Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 145 of 279
Found at i:47127026 original size:5 final size:5
Alignment explanation
Indices: 47127016--47127040 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47127006 TGTTTCTTTT
47127016 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
47127041 CTTAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:47146527 original size:23 final size:23
Alignment explanation
Indices: 47146493--47146543 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
47146483 ATGTAATTGC
47146493 AATT-AAGAAATATAAAGATGATT
1 AATTAAAGAAATA-AAAGATGATT
**
47146516 AATTAAAG-AATAAACTATGATT
1 AATTAAAGAAATAAAAGATGATT
47146538 AATTAA
1 AATTAA
47146544 GTTAATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.56
23 8 0.32
24 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (23 bp):
AATTAAAGAAATAAAAGATGATT
Found at i:47157804 original size:53 final size:53
Alignment explanation
Indices: 47157723--47157871 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
47157713 GACGAAAAAT
* * *
47157723 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGATACA
* *
47157775 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGCGCTATGGCATCGATATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGATACA
* * *
47157828 ATGTGATAATGTGATTCCGTATAAAACCAT-GTCTGGGATATGGC
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGC
47157872 TTTGGTATGA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
51 4 0.05
52 11 0.13
53 70 0.82
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGATACA
Found at i:47165711 original size:29 final size:30
Alignment explanation
Indices: 47165661--47165731 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
47165651 CTTAATAATG
* * *
47165661 ATAAAATAATATTTTTA-CTTTTAAAAAAT
1 ATAAAAAAATAATTTAATCTTTTAAAAAAT
* * *
47165690 ATAAAAAAATAATTTAATTTTTTAATAATT
1 ATAAAAAAATAATTTAATCTTTTAAAAAAT
*
47165720 ATAAAAATATAA
1 ATAAAAAAATAA
47165732 ACTACTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAAAAAAATAATTTAATCTTTTAAAAAAT
Found at i:47165723 original size:30 final size:29
Alignment explanation
Indices: 47165652--47165731 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
47165642 CAGTAGGGGC
* * * *
47165652 TTAATAATGATAAAATAATATTTTTACTT
1 TTAATAATTATAAAAAAATAATTTAACTT
* * *
47165681 TTAAAAAATATAAAAAAATAATTTAATTTT
1 TTAATAATTATAAAAAAATAATTTAA-CTT
*
47165711 TTAATAATTATAAAAATATAA
1 TTAATAATTATAAAAAAATAA
47165732 ACTACTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 20 0.50
30 20 0.50
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (29 bp):
TTAATAATTATAAAAAAATAATTTAACTT
Found at i:47167398 original size:18 final size:19
Alignment explanation
Indices: 47167375--47167410 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47167365 GTATTTTAAA
*
47167375 AAATTAATAAA-TAAGTAT
1 AAATTAAAAAATTAAGTAT
47167393 AAATTAAAAAATTAAGTA
1 AAATTAAAAAATTAAGTA
47167411 AATAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
AAATTAAAAAATTAAGTAT
Found at i:47169545 original size:24 final size:26
Alignment explanation
Indices: 47169518--47169569 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
47169508 AGTATTTTAT
* *
47169518 TTAATTTTTTATTTATT-TTA-ATTA
1 TTAAATTTGTATTTATTGTTATATTA
*
47169542 TTAAATTTGTATTTGTTGTTATATTA
1 TTAAATTTGTATTTATTGTTATATTA
47169568 TT
1 TT
47169570 TTAAAATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 3 0.13
26 6 0.26
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (26 bp):
TTAAATTTGTATTTATTGTTATATTA
Found at i:47169726 original size:18 final size:18
Alignment explanation
Indices: 47169685--47169746 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
47169675 TAAAGAAATA
47169685 TTTTTTATAATTTATAAC
1 TTTTTTATAATTTATAAC
*
47169703 TATTTTATAATTT-TAA-
1 TTTTTTATAATTTATAAC
* * *
47169719 TTTTTTTTATTTTA-AAA
1 TTTTTTATAATTTATAAC
47169736 TATTTTTATAA
1 T-TTTTTATAA
47169747 CTTTTTTGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 12 0.34
17 4 0.11
18 19 0.54
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTTTATAATTTATAAC
Found at i:47176267 original size:14 final size:15
Alignment explanation
Indices: 47176234--47176267 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
47176224 TCTTAGATAT
47176234 ATAAATATTATTATA
1 ATAAATATTATTATA
47176249 A-AAATATTATTA-A
1 ATAAATATTATTATA
47176262 ATAAAT
1 ATAAAT
47176268 TAAAATAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 15 0.83
15 1 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAATATTATTATA
Found at i:47176690 original size:3 final size:3
Alignment explanation
Indices: 47176684--47176725 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
47176674 ATAAATATGT
47176684 TTA TTA TGTA TTA TTA TATA TTA TATA TTA -TA TTA TTA TTA T
1 TTA TTA T-TA TTA TTA T-TA TTA T-TA TTA TTA TTA TTA TTA T
47176726 ATTTTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 2 0.06
3 24 0.69
4 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:47176699 original size:10 final size:9
Alignment explanation
Indices: 47176684--47176725 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
47176674 ATAAATATGT
47176684 TTATTATGTA
1 TTATTAT-TA
47176694 TTATTATATA
1 TTATTAT-TA
47176704 TTATATATTA
1 TTAT-TATTA
47176714 -TATTATTA
1 TTATTATTA
47176722 TTAT
1 TTAT
47176726 ATTTTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 5 0.17
9 6 0.21
10 15 0.52
11 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATTATTA
Found at i:47176705 original size:7 final size:7
Alignment explanation
Indices: 47176653--47176739 Score: 61
Period size: 7 Copynumber: 11.9 Consensus size: 7
47176643 TTAAATTTAA
47176653 TATATAT
1 TATATAT
47176660 TATATTAT
1 TATA-TAT
* *
47176668 TAAATAA
1 TATATAT
*
47176675 TAAATAT
1 TATATAT
*
47176682 GTTTATTAT
1 -TATA-TAT
47176691 GTAT-TAT
1 -TATATAT
47176698 TATATAT
1 TATATAT
47176705 TATATAT
1 TATATAT
47176712 TATATTAT
1 TATA-TAT
47176720 TATTATAT
1 TA-TATAT
*
47176728 TTTATA-
1 TATATAT
47176734 TATATA
1 TATATA
47176740 GTAAAGTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
6 8 0.12
7 33 0.50
8 17 0.26
9 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (7 bp):
TATATAT
Found at i:47178471 original size:13 final size:15
Alignment explanation
Indices: 47178453--47178484 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47178443 TATATGAAAT
47178453 AATGATT-TT-ATGA
1 AATGATTATTGATGA
47178466 AATGATTATTGATGA
1 AATGATTATTGATGA
47178481 AATG
1 AATG
47178485 CATGAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:47179718 original size:43 final size:43
Alignment explanation
Indices: 47179659--47179751 Score: 168
Period size: 43 Copynumber: 2.1 Consensus size: 43
47179649 ATATACTTTA
47179659 TTTAATAACTAAAACCCAATAAACCTTAATCAAATCAAATCAC
1 TTTAATAACTAAAACCCAATAAACCTTAATCAAATCAAATCAC
*
47179702 TTTAATAACTAAAACCCAATAAACCTTAATCAAATTAAATCAC
1 TTTAATAACTAAAACCCAATAAACCTTAATCAAATCAAATCAC
47179745 TCTTAAT
1 T-TTAAT
47179752 TTAGGTTAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 43 0.90
44 5 0.10
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (43 bp):
TTTAATAACTAAAACCCAATAAACCTTAATCAAATCAAATCAC
Found at i:47180092 original size:21 final size:20
Alignment explanation
Indices: 47180066--47180104 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47180056 TATTAATAGT
47180066 AGAAAAACAATTTAATATAAA
1 AGAAAAA-AATTTAATATAAA
*
47180087 AGAAAAATATTTAATATA
1 AGAAAAAAATTTAATATA
47180105 TTATTAGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
AGAAAAAAATTTAATATAAA
Found at i:47182312 original size:24 final size:24
Alignment explanation
Indices: 47182285--47182330 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47182275 AAATATTATT
* *
47182285 TTTAAAATTTATTAAAATAAATTA
1 TTTAAAATTAATAAAAATAAATTA
*
47182309 TTTAATATTAATAAAAATAAAT
1 TTTAAAATTAATAAAAATAAAT
47182331 AATAAAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAAAATTAATAAAAATAAATTA
Found at i:47183284 original size:42 final size:42
Alignment explanation
Indices: 47183231--47183471 Score: 349
Period size: 42 Copynumber: 5.7 Consensus size: 42
47183221 GCACTAGGTT
47183231 GTCTAGTAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
1 GTCTAGTAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
* * *
47183273 GTCT-GATAGGAAAGCTAAGGATGACGAAGATGGTATTAGATC
1 GTCTAG-TAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
* * * *
47183315 GCCTAGTAGGAAAGCTGAGGATGATGGAGGTGGTACCAGATC
1 GTCTAGTAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
* * *
47183357 CTCTAGTAGGAAAGCTAAGAATGATGGAGATGGTACCAGATC
