Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 172 of 770
Found at i:51224656 original size:5 final size:5
Alignment explanation
Indices: 51224648--51224678 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
51224638 TTGGTTATGG
51224648 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
51224679 AAAAAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:51230661 original size:17 final size:18
Alignment explanation
Indices: 51230624--51230661 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
51230614 ATTTGAAAAA
*
51230624 TCATTTTATAAATTTTGT
1 TCATTTTATAAATTTTAT
*
51230642 TCATTTT-TAACTTTTAT
1 TCATTTTATAAATTTTAT
51230659 TCA
1 TCA
51230662 AAACCACTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (18 bp):
TCATTTTATAAATTTTAT
Found at i:51231417 original size:8 final size:8
Alignment explanation
Indices: 51231404--51231433 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
51231394 TAAGTAAATA
51231404 TATTATAT
1 TATTATAT
51231412 TATTATAT
1 TATTATAT
51231420 TATTATTAT
1 TATTA-TAT
51231429 TATTA
1 TATTA
51231434 AACATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATAT
Found at i:51233509 original size:19 final size:20
Alignment explanation
Indices: 51233472--51233509 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
51233462 TGAGGGACAA
*
51233472 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
51233492 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
51233510 AAATGTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:51236768 original size:20 final size:19
Alignment explanation
Indices: 51236729--51236770 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
51236719 GAGAATCGGC
51236729 AAGAGGAGAAAGAAGAGAG
1 AAGAGGAGAAAGAAGAGAG
51236748 AAGAGG-GAAAGAGATGAGAG
1 AAGAGGAGAAAGA-A-GAGAG
51236768 AAG
1 AAG
51236771 GATAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.55, C:0.00, G:0.43, T:0.02
Consensus pattern (19 bp):
AAGAGGAGAAAGAAGAGAG
Found at i:51238635 original size:45 final size:45
Alignment explanation
Indices: 51238480--51238746 Score: 271
Period size: 44 Copynumber: 6.0 Consensus size: 45
51238470 AGCTCGTACA
* ** * *
51238480 ATGCCAACGTCCCAGACATGGTCTTACGTG-TAATCA-AATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACTATATCG
* * *
51238523 ATGCC-ACTGTCCCAGACATGGTCTTACGCGTAAATCACTA-ATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGAAAATCACTATATCG
**
51238567 ATGCCAATATCCCAGAC-TCGGTCTTACACG-AAATCACGTATATCG
1 ATGCCAACGTCCCAGACGT-GGTCTTACACGAAAATCAC-TATATCG
* *
51238612 CTGCCAACGTCCCAAACGTGGTCTTACACGAAAATCACTA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACTATATCG
** * * *
51238656 ATGCCAATATCCCAAATGCGGTCTTACACG-AAATCACGTATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC-TATATCG
*
51238701 CTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC-TATATCG
51238747 CTCTTTGATA
Statistics
Matches: 190, Mismatches: 22, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
42 2 0.01
43 41 0.22
44 65 0.34
45 60 0.32
46 22 0.12
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACTATATCG
Found at i:51238647 original size:89 final size:89
Alignment explanation
Indices: 51238517--51238738 Score: 358
Period size: 89 Copynumber: 2.5 Consensus size: 89
51238507 GTGTAATCAA
* * * *
51238517 ATATCGATGCC-ACTGTCCCAGACATGGTCTTACGCGTAAATCACTAATCGATGCCAATATCCCA
1 ATATCGCTGCCAAC-GTCCCAGACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCA
*
51238581 GACT-CGGTCTTACACGAAATCACGT
65 -AATGCGGTCTTACACGAAATCACGT
*
51238606 ATATCGCTGCCAACGTCCCAAACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAA
1 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAA
51238671 ATGCGGTCTTACACGAAATCACGT
66 ATGCGGTCTTACACGAAATCACGT
51238695 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC
1 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC
51238739 ATATATCGCT
Statistics
Matches: 124, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
88 2 0.02
89 120 0.97
90 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (89 bp):
ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACTAATCGATGCCAATATCCCAA
ATGCGGTCTTACACGAAATCACGT
Found at i:51239149 original size:38 final size:38
Alignment explanation
Indices: 51238924--51239149 Score: 299
Period size: 38 Copynumber: 5.9 Consensus size: 38
51238914 GAATCTAGTC
* * * * *
51238924 ACCAGCACAAAACCTGCGAGACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* * *
51238964 ACCAGCACTAAGCCTGCGAGATTTAACCCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
51239002 ACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
51239040 ACCAGCATGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
** * *
51239078 ACCAGCACGAAGCCTATGCGATTTAACCTGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
51239116 ACCAGCACGAAACCTGCGGGATTTAACCCGGATA
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATA
51239150 CACATCAAAT
Statistics
Matches: 167, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 143 0.86
39 5 0.03
40 19 0.11
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:51244189 original size:20 final size:21
Alignment explanation
Indices: 51244149--51244191 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
51244139 AATATCATTC
*
51244149 AAAATATTAAAAATTATTTAA
1 AAAATAGTAAAAATTATTTAA
*
51244170 AAAATAGTAAAATTTA-TTAA
1 AAAATAGTAAAAATTATTTAA
51244190 AA
1 AA
51244192 GTTATTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAGTAAAAATTATTTAA
Found at i:51246950 original size:17 final size:17
Alignment explanation
Indices: 51246892--51246950 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
51246882 TAATAAATTT
51246892 AAAATATAA-TATATAA
1 AAAATATAATTATATAA
51246908 TAAAA-ATATATT-TAT-A
1 -AAAATATA-ATTATATAA
*
51246924 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
51246942 AAAATATAA
1 AAAATATAA
51246951 AATATATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 18 0.53
18 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:51247478 original size:17 final size:18
Alignment explanation
Indices: 51247425--51247522 Score: 128
Period size: 17 Copynumber: 5.5 Consensus size: 18
51247415 AATCATATCT
*
51247425 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
51247444 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
51247462 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
51247479 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
* *
51247497 TTTAAGATT-ATATCATA
1 TCTAAGATTGCTATCATA
51247514 TCTAAGATT
1 TCTAAGATT
51247523 ACATATCATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
