CACTTATCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
45 21 0.34
46 41 0.66
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (46 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCACTTTACCA
Found at i:71799915 original size:37 final size:37
Alignment explanation
Indices: 71799873--71799996 Score: 212
Period size: 37 Copynumber: 3.4 Consensus size: 37
71799863 AGCTGAAGCT
* *
71799873 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
71799910 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
*
71799947 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
71799984 ACCACTTATCACT
1 ACCACTTATCACT
71799997 GTAACCACTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
Found at i:71800001 original size:16 final size:16
Alignment explanation
Indices: 71799980--71800012 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
71799970 ATCAGATAAG
71799980 TGTAACCACTTATCAC
1 TGTAACCACTTATCAC
71799996 TGTAACCACTTATCAC
1 TGTAACCACTTATCAC
71800012 T
1 T
71800013 TTGTTTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.33
Consensus pattern (16 bp):
TGTAACCACTTATCAC
Found at i:71800023 original size:53 final size:53
Alignment explanation
Indices: 71799943--71800049 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
71799933 ATCAGATAAG
71799943 TGTAACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAACCACTTATCAC
1 TGTAACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAACCACTTATCAC
*
71799996 TGTAACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACTTATCAC
1 TGTAACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAACCACTTATCAC
71800049 T
1 T
71800050 TTGTTTCTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (53 bp):
TGTAACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAACCACTTATCAC
Found at i:71809084 original size:17 final size:19
Alignment explanation
Indices: 71809040--71809078 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
71809030 TGAATTAAGG
*
71809040 AAGGTTAGATTTTTCTCCA
1 AAGGTTAGAGTTTTCTCCA
71809059 AAGGTTAGAGTTTTCTCCA
1 AAGGTTAGAGTTTTCTCCA
71809078 A
1 A
71809079 GTTAGACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
AAGGTTAGAGTTTTCTCCA
Found at i:71811014 original size:40 final size:40
Alignment explanation
Indices: 71810956--71811122 Score: 253
Period size: 40 Copynumber: 4.2 Consensus size: 40
71810946 AAGTGCTTTT
* *
71810956 TGAATGCACATACGTGCCCCTGTTTGTACTTCGGTATCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* **
71810996 TGAATGCACATACATGCCCATGTTTGTACTTTAGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
* *
71811036 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
*
71811076 TGAATGCACATACATGCCGCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
71811116 TTGAATG
1 -TGAATG
71811123 TATTATAATG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 107 0.95
41 6 0.05
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACATGCCCCTGTTTGTACTTCGGTACCCC
Found at i:71816060 original size:69 final size:69
Alignment explanation
Indices: 71815980--71816120 Score: 264
Period size: 69 Copynumber: 2.0 Consensus size: 69
71815970 CAGTATCGTA
71815980 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGAATATATATA
1 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGAATATATATA
71816045 CATC
66 CATC
* *
71816049 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATTTGTTTGAGCATATATATA
1 TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGAATATATATA
71816114 CATC
66 CATC
71816118 TTA
1 TTA
71816121 TAGGAAACAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (69 bp):
TTAACATCATACTTCAAGCAAAAGAACTTTCTCAGGTCAAATTAATGTGTTTGAGAATATATATA
CATC
Found at i:71823702 original size:33 final size:33
Alignment explanation
Indices: 71823665--71823732 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
71823655 GAATGCTAAA
71823665 ATGCCACCAGGGATTACACAATCAATTCAAGAG
1 ATGCCACCAGGGATTACACAATCAATTCAAGAG
71823698 ATGCCACCAGGGATTACACAATCAATTCAAGAG
1 ATGCCACCAGGGATTACACAATCAATTCAAGAG
71823731 AT
1 AT
71823733 TCTGGATTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.19
Consensus pattern (33 bp):
ATGCCACCAGGGATTACACAATCAATTCAAGAG
Found at i:71826231 original size:3 final size:3
Alignment explanation
Indices: 71826223--71826261 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
71826213 TGAAGTTGAT
71826223 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
71826262 AATGGCCGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:71845851 original size:80 final size:79
Alignment explanation