1 GTCTAGTAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
* *
47183399 ATCTAGTAGGAAGGCTAAGGATGATGGAGATGGTACTAGATC
1 GTCTAGTAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
*
47183441 TTCTAGTAGGAAAGCTAAGGATGATGGAGAT
1 GTCTAGTAGGAAAGCTAAGGATGATGGAGAT
47183472 AATGATTTAA
Statistics
Matches: 176, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.01
42 174 0.99
43 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.23
Consensus pattern (42 bp):
GTCTAGTAGGAAAGCTAAGGATGATGGAGATGGTACTAGATC
Found at i:47197784 original size:47 final size:48
Alignment explanation
Indices: 47197691--47197784 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 48
47197681 TTTATTTAAC
47197691 CTATACTTGTGGTAAGGAGACTATTTTTGAGATTTGGAGAGATTATAT
1 CTATACTTGTGGTAAGGAGACTATTTTTGAGATTTGGAGAGATTATAT
47197739 CTATACTTGTGGTAAGGAGACTA-TTTTGAGATTTGGAGAGATTATA
1 CTATACTTGTGGTAAGGAGACTATTTTTGAGATTTGGAGAGATTATA
47197785 CTTTCAATAC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 23 0.50
48 23 0.50
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (48 bp):
CTATACTTGTGGTAAGGAGACTATTTTTGAGATTTGGAGAGATTATAT
Found at i:47199160 original size:90 final size:90
Alignment explanation
Indices: 47199054--47199747 Score: 1039
Period size: 90 Copynumber: 7.7 Consensus size: 90
47199044 GCTTCTGGTC
* * * * *
47199054 TCCCTTCAACTGGCTCAGCTTCTAGTATGCGAACTGTTTCACCCGCTGTAGTTAATGCACAAATA
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
47199119 TTGCAGCGTTCTACTGCTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
* * * * *
47199144 TCCCTTCAACTGGCTCAGCTTCTAGTATGCGAACTGTTTCACCCGCTGTAGTTAATGCACAAATA
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
47199209 TTGCAGCGTTCTACTGCTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
47199234 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
47199299 TTGCAGCGTTCTACTGCTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
* * *
47199324 TTCCTTCAACTGGCTCAGCTTCTACCATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACC
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
*
47199389 TTGCAGCGTTCTACTACTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
* * *
47199414 TCCCTTCAACTGGCTCAGCTTCTACTGTGCAAACTGTTTCACCTGTTGTAGTCAATGCACAAACT
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
*
47199479 TTGCAGCGTTCTACTACTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
* * * * * * * *
47199504 TACCTTCAACTAGCTCAACTTCTACTGTGCAAACTGTTTCACTTGCTGCAGCCAATGCACAAACC
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
* *
47199569 TTGCAGCCTTCCACTGCTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
* * *
47199594 TCCCTCCAACTGGCTCAGCTTCTAGTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACC
1 TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
* *
47199659 TTGCAGCCTTCCACTGCTTCAGGGA
66 TTGCAGCGTTCTACTGCTTCAGGGA
* * * *
47199684 TCCCTTCAACTGGCTCAGCTACTAGC-ATGCAAACTGTTTCTCCTGCTCTAGTCAATGCGCAAAC
1 TCCCTTCAACTGGCTCAGCTTCTA-CTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAAC
47199748 CATGGGTCCA
Statistics
Matches: 563, Mismatches: 40, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
90 563 1.00
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (90 bp):
TCCCTTCAACTGGCTCAGCTTCTACTATGCAAACTGTTTCACCTGCTGTAGTCAATGCACAAACA
TTGCAGCGTTCTACTGCTTCAGGGA
Found at i:47200942 original size:13 final size:13
Alignment explanation
Indices: 47200921--47200957 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
47200911 ATTCATTAAT
*
47200921 TCATTCAATTGAA
1 TCATACAATTGAA
47200934 TCATACAATTGAA
1 TCATACAATTGAA
47200947 TCATACAATTG
1 TCATACAATTG
47200958 TAGAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (13 bp):
TCATACAATTGAA
Found at i:47201295 original size:23 final size:24
Alignment explanation
Indices: 47201258--47201314 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
47201248 ATGCATAATC
47201258 AAACTAAAAAACGTGCTACAAG-GT
1 AAAC-AAAAAACGTGCTACAAGAGT
* *
47201282 AGACAAAAACCGTGCTACAAGAGT
1 AAACAAAAAACGTGCTACAAGAGT
47201306 AAACAAAAA
1 AAACAAAAA
47201315 TTCTAAATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.54, C:0.18, G:0.16, T:0.12
Consensus pattern (24 bp):
AAACAAAAAACGTGCTACAAGAGT
Found at i:47202519 original size:42 final size:42
Alignment explanation
Indices: 47202460--47202544 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
47202450 TGATATCATA
47202460 TATATTATTTATACTATACTATTATTTAAGCCCCTAATTAAG
1 TATATTATTTATACTATACTATTATTTAAGCCCCTAATTAAG
47202502 TATATTATTTATACTATACTATTATTTAAGCCCCTAATTAAG
1 TATATTATTTATACTATACTATTATTTAAGCCCCTAATTAAG
47202544 T
1 T
47202545 TAGTGTCACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (42 bp):
TATATTATTTATACTATACTATTATTTAAGCCCCTAATTAAG
Found at i:47211750 original size:16 final size:16
Alignment explanation
Indices: 47211714--47211754 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
47211704 TATTTAAAAG
47211714 TAATTTTA-ATTTATA
1 TAATTTTATATTTATA
47211729 TGAATTTTATATCTTA-A
1 T-AATTTTATAT-TTATA
47211746 TAATTTTAT
1 TAATTTTAT
47211755 TTTGGCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 15 0.65
17 4 0.17
18 3 0.13
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
TAATTTTATATTTATA
Found at i:47214576 original size:13 final size:13
Alignment explanation
Indices: 47214558--47214598 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
47214548 ACCATTTTTA
47214558 CTTAATTTAACAT
1 CTTAATTTAACAT
**
47214571 CTTAATTT-TTA-
1 CTTAATTTAACAT
47214582 CTTAATTTAACAT
1 CTTAATTTAACAT
47214595 CTTA
1 CTTA
47214599 CTGATAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 8 0.36
12 2 0.09
13 12 0.55
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (13 bp):
CTTAATTTAACAT
Found at i:47214583 original size:24 final size:24
Alignment explanation
Indices: 47214551--47214598 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
47214541 TTGGTACACC
47214551 ATTTTTACTTAATTTAACATCTTA
1 ATTTTTACTTAATTTAACATCTTA
47214575 ATTTTTACTTAATTTAACATCTTA
1 ATTTTTACTTAATTTAACATCTTA
47214599 CTGATAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTTACTTAATTTAACATCTTA
Found at i:47214726 original size:18 final size:18
Alignment explanation
Indices: 47214703--47214738 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47214693 CGAATTACTC
47214703 TGCTGTGATTGTATTTAA
1 TGCTGTGATTGTATTTAA
47214721 TGCTGTGATTGTATTTAA
1 TGCTGTGATTGTATTTAA
47214739 GGTGAAGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
TGCTGTGATTGTATTTAA
Found at i:47231174 original size:39 final size:39
Alignment explanation
Indices: 47231121--47231342 Score: 338
Period size: 39 Copynumber: 5.7 Consensus size: 39
47231111 ACAAAGCATG
47231121 CGGGACTTTAAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* *
47231162 CGGGGCTTAGCCCGGATATAACACCAGCACGAATGCTTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
47231201 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
47231240 CGAGACTTAGCCCGAATATAA-ACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* * *
47231278 CAGGACTTAGCTCGGATATAACACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
47231317 CAGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCA
47231343 TTATAAAGTC
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 33 0.20
39 126 0.76
40 2 0.01
41 5 0.03
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:47231311 original size:77 final size:78
Alignment explanation
Indices: 47231131--47231342 Score: 329
Period size: 77 Copynumber: 2.7 Consensus size: 78
47231121 CGGGACTTTA
* *
47231131 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAAT
* *
47231196 GCTTTCGGGACTT
66 GCCTTCAGGACTT
* *
47231209 AGCCCGGATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGAATATAA-ACCAGCATGAAT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAAT
47231273 GCCTTCAGGACTT
66 GCCTTCAGGACTT
* *
47231286 AGCTCGGATATAACACCAACACGAATGCCTTC-AGGACTTAGCCCGGATATAACACCA
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGA-GACTTAGCCCGGATATAACACCA
47231343 TTATAAAGTC
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
76 1 0.01
77 69 0.56
78 53 0.43
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (78 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGAGACTTAGCCCGGATATAACACCAGCACGAAT
GCCTTCAGGACTT
Found at i:47233344 original size:23 final size:22
Alignment explanation
Indices: 47233272--47233359 Score: 101
Period size: 21 Copynumber: 4.1 Consensus size: 22
47233262 TACCTGATCA
47233272 GAATACGACACATAA-GTGCCT
1 GAATACGACACATAAGGTGCCT
*
47233293 GAA-ACGACACATGAGGTGCCT
1 GAATACGACACATAAGGTGCCT
* * *
47233314 G-CTGCGACACACAAGGTGCCT