17 30 0.43
18 30 0.43
19 10 0.14
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:51247483 original size:35 final size:35
Alignment explanation
Indices: 51247425--51247531 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 35
51247415 AATCATATCT
51247425 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
51247462 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* * *
51247497 TTTAAGATTATATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
51247532 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 51 0.77
36 5 0.08
37 10 0.15
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:51248064 original size:83 final size:83
Alignment explanation
Indices: 51247932--51248257 Score: 526
Period size: 83 Copynumber: 3.9 Consensus size: 83
51247922 CTTGAACCCA
** * * * *
51247932 TTTGAGAATGTTTGAGAGTTATATCTGCCATGTCCTCAATTTGTCCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
*
51247997 CAAACCATCTTGAGTTTG
66 CAAACCATCTTGAGTCTG
* * *
51248015 TTTGAGAACATTTGAGAGTCATATCTGCAATATCCTTGATTCGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
*
51248080 CAAACCATCTTGAGTCTA
66 CAAACCATCTTGAGTCTG
* *
51248098 TTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
51248163 CAAACCATCTTGAGTCTG
66 CAAACCATCTTGAGTCTG
*
51248181 TTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
51248246 CAAACCATCTTG
66 CAAACCATCTTG
51248258 GATCTGCTTC
Statistics
Matches: 225, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 225 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGAGTCTG
Found at i:51248392 original size:119 final size:119
Alignment explanation
Indices: 51248181--51248442 Score: 443
Period size: 119 Copynumber: 2.2 Consensus size: 119
51248171 CTTGAGTCTG
* * * * * * *
51248181 TTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
51248246 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
51248300 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
51248365 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
51248419 TTTGAGAACGTCTGAGAGTCAAAT
1 TTTGAGAACGTCTGAGAGTCAAAT
51248443 TGTAACACCC
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
119 134 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:51249905 original size:29 final size:29
Alignment explanation
Indices: 51249866--51249944 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
51249856 CTTAATAATC
*
51249866 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
51249896 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
51249925 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
51249945 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:51257689 original size:29 final size:29
Alignment explanation
Indices: 51257650--51257728 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
51257640 CTTAATAATC
*
51257650 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
51257680 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
51257709 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
51257729 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:51258866 original size:17 final size:18
Alignment explanation
Indices: 51258829--51258866 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
51258819 CACTTTTTTT
51258829 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
51258848 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
51258865 TT
1 TT
51258867 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:51265485 original size:29 final size:29
Alignment explanation
Indices: 51265446--51265524 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
51265436 CTTAATAATC
*
51265446 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
51265476 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
51265505 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
51265525 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:51266662 original size:17 final size:18
Alignment explanation
Indices: 51266625--51266662 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
51266615 CACTTTTTTT
51266625 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
51266644 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
51266661 TT
1 TT
51266663 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:51273278 original size:29 final size:29
Alignment explanation
Indices: 51273239--51273317 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
51273229 CTTAATAATC
*
51273239 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
51273269 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
51273298 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
51273318 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:51274941 original size:44 final size:44
Alignment explanation
Indices: 51274893--51275072 Score: 159
Period size: 44 Copynumber: 4.1 Consensus size: 44
51274883 TAAAGGTTAG
*
51274893 ATCTGCTATCTTCGATCTATTCCCTATAAATACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
* * *
51274937 ATCTGCTATCTTC-AACTTGTTCTCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TATTCCCTATAAACACAGGGATGCCAA
** * * * * * * * *
51274979 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCT-ATTCCCTATAAACACAGGGATGCCAA
* * *
51275025 ATCTACTATCTTTGATCTATTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
51275069 ATCT
1 ATCT
51275073 TGTTTCTTTG
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 12 0.12
44 77 0.74
45 11 0.11
46 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
Found at i:51275952 original size:8 final size:8
Alignment explanation
Indices: 51275939--51276000 Score: 74
Period size: 8 Copynumber: 7.8 Consensus size: 8
51275929 GGCCTCTCCA
51275939 TTTTTTCT
1 TTTTTTCT
51275947 TTTTTTCT
1 TTTTTTCT
*
51275955 CTTTATT-T
1 -TTTTTTCT
*
51275963 TTTTCTCT
1 TTTTTTCT
51275971 TTTTCTT-T
1 TTTT-TTCT
51275979 TTTTTTCT
1 TTTTTTCT
51275987 TTTTTTCT
1 TTTTTTCT
51275995 TTTTTT
1 TTTTTT
51276001 TTGAAATAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.13
8 34 0.74
9 6 0.13
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:51275965 original size:14 final size:12
Alignment explanation
Indices: 51275941--51276002 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 12
51275931 CCTCTCCATT
51275941 TTTTCTTTTTTTC
1 TTTT-TTTTTTTC
51275954 TCTTTATTTTTTTC
1 T-TTT-TTTTTTTC
51275968 TCTTTTTCTTTTT-
1 T-TTTTT-TTTTTC
51275981 TTTTCTTTTTTTC
1 TTTT-TTTTTTTC
51275994 TTTTTTTTT
1 TTTTTTTTT
51276003 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
12 13 0.30
13 10 0.23
14 21 0.48