Indices: 71845767--71845938 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
71845757 GGACTAAGAT
*
71845767 CCGAAGGCATTTGTGCGAGA-TA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGA-ATTATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
71845830 TAAATCCGGGTTAAGTC
63 TAAAACCGGGCTAAGTC
* * * * * *
71845847 CCGAAGGCATTCGTGCGAATTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAATTATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
71845912 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
71845926 CCGAAGGCATTTG
1 CCGAAGGCATTTG
71845939 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 39 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAATTATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:71845928 original size:39 final size:39
Alignment explanation
Indices: 71845767--71845936 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
71845757 GGACTAAGAT
* * *
71845767 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
71845807 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
* *
71845847 CCGAAGGCATTCGTGCGAATTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
71845887 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
71845926 CCGAAGGCATT
1 CCGAAGGCATT
71845937 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.32
40 74 0.64
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:71847807 original size:30 final size:31
Alignment explanation
Indices: 71847773--71847837 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 31
71847763 CAATCGAGAC
*
71847773 TTAACCCTTTTTCACCATTTTCTAGCATGT-
1 TTAACCCTTTTTCACCATTTTCTAACATGTA
71847803 TTAACCCTTTTTCACCATTTTCTAACATGTA
1 TTAACCCTTTTTCACCATTTTCTAACATGTA
71847834 TTAA
1 TTAA
71847838 TTTCTCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.46
Consensus pattern (31 bp):
TTAACCCTTTTTCACCATTTTCTAACATGTA
Found at i:71850690 original size:25 final size:24
Alignment explanation
Indices: 71850653--71850705 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
71850643 GCACACAGCC
* * *
71850653 GTGTTCCAGCCCGTGTGCCAGGCT
1 GTGTTACAGCCCGTATGCCAGGAT
71850677 GTGTTACACGCCCGTATGCCAGGAT
1 GTGTTACA-GCCCGTATGCCAGGAT
71850702 GTGT
1 GTGT
71850706 ACTCTCGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.13, C:0.28, G:0.32, T:0.26
Consensus pattern (24 bp):
GTGTTACAGCCCGTATGCCAGGAT
Found at i:71851635 original size:41 final size:41
Alignment explanation
Indices: 71851573--71851700 Score: 166
Period size: 41 Copynumber: 3.1 Consensus size: 41
71851563 CACAAAAGTG
* *
71851573 ATTCACGGGTACCAAACTACAAACAGGGGCACGTATGTGCA
1 ATTCACGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * * **
71851614 ATTCAGGGGTACCGAAGTACAAACATGGGCACGCATGTGTG
1 ATTCACGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
* * *
71851655 ATTTATGGGTACCGAAGTACAAACAGGGGCACGTATATGCA
1 ATTCACGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
71851696 ATTCA
1 ATTCA
71851701 TACAATAATT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (41 bp):
ATTCACGGGTACCGAAGTACAAACAGGGGCACGTATGTGCA
Found at i:71859660 original size:40 final size:40
Alignment explanation
Indices: 71859609--71859878 Score: 393
Period size: 40 Copynumber: 6.8 Consensus size: 40
71859599 ATTTGAATTT
* * *
71859609 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-TA
*
71859649 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
* *
71859689 TAT-CGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
71859728 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
71859768 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
*
71859808 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGATA
** *
71859848 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
71859879 TTGTGGTAAT
Statistics
Matches: 213, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 41 0.19
40 166 0.78
41 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATA
Found at i:71859907 original size:119 final size:119
Alignment explanation
Indices: 71859612--71859898 Score: 407
Period size: 119 Copynumber: 2.4 Consensus size: 119
71859602 TGAATTTTAT
* * ** *
71859612 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTAATATCCGGGCTAAGACCCGAAGGCAATTG
* * * *
71859677 TGCGAGTTGATATATCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATATAT
66 TGCAAGTTGATATATCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATAC
* *
71859731 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG-ATATATCCGGGCTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTA-ATATCCGGGCTAAGACCCGAAGGCAATT
* *
71859795 GTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATGC
65 GTGCAAGTTGATATAT-CGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATAC
* *
71859851 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTAATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTAATATCCGGGCTAA
71859899 ATTCCGAAGA
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
119 77 0.52
120 70 0.47
121 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (119 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTAATATCCGGGCTAAGACCCGAAGGCAATTG
TGCAAGTTGATATATCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATAC
Found at i:71868109 original size:40 final size:41
Alignment explanation
Indices: 71868058--71868330 Score: 346
Period size: 40 Copynumber: 6.8 Consensus size: 41
71868048 ATTTGAATTT
* * *
71868058 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
*
71868098 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
* *
71868138 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
* *
71868178 TATCCAGGCTAAGACCCGCAGGC-ATTGGTGCGAGTTGATATA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGAT-TA
*
71868220 TATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
*
71868260 TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGATTA
* *
71868300 T-GCCTGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCC-GGGCTAAGACCCGAAGGCAATTGTGC
71868331 TTGTGGTAAT
Statistics
Matches: 211, Mismatches: 13, Indels: 18
0.87 0.05 0.07
Matches are distributed among these distances:
39 7 0.03
40 162 0.77
41 6 0.03
42 33 0.16
43 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (41 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGATTA
Found at i:71868273 original size:122 final size:120
Alignment explanation
Indices: 71868058--71868330 Score: 379
Period size: 122 Copynumber: 2.3 Consensus size: 120
71868048 ATTTGAATTT
* * * * *
71868058 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCAGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCAA
* * *
71868123 TTGTGCGAGTTGATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
66 TTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATA
*
71868178 TATCCAGGCTAAGACCCGCAGGC-ATTGGTGCGAGTTGATATATATCCGGGCTAAGACCCGAAGG
1 TATCCAGGCTAAGACCCGAAGGCAATT-GTGCGAG-TGAT-TATATCCGGGCTAAGACCCGAAGG
*
71868242 CAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTA
63 CAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATA
* * *
71868300 T-GCCTGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCC-AGGCTAAGACCCGAAGGCAATTGTGC
71868331 TTGTGGTAAT
Statistics
Matches: 134, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
119 3 0.02
120 26 0.19
121 6 0.04
122 96 0.72
123 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (120 bp):
TATCCAGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATA
Found at i:71870318 original size:25 final size:26
Alignment explanation
Indices: 71870286--71870340 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
71870276 TTATTAAATT
*
71870286 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
71870311 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
71870336 A-ATAT
1 ATATAT
71870341 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:71870527 original size:44 final size:45
Alignment explanation
Indices: 71870478--71870572 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
71870468 TTACACCTCT
* *
71870478 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
71870522 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
*
71870567 ACTACA
1 ATTACA
71870573 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:71870574 original size:16 final size:16
Alignment explanation
Indices: 71870553--71870620 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
71870543 GATTTGCTAT
* *
71870553 TACACCTCTATTCCAC
1 TACACCTCTAATCCAA
71870569 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
71870585 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
71870601 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
71870617 TACA
1 TACA
71870621 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:71870747 original size:28 final size:28
Alignment explanation
Indices: 71870715--71870793 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
71870705 AATTTGGCTG
* *
71870715 AAACTAAAACAAATTAAAAACATGTACT
1 AAACTAAAACAAATTTAAAACATGAACT
* * *
71870743 AAACTAAGACATATTTAAAACATGAATT
1 AAACTAAAACAAATTTAAAACATGAACT
* * *
71870771 AAAATAAAATACATTTAAAACAT
1 AAACTAAAACAAATTTAAAACAT
71870794 AATTAAGATG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.25
Consensus pattern (28 bp):