1 GAATACGACACATAAGGTGCCT
*
47233335 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACATAAGGTGCCT
47233358 GA
1 GA
47233360 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 10 0.19
21 26 0.48
22 1 0.02
23 17 0.31
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (22 bp):
GAATACGACACATAAGGTGCCT
Found at i:47233356 original size:44 final size:41
Alignment explanation
Indices: 47233277--47233358 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 41
47233267 GATCAGAATA
* * *
47233277 CGACACATAAGTGCCTGAAACGACACATGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACATAAAGTGCCTGCTG
47233318 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 CGACACACAA-GTGCCTG-AA-ACGACACATAAAGTGCCTG
47233359 ATCAGTAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
42 7 0.20
43 2 0.06
44 17 0.49
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACATAAAGTGCCTGCTG
Found at i:47233619 original size:23 final size:23
Alignment explanation
Indices: 47233550--47233620 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
47233540 AAATGTCCAA
*
47233550 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
47233573 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
47233601 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
47233621 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:47233647 original size:29 final size:28
Alignment explanation
Indices: 47233564--47233647 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
47233554 AACACACCAG
* *
47233564 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
47233592 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
47233620 TATAATCCATCCAAAACACACCAAAATA
1 TATAATCC-TCCAAAACACACCAGAATA
47233648 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:47234854 original size:88 final size:89
Alignment explanation
Indices: 47234745--47234921 Score: 329
Period size: 88 Copynumber: 2.0 Consensus size: 89
47234735 TGGTCATTTC
* *
47234745 TAACTTTTTTTTACAAAATTGCCCATCAAATTTTACTTTTATTCAATTTAGTTCATGAGTCTAAA
1 TAACTTTTTTTTACAAAATTGCCCATAAAATTTTACTTTTATTCAATTTAGTCCATGAGTCTAAA
47234810 ACATACAAATTAGCCATGCTAGCT
66 ACATACAAATTAGCCATGCTAGCT
47234834 TAAC-TTTTTTTACAAAATTGCCCATAAAATTTTACTTTTATTCAATTTAGTCCATGAGTCTAAA
1 TAACTTTTTTTTACAAAATTGCCCATAAAATTTTACTTTTATTCAATTTAGTCCATGAGTCTAAA
47234898 ACATACAAATTAGCCATGCTAGCT
66 ACATACAAATTAGCCATGCTAGCT
47234922 GAATATTCAT
Statistics
Matches: 86, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
88 82 0.95
89 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (89 bp):
TAACTTTTTTTTACAAAATTGCCCATAAAATTTTACTTTTATTCAATTTAGTCCATGAGTCTAAA
ACATACAAATTAGCCATGCTAGCT
Found at i:47236710 original size:58 final size:58
Alignment explanation
Indices: 47236646--47236761 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
47236636 ATTAAAATCT
47236646 GTCTTATGATGTACCCACCATAATATCGGAAAAAGTTTTTTCGCCTTCCTATTAAAGA
1 GTCTTATGATGTACCCACCATAATATCGGAAAAAGTTTTTTCGCCTTCCTATTAAAGA
*
47236704 GTCTTATGATGTCCCCACCATAATATCGGAAAAAGTTTTTTCGCCTTCCTATTAAAGA
1 GTCTTATGATGTACCCACCATAATATCGGAAAAAGTTTTTTCGCCTTCCTATTAAAGA
47236762 AAAAACATCA
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:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (58 bp):
GTCTTATGATGTACCCACCATAATATCGGAAAAAGTTTTTTCGCCTTCCTATTAAAGA
Found at i:47237093 original size:39 final size:39
Alignment explanation
Indices: 47237026--47237101 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
47237016 TTCCATGAAA
** * *
47237026 GTTTTAGAAATTAAAAGGTTATCGATATAATTGTTTGGG
1 GTTTTAGAAATTAAAAACTCATCGATATAATTATTTGGG
47237065 GTTTTAGAAATTAAAAACTCATTC-ATATAATTATTTG
1 GTTTTAGAAATTAAAAACTCA-TCGATATAATTATTTG
47237102 AAGTCAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.94
40 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (39 bp):
GTTTTAGAAATTAAAAACTCATCGATATAATTATTTGGG
Found at i:47239830 original size:3 final size:3
Alignment explanation
Indices: 47239822--47239861 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
47239812 TTTTTATATT
47239822 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47239862 GGAACAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47240018 original size:21 final size:21
Alignment explanation
Indices: 47239994--47240036 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
47239984 TCATTATCCC
*
47239994 CTCCTTGATCTCAAATAAATT
1 CTCCTTAATCTCAAATAAATT
47240015 CTCCTTAATCTCAAATAAATT
1 CTCCTTAATCTCAAATAAATT
47240036 C
1 C
47240037 AATAATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (21 bp):
CTCCTTAATCTCAAATAAATT
Found at i:47240464 original size:31 final size:31
Alignment explanation
Indices: 47240422--47240485 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
47240412 ATTTCTTTAA
*
47240422 ATATATATATTTGAATCACAATTAAAATTTT
1 ATATATATATTTGAACCACAATTAAAATTTT
*
47240453 ATATATCTATTTGAACCACAATTAAAATTTT
1 ATATATATATTTGAACCACAATTAAAATTTT
47240484 AT
1 AT
47240486 GTATGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (31 bp):
ATATATATATTTGAACCACAATTAAAATTTT
Found at i:47242515 original size:13 final size:13
Alignment explanation
Indices: 47242497--47242521 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47242487 CCTCTCTCAC
47242497 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
47242510 TTCTTTTTTTCT
1 TTCTTTTTTTCT
47242522 AATGGAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:47254255 original size:36 final size:36
Alignment explanation
Indices: 47254208--47254279 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
47254198 GATAAGAAGA
47254208 AGAGCGGTGGGTTTCCAAGAACCGGAGATGGTGTTC
1 AGAGCGGTGGGTTTCCAAGAACCGGAGATGGTGTTC
47254244 AGAGCGGTGGGTTTCCAAGAACCGGAGATGGTGTTC
1 AGAGCGGTGGGTTTCCAAGAACCGGAGATGGTGTTC
47254280 TCTATATCCG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.22
Consensus pattern (36 bp):
AGAGCGGTGGGTTTCCAAGAACCGGAGATGGTGTTC
Found at i:47303137 original size:36 final size:36
Alignment explanation
Indices: 47303097--47303170 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
47303087 CCCTTCTCGA
*
47303097 GACACTCTTTCTTAGTCCCTTTGCCTTCTTCTTTTC
1 GACACTCTTTCTTAGTCCCTTTGCCTTCTCCTTTTC
47303133 GACACTCTTTCTTAGTCCCTTTGCCTTCTCCTTTTC
1 GACACTCTTTCTTAGTCCCTTTGCCTTCTCCTTTTC
47303169 GA
1 GA
47303171 TGCCATCTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.09, C:0.34, G:0.09, T:0.47
Consensus pattern (36 bp):
GACACTCTTTCTTAGTCCCTTTGCCTTCTCCTTTTC
Found at i:47338304 original size:21 final size:20
Alignment explanation
Indices: 47338275--47338320 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 20
47338265 CACCAAATCA
47338275 AACACAAAATCAGAGAAACAAAG
1 AACA-AAAAT-AGA-AAACAAAG
*
47338298 AACAAAAATAGAAATCAAAG
1 AACAAAAATAGAAAACAAAG
47338318 AAC
1 AAC
47338321 GAAGGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 10 0.45
21 3 0.14
22 5 0.23
23 4 0.18
ACGTcount: A:0.67, C:0.15, G:0.11, T:0.07
Consensus pattern (20 bp):
AACAAAAATAGAAAACAAAG
Found at i:47338406 original size:8 final size:8
Alignment explanation
Indices: 47338387--47338424 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
47338377 TTATATATTT
47338387 TAAAACATA
1 TAAAA-ATA
47338396 TAAAAATA
1 TAAAAATA
*
47338404 TAATAATA
1 TAAAAATA
47338412 -AAAAATA
1 TAAAAATA
47338419 TAAAAA
1 TAAAAA
47338425 AATTTACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 15 0.58
9 5 0.19
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
TAAAAATA
Found at i:47339405 original size:27 final size:27
Alignment explanation
Indices: 47339375--47339697 Score: 311
Period size: 27 Copynumber: 12.0 Consensus size: 27
47339365 GTACTCTCGA
*
47339375 TTTACAGAATTACTGTTTTACCTTCAG
1 TTTACAGAATTACTGTTTTACCCTCAG
*
47339402 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* *
47339428 ATTTATAGAATTA-TCGTTTTACCCTTAG
1 -TTTACAGAATTACT-GTTTTACCCTCAG
* * *
47339456 TTTATAAAATTACCGTTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* **
47339482 ATTTATAGAATTACCATTTTACCCTCAG
1 -TTTACAGAATTACTGTTTTACCCTCAG
*
47339510 TTTACAGAATTACTATTTTACCCTC-G
1 TTTACAGAATTACTGTTTTACCCTCAG
* *
47339536 ATTTACAGAATTACCGTTTTACCCTCAA
1 -TTTACAGAATTACTGTTTTACCCTCAG
** * *
47339564 TTTGTAAAATTACTGTTTTACCCTCGAT
1 TTTACAGAATTACTGTTTTACCCTC-AG
*
47339592 TTGTA-A-AATTATTGTTTTACCCTCAG
1 TT-TACAGAATTACTGTTTTACCCTCAG
* * *
47339618 TTTATAGAATTACTGGTTTACCCTCGG
1 TTTACAGAATTACTGTTTTACCCTCAG
*
47339645 TTTACAAAATTA-TCGTTTTACCCTC-G
1 TTTACAGAATTACT-GTTTTACCCTCAG
*
47339671 ATTTACAGAATTACTATTTTACCCTCA
1 -TTTACAGAATTACTGTTTTACCCTCA
47339698 ATTGTGAAAT
Statistics
Matches: 249, Mismatches: 31, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.01