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:51275979 original size:16 final size:16
Alignment explanation
Indices: 51275940--51276000 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 16
51275930 GCCTCTCCAT
51275940 TTTTTCTTTTTTTCTC
1 TTTTTCTTTTTTTCTC
*
51275956 --TTTATTTTTTTCTC
1 TTTTTCTTTTTTTCTC
*
51275970 TTTTTCTTTTTTTTTCTT
1 TTTTTC--TTTTTTTCTC
51275988 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
51276001 TTGAAATAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 13 0.34
16 10 0.26
18 15 0.39
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTTTTCTC
Found at i:51275983 original size:18 final size:18
Alignment explanation
Indices: 51275960--51276002 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
51275950 TTTCTCTTTA
51275960 TTTTTTTCTCTTTTTCTT
1 TTTTTTTCTCTTTTTCTT
*
51275978 TTTTTTTCTTTTTTTCTT
1 TTTTTTTCTCTTTTTCTT
51275996 TTTTTTT
1 TTTTTTT
51276003 GAAATAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTCTCTTTTTCTT
Found at i:51281802 original size:17 final size:17
Alignment explanation
Indices: 51281771--51281827 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
51281761 TAATAAATTT
*
51281771 AAAATATAATATATAATA
1 AAAATAT-ATTTATAATA
*
51281789 AAAATATATTTATAAGA
1 AAAATATATTTATAATA
*
51281806 ATAATA-A-TTAT-ATA
1 AAAATATATTTATAATA
51281820 AAAATATA
1 AAAATATA
51281828 AAATATATTG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.21
15 5 0.15
16 1 0.03
17 13 0.39
18 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATATTTATAATA
Found at i:51282354 original size:17 final size:18
Alignment explanation
Indices: 51282301--51282398 Score: 128
Period size: 17 Copynumber: 5.5 Consensus size: 18
51282291 AATCATATCT
*
51282301 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
* *
51282320 TCTAATATTGCAATCATA
1 TCTAAGATTGCTATCATA
51282338 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
51282355 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
51282373 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
51282390 TCTAAGATT
1 TCTAAGATT
51282399 ACATATCATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 30 0.43
18 30 0.43
19 9 0.13
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:51282359 original size:35 final size:35
Alignment explanation
Indices: 51282301--51282407 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 35
51282291 AATCATATCT
*
51282301 TCTAAGATTGTATATCATATCTAATATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
51282338 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
51282373 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
51282408 TGAAGATTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 51 0.77
36 5 0.08
37 10 0.15
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.40
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:51285039 original size:40 final size:40
Alignment explanation
Indices: 51284974--51285108 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
51284964 CAGATGTAAC
* *
51284974 AACCAGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
51285014 AACCCGCACGAATGCCTTCGAGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
51285054 AACCCGCACGAATGCCTTCGGGACTTAACCCGATTATATT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
51285094 AACCCGCATGAATGC
1 AACCCGCACGAATGC
51285109 TATGCACATA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:51293123 original size:40 final size:40
Alignment explanation
Indices: 51293060--51293194 Score: 243
Period size: 40 Copynumber: 3.4 Consensus size: 40
51293050 CAGATGTAAC
* *
51293060 AACCAGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
51293100 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
51293140 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTGTAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
51293180 AACCCGCACGAATGC
1 AACCCGCACGAATGC
51293195 TATGTACATA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:51295556 original size:40 final size:40
Alignment explanation
Indices: 51295512--51295725 Score: 245
Period size: 40 Copynumber: 5.3 Consensus size: 40
51295502 CTCGCACAAG
* * * *
51295512 GCCTTCGGGTCTTAGCCCGG-ATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
* * *
51295552 GCCTTCGGGTCTTAGCCCGG-ATATAGCAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAAT
* *
51295592 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
* *
51295632 GCCTTCGGGACTTAGCCCAGAATTTGTAACTCA-CACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACT-AGCACAAAT
* * *
51295672 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACACAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
*
51295712 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
51295726 ACCCCGTTAG
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 150 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAAT
Found at i:51295725 original size:120 final size:119
Alignment explanation
Indices: 51295501--51295725 Score: 278
Period size: 120 Copynumber: 1.9 Consensus size: 119
51295491 CGGATTAACC
* * * * *
51295501 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGAATATGGTAACTAGCACAAATGCCTTCGGGACTTA
*
51295566 GCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
51295620 ACTCGCACCAATGCCTTCGGGACTTAGCCCAGAAT-TTGTAACTCA-CACAAATGCCTTCGGGAC
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCC-GAATATGGTAACT-AGCACAAATGCCTTCGGGAC
* * *
51295683 TTAGCCCGGA-ATTAATC-ACTAGCACACATGTCTTCGGGACTTA
63 TTAGCCCGGATA-T-AGCAACTAGCACAAATGCCTTCGGGACTTA
51295726 ACCCCGTTAG
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 8 0.09
120 76 0.84
121 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGAATATGGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:51303792 original size:40 final size:40
Alignment explanation
Indices: 51303734--51303958 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
51303724 GGATATAACC
* * * *
51303734 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
51303773 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
51303813 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
51303853 ACTCGCACCAATGCCTTCGGGACTTAGCCCAGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
51303893 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
51303933 ACTAGCACACATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
51303959 ACCCCGTTAG
Statistics
Matches: 163, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 6 0.04
40 155 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:51309611 original size:46 final size:46
Alignment explanation
Indices: 51309550--51309730 Score: 224
