Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 153 of 163
Found at i:50749319 original size:3 final size:3
Alignment explanation
Indices: 50749311--50749336 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50749301 TCGTAAAAAG
50749311 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
50749337 TTCTTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:50753839 original size:159 final size:159
Alignment explanation
Indices: 50753550--50753949 Score: 617
Period size: 159 Copynumber: 2.5 Consensus size: 159
50753540 GATGGGAAAA
* * *
50753550 CTTCATTTGAGCTCTTTTTCACTTGACTATCAGAGCTTTTATCGAACACATTGCCATTATTTTTG
1 CTTCATTTGAACTCTTTTTCACTTGACTATCAGAGCTTTTATCGAACCCATTGTCATTATTTTTG
* *
50753615 TCAACCTTATCCCCTTTAGGGAAAACTTCATTTGATCTCTTTTTCACCTGATCATCAAAGCTTTT
66 TCAACCTTATCCCCTTTAGGGAAAACTTCATTTGAGCTCTTTTTCACCTGATCAACAAAGCTTTT
*
50753680 ATCAAACACCTTATCTCCTTTTGGGGCAT
131 ATCAAACACCTTATCTCCTTTTGGGGAAT
50753709 CTTCATTTGAACTCTTTTTCACTTGACTATCAGAGCTTTTATCGAACCCATTGTCATTATTTTTG
1 CTTCATTTGAACTCTTTTTCACTTGACTATCAGAGCTTTTATCGAACCCATTGTCATTATTTTTG
50753774 TCAACCTTATCCCCTTTAGGGAAAACTTCATTTGAGCTCTTTTTCACCTGATCAACAAAGCTTTT
66 TCAACCTTATCCCCTTTAGGGAAAACTTCATTTGAGCTCTTTTTCACCTGATCAACAAAGCTTTT
50753839 ATCAAACACCTTATCTCCTTTTGGGGAAT
131 ATCAAACACCTTATCTCCTTTTGGGGAAT
* * * * *
50753868 CTTCATTTGAACTCTTCCCTTTCACCTGA-TCAGCTGAGCGTTTATCCG-ACACC-TTGTCATCA
1 CTTCATTTGAACTCTT---TTTCACTTGACT-ATCAGAGCTTTTAT-CGAAC-CCATTGTCATTA
*
50753930 TTTTTATCAACCTTATCCCC
60 TTTTTGTCAACCTTATCCCC
50753950 GTAAGTCCTG
Statistics
Matches: 223, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
159 169 0.76
161 1 0.00
162 49 0.22
163 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (159 bp):
CTTCATTTGAACTCTTTTTCACTTGACTATCAGAGCTTTTATCGAACCCATTGTCATTATTTTTG
TCAACCTTATCCCCTTTAGGGAAAACTTCATTTGAGCTCTTTTTCACCTGATCAACAAAGCTTTT
ATCAAACACCTTATCTCCTTTTGGGGAAT
Found at i:50753922 original size:72 final size:69
Alignment explanation
Indices: 50753777--50753922 Score: 166
Period size: 69 Copynumber: 2.1 Consensus size: 69
50753767 ATTTTTGTCA
* *
50753777 ACCTTATCCCCTTTAGGGAAAACTTCATTTGAGCTCTTTTTCACCTGATCAACAAAGCTTTTATC
1 ACCTTATCCCCTTTAGGGAAAACTTCATTTGAACTCTTTTTCACCTGATCAACAAAGCGTTTATC
50753842 AAAC
66 AAAC
* * * * * **
50753846 ACCTTATCTCCTTTTGGGGAATCTTCATTTGAACTCTTCCCTTTCACCTGATCAGCTGAGCGTTT
1 ACCTTATCCCCTTTAGGGAAAACTTCATTTGAACTCTT---TTTCACCTGATCAACAAAGCGTTT
**
50753911 ATCCGAC
63 ATCAAAC
50753918 ACCTT
1 ACCTT
50753923 GTCATCATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
69 33 0.52
72 30 0.48
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.36
Consensus pattern (69 bp):
ACCTTATCCCCTTTAGGGAAAACTTCATTTGAACTCTTTTTCACCTGATCAACAAAGCGTTTATC
AAAC
Found at i:50755063 original size:21 final size:22
Alignment explanation
Indices: 50755017--50755067 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
50755007 GATCAACAAC
*
50755017 AAAAC-AAAGAAATCTAACTCG
1 AAAACAAAAGAAATATAACTCG
* *
50755038 GAAACAAAAGAAATATACCT-G
1 AAAACAAAAGAAATATAACTCG
50755059 AAAACAAAA
1 AAAACAAAA
50755068 ATGGAAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.63, C:0.16, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAACAAAAGAAATATAACTCG
Found at i:50755453 original size:3 final size:3
Alignment explanation
Indices: 50755445--50755479 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
50755435 CAATTTTCAA
50755445 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50755480 CAATTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50756040 original size:9 final size:9
Alignment explanation
Indices: 50756014--50756053 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
50756004 TTATCAATAA
50756014 TTAAA-TTT
1 TTAAAGTTT
50756022 TTAAATGTTT
1 TTAAA-GTTT
50756032 TTAAAGTTT
1 TTAAAGTTT
*
50756041 TTAAAATTT
1 TTAAAGTTT
50756050 TTAA
1 TTAA
50756054 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 5 0.17
9 16 0.55
10 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
TTAAAGTTT
Found at i:50756654 original size:20 final size:20
Alignment explanation
Indices: 50756626--50756677 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
50756616 GTAGTTTTTC
* *
50756626 AAATAATTATAATAATTATA
1 AAATTATTAAAATAATTATA
* *
50756646 AAATTATTAAAATTATTTTA
1 AAATTATTAAAATAATTATA
*
50756666 AAATTAATAAAA
1 AAATTATTAAAA
50756678 ATATTTGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTATTAAAATAATTATA
Found at i:50756682 original size:20 final size:20
Alignment explanation
Indices: 50756644--50756683 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50756634 ATAATAATTA
* *
50756644 TAAAATTATTAAAATTATTT
1 TAAAATTAATAAAAATATTT
50756664 TAAAATTAATAAAAATATTT
1 TAAAATTAATAAAAATATTT
50756684 GATTTGCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAAATTAATAAAAATATTT
Found at i:50757851 original size:17 final size:17
Alignment explanation
Indices: 50757829--50757874 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
50757819 AAACTAATAT
50757829 TTTAAAAAATTA-TCTC
1 TTTAAAAAATTACTCTC
50757845 ATTTAAAAAA-TACTCTC
1 -TTTAAAAAATTACTCTC
*
50757862 TTAAAAAAATTAC
1 TTTAAAAAATTAC
50757875 CATTAGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTAAAAAATTACTCTC
Found at i:50757868 original size:16 final size:16
Alignment explanation
Indices: 50757830--50757871 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50757820 AACTAATATT
*
50757830 TTAAAAAATTATCTCA
1 TTAAAAAAATATCTCA
*
50757846 TTTAAAAAATACTCTC-
1 TTAAAAAAATA-TCTCA
50757862 TTAAAAAAAT
1 TTAAAAAAAT
50757872 TACCATTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAAAATATCTCA
Found at i:50758575 original size:30 final size:30
Alignment explanation
Indices: 50758541--50758602 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
50758531 ACTTATTTTA
50758541 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
50758571 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
50758601 TT
1 TT
50758603 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:50767523 original size:3 final size:3
Alignment explanation
Indices: 50767515--50767569 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
50767505 CAATGCTTTT
* * * * *
50767515 GCA GCA GCA GCA GCA ACA GCA ACA ACA ACA GCA ACA GCA GCA GCA GCA
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA
50767563 GCA GCA G
1 GCA GCA G
50767570 TTCCTCCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.42, C:0.33, G:0.25, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:50778320 original size:30 final size:32
Alignment explanation
Indices: 50778284--50778348 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 32
50778274 TAGACTTTAC
*
50778284 TTTTATAAATTTTAAAGG-ATTAAATTA-AAT
1 TTTTATAAATTTTAAAGGAATTAAAGTATAAT
** *
50778314 TTTTATACTTTTTAAGGGAATTAAAGTATAAT
1 TTTTATAAATTTTAAAGGAATTAAAGTATAAT
50778346 TTT
1 TTT
50778349 ACTTTTACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 15 0.52
31 8 0.28
32 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (32 bp):
TTTTATAAATTTTAAAGGAATTAAAGTATAAT
Found at i:50780179 original size:1 final size:1
Alignment explanation
Indices: 50780173--50780210 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
50780163 TTAAATCATG
50780173 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50780211 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:50782765 original size:466 final size:467