AAACTAAAACAAATTTAAAACATGAACT
Found at i:71874558 original size:41 final size:41
Alignment explanation
Indices: 71874509--71874713 Score: 227
Period size: 41 Copynumber: 5.0 Consensus size: 41
71874499 GGGTACAAAA
* * * **
71874509 GTGC-ATTTAGAGGCACCAAAGTACAAACAAGGGCACATAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCATGTAT
* * * *
71874549 GCGCAATTTAGGAGTA-CGAAGTAAAAACAGGGGCATGTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCATGTAT
* * *
71874589 ATGCAATTCAGGGGTACCAAAGTGA-AAACAGGGGCATTTAT
1 GTGCAATTTAGGGGTACCAAAGT-ACAAACAGGGGCATGTAT
* * *
71874630 GTGCAATTTAGGGGTATCAAAGTACAAATAGGGGCATGTAC
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCATGTAT
* *
71874671 GTGCAATTTAGGGGTACCAAAGTACAAATAGGGGCACGTAT
1 GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCATGTAT
71874712 GT
1 GT
71874714 AAAATTCATA
Statistics
Matches: 137, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
40 35 0.26
41 101 0.74
42 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (41 bp):
GTGCAATTTAGGGGTACCAAAGTACAAACAGGGGCATGTAT
Found at i:71874663 original size:20 final size:20
Alignment explanation
Indices: 71874638--71874704 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
71874628 ATGTGCAATT
71874638 TAGGGGTATCAAAGTACAAA
1 TAGGGGTATCAAAGTACAAA
* ** * * *
71874658 TAGGGGCATGTACGTGCAATT
1 TAGGGGTATCAAAGTACAA-A
*
71874679 TAGGGGTACCAAAGTACAAA
1 TAGGGGTATCAAAGTACAAA
71874699 TAGGGG
1 TAGGGG
71874705 CACGTATGTA
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (20 bp):
TAGGGGTATCAAAGTACAAA
Found at i:71874684 original size:21 final size:21
Alignment explanation
Indices: 71874618--71874684 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
71874608 AAGTGAAAAC
* *
71874618 AGGGGCATTTATGTGCAATTT
1 AGGGGCATCTAAGTGCAATTT
* * * *
71874639 AGGGGTATCAAAGTACAA-AT
1 AGGGGCATCTAAGTGCAATTT
* *
71874659 AGGGGCATGTACGTGCAATTT
1 AGGGGCATCTAAGTGCAATTT
71874680 AGGGG
1 AGGGG
71874685 TACCAAAGTA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 14 0.42
21 19 0.58
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (21 bp):
AGGGGCATCTAAGTGCAATTT
Found at i:71880898 original size:46 final size:44
Alignment explanation
Indices: 71880839--71881063 Score: 168
Period size: 47 Copynumber: 4.8 Consensus size: 44
71880829 GTCACTTGTG
71880839 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTA-GA
* * *
71880886 -GAGCCAGTGTAAGGCCATGACTGGGACATGGCATCGG-CATTGAGA
1 TGAGCTAGTGTAA-GACATGTCTGGGACAT-GCATCGGCCATT-AGA
* * * *
71880931 CTAATGCTAGTGTAAGGCATGTCTGGGACATGCATCGGCTATGAGA
1 -TGA-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTAGA
* * *
71880977 TGTG-TCAGTGTAAGACTATGTCTGGGACATGGCATCGGCACAGATATGC
1 TGAGCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-CA-TTA-GA
* *
71881026 TAGAACTTGTGTAAGACCATGTCTGGGACATTGCATCG
1 T-GAGCTAGTGTAAGA-CATGTCTGGGACA-TGCATCG
71881064 ACATCTGACC
Statistics
Matches: 142, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 20 0.14
46 30 0.21
47 32 0.23
48 17 0.12
49 2 0.01
50 27 0.19
51 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (44 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTAGA
Found at i:71881038 original size:94 final size:94
Alignment explanation
Indices: 71880843--71881063 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 94
71880833 CTTGTGTGAG
* *
71880843 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGGCCATGACT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGACT
** *
71880908 GGGACATGGCATCGGCATTGAGACTAATG
66 GGGACATGGCATCGGCACAGAGACTAATA
* * * * * *
71880937 CTAGTGTAAGGCATGTCTGGGACATGCATCGG-C-TATGA-GATGTGTCAGTGTAAGACTATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGA-GAGCCAGTGTAAGACCATGAC
*
71880999 TGGGACATGGCATCGGCACAGATATGCTAGA-A
65 TGGGACATGGCATCGGCACAGAGA--CTA-ATA
*
71881031 CTTGTGTAAGACCATGTCTGGGACATTGCATCG
1 CTAGTGTAAGA-CATGTCTGGGACA-TGCATCG
71881064 ACATCTGACC
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
91 2 0.02
92 40 0.37
93 1 0.01
94 43 0.40
95 14 0.13
96 7 0.07
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGACT
GGGACATGGCATCGGCACAGAGACTAATA
Found at i:71886311 original size:27 final size:27
Alignment explanation
Indices: 71886280--71886344 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 27
71886270 ACATCTATTA
*
71886280 CTGATTCTGTAGTGGGCTTAGGCCCAC
1 CTGATTCTGTAGTGGGCTAAGGCCCAC
* *
71886307 CTGATTCTATTATTGGGCTAAGGCCCAC
1 CTGATTCT-GTAGTGGGCTAAGGCCCAC
*
71886335 CTGATACTGT
1 CTGATTCTGT
71886345 GTCTGTGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (27 bp):
CTGATTCTGTAGTGGGCTAAGGCCCAC
Done.