Period size: 46 Copynumber: 3.9 Consensus size: 46
51309540 TAGGATGGTT
51309550 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
51309596 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
51309642 TAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
51309689 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51309731 GTGGGTTACA
Statistics
Matches: 114, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 70 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:51309711 original size:93 final size:93
Alignment explanation
Indices: 51309552--51309722 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
51309542 GGATGGTTGA
* * *
51309552 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51309617 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51309645 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51309710 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51309723 ACTTATGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51312147 original size:20 final size:19
Alignment explanation
Indices: 51312122--51312164 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
51312112 GGGACTAAAT
*
51312122 TGAAAAGTTGAAAATTTTGA
1 TGAAAAGTTCAAAATTTT-A
*
51312142 TGAAAAGTTCTAAATTTTA
1 TGAAAAGTTCAAAATTTTA
51312161 TGAA
1 TGAA
51312165 TACATGTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.37
Consensus pattern (19 bp):
TGAAAAGTTCAAAATTTTA
Found at i:51313089 original size:30 final size:30
Alignment explanation
Indices: 51313053--51313112 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
51313043 ATGACTTGAA
51313053 AGAATATTGCTTGATGAGCTCATCTATTCT
1 AGAATATTGCTTGATGAGCTCATCTATTCT
51313083 AGAATATTGCTTGATGAGCTCATCTATTCT
1 AGAATATTGCTTGATGAGCTCATCTATTCT
51313113 TACTTGATGT
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:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (30 bp):
AGAATATTGCTTGATGAGCTCATCTATTCT
Found at i:51313984 original size:42 final size:42
Alignment explanation
Indices: 51313913--51313992 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
51313903 ATCGTATCTA
* *
51313913 CCACACGGCCTAGAACACGGGGACGTGTCTTAGCCGTGTGTG
1 CCACACGGCCTAGAACACGGGCACATGTCTTAGCCGTGTGTG
* *
51313955 CCACACGGCCTAGAACACGGGCATATGTCTTGGCCGTG
1 CCACACGGCCTAGAACACGGGCACATGTCTTAGCCGTG
51313993 CGCAGCCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.19
Consensus pattern (42 bp):
CCACACGGCCTAGAACACGGGCACATGTCTTAGCCGTGTGTG
Found at i:51321616 original size:53 final size:53
Alignment explanation
Indices: 51321535--51321640 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
51321525 CGGGTCCGAG
*
51321535 CTACAAGATGCTACAGTTGTTTCTGAAGCAACTACCATCAAATAAATCGTAAA
1 CTACAAGATGCTACAGTTGTTTCCGAAGCAACTACCATCAAATAAATCGTAAA
51321588 CTACAAGATGCTACAGTTGTTTCCGAAGCAACTACCATCAAATAAATCGTAAA
1 CTACAAGATGCTACAGTTGTTTCCGAAGCAACTACCATCAAATAAATCGTAAA
51321641 TAAATCATTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (53 bp):
CTACAAGATGCTACAGTTGTTTCCGAAGCAACTACCATCAAATAAATCGTAAA
Found at i:51325208 original size:58 final size:57
Alignment explanation
Indices: 51325059--51325208 Score: 144
Period size: 58 Copynumber: 2.6 Consensus size: 57
51325049 ATCGTATAAT
* * *
51325059 AGGATTA-CCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCAGAGGAGCTCGATT
1 AGGATTACCCA-TCCAGGCTAAATCCTTTCTATAACGTATGCTCAGAGGAGCTAGATC
* * * * * *
51325116 AGGATTACCAATCCAGGCGAAACCCTAATC-ATAACGTATGCTCGAGAGGTA-TTATATC
1 AGGATTACCCATCCAGGCTAAATCCT-TTCTATAACGTATGCTC-AGAGG-AGCTAGATC
* *
51325174 GGGATTACCCATCCGGGCTAAATCCTTTCTATAAC
1 AGGATTACCCATCCAGGCTAAATCCTTTCTATAAC
51325209 AAGGTCAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 9
0.75 0.15 0.09
Matches are distributed among these distances:
57 35 0.48
58 37 0.51
59 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (57 bp):
AGGATTACCCATCCAGGCTAAATCCTTTCTATAACGTATGCTCAGAGGAGCTAGATC
Found at i:51333338 original size:40 final size:40
Alignment explanation
Indices: 51333200--51333340 Score: 187
Period size: 40 Copynumber: 3.5 Consensus size: 40
51333190 ACCCAAGTTT
* * * *
51333200 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
51333239 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51333279 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
51333319 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
51333341 CATTCAAATG
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 78 0.88
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:51341261 original size:40 final size:40
Alignment explanation
Indices: 51341181--51341361 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
51341171 ACCCAAGTTT
* * * *
51341181 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
51341220 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51341260 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
51341300 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
51341340 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
51341362 CATTCAAATG
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 118 0.91
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:51344070 original size:17 final size:16
Alignment explanation
Indices: 51344048--51344083 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
51344038 ATTAAAAGTT
51344048 TTATTCCAGTCAGTTTA
1 TTATTCCAGT-AGTTTA
*
51344065 TTATTCCAGTTGTTTA
1 TTATTCCAGTAGTTTA
51344081 TTA
1 TTA
51344084 CAGATGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (16 bp):
TTATTCCAGTAGTTTA
Found at i:51345520 original size:17 final size:17
Alignment explanation
Indices: 51345498--51345539 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
51345488 TCTCGCGTAA
*
51345498 GGCCCACAGGCTTTTTG
1 GGCCCACAGGCCTTTTG
51345515 GGCCCACAGGCCTTTTG
1 GGCCCACAGGCCTTTTG
51345532 GGCCCACA
1 GGCCCACA
51345540 CATCCCAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.36, G:0.29, T:0.21
Consensus pattern (17 bp):
GGCCCACAGGCCTTTTG
Found at i:51350169 original size:46 final size:46
Alignment explanation
Indices: 51350119--51350294 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51350109 TATTTGGGCA
51350119 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
51350165 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
51350212 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
51350258 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51350295 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:51350274 original size:93 final size:93
Alignment explanation