Alignment explanation
Indices: 50781886--50782819 Score: 1861
Period size: 466 Copynumber: 2.0 Consensus size: 467
50781876 AATAAATTTT
50781886 TTTAAAATTTTTATATTATCCTAAATGTATATTATATAATATTAGATATAATACAGTATGTTTAT
1 TTTAAAATTTTTATATTATCCTAAATGTATATTATATAATATTAGATATAATACAGTATGTTTAT
50781951 ACTTTCATATGAAAAAAAAATTGTTAGTACCATGCTTTTTTTAAAAAAAAATGAACTACCTTTTT
66 ACTTTCATATGAAAAAAAAATTGTTAGTACCATGCTTTTTTTAAAAAAAAATGAACTACCTTTTT
50782016 ACCATAAAAAAAAAGTATTTTACTTCAATCAAATTTGAACTCTTCATGATTAATTTTCCAAAAAA
131 ACCATAAAAAAAAAGTATTTTACTTCAATCAAATTTGAACTCTTCATGATTAATTTTCCAAAAAA
50782081 TTGGAATATTGTAAAAAGATTACTTGATTTTGCGTAAGAAATCATCAAACTCATATTTTCTAAAG
196 TTGGAATATTGTAAAAAGATTACTTGATTTTGCGTAAGAAATCATCAAACTCATATTTTCTAAAG
50782146 CTATGTGCTATCATCATGTATGATATACTGTTATAACGCTACAAAAAGTATAGATGTAATTGGCC
261 CTATGTGCTATCATCATGTATGATATACTGTTATAACGCTACAAAAAGTATAGATGTAATTGGCC
50782211 ATCTAAATTAATCTCTATTTTTATTTAATATTCAAAAAAAGAAAAATAATTTTGTGCATGAAGTC
326 ATCTAAATTAATCTCTATTTTTATTTAATATTCAAAAAAAGAAAAATAATTTTGTGCATGAAGTC
50782276 TTAACTCGGTGTGAAGGAGGATATAGATTCAAACGTATTGAAGCGCATTAATTTATCCTCTTATT
391 TTAACTCGGTGTGAAGGAGGATATAGATTCAAACGTATTGAAGCGCATTAATTTATCCTCTTATT
50782341 TAAAAGTTGAAA
456 TAAAAGTTGAAA
50782353 TTTAAAA-TTTTATATTATCCTAAATGTATATTATATAATATTAGATATAATACAGTATGTTTAT
1 TTTAAAATTTTTATATTATCCTAAATGTATATTATATAATATTAGATATAATACAGTATGTTTAT
50782417 ACTTTCATATGAAAAAAAAATTGTTAGTACCATGCTTTTTTTAAAAAAAAATGAACTACCTTTTT
66 ACTTTCATATGAAAAAAAAATTGTTAGTACCATGCTTTTTTTAAAAAAAAATGAACTACCTTTTT
50782482 ACCATAAAAAAAAAGTATTTTACTTCAATCAAATTTGAACTCTTCATGATTAATTTTCCAAAAAA
131 ACCATAAAAAAAAAGTATTTTACTTCAATCAAATTTGAACTCTTCATGATTAATTTTCCAAAAAA
50782547 TTGGAATATTGTAAAAAGATTACTTGATTTTGCGTAAGAAATCATCAAACTCATATTTTCTAAAG
196 TTGGAATATTGTAAAAAGATTACTTGATTTTGCGTAAGAAATCATCAAACTCATATTTTCTAAAG
50782612 CTATGTGCTATCATCATGTATGATATACTGTTATAACGCTACAAAAAGTATAGATGTAATTGGCC
261 CTATGTGCTATCATCATGTATGATATACTGTTATAACGCTACAAAAAGTATAGATGTAATTGGCC
50782677 ATCTAAATTAATCTCTATTTTTATTTAATATTCAAAAAAAGAAAAATAATTTTGTGCATGAAGTC
326 ATCTAAATTAATCTCTATTTTTATTTAATATTCAAAAAAAGAAAAATAATTTTGTGCATGAAGTC
50782742 TTAACTCGGTGTGAAGGAGGATATAGATTCAAACGTATTGAAGCGCATTAATTTATCCTCTTATT
391 TTAACTCGGTGTGAAGGAGGATATAGATTCAAACGTATTGAAGCGCATTAATTTATCCTCTTATT
50782807 TAAAAGTTGAAA
456 TAAAAGTTGAAA
50782819 T
1 T
50782820 GAATTATGAA
Statistics
Matches: 467, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
466 460 0.99
467 7 0.01
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (467 bp):
TTTAAAATTTTTATATTATCCTAAATGTATATTATATAATATTAGATATAATACAGTATGTTTAT
ACTTTCATATGAAAAAAAAATTGTTAGTACCATGCTTTTTTTAAAAAAAAATGAACTACCTTTTT
ACCATAAAAAAAAAGTATTTTACTTCAATCAAATTTGAACTCTTCATGATTAATTTTCCAAAAAA
TTGGAATATTGTAAAAAGATTACTTGATTTTGCGTAAGAAATCATCAAACTCATATTTTCTAAAG
CTATGTGCTATCATCATGTATGATATACTGTTATAACGCTACAAAAAGTATAGATGTAATTGGCC
ATCTAAATTAATCTCTATTTTTATTTAATATTCAAAAAAAGAAAAATAATTTTGTGCATGAAGTC
TTAACTCGGTGTGAAGGAGGATATAGATTCAAACGTATTGAAGCGCATTAATTTATCCTCTTATT
TAAAAGTTGAAA
Found at i:50793909 original size:42 final size:42
Alignment explanation
Indices: 50793850--50793936 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
50793840 GGAATACCAA
50793850 ACAGTTTTGCTGAAAAGTTACAATGGGCTTTATCCTGGTCTT
1 ACAGTTTTGCTGAAAAGTTACAATGGGCTTTATCCTGGTCTT
50793892 ACAGTTTTGCTGAAAAGTTACAATGGGCTTTATCCTGGTCTT
1 ACAGTTTTGCTGAAAAGTTACAATGGGCTTTATCCTGGTCTT
50793934 ACA
1 ACA
50793937 TTATCTGCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (42 bp):
ACAGTTTTGCTGAAAAGTTACAATGGGCTTTATCCTGGTCTT
Found at i:50796611 original size:6 final size:6
Alignment explanation
Indices: 50796600--50796627 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50796590 TAAATGCAAG
50796600 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTT
50796628 ATAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:50810867 original size:45 final size:45
Alignment explanation
Indices: 50810798--50810888 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
50810788 GATACCAACT
50810798 GAATCAACAATATTATCAACATATATAATCTATTGAGCTAATAAA
1 GAATCAACAATATTATCAACATATATAATCTATTGAGCTAATAAA
* * *
50810843 GAATCAACAATATTATCAATATATATAATTTATTGAGGTAATAAA
1 GAATCAACAATATTATCAACATATATAATCTATTGAGCTAATAAA
50810888 G
1 G
50810889 TATGTATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (45 bp):
GAATCAACAATATTATCAACATATATAATCTATTGAGCTAATAAA
Found at i:50812409 original size:24 final size:24
Alignment explanation
Indices: 50812382--50812427 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50812372 TTAAGCTATC
* *
50812382 CGGAGCTTTCCGTTATTGGCTCTT
1 CGGAGCTATCCGATATTGGCTCTT
*
50812406 CGGAGCTATCTGATATTGGCTC
1 CGGAGCTATCCGATATTGGCTC
50812428 GCATGAGCTT
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:0.13, C:0.24, G:0.26, T:0.37
Consensus pattern (24 bp):
CGGAGCTATCCGATATTGGCTCTT
Found at i:50814459 original size:24 final size:25
Alignment explanation
Indices: 50814420--50814466 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
50814410 ATAGGTAATA
*
50814420 AAATATACATAATAAATTAAAATGT
1 AAATATACATAATAAAATAAAATGT
*
50814445 AAATAT-CATATTAAAATAAAAT
1 AAATATACATAATAAAATAAAAT
50814467 AGAGGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
AAATATACATAATAAAATAAAATGT
Found at i:50821832 original size:14 final size:14
Alignment explanation
Indices: 50821808--50821840 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50821798 TTACCCTAAT
50821808 TATTTTTATTTG-A
1 TATTTTTATTTGAA
50821821 TATTTCTTATTTGAA
1 TATTT-TTATTTGAA
50821836 TATTT
1 TATTT
50821841 AGATAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 7 0.39
15 6 0.33
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (14 bp):
TATTTTTATTTGAA
Found at i:50834716 original size:16 final size:17
Alignment explanation
Indices: 50834692--50834734 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
50834682 TTTAAATTTA
*
50834692 TAATATTTTATATTATG
1 TAATTTTTTATATTATG
*
50834709 TTATTTTTATATATTATG
1 TAATTTTT-TATATTATG
50834727 TAATTTTT
1 TAATTTTT
50834735 AACATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (17 bp):
TAATTTTTTATATTATG
Found at i:50834723 original size:18 final size:18
Alignment explanation
Indices: 50834700--50834735 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50834690 TATAATATTT
*
50834700 TATATTATGTTATTTTTA
1 TATATTATGTAATTTTTA
50834718 TATATTATGTAATTTTTA
1 TATATTATGTAATTTTTA
50834736 ACATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (18 bp):
TATATTATGTAATTTTTA
Found at i:50839877 original size:20 final size:20
Alignment explanation
Indices: 50839851--50839904 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
50839841 TTTAAATAAG
50839851 ATTTTAATATATTTTTATTCT
1 ATTTTAATATATTTTTATT-T
*
50839872 -TTTTAATA-ATTTATATTT
1 ATTTTAATATATTTTTATTT
50839890 ATTTTAA-AT-TTTTTA
1 ATTTTAATATATTTTTA
50839905 GCATTATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 7 0.24
19 14 0.48
20 8 0.28
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTAATATATTTTTATTT
Found at i:50847686 original size:3 final size:3
Alignment explanation
Indices: 50847678--50847704 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
50847668 GTTGGCCTCC
50847678 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