26 10 0.04
27 229 0.92
28 7 0.03
29 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TTTACAGAATTACTGTTTTACCCTCAG
Found at i:47339517 original size:108 final size:108
Alignment explanation
Indices: 47339370--47339696 Score: 447
Period size: 108 Copynumber: 3.0 Consensus size: 108
47339360 CCAAAGTACT
* * *
47339370 CTCGATTTACAGAATTACTGTTTTACCTTCAGTTTACAGAATTACTATTTTACCCTCGATTTATA
1 CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
* *
47339435 GAATTATCGTTTTACCCTTAGTTTATAAAATTACCGTTTTACC
66 GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
**
47339478 CTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
1 CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
* * *
47339543 GAATTACCGTTTTACCCTCAATTTGTAAAATTACTGTTTTACC
66 GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
* * * * ** *
47339586 CTCGATTTGTAAAATTATTGTTTTACCCTCAGTTTATAGAATTACTGGTTTACCCTCGGTTTACA
1 CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
* * * * **
47339651 AAATTATCGTTTTACCCTCGATTTACAGAATTACTATTTTACC
66 GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
47339694 CTC
1 CTC
47339697 AATTGTGAAA
Statistics
Matches: 193, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
108 193 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (108 bp):
CTCGATTTATAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACA
GAATTATCGTTTTACCCTCAATTTATAAAATTACCGTTTTACC
Found at i:47339743 original size:27 final size:27
Alignment explanation
Indices: 47339713--47339899 Score: 203
Period size: 27 Copynumber: 6.9 Consensus size: 27
47339703 GAAATTACTA
47339713 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * **
47339740 AAATACCCCTATAGGGTAGAATTACTA
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
47339767 AAATACCCTTATAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
** *
47339794 AAATACCCCCGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
** * **
47339821 AAATACTTTTGTAGGGTAGAAATATTG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
47339848 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
47339875 AGATACCTTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
47339900 TATTTTGCCC
Statistics
Matches: 132, Mismatches: 28, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:47339774 original size:54 final size:54
Alignment explanation
Indices: 47339705--47339899 Score: 230
Period size: 54 Copynumber: 3.6 Consensus size: 54
47339695 TCAATTGTGA
*
47339705 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
47339759 AATTACTAAAATACCCTTATAGGGTAGAATTATCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* ** * **
47339813 AATTA-TCGAAATACTTTTGTAGGGTAGAAATATTGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
** * * * *
47339867 AATTACCGAGATACCTTTGTGGGGTAAAATTAC
1 AATTACTAAAATACCCTTGTAGGGTAGAATTAC
47339900 TATTTTGCCC
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.99
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:47340379 original size:22 final size:21
Alignment explanation
Indices: 47340327--47340391 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
47340317 TTAAAGCCTT
* *
47340327 CTGATTATGGCTTTGTGTCAA
1 CTGATTATGGCTCTGTGCCAA
* *
47340348 CTTACATATGGCTCTGTGCCAA
1 CTGA-TTATGGCTCTGTGCCAA
*
47340370 CCTGATTATGGCTGTGTGCCAA
1 -CTGATTATGGCTCTGTGCCAA
47340392 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.83
23 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
CTGATTATGGCTCTGTGCCAA
Found at i:47340580 original size:27 final size:27
Alignment explanation
Indices: 47340550--47340651 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
47340540 ATTCTGTTAA
* *
47340550 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
47340577 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
47340604 GTGGCTCTGCCACAATATCTGTATCTA
1 GTGGCTATGCCACAATATCTGTTTCTG
* * *
47340631 GTGACTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
47340652 ATAACTGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:47340608 original size:54 final size:53
Alignment explanation
Indices: 47340550--47340651 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
47340540 ATTCTGTTAA
* * * * *
47340550 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCAC-AATATCTGTTCTG
* *
47340604 GTGGCTCTGCCACAATATCTGTATCTAGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTG
47340652 ATAACTGAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTAGTGACTATGCCACAATATCTGTTCTG
Found at i:47340841 original size:19 final size:19
Alignment explanation
Indices: 47340800--47340843 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
47340790 CTGATTTTTG
* * *
47340800 ATTCTGTTACCTGATACTG
1 ATTCTGTCACCTAATACTA
*
47340819 ATTCTGTCACCTAATTCTA
1 ATTCTGTCACCTAATACTA
47340838 ATTCTG
1 ATTCTG
47340844 ATTCTGATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (19 bp):
ATTCTGTCACCTAATACTA
Found at i:47343098 original size:13 final size:14
Alignment explanation
Indices: 47343080--47343111 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
47343070 GTATTATAAA
47343080 TAATTATAAT-GTT
1 TAATTATAATGGTT
47343093 TAATTATAATGGTT
1 TAATTATAATGGTT
47343107 TAATT
1 TAATT
47343112 TGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:47343553 original size:21 final size:21
Alignment explanation
Indices: 47343524--47343575 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
47343514 TAGAGCGGAT
*
47343524 GCAGCAGCGACGGAGGCAGCG
1 GCAGCAGCGACGGAGGCAGAG
* * *
47343545 GCAGTAGCGAGGGAGGTAGAG
1 GCAGCAGCGACGGAGGCAGAG
47343566 GCAGCAGCGA
1 GCAGCAGCGA
47343576 TCGCAGCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.48, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGACGGAGGCAGAG
Found at i:47343851 original size:31 final size:31
Alignment explanation
Indices: 47343816--47343874 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
47343806 TTTATGCTAC
* *
47343816 ATTTGCTATTTTTGGTTGGATTTCATGTTAT
1 ATTTGCTATTTTTGGTTGAATTTAATGTTAT
*
47343847 ATTTGCTGTTTTTGGTTGAATTTAATGT
1 ATTTGCTATTTTTGGTTGAATTTAATGT
47343875 AGGAAGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.58
Consensus pattern (31 bp):
ATTTGCTATTTTTGGTTGAATTTAATGTTAT
Found at i:47348784 original size:22 final size:20
Alignment explanation
Indices: 47348756--47348808 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 20
47348746 GTTCGTGTAA
47348756 TTAAATTGTACATTTATATGTT
1 TTAAATTGTACA--TATATGTT
*
47348778 TTAAATTG-A-ATATTTGTT
1 TTAAATTGTACATATATGTT
47348796 TGTAAATTGTACA
1 T-TAAATTGTACA
47348809 ATTGCCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 2 0.07
21 2 0.07
22 8 0.30
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (20 bp):
TTAAATTGTACATATATGTT
Found at i:47348977 original size:25 final size:24
Alignment explanation
Indices: 47348949--47349007 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
47348939 TAGCTCAAAT
*
47348949 GAGCTTACCGTTACTCAACTAAGAG
1 GAGCTTACC-TTACTCAACTAAGAA
* * *
47348974 GAGCTTACTCTTATTCAGCTTAGAA
1 GAGCTTAC-CTTACTCAACTAAGAA
47348999 GAGCTTACC
1 GAGCTTACC
47349008 ATTTACAGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 27 0.93
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (24 bp):
GAGCTTACCTTACTCAACTAAGAA
Found at i:47357045 original size:7 final size:7
Alignment explanation
Indices: 47357033--47357065 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
47357023 ATAATAAATA
47357033 TATTTTT
1 TATTTTT
47357040 TA-TTTT
1 TATTTTT
47357046 TATTTTT
1 TATTTTT
47357053 TATTTTT
1 TATTTTT
*
47357060 AATTTT
1 TATTTT
47357066 AAAATACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TATTTTT
Found at i:47357051 original size:13 final size:13
Alignment explanation
Indices: 47357033--47357065 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
47357023 ATAATAAATA
47357033 TATTTTTTATTTT
1 TATTTTTTATTTT
47357046 TATTTTTTATTTT
1 TATTTTTTATTTT
*
47357059 TAATTTT
1 TATTTTT
47357066 AAAATACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:47363537 original size:11 final size:11
Alignment explanation
Indices: 47363516--47363547 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
47363506 TTAAATTATT
47363516 AAATT-TTAAA
1 AAATTATTAAA
47363526 AAATTATTAAA
1 AAATTATTAAA
47363537 AAATTATTAAA
1 AAATTATTAAA
47363548 TTTTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:47365063 original size:24 final size:24
Alignment explanation
Indices: 47365035--47365083 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
47365025 TTCAGATATG
* *
47365035 GCTATGAAA-CAAGTTGCTAATTCT
1 GCTATCAAAGCAA-TTGCCAATTCT
47365059 GCTATCAAAGCAATTGCCAATTCT