Indices: 51350115--51350286 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51350105 TGGATATTTG
* *
51350115 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51350180 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
51350208 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51350273 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51350287 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:51353264 original size:15 final size:15
Alignment explanation
Indices: 51353244--51353312 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
51353234 GTATCTTGGG
51353244 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
51353259 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
51353274 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
51353289 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
51353304 TTTCTTTAT
1 TTTCTTTAT
51353313 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:51353313 original size:30 final size:30
Alignment explanation
Indices: 51353235--51353322 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
51353225 CATAGTATCG
* * * *
51353235 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
51353265 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
51353295 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
51353323 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:51355761 original size:46 final size:46
Alignment explanation
Indices: 51355708--51355883 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
51355698 TATTTGGGCA
51355708 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
51355754 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
51355801 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
51355847 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51355884 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:51355863 original size:93 final size:93
Alignment explanation
Indices: 51355704--51355875 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51355694 GGGATATTTG
* *
51355704 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51355769 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
51355797 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
51355862 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
51355876 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:51360696 original size:72 final size:72
Alignment explanation
Indices: 51360579--51360731 Score: 270
Period size: 72 Copynumber: 2.1 Consensus size: 72
51360569 GGCCAAGTTG
* * *
51360579 GGGGTCAAAATTAAAGAGGTAATCAGGGTGCTCAGAGGGTCCGTAATCAGAATCGAAATGGGAAA
1 GGGGTCAAAATTAAAGAGATAATCAGGGTGCTCAGAGGGGCCGTAATCAGAATCAAAATGGGAAA
51360644 GGTAATC
66 GGTAATC
*
51360651 GGGGTCAAAATTAAAGAGATAATTAGGGTGCTCAGAGGGGCCGTAATCAGAATCAAAATGGGAAA
1 GGGGTCAAAATTAAAGAGATAATCAGGGTGCTCAGAGGGGCCGTAATCAGAATCAAAATGGGAAA
51360716 GGTAATC
66 GGTAATC
51360723 GGGGTCAAA
1 GGGGTCAAA
51360732 GAGCACTAGC
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.19
Consensus pattern (72 bp):
GGGGTCAAAATTAAAGAGATAATCAGGGTGCTCAGAGGGGCCGTAATCAGAATCAAAATGGGAAA
GGTAATC
Found at i:51362921 original size:24 final size:24
Alignment explanation
Indices: 51362902--51362970 Score: 138
Period size: 24 Copynumber: 2.9 Consensus size: 24
51362892 GATATTTGGA
51362902 AAGTTTACTTTCTAGTTATTCGGT
1 AAGTTTACTTTCTAGTTATTCGGT
51362926 AAGTTTACTTTCTAGTTATTCGGT
1 AAGTTTACTTTCTAGTTATTCGGT
51362950 AAGTTTACTTTCTAGTTATTC
1 AAGTTTACTTTCTAGTTATTC
51362971 AGGCTTACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.13, G:0.14, T:0.51
Consensus pattern (24 bp):
AAGTTTACTTTCTAGTTATTCGGT
Found at i:51365687 original size:49 final size:49
Alignment explanation
Indices: 51365585--51365805 Score: 158
Period size: 46 Copynumber: 4.6 Consensus size: 49
51365575 TTAAGATACT
* * *
51365585 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATCTGTCGGTGTC
1 GATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATCTGTCGGTGCC
*
51365635 GATGCCATGTCCCAGACAGGTCTTACACTAGCT-TGTATCTCG-CGAG-GCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATCT-GTCG-GTGCC
** * * ** *
51365684 GATG-CATGTCCCAGACATATCTTACACTAGCTCTC-GC-CTCAATGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTGTCGGTGCC
* * * * * *
51365730 GAT-ACATGTCCCAGACATGTCTTACACTGGCTCCCGTAATGT--G-GCC
1 GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCAT-CTGTCGGTGCC
*
51365776 GATG-CATGTCCCAGACATGTCTTACACTAG
1 GATGCCATGTCCCAGACAGGTCTTACACTAG
51365806 TACACAAATG
Statistics
Matches: 139, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
46 64 0.46
47 1 0.01
48 27 0.19
49 28 0.20
50 19 0.14
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTGTCGGTGCC
Found at i:51367404 original size:46 final size:46
Alignment explanation
Indices: 51367349--51367529 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
51367339 TAGGATGGTT
51367349 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
51367395 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
51367441 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
51367488 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51367530 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:51367510 original size:93 final size:93
Alignment explanation
Indices: 51367351--51367521 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
51367341 GGATGGTTGA
* *
51367351 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51367416 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51367444 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51367509 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51367522 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51375084 original size:77 final size:77
Alignment explanation
Indices: 51374999--51375209 Score: 244
Period size: 77 Copynumber: 2.7 Consensus size: 77
51374989 GAAGAACTAC
* * * *
51374999 TATCATGGCCCAAAGCCAAATCATCTGATATGCATGGCTCGAAGCCTAATTGGTATAACTCGTAC
1 TATCATGGCCCGAAGCCAAATCATCTGATATGCATGGCCCGAAGCCTAATCGGTATAACTCGCAC
**
51375064 CTGAAGTGCTAA
66 CCAAAGTGCTAA
* ** * * * *
51375076 TATCATGGCCTGAAGCTGACTCATCTGATATGCATGGCCCGAAG-TTAAATCGGTATAGCTTGCA
1 TATCATGGCCCGAAGCCAAATCATCTGATATGCATGGCCCGAAGCCT-AATCGGTATAACTCGCA
*
51375140 CCCAAAGTGTTAA
65 CCCAAAGTGCTAA
* * * *
51375153 TATCATTGCCCGAAGCCAATTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATA
1 TATCATGGCCCGAAGCCAAATCATCTGATATGCATGGCCCGAAGCCTAATCGGTATA
51375210 TCATCTTATA
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
76 1 0.01
77 109 0.99
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (77 bp):