50847705 CTACTCTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:50847873 original size:13 final size:13
Alignment explanation
Indices: 50847850--50847889 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
50847840 GGCCTACACG
50847850 TATTAATTTTTTTA
1 TATT-ATTTTTTTA
*
50847864 TATTATTTTTATA
1 TATTATTTTTTTA
*
50847877 TATAATTTTTTTA
1 TATTATTTTTTTA
50847890 AAATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATTTTTTTA
Found at i:50850637 original size:23 final size:22
Alignment explanation
Indices: 50850595--50850637 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
50850585 ACTTTCTTAA
*
50850595 AAATGATTTTTTTTCATAATTT
1 AAATGATTTTTTTACATAATTT
50850617 AAATGAATTTTTATTAC-TAAT
1 AAATG-ATTTTT-TTACATAAT
50850638 AATTGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 5 0.28
23 10 0.56
24 3 0.17
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (22 bp):
AAATGATTTTTTTACATAATTT
Found at i:50851497 original size:214 final size:215
Alignment explanation
Indices: 50851119--50851549 Score: 855
Period size: 214 Copynumber: 2.0 Consensus size: 215
50851109 TCGAGTAGGC
50851119 TTAAATAATTTTTATATTTAATAAATTTTTGAATGTAATAATTAATTAATTAATTAATTTCTTTT
1 TTAAATAATTTTTATATTTAATAAATTTTTGAATGTAATAATTAATTAATTAATTAATTTCTTTT
50851184 AAATGGTGATAACACAATATAAATCTATTTCATATAAAACAGAAATTTTATGTGCATGTTTTACT
66 AAATGGTGATAACACAATATAAATCTATTTCATATAAAACAGAAATTTTATGTGCATGTTTTACT
50851249 TTAATAGAAATGTTATATATAACATAACTTATTATATGTAATATTTATGATTTTATAATATGTAA
131 TTAATAGAAATGTTATATATAACATAACTTATTATATGTAATATTTATGATTTTATAATATGTAA
50851314 ATGACTTTGTTATGTAATTT
196 ATGACTTTGTTATGTAATTT
50851334 TTAAATAA-TTTTATATTTAATAAATTTTTGAATGTAATAATTAATTAATTAATTAATTTCTTTT
1 TTAAATAATTTTTATATTTAATAAATTTTTGAATGTAATAATTAATTAATTAATTAATTTCTTTT
50851398 AAATGGTGATAACACAATATAAATCTATTTCATATAAAACAGAAATTTTATGTGCATGTTTTACT
66 AAATGGTGATAACACAATATAAATCTATTTCATATAAAACAGAAATTTTATGTGCATGTTTTACT
50851463 TTAATAGAAATGTTATATATAACATAACTTATTATATGTAATATTTATGATTTTATAATATGTAA
131 TTAATAGAAATGTTATATATAACATAACTTATTATATGTAATATTTATGATTTTATAATATGTAA
50851528 ATGACTTTGTTATGTAATTT
196 ATGACTTTGTTATGTAATTT
50851548 TT
1 TT
50851550 TTTTGTCTAC
Statistics
Matches: 216, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
214 208 0.96
215 8 0.04
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (215 bp):
TTAAATAATTTTTATATTTAATAAATTTTTGAATGTAATAATTAATTAATTAATTAATTTCTTTT
AAATGGTGATAACACAATATAAATCTATTTCATATAAAACAGAAATTTTATGTGCATGTTTTACT
TTAATAGAAATGTTATATATAACATAACTTATTATATGTAATATTTATGATTTTATAATATGTAA
ATGACTTTGTTATGTAATTT
Found at i:50854561 original size:5 final size:5
Alignment explanation
Indices: 50854546--50854597 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
50854536 AAAAATATTA
* *
50854546 AATATT AATAT AATAT AATAT AAGAT AATAT AATAC AATAT AA-AT ATATAT
1 AATA-T AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT A-ATAT
50854597 A
1 A
50854598 TTTTTAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
4 3 0.08
5 30 0.75
6 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:50863589 original size:20 final size:20
Alignment explanation
Indices: 50863553--50863591 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50863543 AAAATTTAAT
*
50863553 TTTTTAAAAATCATATAAAA
1 TTTTTAAAAATAATATAAAA
50863573 TTTTTAAAAA-AATTATAAA
1 TTTTTAAAAATAA-TATAAA
50863592 TAATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTTAAAAATAATATAAAA
Found at i:50863592 original size:19 final size:19
Alignment explanation
Indices: 50863542--50863592 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
50863532 AAAAAAATTT
*
50863542 AAAAATT-TAATTTTTTAA
1 AAAAATTATAAATTTTTAA
*
50863560 AAATCA-TATAAAATTTTTAA
1 AAA-AATTAT-AAATTTTTAA
50863580 AAAAATTATAAAT
1 AAAAATTATAAAT
50863593 AATATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
18 4 0.15
19 7 0.27
20 15 0.58
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTATAAATTTTTAA
Found at i:50869765 original size:23 final size:23
Alignment explanation
Indices: 50869717--50869776 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
50869707 TAAGGATAAG
*
50869717 TAATATTAATTAATTATCATTTAAT
1 TAATATTAA--AATTATCATTCAAT
50869742 TAATATTAAAATTATACA-TCAAT
1 TAATATTAAAATTAT-CATTCAAT
* *
50869765 TAAAATGAAAAT
1 TAATATTAAAAT
50869777 GATATGATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 20 0.65
24 2 0.06
25 9 0.29
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATATTAAAATTATCATTCAAT
Found at i:50875520 original size:6 final size:6
Alignment explanation
Indices: 50875509--50875535 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50875499 AAAAAGCATC
50875509 ATTTCA ATTTCA ATTTCA ATTTCA ATT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATT
50875536 AATTAACTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTCA
Found at i:50876531 original size:15 final size:15
Alignment explanation
Indices: 50876505--50876540 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
50876495 TTAATTTTAA
50876505 AATAATATTAAAAATT
1 AATAA-ATTAAAAATT
50876521 AATAAATTAAAAATT
1 AATAAATTAAAAATT
50876536 -ATAAA
1 AATAAA
50876541 ATTATATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 10 0.50
16 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAAATTAAAAATT
Found at i:50876542 original size:15 final size:15
Alignment explanation
Indices: 50876506--50876544 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
50876496 TAATTTTAAA
*
50876506 ATAATATTAAAAATT
1 ATAAAATTAAAAATT
50876521 A-ATAAATTAAAAATT
1 ATA-AAATTAAAAATT
50876536 ATAAAATTA
1 ATAAAATTA
50876545 TATAGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAAAATTAAAAATT
Found at i:50876546 original size:8 final size:7
Alignment explanation
Indices: 50876511--50876544 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
50876501 TTAAAATAAT
50876511 ATTAAAA
1 ATTAAAA
50876518 ATTAATAA
1 ATTAA-AA
50876526 ATTAAAA
1 ATTAAAA
50876533 ATTATAAA
1 ATTA-AAA
50876541 ATTA
1 ATTA
50876545 TATAGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
ATTAAAA
Found at i:50882264 original size:70 final size:73
Alignment explanation
Indices: 50882188--50882340 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 73
50882178 GTTCAATTTC
** *
50882188 TCAATTTAT-TCCGCTA-TTTT-TTACTTGTTGTTTAATAGGGTCGATCCCAACAAGTGGTATCA
1 TCAATTT-TCTCCGCTATTTTTGTTACTTGTTACTTAATAGGGTCGATCCCAACAAGTAGTATCA
*
50882250 GAGCTA-GT
65 GAGCCAGGT
* *
50882258 TCAATTTTCTCCGCTATTTTTTGTTACTTGTTACTTAATCGGGTCGATCCTAACAAGTAGTATCA
1 TCAATTTTCTCCGCTA-TTTTTGTTACTTGTTACTTAATAGGGTCGATCCCAACAAGTAGTATCA
50882323 GAGCCAGGT
65 GAGCCAGGT
50882332 TCAAGTTTT
1 TCAA-TTTT
50882341 ATAGATCAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
69 1 0.01
70 14 0.20
72 4 0.06
73 42 0.59
74 6 0.08
75 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (73 bp):
TCAATTTTCTCCGCTATTTTTGTTACTTGTTACTTAATAGGGTCGATCCCAACAAGTAGTATCAG
AGCCAGGT
Found at i:50889674 original size:10 final size:11
Alignment explanation
Indices: 50889634--50889673 Score: 64
Period size: 12 Copynumber: 3.6 Consensus size: 11
50889624 ATAAACAAAT
50889634 TAATTTTTA-A
1 TAATTTTTATA
50889644 TAATTTTTATA
1 TAATTTTTATA
50889655 TATATTTTTATA
1 TA-ATTTTTATA
50889667 TAATTTT
1 TAATTTT
50889674 AGAATTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:50895753 original size:3 final size:3