1 GCTATCAAAGCAATTGCCAATTCT
47365083 G
1 G
47365084 GGTCATCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (24 bp):
GCTATCAAAGCAATTGCCAATTCT
Found at i:47368115 original size:30 final size:30
Alignment explanation
Indices: 47368076--47368144 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
47368066 TTAATCCTTG
* * * *
47368076 AAAACTATCAAATTCAGGTTTTAATATGAA
1 AAAATTATCAAATTCAAGTCTTAATACGAA
* *
47368106 AAAATTATCAAGTTTAAGTCTTAATACGAA
1 AAAATTATCAAATTCAAGTCTTAATACGAA
47368136 AATAATTAT
1 AA-AATTAT
47368145 GAAGTTGAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (30 bp):
AAAATTATCAAATTCAAGTCTTAATACGAA
Found at i:47371508 original size:19 final size:20
Alignment explanation
Indices: 47371484--47371534 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 20
47371474 CAAATATGAC
47371484 TATATATGTTACACCCTTGTA
1 TATATATGTTACACCCTTG-A
47371505 TATATGGATGTTACACCCTTG-
1 TATAT--ATGTTACACCCTTGA
47371526 TATATATGT
1 TATATATGT
47371535 GGTGTACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.14
21 10 0.36
23 14 0.50
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TATATATGTTACACCCTTGA
Found at i:47371542 original size:23 final size:23
Alignment explanation
Indices: 47371489--47371533 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
47371479 ATGACTATAT
47371489 ATGTTACACCCTTGTATATATGG
1 ATGTTACACCCTTGTATATATGG
47371512 ATGTTACACCCTTGTATATATG
1 ATGTTACACCCTTGTATATATG
47371534 TGGTGTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (23 bp):
ATGTTACACCCTTGTATATATGG
Found at i:47375044 original size:5 final size:5
Alignment explanation
Indices: 47375034--47375058 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47375024 ATATAGGTTT
47375034 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
47375059 TGTTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:47375507 original size:19 final size:18
Alignment explanation
Indices: 47375449--47375501 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
47375439 AGCCCTCTTA
*
47375449 TTAAAATTTTTATAAGCT
1 TTAAAATATTTATAAGCT
* *
47375467 TTATAATTATTCATAAGCT
1 TTA-AAATATTTATAAGCT
47375486 TTAAAATATTTATAAG
1 TTAAAATATTTATAAG
47375502 TTTTTATGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
TTAAAATATTTATAAGCT
Found at i:47375519 original size:22 final size:22
Alignment explanation
Indices: 47375494--47375595 Score: 60
Period size: 22 Copynumber: 5.0 Consensus size: 22
47375484 CTTTAAAATA
*
47375494 TTTATAAGTTTTTATGAATTTT
1 TTTATAAGTTTTTATAAATTTT
** *
47375516 TTTATATTTTTTTATAAATTTA
1 TTTATAAGTTTTTATAAATTTT
* *
47375538 TTGA-AAG-TTTTA-ATATTTT
1 TTTATAAGTTTTTATAAATTTT
*
47375557 ATTA-AA--TTTTAT-AA--TT
1 TTTATAAGTTTTTATAAATTTT
* *
47375573 TTTATAAGTTTATACAAATTTT
1 TTTATAAGTTTTTATAAATTTT
47375595 T
1 T
47375596 ACTTTTTATA
Statistics
Matches: 58, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
16 5 0.09
17 2 0.03
18 6 0.10
19 13 0.22
20 7 0.12
21 1 0.02
22 24 0.41
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTATAAGTTTTTATAAATTTT
Found at i:47375557 original size:20 final size:19
Alignment explanation
Indices: 47375534--47375586 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
47375524 TTTTTATAAA
47375534 TTTATTGAAAGTTT-TAATAT
1 TTTATT-AAAGTTTATAAT-T
*
47375554 TTTATTAAATTTTATAATT
1 TTTATTAAAGTTTATAATT
47375573 TTTA-T-AAGTTTATA
1 TTTATTAAAGTTTATA
47375587 CAAATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 8 0.27
18 1 0.03
19 11 0.37
20 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (19 bp):
TTTATTAAAGTTTATAATT
Found at i:47375573 original size:18 final size:20
Alignment explanation
Indices: 47375525--47375574 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
47375515 TTTTATATTT
*
47375525 TTTTATAAATTTATTGAAAG
1 TTTTATAATTTTATTGAAAG
47375545 TTTTA-ATATTTTATT-AAA-
1 TTTTATA-ATTTTATTGAAAG
47375563 TTTTATAATTTT
1 TTTTATAATTTT
47375575 TATAAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.37
19 5 0.19
20 12 0.44
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATAATTTTATTGAAAG
Found at i:47375577 original size:19 final size:20
Alignment explanation
Indices: 47375525--47375577 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
47375515 TTTTATATTT
*
47375525 TTTTATAA-ATTTATTGAAA
1 TTTTATAATTTTTATTGAAA
*
47375544 GTTT-TAATATTTTATT-AAA
1 TTTTATAAT-TTTTATTGAAA
47375563 TTTTATAATTTTTAT
1 TTTTATAATTTTTAT
47375578 AAGTTTATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTTATAATTTTTATTGAAA
Found at i:47375596 original size:47 final size:47
Alignment explanation
Indices: 47375515--47375604 Score: 110
Period size: 47 Copynumber: 1.9 Consensus size: 47
47375505 TTATGAATTT
* **
47375515 TTTTATATTTTTTTATAAATTTATTGAAAGTTTTAATATTTTATTAAA
1 TTTTATATATTTTTATAAATTTATACAAAGTTTTAAT-TTTTATTAAA
* * *
47375563 TTTTATA-ATTTTTATAAGTTTATACAAATTTTTACTTTTTAT
1 TTTTATATATTTTTATAAATTTATACAAAGTTTTAATTTTTAT
47375605 ATTTTTAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 6 0.17
47 23 0.64
48 7 0.19
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.61
Consensus pattern (47 bp):
TTTTATATATTTTTATAAATTTATACAAAGTTTTAATTTTTATTAAA
Found at i:47387323 original size:21 final size:21
Alignment explanation
Indices: 47387297--47387344 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
47387287 CATAGCAAAG
47387297 TTGTTTGACAAGAATTTCTTT
1 TTGTTTGACAAGAATTTCTTT
*
47387318 TTGTTTGGCAAGAATTTCTTT
1 TTGTTTGACAAGAATTTCTTT
*
47387339 GTGTTT
1 TTGTTT
47387345 TCTATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.54
Consensus pattern (21 bp):
TTGTTTGACAAGAATTTCTTT
Found at i:47389810 original size:41 final size:41
Alignment explanation
Indices: 47389753--47389979 Score: 391
Period size: 41 Copynumber: 5.5 Consensus size: 41
47389743 TTTAACATAT
* *
47389753 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
47389794 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
47389835 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
47389876 TCATCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* * *
47389917 TCATCGCCACTTAGCCTGCTAGGTTTATAACCTAATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
47389958 TCACTGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
47389980 ACTTAAAGTC
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 178 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:47390019 original size:123 final size:123
Alignment explanation
Indices: 47389752--47390033 Score: 376
Period size: 123 Copynumber: 2.3 Consensus size: 123
47389742 ATTTAACATA
* * *
47389752 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGCCACTTAGCCTGCTAGG
* **
47389817 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAG
66 TTTATAACCTAATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAACCTGATTCAG
* * *
47389875 ATCATCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCATCGCCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGCCACTTAGCCTGCTAGG
* *
47389940 TTTATAACCTAATTCAGATCACTGGCACTTAGCCTGCTAGACTTA-AAGTCC-GAATT-AT
66 TTTATAACCTAATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAA--CCTG-ATTCAG
*
47389998 TTCACCGGC-CTTAAGCTTGCTAGGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
47390034 ACATTTCAAT
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
122 6 0.04
123 129 0.92
124 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (123 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGCCACTTAGCCTGCTAGG
TTTATAACCTAATTCAGATCACCGGCACTTAGCCTGCTAGACTTATAACCTGATTCAG
Found at i:47395982 original size:13 final size:13
Alignment explanation
Indices: 47395966--47396015 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
47395956 TAAGGTTTGG
47395966 GTTTAGAGTTTAT
1 GTTTAGAGTTTAT
*
47395979 GTTTAGGGTTTAAT
1 GTTTAGAGTTT-AT
47395993 GTTTAGA-TTTA-
1 GTTTAGAGTTTAT
*
47396004 GTTTAGGGTTTA
1 GTTTAGAGTTTA
47396016 GATTCTAGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 6 0.19
12 5 0.16
13 13 0.41
14 8 0.25
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (13 bp):
GTTTAGAGTTTAT
Found at i:47396012 original size:25 final size:27
Alignment explanation
Indices: 47395966--47396015 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
47395956 TAAGGTTTGG
47395966 GTTTAGAGTTTATGTTTAGGGTTTAAT
1 GTTTAGAGTTTATGTTTAGGGTTTAAT
47395993 GTTTAGA-TTTA-GTTTAGGGTTTA
1 GTTTAGAGTTTATGTTTAGGGTTTA
47396016 GATTCTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.52
26 4 0.17
27 7 0.30
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (27 bp):
GTTTAGAGTTTATGTTTAGGGTTTAAT
Found at i:47396024 original size:25 final size:26