TATCATGGCCCGAAGCCAAATCATCTGATATGCATGGCCCGAAGCCTAATCGGTATAACTCGCAC
CCAAAGTGCTAA
Found at i:51386379 original size:42 final size:42
Alignment explanation
Indices: 51386320--51386400 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
51386310 AATAGACCCA
*
51386320 AAACTGTTAGTAGAGGAGAAGGAGGTAGAGAGTCCTTTCCCG
1 AAACTGTTAGTAGAGGAGAAGGAGGTAAAGAGTCCTTTCCCG
51386362 AAACTGTTAGTAGAGGAGAAGGAGGTAAAGAGTCCTTTC
1 AAACTGTTAGTAGAGGAGAAGGAGGTAAAGAGTCCTTTC
51386401 TCCACATGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.22
Consensus pattern (42 bp):
AAACTGTTAGTAGAGGAGAAGGAGGTAAAGAGTCCTTTCCCG
Found at i:51404667 original size:46 final size:46
Alignment explanation
Indices: 51404617--51404792 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51404607 TGGTTGAGCA
51404617 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51404663 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51404708 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51404756 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51404793 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51404773 original size:93 final size:93
Alignment explanation
Indices: 51404614--51404785 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51404604 GGATGGTTGA
* *
51404614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51404679 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51404707 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51404772 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51404786 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51412221 original size:46 final size:46
Alignment explanation
Indices: 51412171--51412346 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
51412161 TGGTTGAGCA
51412171 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51412217 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51412262 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51412310 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51412347 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51412327 original size:93 final size:93
Alignment explanation
Indices: 51412168--51412339 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
51412158 GGATGGTTGA
* *
51412168 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51412233 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
51412261 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51412326 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
51412340 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:51423354 original size:40 final size:40
Alignment explanation
Indices: 51423252--51423435 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
51423242 AAATTGAATG
* * * * *
51423252 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
51423292 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
51423332 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
51423372 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
51423412 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
51423436 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:51426749 original size:40 final size:40
Alignment explanation
Indices: 51426675--51426896 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
51426665 AACCCAAGTA
* *
51426675 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
51426714 CCTTCGGGTCTTAGCCCTGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
51426754 CCTTCTGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
51426794 CCTTCGGGACATAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
51426834 CCTTCGGGACTTAGCCTGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
51426874 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
51426897 CATTCGAATA
Statistics
Matches: 165, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 12 0.07
40 150 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:51429176 original size:21 final size:21
Alignment explanation
Indices: 51429147--51429186 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51429137 TTAGAAATTA
* *
51429147 ATTTGATTTCTTTGAATTATT
1 ATTTAATTTATTTGAATTATT
*
51429168 ATTTAATTTATTTTAATTA
1 ATTTAATTTATTTGAATTA
51429187 AATAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTAATTTATTTGAATTATT
Found at i:51431565 original size:45 final size:45
Alignment explanation
Indices: 51431508--51431667 Score: 151
Period size: 45 Copynumber: 3.6 Consensus size: 45
51431498 AATGAGAAAC
* * * * * *
51431508 ACCATGGTTGAAAGATTCCATGGCATTATACCTGGAACGAGA-AAT
1 ACCATAGTTGAAAGATACTATGGCATTATACCAGAAACGA-ATAAA
* * *
51431553 ATCATAGTTGAAAGATACTATGACACTATACCAGAAACGAATAAA
1 ACCATAGTTGAAAGATACTATGGCATTATACCAGAAACGAATAAA
* * * * * * * *
51431598 ACCATAGTTGAAAGATACTATGGCATGACATCGGTAATGAACAAG
1 ACCATAGTTGAAAGATACTATGGCATTATACCAGAAACGAATAAA
51431643 ACCATAGTTGAAAGATACTATGGCA
1 ACCATAGTTGAAAGATACTATGGCA
51431668 CAACTTCGGG
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 1 0.01
45 93 0.99
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.23
Consensus pattern (45 bp):
ACCATAGTTGAAAGATACTATGGCATTATACCAGAAACGAATAAA
Found at i:51431710 original size:46 final size:45
Alignment explanation
Indices: 51431555--51431712 Score: 156
Period size: 45 Copynumber: 3.5 Consensus size: 45
51431545 CGAGAAATAT
* * * * * * * *
51431555 CATAGTTGAAAGATACTATGACACTATACCAGAAACGAATAAAAC
1 CATAGTTGAAAGATACTATGGCACAACATCGGGAATGAACAAAAC
** * *
51431600 CATAGTTGAAAGATACTATGGCATGACATCGGTAATGAACAAGAC
1 CATAGTTGAAAGATACTATGGCACAACATCGGGAATGAACAAAAC
*
51431645 CATAGTTGAAAGATACTATGGCACAACTTCGGGAATGTATA-AAAAC
1 CATAGTTGAAAGATACTATGGCACAACATCGGGAATG-A-ACAAAAC
* *
51431691 CATGGTTGGAAGATACTATGGC
1 CATAGTTGAAAGATACTATGGC
51431713 TTCCTTCAAA
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
45 68 0.72
46 25 0.27
47 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (45 bp):
CATAGTTGAAAGATACTATGGCACAACATCGGGAATGAACAAAAC
Found at i:51439430 original size:24 final size:24
Alignment explanation
Indices: 51439398--51439472 Score: 123
Period size: 24 Copynumber: 3.1 Consensus size: 24
51439388 AAGTCTATCA
51439398 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGTTGATAAG
51439422 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGTTGATAAG
* **
51439446 TGATAGGATTTAGGAGCAGATAAG
1 GGATAGGATTTAGGAGTTGATAAG
51439470 GGA
1 GGA
51439473 GGAAATCTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.35, C:0.01, G:0.37, T:0.27
Consensus pattern (24 bp):
GGATAGGATTTAGGAGTTGATAAG
Found at i:51439484 original size:48 final size:47
Alignment explanation