Alignment explanation
Indices: 50895747--50895782 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50895737 TCATTATTAC
50895747 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50895783 GCAGCTGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50897232 original size:6 final size:6
Alignment explanation
Indices: 50897223--50897261 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
50897213 TAAGTATAAG
* *
50897223 TATATT TATATT TATGTT TATATT TATA-T TAAATT TATA
1 TATATT TATATT TATATT TATATT TATATT TATATT TATA
50897262 ATGAAATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:50919863 original size:9 final size:9
Alignment explanation
Indices: 50919849--50919883 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
50919839 ACATATTATT
50919849 TTTAAATTA
1 TTTAAATTA
50919858 TTTAAATTA
1 TTTAAATTA
50919867 TTTAAATTA
1 TTTAAATTA
50919876 TTTAAATT
1 TTTAAATT
50919884 TAATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTTAAATTA
Found at i:50920971 original size:20 final size:20
Alignment explanation
Indices: 50920946--50920985 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
50920936 TATATTTTAC
50920946 ATGAAATATAAATTAGATGA
1 ATGAAATATAAATTAGATGA
*
50920966 ATGAAATATAAGTTAGATGA
1 ATGAAATATAAATTAGATGA
50920986 TGTATAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGAAATATAAATTAGATGA
Found at i:50926115 original size:24 final size:22
Alignment explanation
Indices: 50926088--50926144 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
50926078 ATTTATTATT
*
50926088 TTAAAAAAAACTTAAATTATACTA
1 TTAAAAAAAA--TAAATAATACTA
*
50926112 TTAAAAAATAATAAATAATACTT
1 TTAAAAAA-AATAAATAATACTA
50926135 TCTAAAAAAA
1 T-TAAAAAAA
50926145 TCGATTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 12 0.41
24 15 0.52
25 2 0.07
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (22 bp):
TTAAAAAAAATAAATAATACTA
Found at i:50933650 original size:68 final size:68
Alignment explanation
Indices: 50933541--50933681 Score: 237
Period size: 68 Copynumber: 2.1 Consensus size: 68
50933531 TAATTTATGT
* *
50933541 ATGATTTTTTAGCTACCTAATTATGATTTCGAGAATTTCCCTTTAGAACTACCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATATCGAGAATTTCCCTTTAGAACTACCAATATTAGAGAT
50933606 GAA
66 GAA
* * *
50933609 ATGATTTTGTAGCTATCTAATTATGATATCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAT
1 ATGATTTTGTAGCTACCTAATTATGATATCGAGAATTTCCCTTTAGAACTACCAATATTAGAGAT
50933674 GAA
66 GAA
50933677 ATGAT
1 ATGAT
50933682 ACATAATATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (68 bp):
ATGATTTTGTAGCTACCTAATTATGATATCGAGAATTTCCCTTTAGAACTACCAATATTAGAGAT
GAA
Found at i:50935499 original size:16 final size:16
Alignment explanation
Indices: 50935478--50935532 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
50935468 AAAGAATTAA
*
50935478 CTATTACGCCTCTATT
1 CTATTACGCATCTATT
50935494 CTATTACGCATCTATT
1 CTATTACGCATCTATT
** * *
50935510 CCGTTACACTTCTATT
1 CTATTACGCATCTATT
50935526 CTATTAC
1 CTATTAC
50935533 AGCGAACCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.22, C:0.29, G:0.05, T:0.44
Consensus pattern (16 bp):
CTATTACGCATCTATT
Found at i:50938244 original size:14 final size:14
Alignment explanation
Indices: 50938225--50938254 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50938215 TCTTCCATGT
50938225 TCATGTTGTTTTTC
1 TCATGTTGTTTTTC
50938239 TCATGTTGTTTTTC
1 TCATGTTGTTTTTC
50938253 TC
1 TC
50938255 GAGAAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.07, C:0.17, G:0.13, T:0.63
Consensus pattern (14 bp):
TCATGTTGTTTTTC
Found at i:50938453 original size:33 final size:33
Alignment explanation
Indices: 50938416--50938485 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
50938406 ATTACCAACA
50938416 GAAGTTACTTTGGATTATCATTAAAATCGTGTT
1 GAAGTTACTTTGGATTATCATTAAAATCGTGTT
50938449 GAAGTTACTTTGGATTATCATTAAAATCGTGTT
1 GAAGTTACTTTGGATTATCATTAAAATCGTGTT
50938482 GAAG
1 GAAG
50938486 AAACTACTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (33 bp):
GAAGTTACTTTGGATTATCATTAAAATCGTGTT
Found at i:50942089 original size:142 final size:143
Alignment explanation
Indices: 50941914--50942199 Score: 565
Period size: 142 Copynumber: 2.0 Consensus size: 143
50941904 TTCTTCCTGT
50941914 TTTGCTACTATTTTACTATTATATTGCTATTATTTTATTGTTATTATTTCGATATTGTATAAAAC
1 TTTGCTACTATTTTACTATTATATTGCTATTATTTTATTGTTATTATTTCGATATTGTATAAAAC
50941979 TTATTTTATTGTTAATTTTGTTATTATTTTAGAGACATTTACTTGTTAAGTTGTATTTATCTTAG
66 TTATTTTATTGTTAATTTTGTTATTATTTTAGAGACATTTACTTGTTAAGTTGTATTTATCTTAG
50942044 TGTTATTTAAGTC
131 TGTTATTTAAGTC
50942057 TTTGCTACTA-TTTACTATTATATTGCTATTATTTTATTGTTATTATTTCGATATTGTATAAAAC
1 TTTGCTACTATTTTACTATTATATTGCTATTATTTTATTGTTATTATTTCGATATTGTATAAAAC
50942121 TTATTTTATTGTTAATTTTGTTATTATTTTAGAGACATTTACTTGTTAAGTTGTATTTATCTTAG
66 TTATTTTATTGTTAATTTTGTTATTATTTTAGAGACATTTACTTGTTAAGTTGTATTTATCTTAG
50942186 TGTTATTTAAGTC
131 TGTTATTTAAGTC
50942199 T
1 T
50942200 ATATAATTTT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
142 133 0.93
143 10 0.07
ACGTcount: A:0.26, C:0.07, G:0.10, T:0.57
Consensus pattern (143 bp):
TTTGCTACTATTTTACTATTATATTGCTATTATTTTATTGTTATTATTTCGATATTGTATAAAAC
TTATTTTATTGTTAATTTTGTTATTATTTTAGAGACATTTACTTGTTAAGTTGTATTTATCTTAG
TGTTATTTAAGTC
Found at i:50943522 original size:20 final size:20
Alignment explanation
Indices: 50943499--50943538 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
50943489 TAAATAAAAT
50943499 AAAAAACAATATAATTAATA
1 AAAAAACAATATAATTAATA
50943519 AAAAAACAATATAATTAATA
1 AAAAAACAATATAATTAATA
50943539 TAATTATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAAACAATATAATTAATA
Found at i:50948541 original size:15 final size:17
Alignment explanation
Indices: 50948518--50948552 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
50948508 ATTCTCCCTT
50948518 AAATAATTAA-ATTTTA
1 AAATAATTAAGATTTTA
50948534 AAAT-ATTAAGATTTTA
1 AAATAATTAAGATTTTA
50948550 AAA
1 AAA
50948553 AACTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AAATAATTAAGATTTTA
Found at i:50952028 original size:25 final size:26
Alignment explanation
Indices: 50951994--50952042 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
50951984 CTTTATTTTT
50951994 AAAGAATTTGTTGATG-GGAAAAGCA
1 AAAGAATTTGTTGATGTGGAAAAGCA
50952019 AAAGAATTTGTTGATGTGGAAAAG
1 AAAGAATTTGTTGATGTGGAAAAG
50952043 TATGAGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.27
Consensus pattern (26 bp):
AAAGAATTTGTTGATGTGGAAAAGCA
Found at i:50952212 original size:16 final size:15
Alignment explanation
Indices: 50952191--50952224 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
50952181 ATAAAAATTC
* *
50952191 AAAAAATTGAATATA
1 AAAAAAATGAAAATA
50952206 AAAAAAATGAAAATA
1 AAAAAAATGAAAATA
50952221 AAAA
1 AAAA
50952225 GTTAAGTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AAAAAAATGAAAATA
Found at i:50952463 original size:18 final size:17
Alignment explanation
Indices: 50952417--50952464 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
50952407 TCAATTTTTG
50952417 TTTCTTTAATGTTTAAAA
1 TTTCTTTAAT-TTTAAAA
*
50952435 TTT-TTTAATTTTACAA
1 TTTCTTTAATTTTAAAA
50952451 TTTCTTGTAATTTT
1 TTTCTT-TAATTTT
50952465 GTAAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 8 0.30
18 10 0.37
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTCTTTAATTTTAAAA
Found at i:50952516 original size:21 final size:20
Alignment explanation
Indices: 50952472--50952518 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
50952462 TTTGTAAAAA
*
50952472 TTTAACCAAATTTATTTATT
1 TTTAAACAAATTTATTTATT
* *
50952492 TTTAAACATATTTAGTTTTTT
1 TTTAAACAAATTTA-TTTATT
50952513 TTTAAA
1 TTTAAA
50952519 TTTAACTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAACAAATTTATTTATT
Found at i:50952571 original size:26 final size:24
Alignment explanation
Indices: 50952536--50952595 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 24
50952526 AAATTTGTTA
50952536 TTTTTATTTTCAATTTTTTACATATTC
1 TTTTTATTTTCAA---TTTACATATTC
50952563 TTTTT-TTTTCAATTTACATATTC
1 TTTTTATTTTCAATTTACATATTC
50952586 TTTTTATTTT
1 TTTTTATTTT
50952596 TATTTTCAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 16 0.50
24 4 0.12
26 7 0.22
27 5 0.16
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTATTTTCAATTTACATATTC
Found at i:50952685 original size:21 final size:20
Alignment explanation
Indices: 50952647--50952685 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50952637 ATTTCTTATA
* *
50952647 TTTTTTTAACAAATTTTAAT
1 TTTTTTTAAAAAAATTTAAT
50952667 TTTTTTTAAAAAAAATTTA
1 TTTTTTT-AAAAAAATTTA
50952686 GGAATGGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTTAAAAAAATTTAAT
Found at i:50961792 original size:18 final size:18
Alignment explanation
Indices: 50961771--50961819 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
50961761 TGTTAAAAAA
*
50961771 ATATTATATTACTTATAT
1 ATATTATATTAATTATAT
*
50961789 ATATTAAATAATAATTATAT
1 ATATT--ATATTAATTATAT
50961809 ATATTTATATT
1 ATA-TTATATT
50961820 TATATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 5 0.20
19 4 0.16
20 14 0.56
21 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATATTAATTATAT
Found at i:50969495 original size:2 final size:2
Alignment explanation
Indices: 50969488--50969531 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
50969478 TTTATTTATA
50969488 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
50969530 AG
1 AG
50969532 TTTAGAAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50970242 original size:20 final size:19
Alignment explanation
Indices: 50970199--50970247 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
50970189 ATTATTTAAG
* * *
50970199 TAAATAATTCTAACCGCAA
1 TAAATAATTTTAAACACAA
50970218 TAAATAATTTTAAACACATA
1 TAAATAATTTTAAACACA-A
50970238 TAAATAATTT
1 TAAATAATTT
50970248 ATATTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAATAATTTTAAACACAA
Found at i:50971074 original size:21 final size:21
Alignment explanation
Indices: 50971050--50971094 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
50971040 TTTATACTTC
50971050 TTTTATAA-ATTTTTAAAATTT
1 TTTTATAATA-TTTTAAAATTT
* *
50971071 TTTTATATTATTTTATAATTT
1 TTTTATAATATTTTAAAATTT
50971092 TTT
1 TTT
50971095 ATATTTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATAATATTTTAAAATTT
Found at i:50971096 original size:10 final size:10
Alignment explanation
Indices: 50971040--50971097 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
50971030 TTGTAAAGCG
*
50971040 TTTATACTTCT
1 TTTATAATT-T
*
50971051 TTTATAAATT
1 TTTATAATTT
*
50971061 TTTAAAATTT
1 TTTATAATTT
50971071 TTT-TATATTAT
1 TTTATA-ATT-T
50971082 TTTATAATTT
1 TTTATAATTT
50971092 TTTATA
1 TTTATA
50971098 TTTGTTGACA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 1 0.03
10 22 0.56
11 14 0.36
12 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTATAATTT
Found at i:50973212 original size:20 final size:19
Alignment explanation
Indices: 50973162--50973218 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
50973152 TTAATTAGTT
* *
50973162 TTTTAAAATTTTATAAATAT
1 TTTTAATATTTTA-AAATAA
*
50973182 TTTTTATATTTTAAAATAA
1 TTTTAATATTTTAAAATAA
50973201 TTTTAATGATTTTTAAAA
1 TTTTAAT-A-TTTTAAAA
50973219 ATATATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 11 0.35
20 12 0.39
21 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTAATATTTTAAAATAA
Found at i:50973216 original size:21 final size:21
Alignment explanation
Indices: 50973162--50973240 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 21
50973152 TTAATTAGTT
*
50973162 TTTTAA-AATTTTATAAATAT-
1 TTTTAATATTTTTA-AAATATA
*
50973182 TTTTTATA-TTTTAAAATA-A
1 TTTTAATATTTTTAAAATATA
50973201 TTTTAATGATTTTTAAAAATATA
1 TTTTAAT-ATTTTT-AAAATATA
* *
50973224 TTTTTATTTTTTTAAAA
1 TTTTAATATTTTTAAAA
50973241 ATGAATTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 11 0.22
20 11 0.22
21 9 0.18
22 11 0.22
23 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TTTTAATATTTTTAAAATATA
Found at i:50973232 original size:20 final size:20
Alignment explanation
Indices: 50973170--50973234 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
50973160 TTTTTTAAAA
*
50973170 TTTTATAAATAT-TTTTTAT
1 TTTTAAAAATATATTTTTAT
50973189 ATTTT-AAAATA-ATTTTAATGAT
1 -TTTTAAAAATATATTTT--T-AT
50973211 TTTTAAAAATATATTTTTAT
1 TTTTAAAAATATATTTTTAT
50973231 TTTT
1 TTTT
50973235 TTAAAAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
19 9 0.24
20 10 0.26
21 6 0.16
22 8 0.21
23 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTAAAAATATATTTTTAT
Found at i:50973235 original size:22 final size:22
Alignment explanation
Indices: 50973170--50973242 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
50973160 TTTTTTAAAA
* *
50973170 TTTTATAAATAT-TTTTTA-TA
1 TTTTAAAAATATATTTTTATTT
* *
50973190 TTTT-AAAATA-ATTTTAATGAT
1 TTTTAAAAATATATTTTTAT-TT
50973211 TTTTAAAAATATATTTTTATTT
1 TTTTAAAAATATATTTTTATTT
50973233 TTTTAAAAAT
1 TTTTAAAAAT
50973243 GAATTAAATG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 10 0.24
20 4 0.10
21 4 0.10
22 17 0.40
23 7 0.17
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (22 bp):
TTTTAAAAATATATTTTTATTT
Found at i:50984010 original size:2 final size:2
Alignment explanation
Indices: 50984005--50984039 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50983995 ATATATGTAT
50984005 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
50984040 TGTTTTGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50986980 original size:1 final size:1
Alignment explanation
Indices: 50986944--50986971 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
50986934 ACGGTCGTTC
50986944 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
50986972 GTTCTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:50988015 original size:22 final size:23
Alignment explanation
Indices: 50987972--50988025 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
50987962 TAATTAAAAT
*
50987972 TAAAATTAAAATTATTTTGTTAA
1 TAAAATTAAAACTATTTTGTTAA
*
50987995 TAAAATTAAAACTA-TTTGTTAT
1 TAAAATTAAAACTATTTTGTTAA
50988017 TAAAATTAA
1 TAAAATTAA
50988026 TTGTTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
TAAAATTAAAACTATTTTGTTAA
Found at i:50988020 original size:16 final size:16
Alignment explanation
Indices: 50987999--50988037 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50987989 TGTTAATAAA
*
50987999 ATTAAAACTATTTGTT
1 ATTAAAACTAATTGTT
*
50988015 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
50988031 AGTAAAA
1 ATTAAAA
50988038 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:50988038 original size:16 final size:16
Alignment explanation