Alignment explanation
Indices: 47395969--47396025 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
47395959 GGTTTGGGTT
*
47395969 TAGAGTTTATGTTTAGGGTTTAATGTT
1 TAGA-TTTATGTTTAGGGTTTAATGTC
47395996 TAGATTTA-GTTTAGGGTTTAGAT-TC
1 TAGATTTATGTTTAGGGTTTA-ATGTC
47396021 TAGAT
1 TAGAT
47396026 ATGGAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 18 0.64
26 6 0.21
27 4 0.14
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.49
Consensus pattern (26 bp):
TAGATTTATGTTTAGGGTTTAATGTC
Found at i:47396541 original size:5 final size:5
Alignment explanation
Indices: 47396531--47396570 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
47396521 ACAAACTATA
47396531 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
47396571 TTATATATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:47407046 original size:79 final size:79
Alignment explanation
Indices: 47406915--47407073 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 79
47406905 TAATTAACAA
47406915 AAGAATACGAGTTCATAATAGGATTAGTTGGTATAGATTATGCGTTTCTAAATCCTAGGCTTGAA
1 AAGAATACGAGTTCATAATAGGATTAGTTGGTATAGATTATGCGTTTCTAAATCCTAGGCTTGAA
47406980 AATCCTAGGAAGTT
66 AATCCTAGGAAGTT
*
47406994 AAGAATATGAGTTCATAATAGGATTAGTTGGTATAGATTATGCGTTTCTAAATCCTAGGCTTGAA
1 AAGAATACGAGTTCATAATAGGATTAGTTGGTATAGATTATGCGTTTCTAAATCCTAGGCTTGAA
47407059 AATCCTAGGAAGTT
66 AATCCTAGGAAGTT
47407073 A
1 A
47407074 TCATAAGGGA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (79 bp):
AAGAATACGAGTTCATAATAGGATTAGTTGGTATAGATTATGCGTTTCTAAATCCTAGGCTTGAA
AATCCTAGGAAGTT
Found at i:47409679 original size:128 final size:128
Alignment explanation
Indices: 47409451--47409706 Score: 512
Period size: 128 Copynumber: 2.0 Consensus size: 128
47409441 GATATTTATC
47409451 CTTTTGAAATGTGTCGGCATGTACCTAGGGTGTCTAAATAATAGTTATTTTGTGAGTTGTTTGTA
1 CTTTTGAAATGTGTCGGCATGTACCTAGGGTGTCTAAATAATAGTTATTTTGTGAGTTGTTTGTA
47409516 AATGAGGTTATAAATATAATGTTAGTTTGGTATATATATAAACATGTAAAATTAAGTTAATAT
66 AATGAGGTTATAAATATAATGTTAGTTTGGTATATATATAAACATGTAAAATTAAGTTAATAT
47409579 CTTTTGAAATGTGTCGGCATGTACCTAGGGTGTCTAAATAATAGTTATTTTGTGAGTTGTTTGTA
1 CTTTTGAAATGTGTCGGCATGTACCTAGGGTGTCTAAATAATAGTTATTTTGTGAGTTGTTTGTA
47409644 AATGAGGTTATAAATATAATGTTAGTTTGGTATATATATAAACATGTAAAATTAAGTTAATAT
66 AATGAGGTTATAAATATAATGTTAGTTTGGTATATATATAAACATGTAAAATTAAGTTAATAT
47409707 TTAAGTGTTC
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (128 bp):
CTTTTGAAATGTGTCGGCATGTACCTAGGGTGTCTAAATAATAGTTATTTTGTGAGTTGTTTGTA
AATGAGGTTATAAATATAATGTTAGTTTGGTATATATATAAACATGTAAAATTAAGTTAATAT
Found at i:47421821 original size:33 final size:33
Alignment explanation
Indices: 47421784--47421854 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
47421774 GGAGTAGTGG
* * *
47421784 AGTACGGCGATGGATACGGGTCGAAAGGAGCGA
1 AGTACGGAGATGGATACGAGCCGAAAGGAGCGA
* * * *
47421817 AGTACTGAGGTGGATACGAGCCGGAAGGAGCGG
1 AGTACGGAGATGGATACGAGCCGAAAGGAGCGA
47421850 AGTAC
1 AGTAC
47421855 TAAGGTGGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.15, G:0.42, T:0.13
Consensus pattern (33 bp):
AGTACGGAGATGGATACGAGCCGAAAGGAGCGA
Found at i:47421855 original size:33 final size:33
Alignment explanation
Indices: 47421794--47421865 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
47421784 AGTACGGCGA
* * *
47421794 TGGATACGGGTCGAAAGGAGCGAAGTACTGAGG
1 TGGATACGAGCCGAAAGGAGCGAAGTACTAAGG
* *
47421827 TGGATACGAGCCGGAAGGAGCGGAGTACTAAGG
1 TGGATACGAGCCGAAAGGAGCGAAGTACTAAGG
47421860 TGGATA
1 TGGATA
47421866 TGAGTTAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.12, G:0.42, T:0.15
Consensus pattern (33 bp):
TGGATACGAGCCGAAAGGAGCGAAGTACTAAGG
Found at i:47423767 original size:18 final size:17
Alignment explanation
Indices: 47423734--47423772 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
47423724 TTTTATAAAT
47423734 TGTGAATTATACTTGATA
1 TGTGAATTATACTTGA-A
47423752 TGTGAATTATTA-TTGAA
1 TGTGAATTA-TACTTGAA
47423769 TGTG
1 TGTG
47423773 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 13 0.65
19 2 0.10
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATACTTGAA
Found at i:47424024 original size:23 final size:23
Alignment explanation
Indices: 47423997--47424095 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
47423987 AGTGTTATTG
*
47423997 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
*
47424020 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
*
47424043 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
*
47424066 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCAGCTACAT
47424089 ATCAGTG
1 ATCAGTG
47424096 TGGCACCTAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCAGCTACAT
Found at i:47428446 original size:60 final size:60
Alignment explanation
Indices: 47428373--47428487 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
47428363 ATACTAAACT
* * *
47428373 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
47428433 AAACACAAAAATTTGTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATA
47428488 TTTGTAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:47428564 original size:7 final size:7
Alignment explanation
Indices: 47428554--47428579 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47428544 ACTAAACATA
47428554 AATAATT
1 AATAATT
47428561 AATAATT
1 AATAATT
47428568 AATAATT
1 AATAATT
47428575 AATAA
1 AATAA
47428580 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:47428685 original size:14 final size:13
Alignment explanation
Indices: 47428660--47428699 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
47428650 TACCATTTTT
*
47428660 TCTTTCTTTCTTC
1 TCTTTCTCTCTTC
*
47428673 TCTTTTCTCTCTTT
1 TC-TTTCTCTCTTC
47428687 TCTTTCTCTCTTC
1 TCTTTCTCTCTTC
47428700 CGGTGGATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (13 bp):
TCTTTCTCTCTTC
Found at i:47438646 original size:18 final size:19
Alignment explanation
Indices: 47438608--47438652 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
47438598 TCATGTCAAC
47438608 AAATAA-ATTTAAAAATAA
1 AAATAATATTTAAAAATAA
* *
47438626 AAA-AATATTTAAAATTCA
1 AAATAATATTTAAAAATAA
47438644 AAATAATAT
1 AAATAATAT
47438653 AAAAAGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 16 0.70
19 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATATTTAAAAATAA
Found at i:47440344 original size:132 final size:132
Alignment explanation
Indices: 47440107--47440373 Score: 525
Period size: 132 Copynumber: 2.0 Consensus size: 132
47440097 CATATTGGAT
47440107 GACTACATTTCAATGCCCTTCTCCTTTACCACTTTGCCCTGATGAATCTTTCATCTTGAGAAGAT
1 GACTACATTTCAATGCCCTTCTCCTTTACCACTTTGCCCTGATGAATCTTTCATCTTGAGAAGAT
*
47440172 CGAGAACTTGAAAAACTTTTTCAAGATCAAATCCGCCACCCTCTCGTCGGCTAGGGTTAGCCTTC
66 CGAGAACTAGAAAAACTTTTTCAAGATCAAATCCGCCACCCTCTCGTCGGCTAGGGTTAGCCTTC
47440237 AC
131 AC
47440239 GACTACATTTCAATGCCCTTCTCCTTTACCACTTTGCCCTGATGAATCTTTCATCTTGAGAAGAT
1 GACTACATTTCAATGCCCTTCTCCTTTACCACTTTGCCCTGATGAATCTTTCATCTTGAGAAGAT
47440304 CGAGAACTAGAAAAACTTTTTCAAGATCAAATCCGCCACCCTCTCGTCGGCTAGGGTTAGCCTTC
66 CGAGAACTAGAAAAACTTTTTCAAGATCAAATCCGCCACCCTCTCGTCGGCTAGGGTTAGCCTTC
47440369 AC
131 AC
47440371 GAC
1 GAC
47440374 AGCATTATCG
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 134 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.30
Consensus pattern (132 bp):
GACTACATTTCAATGCCCTTCTCCTTTACCACTTTGCCCTGATGAATCTTTCATCTTGAGAAGAT
CGAGAACTAGAAAAACTTTTTCAAGATCAAATCCGCCACCCTCTCGTCGGCTAGGGTTAGCCTTC
AC
Found at i:47441416 original size:19 final size:18
Alignment explanation
Indices: 47441392--47441432 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
47441382 TTGATAAACT
*
47441392 AAAAAAATTAAGTGCTGA
1 AAAAAAAATAAGTGCTGA
*
47441410 AAAAAAAATAAGTGTTGA
1 AAAAAAAATAAGTGCTGA
47441428 AAAAA
1 AAAAA
47441433 TAAGTACTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.15, T:0.20
Consensus pattern (18 bp):
AAAAAAAATAAGTGCTGA
Found at i:47441430 original size:15 final size:15
Alignment explanation
Indices: 47441412--47441458 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
47441402 AGTGCTGAAA
*
47441412 AAAAAATAAGTGTTG
1 AAAAAATAAGTATTG
*
47441427 AAAAAATAAGTACTG
1 AAAAAATAAGTATTG
*
47441442 AAAAATTAAGTATTG
1 AAAAAATAAGTATTG
47441457 AA
1 AA
47441459 TTTTAAGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (15 bp):
AAAAAATAAGTATTG
Found at i:47446109 original size:20 final size:20
Alignment explanation
Indices: 47446064--47446111 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
47446054 GTAAGGCAGC
47446064 GTATCGTGATACCTAGGCTCTA
1 GTATCGTGATACCTAGG--CTA
47446086 GTATCGTGATACCCTAGG-TA
1 GTATCGTGATA-CCTAGGCTA
47446106 GTATCG
1 GTATCG