Indices: 51439399--51439490 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 47
51439389 AGTCTATCAG
** * *
51439399 GATAGGATTTAGGAGTTGATAAGGGATAGGATTTAGGAGTTGATAAGT
1 GATAGGATTTAGGAGCAGATAAGGGA-AGGATCTAGGAGCTGATAAGT
51439447 GATAGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGAT
1 GATAGGATTTAGGAGCAGATAAGGGAAGG--ATCTAGGAGCTGAT
51439491 CAAGGAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 3 0.08
48 35 0.92
ACGTcount: A:0.35, C:0.03, G:0.36, T:0.26
Consensus pattern (47 bp):
GATAGGATTTAGGAGCAGATAAGGGAAGGATCTAGGAGCTGATAAGT
Found at i:51440914 original size:27 final size:26
Alignment explanation
Indices: 51440874--51440985 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
51440864 AGGAAGCGTC
*
51440874 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
51440901 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
51440928 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
51440956 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
51440982 CTGG
1 CTGG
51440986 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:51440978 original size:54 final size:54
Alignment explanation
Indices: 51440874--51440985 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
51440864 AGGAAGCGTC
*
51440874 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
51440928 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
51440982 CTGG
1 CTGG
51440986 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:51448744 original size:27 final size:26
Alignment explanation
Indices: 51448686--51448798 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
51448676 AGGAAGCATC
* * *
51448686 CTGGTGGCTATGCCACAAATTATCAGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
51448714 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
51448741 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
51448769 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
51448795 CTGG
1 CTGG
51448799 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.09
27 37 0.49
28 31 0.41
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:51448771 original size:55 final size:54
Alignment explanation
Indices: 51448686--51448798 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 54
51448676 AGGAAGCATC
*
51448686 CTGGTGGCTATGCCACAAATTATCAGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCAGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * * *
51448741 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCAG-ATCTGGTGACTCTGCCACATTATCTGTT
51448795 CTGG
1 CTGG
51448799 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 19 0.37
55 32 0.63
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCAGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:51455526 original size:2 final size:2
Alignment explanation
Indices: 51455519--51455565 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
51455509 AAATCACAAC
51455519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51455561 AT AT A
1 AT AT A
51455566 GTTTCTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51456662 original size:21 final size:22
Alignment explanation
Indices: 51456616--51456662 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
51456606 CCAGGGCTCC
**
51456616 CACGCCCGTGTGGTCCAAAGGA
1 CACGCCCGTGTGACCCAAAGGA
*
51456638 CACGCCCGTGTGACCCTAA-GA
1 CACGCCCGTGTGACCCAAAGGA
51456659 CACG
1 CACG
51456663 TCTGTGCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.23, C:0.36, G:0.28, T:0.13
Consensus pattern (22 bp):
CACGCCCGTGTGACCCAAAGGA
Found at i:51461542 original size:28 final size:28
Alignment explanation
Indices: 51461481--51461578 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
51461471 TCACAAATTG
** * *
51461481 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
51461510 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
51461538 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
51461566 GCACTAAGTGTGC
1 GCACTAAGTGTGC
51461579 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:51473072 original size:29 final size:29
Alignment explanation
Indices: 51473040--51473112 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
51473030 CTTCGAGCTC
* *
51473040 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
***
51473069 GCACAATTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
51473098 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
51473113 ATCTCGTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:51474323 original size:24 final size:24
Alignment explanation
Indices: 51474281--51474336 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
51474271 TTTTTTTCCT
51474281 TTTCTTTGTTTTTCATCATATTCTC
1 TTTCTTTGTTTTTCATCAT-TTCTC
** *
51474306 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCATCATTTCTC
51474329 TATTCTTT
1 T-TTCTTT
51474337 CTACATAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 5 0.19
24 15 0.56
25 7 0.26
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCTTTGTTTTTCATCATTTCTC
Found at i:51493920 original size:33 final size:33
Alignment explanation
Indices: 51493876--51493947 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
51493866 AGTGAATAAC
*
51493876 ACAGTAGCAGTACAGTCTGGGCCTAAGCCCTAT
1 ACAGTAGCAGTACAGTCTGGGCCTAAGCCCAAT
* *
51493909 ACAGTATCAGTATAGTCTGGGCCTAAGCCCAAT
1 ACAGTAGCAGTACAGTCTGGGCCTAAGCCCAAT
*
51493942 GCAGTA
1 ACAGTA
51493948 ACAATATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (33 bp):
ACAGTAGCAGTACAGTCTGGGCCTAAGCCCAAT
Found at i:51493956 original size:33 final size:33
Alignment explanation
Indices: 51493889--51493957 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
51493879 GTAGCAGTAC
* * *
51493889 AGTCTGGGCCTAAGCCCTATACAGTATCAGTAT
1 AGTCTGGGCCTAAGCCCAATACAGTAACAATAT
*
51493922 AGTCTGGGCCTAAGCCCAATGCAGTAACAATAT
1 AGTCTGGGCCTAAGCCCAATACAGTAACAATAT
51493955 AGT
1 AGT
51493958 ACGATGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (33 bp):
AGTCTGGGCCTAAGCCCAATACAGTAACAATAT
Found at i:51494370 original size:27 final size:27
Alignment explanation
Indices: 51494309--51494372 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
51494299 GGCATAATCT
*
51494309 TCATTTTACCATACAAGGGTATTACAG
1 TCATTTTACCATACAAGGGCATTACAG
* * * *
51494336 TCACTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCATACAAGGGCATTACAG
*
51494363 TCTTTTTACC
1 TCATTTTACC
51494373 TATTAGGGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGCATTACAG
Found at i:51494454 original size:27 final size:27
Alignment explanation
Indices: 51494422--51494745 Score: 242