Indices: 50988010--50988040 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50988000 TTAAAACTAT
*
50988010 TTGTTATTAAAATTAA
1 TTGTTAGTAAAATTAA
50988026 TTGTTAGTAAAATTA
1 TTGTTAGTAAAATTA
50988041 TCAAATTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (16 bp):
TTGTTAGTAAAATTAA
Found at i:50988113 original size:66 final size:59
Alignment explanation
Indices: 50988043--50988162 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
50988033 TAAAATTATC
* * *
50988043 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
50988101 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
50988160 AAA
1 AAA
50988163 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:50991562 original size:2 final size:2
Alignment explanation
Indices: 50991549--50991592 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
50991539 ATAAGATAAG
*
50991549 GA GA GG GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
50991591 GA
1 GA
50991593 ATAGGAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50992068 original size:6 final size:6
Alignment explanation
Indices: 50992057--50992085 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
50992047 CTCACAACTT
50992057 CTTTTC CTTTTC CTTTTC CTTTTC CTTTT
1 CTTTTC CTTTTC CTTTTC CTTTTC CTTTT
50992086 TCCAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTTC
Found at i:50995457 original size:2 final size:2
Alignment explanation
Indices: 50995415--50995444 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
50995405 TTTCTATTTC
50995415 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50995445 TATTACCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51010592 original size:31 final size:29
Alignment explanation
Indices: 51010527--51010590 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
51010517 AATTTATATC
* *
51010527 TTTATAATTTTTAAAGGATTAAATTAAATT
1 TTTAT-ATTTTTAAAGAATTAAAATAAATT
51010557 TTTATATTTTTAAGGAGAATTAAAATATAATT
1 TTTATATTTTTAA--AGAATTAAAATA-AATT
51010589 TT
1 TT
51010591 ATTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.28
30 5 0.17
31 10 0.34
32 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (29 bp):
TTTATATTTTTAAAGAATTAAAATAAATT
Found at i:51021724 original size:3 final size:3
Alignment explanation
Indices: 51021716--51021753 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
51021706 TAATTTCACC
51021716 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
51021754 TAATCTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:51022104 original size:6 final size:6
Alignment explanation
Indices: 51022095--51022123 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
51022085 TATTCTCCCC
51022095 CTTTTT CTTTTT CTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
51022124 GCAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
CTTTTT
Found at i:51029146 original size:19 final size:19
Alignment explanation
Indices: 51029118--51029155 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
51029108 TTGGTGTTAC
51029118 CCTTACAACATATCATTGA
1 CCTTACAACATATCATTGA
*
51029137 CCTTATAACATATCATTGA
1 CCTTACAACATATCATTGA
51029156 TCCATTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (19 bp):
CCTTACAACATATCATTGA
Found at i:51035500 original size:14 final size:14
Alignment explanation
Indices: 51035481--51035528 Score: 87
Period size: 14 Copynumber: 3.4 Consensus size: 14
51035471 ATTGAGTTAT
51035481 GATTCAATCAATAA
1 GATTCAATCAATAA
51035495 GATTCAATCAATAA
1 GATTCAATCAATAA
51035509 GATTCAATCAATAA
1 GATTCAATCAATAA
*
51035523 AATTCA
1 GATTCA
51035529 TAATAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (14 bp):
GATTCAATCAATAA
Found at i:51036170 original size:14 final size:15
Alignment explanation
Indices: 51036145--51036174 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51036135 TTTCGGTGGT
51036145 AACAGAAAAAAAAAA
1 AACAGAAAAAAAAAA
51036160 AACAGAAAAAAAAAA
1 AACAGAAAAAAAAAA
51036175 TGTTTCGGAG
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:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AACAGAAAAAAAAAA
Found at i:51043091 original size:6 final size:6
Alignment explanation
Indices: 51043071--51043103 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
51043061 TATACGCAAC
*
51043071 AAATTT AAA-AT AAATAT AAATAT AAATAT AAAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAAT
51043104 TTAGATATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:51069650 original size:11 final size:11
Alignment explanation
Indices: 51069634--51069666 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
51069624 TTTTTGAATA
51069634 ATTTAATAATT
1 ATTTAATAATT
51069645 ATTTAATAATT
1 ATTTAATAATT
*
51069656 TTTTAA-AATT
1 ATTTAATAATT
51069666 A
1 A
51069667 AACAACCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTAATAATT
Found at i:51080389 original size:51 final size:51
Alignment explanation
Indices: 51080334--51080436 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
51080324 AAACCCAATT
* * *
51080334 GGATTAACCAA-CTCCATTTCATAATCATACATTTGATGAGAAATCGGATCC
1 GGATTAACCAAGC-CCAATTCATAATCATACATTTGACGAGAAACCGGATCC
*
51080385 GGATTAACCAAGCCCAATTCATAATCATACGTTTGACGAGAAACCGGATCC
1 GGATTAACCAAGCCCAATTCATAATCATACATTTGACGAGAAACCGGATCC
51080436 G
1 G
51080437 AAAGAGTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 46 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (51 bp):
GGATTAACCAAGCCCAATTCATAATCATACATTTGACGAGAAACCGGATCC
Found at i:51080723 original size:20 final size:20
Alignment explanation
Indices: 51080677--51080724 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
51080667 CGTCGGAACC
**
51080677 CTAATTTTGTTGGTGTTGAAA
1 CTAA-TTTGTTGGTACTGAAA
* *
51080698 CCAATTTGTTGGTACTGAGA
1 CTAATTTGTTGGTACTGAAA
51080718 CTAATTT
1 CTAATTT
51080725 CCATGGAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.25, C:0.10, G:0.21, T:0.44
Consensus pattern (20 bp):
CTAATTTGTTGGTACTGAAA
Found at i:51084367 original size:75 final size:75
Alignment explanation
Indices: 51084215--51084372 Score: 302
Period size: 73 Copynumber: 2.1 Consensus size: 75
51084205 AAGCTGTTTT
51084215 AAAAAATTATTGTCTTTTTTTAATATTTTACTATATATTTATAAGACAATTATCAACCTCCTGAT
1 AAAAAATTATTGTCTTTTTTTAATATTTTACTATATATTTATAAGACAATTATCAACCTCCTGAT
51084280 TTGATAATAA
66 TTGATAATAA
51084290 AAAAAATTA-T-TCTTTTTTTAATATTTTACTATATATTTATAAGACAATTATCAACCTCCTGAT
1 AAAAAATTATTGTCTTTTTTTAATATTTTACTATATATTTATAAGACAATTATCAACCTCCTGAT
51084353 TTGATAATAA
66 TTGATAATAA
51084363 AAAAAATTAT
1 AAAAAATTAT
51084373 ATTAATATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
73 72 0.88
74 1 0.01
75 9 0.11
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.44
Consensus pattern (75 bp):
AAAAAATTATTGTCTTTTTTTAATATTTTACTATATATTTATAAGACAATTATCAACCTCCTGAT
TTGATAATAA
Found at i:51085670 original size:16 final size:17
Alignment explanation
Indices: 51085636--51085673 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
51085626 CGATAAATTC
51085636 AATTTTATATAACTAAT
1 AATTTTATATAACTAAT
51085653 AATTTTAT-TATA-TAAT
1 AATTTTATATA-ACTAAT
51085669 AATTT
1 AATTT
51085674 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTATATAACTAAT
Found at i:51085850 original size:19 final size:22
Alignment explanation
Indices: 51085809--51085850 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
51085799 ATATAAATAC