47446112 AACTTAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
22 11 0.44
23 6 0.24
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
GTATCGTGATACCTAGGCTA
Found at i:47448189 original size:20 final size:20
Alignment explanation
Indices: 47448161--47448217 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
47448151 AATATTATAA
* *
47448161 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
47448181 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
47448201 TCTATTCCATTTACTTA
1 ACCATTCCATTTACTTA
47448218 GCATAAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:47448943 original size:40 final size:40
Alignment explanation
Indices: 47448888--47449013 Score: 243
Period size: 40 Copynumber: 3.1 Consensus size: 40
47448878 AACCGAACCT
47448888 ACCAGACAGAAGCTCATAAGAGCTAATCCAATCGAAACAC
1 ACCAGACAGAAGCTCATAAGAGCTAATCCAATCGAAACAC
47448928 ACCAGACAGAAGCTCATAAGAGCTAATCCAATCGAAACAC
1 ACCAGACAGAAGCTCATAAGAGCTAATCCAATCGAAACAC
*
47448968 ACCAGACAGAAGCTCATAAGAGCTAATCCAATTGAAACAC
1 ACCAGACAGAAGCTCATAAGAGCTAATCCAATCGAAACAC
47449008 ACCAGA
1 ACCAGA
47449014 TAGAGAGTAT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.45, C:0.27, G:0.15, T:0.13
Consensus pattern (40 bp):
ACCAGACAGAAGCTCATAAGAGCTAATCCAATCGAAACAC
Found at i:47453576 original size:17 final size:17
Alignment explanation
Indices: 47453554--47453607 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
47453544 AATTTGTATT
*
47453554 ATTAATTATTAATTTTG
1 ATTAATTATTAATTTTA
47453571 ATTAATTTAATTAA-TTTA
1 ATTAA-TT-ATTAATTTTA
47453589 ATTAATTACTTAATTTTA
1 ATTAATTA-TTAATTTTA
47453607 A
1 A
47453608 ATCGAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 15 0.47
19 5 0.16
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTAATTATTAATTTTA
Found at i:47453585 original size:9 final size:9
Alignment explanation
Indices: 47453561--47453604 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
47453551 ATTATTAATT
*
47453561 ATTAATTTTG
1 ATTAA-TTTA
47453571 ATTAATTTA
1 ATTAATTTA
47453580 ATTAATTTA
1 ATTAATTTA
47453589 ATTAA-TTA
1 ATTAATTTA
*
47453597 CTTAATTT
1 ATTAATTT
47453605 TAAATCGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 19 0.61
10 5 0.16
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:47487804 original size:45 final size:45
Alignment explanation
Indices: 47487740--47487836 Score: 185
Period size: 45 Copynumber: 2.2 Consensus size: 45
47487730 TTACCTGATC
*
47487740 TTATTAATTTAGTCCTTTCATGACAGCTTATTTTTATATATTTCT
1 TTATTGATTTAGTCCTTTCATGACAGCTTATTTTTATATATTTCT
47487785 TTATTGATTTAGTCCTTTCATGACAGCTTATTTTTATATATTTCT
1 TTATTGATTTAGTCCTTTCATGACAGCTTATTTTTATATATTTCT
47487830 TTATTGA
1 TTATTGA
47487837 CCTTTTAATT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (45 bp):
TTATTGATTTAGTCCTTTCATGACAGCTTATTTTTATATATTTCT
Found at i:47487849 original size:45 final size:44
Alignment explanation
Indices: 47487755--47487850 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 44
47487745 AATTTAGTCC
**
47487755 TTTCATGACAGCTTATTTTTATATATTTCTTTATTGATTTAGTCC
1 TTTCATGACAGCTTATTTTTATATATTTCTTTATTGATTTA-TAA
47487800 TTTCATGACAGCTTATTTTTATATATTTCTTTATTGACCTTT-TAA
1 TTTCATGACAGCTTATTTTTATATATTTCTTTATTGA--TTTATAA
47487845 TTTCAT
1 TTTCAT
47487851 TTAATATTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
45 44 0.94
47 3 0.06
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (44 bp):
TTTCATGACAGCTTATTTTTATATATTTCTTTATTGATTTATAA
Found at i:47494173 original size:96 final size:99
Alignment explanation
Indices: 47494055--47494245 Score: 228
Period size: 102 Copynumber: 1.9 Consensus size: 99
47494045 AGAGAGGAAC
* * ** * *
47494055 TGATCTACCTGATGCTAACCAAGACGTTGAT-C-T-TGAAACTGAACCAACTAATGATTACCTGA
1 TGATCAACCTGATACTAACCAAGACGTCAATCCTTCTGAAACCGAACCAACCAATGATTACCTGA
47494117 AAATGGGAGGTGGATTTTGCATGGAAGGAGACAT
66 AAATGGGAGGTGGATTTTGCATGGAAGGAGACAT
* * * *
47494151 TGATCAACCTGATAC-AAGCCAAGATGTCAATCCCTTTTCTGAAACCGGATCAGCCAATGATTAC
1 TGATCAACCTGATACTAA-CCAAGACGTCAAT-CC--TTCTGAAACCGAACCAACCAATGATTAC
47494215 CTGAAAATGGGAGGTGGATTTTGCATGGAAG
62 CTGAAAATGGGAGGTGGATTTTGCATGGAAG
47494246 AAAGTGAGAC
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
95 2 0.03
96 23 0.29
98 1 0.01
101 1 0.01
102 51 0.65
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (99 bp):
TGATCAACCTGATACTAACCAAGACGTCAATCCTTCTGAAACCGAACCAACCAATGATTACCTGA
AAATGGGAGGTGGATTTTGCATGGAAGGAGACAT
Found at i:47495537 original size:16 final size:16
Alignment explanation
Indices: 47495516--47495584 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
47495506 TTTGGTTCGC
47495516 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47495532 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47495548 TGTATTGAGATTAGAGG
1 TGTATTG-GATTAGAGG
47495565 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47495581 TGTA
1 TGTA
47495585 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47495562 original size:33 final size:32
Alignment explanation
Indices: 47495516--47495584 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
47495506 TTTGGTTCGC
47495516 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
47495548 TGTATTGAGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTG-GATTAGAGGTGTATTGGATTAGAGG
47495581 TGTA
1 TGTA
47495585 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.19
33 29 0.81
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:47495649 original size:44 final size:45
Alignment explanation
Indices: 47495565--47495655 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47495555 AGATTAGAGG
* * *
47495565 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
47495610 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
47495654 TG
1 TG
47495656 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:47495841 original size:18 final size:17
Alignment explanation
Indices: 47495820--47495854 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47495810 TTATTATTAA
*
47495820 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47495838 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47495855 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47496016 original size:120 final size:120
Alignment explanation
Indices: 47495803--47496429 Score: 1060
Period size: 120 Copynumber: 5.2 Consensus size: 120
47495793 ATCATATTTA
47495803 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
47495868 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
47495923 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
47495988 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
47496043 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
47496108 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
* *
47496163 AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* * *
47496228 TATTCTTATATGAATTTACTAAAATTATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
47496283 GAA-ATAATTATTATTAAATATATTTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-
* * *
47496346 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT
64 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
*
47496403 AAAATAATTATTATTAAATATAATTTT
1 AACATAATTATTATTAAATAT-ATTTT
47496430 TCTAAATATA
Statistics
Matches: 488, Mismatches: 15, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
119 4 0.01
120 477 0.98
121 7 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTAAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:47496201 original size:18 final size:17
Alignment explanation
Indices: 47496178--47496214 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
47496168 AATTATTATT
47496178 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
47496194 AAATATATGATTTAATA
1 AAATATATGATTTAATA
47496211 AAAT
1 AAAT
47496215 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:47496319 original size:16 final size:17
Alignment explanation
Indices: 47496298--47496333 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
47496288 AATTATTATT
47496298 AAATATAT-TTTAATAA
1 AAATATATATTTAATAA
47496314 AAATATATAATTTAATAA
1 AAATATAT-ATTTAATAA
47496332 AA
1 AA
47496334 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATATATTTAATAA
Found at i:47501867 original size:16 final size:16
Alignment explanation
Indices: 47501801--47501870 Score: 50
Period size: 16 Copynumber: 4.1 Consensus size: 16
47501791 TTAGATACAT
47501801 TTTAAATTATTTAATA
1 TTTAAATTATTTAATA
* * *
47501817 TTTCAGTAATTTAATA
1 TTTAAATTATTTAATA
* *
47501833 TAATGATACTTATAATTAATA
1 T--TTA-AATTAT--TTAATA
47501854 TTTAAATTATTTAATA
1 TTTAAATTATTTAATA
47501870 T
1 T
47501871 AATGATACAA
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
16 21 0.52
18 6 0.15
19 6 0.15
21 7 0.17
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTAAATTATTTAATA
Found at i:47511370 original size:33 final size:32
Alignment explanation
Indices: 47511321--47511388 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
47511311 ACCCTTTTGA
*
47511321 TTCAAAGCAATTTAAGTGGATTATTGGAGGCCT
1 TTCAAAGCAATCTAAGTGGATTATTGGAGG-CT
*
47511354 TTCAGAGCAATCTAAGTGGATTATTGGAGGCT
1 TTCAAAGCAATCTAAGTGGATTATTGGAGGCT
47511386 TTC
1 TTC
47511389 TTCTTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (32 bp):
TTCAAAGCAATCTAAGTGGATTATTGGAGGCT
Found at i:47514632 original size:30 final size:30
Alignment explanation
Indices: 47514591--47514655 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
47514581 GTTAGTTAAA
*
47514591 CATTTTCTAGTAATTGTTTATTATGGTATG
1 CATTTTCTAGTAATTGTTTATTATGATATG
*
47514621 CATTTTTTAGTAATTGTTTATTATGATATG
1 CATTTTCTAGTAATTGTTTATTATGATATG
*
47514651 TATTT
1 CATTT
47514656 ATAACCGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
CATTTTCTAGTAATTGTTTATTATGATATG
Found at i:47519832 original size:19 final size:17
Alignment explanation
Indices: 47519804--47519848 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
47519794 AATTTGCATT
47519804 TGATTATGTTTCTGTATG
1 TGATTATGTTT-TGTATG
*
47519822 TGATATATGTTTTGTATC
1 TGAT-TATGTTTTGTATG
47519840 TG-TTATGTT
1 TGATTATGTT
47519849 AAGAGTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 1 0.04
18 11 0.44
19 7 0.28
ACGTcount: A:0.18, C:0.04, G:0.20, T:0.58
Consensus pattern (17 bp):
TGATTATGTTTTGTATG
Found at i:47525021 original size:41 final size:41
Alignment explanation
Indices: 47524968--47525053 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
47524958 AAAAAATATA
47524968 ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
1 ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
* *
47525009 ATAATGAGCAAAACAAGAAGATTATTATATTTGTGTAAAAT
1 ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
47525050 ATAA
1 ATAA
47525054 CCCCATGTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.52, C:0.05, G:0.13, T:0.30
Consensus pattern (41 bp):
ATAATGAACAAAACAAGAAGAATATTATATTTGTGTAAAAT
Found at i:47530462 original size:104 final size:104
Alignment explanation
Indices: 47530340--47530563 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
47530330 AATGGATATC
47530340 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47530405 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
47530444 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
47530509 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
47530548 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
47530564 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:47530925 original size:29 final size:29
Alignment explanation
Indices: 47530892--47530955 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47530882 TAATCCACCA
47530892 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
47530921 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
47530951 CCCAA
1 CCCAA
47530956 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:47530929 original size:30 final size:30
Alignment explanation
Indices: 47530899--47530955 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47530889 CCACCCAACT
47530899 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
47530928 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
47530956 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:47537970 original size:103 final size:104
Alignment explanation
Indices: 47537791--47538055 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
47537781 AACCGTTATT
* * * *
47537791 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
47537856 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
47537894 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
47537959 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
47537998 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
47538056 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:47538417 original size:30 final size:29
Alignment explanation
Indices: 47538383--47538447 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
47538373 TAATCCACCA
47538383 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
47538413 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
47538443 CCCAA
1 CCCAA
47538448 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:47538421 original size:31 final size:30
Alignment explanation
Indices: 47538390--47538447 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
47538380 CCACCCAACT
47538390 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
47538420 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
47538448 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:47539911 original size:13 final size:13
Alignment explanation
Indices: 47539893--47539923 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
47539883 GTGGCCCACG
47539893 ATAAAAAATAAAA
1 ATAAAAAATAAAA
47539906 ATAAAAAATAAAA
1 ATAAAAAATAAAA
*
47539919 GTAAA
1 ATAAA
47539924 TTTCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:47541322 original size:103 final size:103
Alignment explanation
Indices: 47541197--47541534 Score: 502
Period size: 103 Copynumber: 3.3 Consensus size: 103
47541187 GGGGTTCTGT
* *
47541197 GTGCTGATTCCCCTATTCATTGGTGGTTGTTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
1 GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
47541262 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
66 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
*
47541300 GTGCTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCAACGTATTTTAAATGTGAAA
1 GTGCTGATTCCCCTACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAA
47541364 GGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
65 GGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
* * * * * *
47541403 GTGCTGATT-CTCTGACCCATTTAGTGGTTGCTAAGTGCTGATTCCACCGCATCTGAAATGTG-A
1 GTGCTGATTCCCCT-ACTCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
* **
47541466 AGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGT
64 AGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
* *
47541506 GTGCTGATTCCCCGATTCATTGGTGGTTG
1 GTGCTGATTCCCCTACTCATTGGTGGTTG
47541535 TTTACTGCGG
Statistics
Matches: 213, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
102 13 0.06
103 160 0.75
104 40 0.19
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.33
Consensus pattern (103 bp):
GTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:47541333 original size:33 final size:28
Alignment explanation
Indices: 47541262--47541343 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 28
47541252 AATGTGAAAG
47541262 GGGGTTGCTAAGTGCTGATT-CCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCCCGA
*
47541289 GGGGTTGCTAAGTGCTGATTCCCCTACCTA
1 GGGGTTGCTAAGTGCTGATTCCCC--CCGA
47541319 TTGGTGGTTGCTAAGTGCTGATTCC
1 --GG-GGTTGCTAAGTGCTGATTCC
47541344 AACGTATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 20 0.42
28 3 0.06
30 3 0.06
32 2 0.04
33 20 0.42
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (28 bp):
GGGGTTGCTAAGTGCTGATTCCCCCCGA
Found at i:47553825 original size:103 final size:103
Alignment explanation
Indices: 47553680--47554015 Score: 480
Period size: 103 Copynumber: 3.3 Consensus size: 103
47553670 CACCAATGAA
* * *
47553680 TCGGGGAATCAGCACACT-GCAACCCCTTGGGGTAATCAGCACTTAGCAACCCCC-TTCACATTT
1 TCGGGGAATCAGCAC-TTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTT
* * *
47553743 CAGATGCGGTGGAATCAGCACTTAGCAACCACAAAATAGG
65 AAAATACGGTGGAATCAGCACTTAGCAACCAC-AAATAGG
* *
47553783 TCGGGGAATCAGCGCTTAGCAACCACTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTA
1 TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTA
*
47553848 AAATACGGTGGAATCAGCACTTAGCAACCACCAATAGG
66 AAATACGGTGGAATCAGCACTTAGCAACCACAAATAGG
*
47553886 TAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTA
1 TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTA
* * *
47553951 AAATACGGTGGAATCAGCACTTAACAACCACCAAT-GAA
66 AAATACGGTGGAATCAGCACTTAGCAACCACAAATAG-G
* **
47553989 TAGGGGAATCAGCACACAGCAACCCCT
1 TCGGGGAATCAGCACTTAGCAACCCCT
47554016 TTATATGCAA
Statistics
Matches: 214, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
102 2 0.01
103 174 0.81
104 38 0.18
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (103 bp):
TCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTTCACATTTA
AAATACGGTGGAATCAGCACTTAGCAACCACAAATAGG
Done.