*
51085809 TTTTTAATTATATATTATGTAA
1 TTTTTAATTATATAATATGTAA
51085831 TTTTTAA-TATA-AATAT-TAA
1 TTTTTAATTATATAATATGTAA
51085850 T
1 T
51085851 GTGATAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 4 0.21
21 4 0.21
22 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTTAATTATATAATATGTAA
Found at i:51097928 original size:25 final size:25
Alignment explanation
Indices: 51097899--51097946 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
51097889 AAATATTTTA
*
51097899 TTAAAATATATTTTTATAATTAAAT
1 TTAAAAAATATTTTTATAATTAAAT
51097924 TTAAAAAATATTTTTATAATTAA
1 TTAAAAAATATTTTTATAATTAA
51097947 TCTTACTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAAAAAATATTTTTATAATTAAAT
Found at i:51109194 original size:23 final size:23
Alignment explanation
Indices: 51109168--51109214 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
51109158 TTTAAAAATA
51109168 ATATTTTAATTCAAAAAAGGGTG
1 ATATTTTAATTCAAAAAAGGGTG
51109191 ATATTTTAATTCAAAAAAGGGTG
1 ATATTTTAATTCAAAAAAGGGTG
51109214 A
1 A
51109215 CGCTAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (23 bp):
ATATTTTAATTCAAAAAAGGGTG
Found at i:51109755 original size:25 final size:25
Alignment explanation
Indices: 51109702--51109760 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
51109692 CTCGATCATT
*
51109702 ATTAT-AAATATTAAAGAATTTATA
1 ATTATAAAATATTAAAGAAATTATA
51109726 ATTATAAAATATTTAAA-AAATTA-A
1 ATTATAAAATA-TTAAAGAAATTATA
51109750 ATTTATAAAAT
1 A-TTATAAAAT
51109761 TAAAACAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
ATTATAAAATATTAAAGAAATTATA
Found at i:51113617 original size:20 final size:20
Alignment explanation
Indices: 51113592--51113630 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51113582 TTTAATTAAC
51113592 TTTTTA-AAATTATAAAAATA
1 TTTTTATAAATT-TAAAAATA
*
51113612 TTTTTATATATTTAAAAAT
1 TTTTTATAAATTTAAAAAT
51113631 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTTATAAATTTAAAAATA
Found at i:51116375 original size:1 final size:1
Alignment explanation
Indices: 51116369--51116404 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
51116359 AGCATTATGG
51116369 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
51116405 AAAAACAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:51116457 original size:1 final size:1
Alignment explanation
Indices: 51116422--51116449 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
51116412 AAGAATGATG
51116422 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
51116450 AGTTTTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:51125765 original size:19 final size:21
Alignment explanation
Indices: 51125722--51125767 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
51125712 ATTACTCCAT
* *
51125722 ATTTATATTATGTGTTATAAA
1 ATTTATATTATATATTATAAA
51125743 ATTTATATT-TATATTAT-AA
1 ATTTATATTATATATTATAAA
51125762 ATTTAT
1 ATTTAT
51125768 TCAAATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 6 0.26
21 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTATATTATATATTATAAA
Found at i:51138545 original size:2 final size:2
Alignment explanation
Indices: 51138538--51138566 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51138528 TCAGAACCCA
51138538 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
51138567 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:51146766 original size:1 final size:1
Alignment explanation
Indices: 51146762--51146797 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
51146752 CCTCCCCCAT
**
51146762 AAAAAAAAAAAAAAAAAAAAAACCAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
51146798 TCCTCAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:51152161 original size:18 final size:17
Alignment explanation
Indices: 51152138--51152172 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51152128 TTAACTTATA
51152138 TAATTTTTATAAACATTT
1 TAATTTTTATAAA-ATTT
*
51152156 TAATTTTTTTAAAATTT
1 TAATTTTTATAAAATTT
51152173 ACCCCACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTTTTATAAAATTT
Found at i:51152631 original size:13 final size:13
Alignment explanation
Indices: 51152613--51152640 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
51152603 CAACGTTCGG
51152613 TGCAGGTGGGCAA
1 TGCAGGTGGGCAA
51152626 TGCAGGTGGGCAA
1 TGCAGGTGGGCAA
51152639 TG
1 TG
51152641 TTGAATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.46, T:0.18
Consensus pattern (13 bp):
TGCAGGTGGGCAA
Found at i:51155646 original size:25 final size:25
Alignment explanation
Indices: 51155575--51155648 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
51155565 GATAGCCAAT
*
51155575 TAATCGGGAAGCTCATGAAAGAGCCTT
1 TAATCGGGAAGCTCAT--AAGAGCCTA
**
51155602 TAATCGGGAAGCTCCGAAGAGCC-A
1 TAATCGGGAAGCTCATAAGAGCCTA
*
51155626 TATATCGGGACGCTCATAAGAGC
1 TA-ATCGGGAAGCTCATAAGAGC
51155649 TGCGGTGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 2 0.05
25 24 0.60
27 14 0.35
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (25 bp):
TAATCGGGAAGCTCATAAGAGCCTA
Found at i:51163171 original size:13 final size:12
Alignment explanation
Indices: 51163153--51163183 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
51163143 ACTTAAACTG
51163153 ATTAACTAATTTA
1 ATTAACTAA-TTA
51163166 ATTAACTAATTA
1 ATTAACTAATTA
51163178 ATTAAC
1 ATTAAC
51163184 CCATACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (12 bp):
ATTAACTAATTA
Found at i:51167652 original size:21 final size:22
Alignment explanation
Indices: 51167610--51167652 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
51167600 AAATATGATC
51167610 AAAATAATATAATATATTTTAT
1 AAAATAATATAATATATTTTAT
51167632 AAAATTAATATAAT-T-TTTTAT
1 AAAA-TAATATAATATATTTTAT
51167653 TATCGACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 5 0.25
23 9 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATAATATAATATATTTTAT
Found at i:51168121 original size:12 final size:12
Alignment explanation
Indices: 51168106--51168135 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51168096 TTCCTTCACG
51168106 TTTCCCTTTCTC
1 TTTCCCTTTCTC
*
51168118 TTTCTCTTTCTC
1 TTTCCCTTTCTC
51168130 TTTCCC
1 TTTCCC
51168136 ATTGTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCCCTTTCTC
Found at i:51175973 original size:15 final size:15
Alignment explanation
Indices: 51175953--51175982 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51175943 CAAAATTTTC
51175953 AAAAGTATTTCTCCA
1 AAAAGTATTTCTCCA
51175968 AAAAGTATTTCTCCA
1 AAAAGTATTTCTCCA
51175983 CAACACTTTT
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:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
AAAAGTATTTCTCCA
Found at i:51176570 original size:6 final size:6
Alignment explanation
Indices: 51176559--51176598 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
51176549 GGAAAAAAAA
51176559 ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTG
1 ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTGTG ATTG
51176599 ATATAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
ATTGTG
Found at i:51181857 original size:31 final size:31
Alignment explanation
Indices: 51181821--51181880 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
51181811 ACTTAAAGTT
* *
51181821 TTTTTTTTTCAATTTGGTATCTAAACTTAACA
1 TTTTTTCTT-AATTTGATATCTAAACTTAACA
51181853 TTTTTTCTTAATTTGATATCTAAACTTA
1 TTTTTTCTTAATTTGATATCTAAACTTA
51181881 TTTAGTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTTTTCTTAATTTGATATCTAAACTTAACA
Found at i:51186143 original size:93 final size:93
Alignment explanation
Indices: 51186060--51186253 Score: 379
Period size: 93 Copynumber: 2.1 Consensus size: 93
51186050 GGTGGTGTTG
51186060 GTGTTGGTGTTGCTACCGACGATGACGATGATGGTGCTATCGTAGATGCTATTTGTGATGATGAT
1 GTGTTGGTGTTGCTACCGACGATGACGATGATGGTGCTATCGTAGATGCTATTTGTGATGATGAT
*
51186125 TGTGCTGGCACTTCTGTTGTTGCTGATT
66 TGTGCTGGCACTACTGTTGTTGCTGATT
51186153 GTGTTGGTGTTGCTACCGACGATGACGATGATGGTGCTATCGTAGATGCTATTTGTGATGATGAT
1 GTGTTGGTGTTGCTACCGACGATGACGATGATGGTGCTATCGTAGATGCTATTTGTGATGATGAT
51186218 TGTGCTGGCACTACTGTTGTTGCTGATT
66 TGTGCTGGCACTACTGTTGTTGCTGATT
51186246 GTGTTGGT
1 GTGTTGGT
51186254 TCTGGTGGTG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 100 1.00
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (93 bp):
GTGTTGGTGTTGCTACCGACGATGACGATGATGGTGCTATCGTAGATGCTATTTGTGATGATGAT
TGTGCTGGCACTACTGTTGTTGCTGATT
Found at i:51186410 original size:36 final size:36
Alignment explanation
Indices: 51186370--51186445 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
51186360 TTGTAGCCGC
* * *
51186370 TGATTGTGTTGGA-GATGGTGTTGCTGTTGTAGATGA
1 TGATTGTGAT-GATGATGATGTTGCTGTTGCAGATGA
* *
51186406 TGATTGTGATGATGTTGATGTTGTTGTTGCAGATGA
1 TGATTGTGATGATGATGATGTTGCTGTTGCAGATGA
51186442 TGAT
1 TGAT
51186446 GATGGTATGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.18, C:0.03, G:0.36, T:0.43
Consensus pattern (36 bp):
TGATTGTGATGATGATGATGTTGCTGTTGCAGATGA
Found at i:51186458 original size:24 final size:24
Alignment explanation
Indices: 51186413--51186458 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
51186403 TGATGATTGT
* * * *
51186413 GATGATGTTGATGTTGTTGTTGCA
1 GATGATGATGATGGTATGGTTGCA
51186437 GATGATGATGATGGTATGGTTG
1 GATGATGATGATGGTATGGTTG
51186459 TAGGTGCTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (24 bp):
GATGATGATGATGGTATGGTTGCA
Found at i:51186469 original size:27 final size:30
Alignment explanation
Indices: 51186439--51186517 Score: 76
Period size: 33 Copynumber: 2.6 Consensus size: 30
51186429 TTGTTGCAGA
51186439 TGATGATGATGGTA-TGGTT-GTA-GGTGC
1 TGATGATGATGGTAGTGGTTGGTACGGTGC
*
51186466 TGATCG-TGATGGTGATTGTGTTGGTACTGGTGC
1 TGAT-GATGATGGT-AGTG-GTTGGTAC-GGTGC
*
51186499 AGATGATGATGGTAGTGGT
1 TGATGATGATGGTAGTGGT
51186518 ATCGTTGCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
27 11 0.26
28 2 0.05
29 2 0.05
30 3 0.07
31 5 0.12
32 4 0.10
33 15 0.36
ACGTcount: A:0.18, C:0.05, G:0.41, T:0.37
Consensus pattern (30 bp):
TGATGATGATGGTAGTGGTTGGTACGGTGC
Found at i:51188877 original size:17 final size:19
Alignment explanation
Indices: 51188855--51188897 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
51188845 AGGATAAAAT
*
51188855 TAAATTATTT-GCA-TTTG
1 TAAATTATTTGGAATTTTG
51188872 TAAATTATTTGGAATTTTG
1 TAAATTATTTGGAATTTTG
51188891 TAAATTA
1 TAAATTA
51188898 AATTATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (19 bp):
TAAATTATTTGGAATTTTG
Found at i:51191906 original size:30 final size:30
Alignment explanation
Indices: 51191872--51191931 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
51191862 CCCATCTCAG
51191872 AAAATAAAAAAACTCCAATAACATCAACTT
1 AAAATAAAAAAACTCCAATAACATCAACTT
51191902 AAAATAAAAAAACTCCAATAACATCAACTT
1 AAAATAAAAAAACTCCAATAACATCAACTT
51191932 TCAAACGGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (30 bp):
AAAATAAAAAAACTCCAATAACATCAACTT
Found at i:51192998 original size:1 final size:1
Alignment explanation
Indices: 51192958--51192985 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
51192948 NNNNNNNNNG
51192958 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
51192986 CAATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:51197289 original size:13 final size:13
Alignment explanation
Indices: 51197271--51197316 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
51197261 AGTTTTTTAT
51197271 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
51197284 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
51197297 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
51197310 TGCTTTT
1 TGCTTTT
51197317 CTTTGGTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:51198016 original size:28 final size:28
Alignment explanation
Indices: 51197985--51198044 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
51197975 ATATTTATAC
51197985 ACATTTATTTACCATTTGTTTAACATAA
1 ACATTTATTTACCATTTGTTTAACATAA
*
51198013 ACATTTATTTACCATTTGTTTAACATAC
1 ACATTTATTTACCATTTGTTTAACATAA
51198041 ACAT
1 ACAT
51198045 ATTAGATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (28 bp):
ACATTTATTTACCATTTGTTTAACATAA
Found at i:51201496 original size:4 final size:4
Alignment explanation
Indices: 51201478--51201515 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
51201468 AAAAGAGTTG
51201478 ATTT ATTGT -TTT ATTT ATTT ATTT ATTT ATTT ATTT AT
1 ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
51201516 AAAAATATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 1 0.03
4 30 0.94
5 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:51202889 original size:13 final size:13
Alignment explanation
Indices: 51202871--51202895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51202861 AGTTGTTGAT
51202871 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
51202884 TGCTTTTGAAAA
1 TGCTTTTGAAAA
51202896 ATTTGGTTTA
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:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:51205317 original size:15 final size:15
Alignment explanation
Indices: 51205297--51205347 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
51205287 ATCAAAATAA
51205297 TATAAAATAATTAAT
1 TATAAAATAATTAAT
51205312 TATAAAA-AATGT-AT
1 TATAAAATAAT-TAAT
*
51205326 GA-AAAATAAATTAAT
1 TATAAAAT-AATTAAT
51205341 TATAAAA
1 TATAAAA
51205348 ATAGGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 14 0.48
16 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
TATAAAATAATTAAT
Found at i:51206591 original size:24 final size:24
Alignment explanation
Indices: 51206544--51206592 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
51206534 TCGTTCTTCT
* *
51206544 AAAATTTAAAAAATATAATTATAC
1 AAAATTAAAAAAATATAATAATAC
51206568 AAAATTAAAAAAAT-TAATAAATAC
1 AAAATTAAAAAAATATAAT-AATAC
51206592 A
1 A
51206593 TAGAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTAAAAAAATATAATAATAC
Found at i:51212474 original size:25 final size:25
Alignment explanation
Indices: 51212441--51212494 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
51212431 TTACATTTTG
*
51212441 CATT-GACAAAAATGATTCACTAAA
1 CATTAGACAAAAATGATCCACTAAA
*
51212465 CATTAGACAAAAATGATCCACTAAG
1 CATTAGACAAAAATGATCCACTAAA
51212490 CATTA
1 CATTA
51212495 CGTGGAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.24
Consensus pattern (25 bp):
CATTAGACAAAAATGATCCACTAAA
Found at i:51214000 original size:3 final size:3
Alignment explanation
Indices: 51213992--51214030 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
51213982 CCAATGAAAG
51213992 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
51214031 GGCATTGCTC
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:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.