Period size: 27 Copynumber: 12.0 Consensus size: 27
51494412 TTGGTAAATC
*
51494422 TACAAATCGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
51494449 TGCAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* *
51494477 TAGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * ***
51494505 TGTAAATCAGGGGTATTTTTTTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
51494532 TCCAAATTAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
51494559 TCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
51494586 TACAAATTAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
51494613 TACAAGTCAGGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* ** ** **
51494640 TATAGGTTGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
51494667 TACAAACCAGGGGTACTTT-GGTAATTT
1 TACAAATCAAGGGTA-TTTCAGTAATTT
* *
51494694 TACAAA-CTAGGGGTATTTCGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
** *
51494721 TGTAAATCAAAGGTA-TTCAGTAATT
1 TACAAATCAAGGGTATTTCAGTAATT
51494746 CTACCCTACA
Statistics
Matches: 237, Mismatches: 52, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
26 13 0.05
27 191 0.81
28 19 0.08
29 14 0.06
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:51494566 original size:54 final size:54
Alignment explanation
Indices: 51494405--51494721 Score: 294
Period size: 54 Copynumber: 5.8 Consensus size: 54
51494395 TCACCTACAA
* * * ** * * *
51494405 GGGTGTTTTGGTAAATCTACAAATCGAGGGTATTTCAGTAATTTTGCAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
* * * * * **
51494459 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAA-TTAAGGGTATTTCAGTAATTTTACAAATCAG
** * *
51494515 GGGTATTTTTTTAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATCAG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
* *
51494569 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTACAAGTCAG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
** * ** * ** *
51494623 GGGTATTTCAGTAATTTTATAGGTTGAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
* * * *
51494677 GGGTACTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTT
1 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTT
51494722 GTAAATCAAA
Statistics
Matches: 215, Mismatches: 44, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
54 164 0.76
55 15 0.07
56 36 0.17
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAATCAG
Found at i:51494736 original size:81 final size:81
Alignment explanation
Indices: 51494402--51494737 Score: 302
Period size: 81 Copynumber: 4.1 Consensus size: 81
51494392 ATTTCACCTA
* * * * * * **
51494402 CAAGGGTGTTTTGGTAAATCTACAAATC-GAGGGTATTTCAGTAATTTTGCAAACCAATGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAACTAGGGGTATT
*
51494466 TCTA-TAATTTTTAGAAAGT
65 TC-AGTAA-TTTTATAAA-T
** ** * * *
51494485 CAAGGGTATTTCT-GTAATTTTGTAAATCAGGGGTATTTTTTTAATTTTCCAAATTAAGGGTATT
1 CAAGGGTATTT-TGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATT
**
51494549 TCAGTAATTTTCCAAAT
65 TCAGTAATTTTATAAAT
* * * *
51494566 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTAGTAATTTTAC-AAGTCAGGGGTATT
1 CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACT-AGGGGTATT
**
51494630 TCAGTAATTTTATAGGT
65 TCAGTAATTTTATAAAT
** * * *
51494647 TGAGGGTATTTTGGTAATTTTACAAACCAGGGGTACTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
* *
51494712 CGGTAATTTTGTAAAT
66 CAGTAATTTTATAAAT
*
51494728 CAAAGGTATT
1 CAAGGGTATT
51494738 CAGTAATTCT
Statistics
Matches: 203, Mismatches: 44, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
80 4 0.02
81 133 0.66
82 11 0.05
83 53 0.26
84 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
CAGTAATTTTATAAAT
Found at i:51494914 original size:10 final size:8
Alignment explanation
Indices: 51494861--51494895 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
51494851 AATTTATCCA
51494861 CATGGGCC
1 CATGGGCC
51494869 CATGGGCC
1 CATGGGCC
51494877 CATGGGCC
1 CATGGGCC
51494885 CATTGGGCC
1 CA-TGGGCC
51494894 CA
1 CA
51494896 CCTGGCCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.14, C:0.37, G:0.34, T:0.14
Consensus pattern (8 bp):
CATGGGCC
Found at i:51497152 original size:22 final size:24
Alignment explanation
Indices: 51497127--51497172 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
51497117 ATTCTATGCT
51497127 AATTGATAA-AGAT-TAA-TATATA
1 AATT-ATAATAGATATAATTATATA
51497149 AATTATAATAGATATAATTATATA
1 AATTATAATAGATATAATTATATA
51497173 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATAATAGATATAATTATATA
Found at i:51508839 original size:40 final size:40
Alignment explanation
Indices: 51508727--51508879 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
51508717 GGATATAGCG
* * * * ***
51508727 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
51508767 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
51508807 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
51508847 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
51508880 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:51514938 original size:32 final size:32
Alignment explanation
Indices: 51514898--51514958 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
51514888 AATTCAAACG
*
51514898 ATTAATTAATCTAATAAGTATATAAAAGAACA
1 ATTAATTAATCTAATAAGCATATAAAAGAACA
51514930 ATTAATTAATCTAATAAGCATATAAAAGA
1 ATTAATTAATCTAATAAGCATATAAAAGA
51514959 CTATGTGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (32 bp):
ATTAATTAATCTAATAAGCATATAAAAGAACA
Found at i:51517730 original size:42 final size:42
Alignment explanation
Indices: 51517684--51517773 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
51517674 TTACACGAAA
* * * *
51517684 TCTCATGTCGAT-TCCATATCCCAGATATGGTCTTACATGTGG
1 TCTCATATCGATGT-CATATCCCAGATATAGTCTTACATCTAG
*
51517726 TCTCATATTGATGTCATATCCCAGATATAGTCTTACATCTAG
1 TCTCATATCGATGTCATATCCCAGATATAGTCTTACATCTAG
51517768 TCTCAT
1 TCTCAT
51517774 TAACCCTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (42 bp):
TCTCATATCGATGTCATATCCCAGATATAGTCTTACATCTAG
Found at i:51524573 original size:28 final size:28
Alignment explanation
Indices: 51524504--51524604 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51524494 GATAAGATTG
* * * *
51524504 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
51524534 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51524562 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
51524591 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51524605 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51528784 original size:27 final size:27
Alignment explanation
Indices: 51528746--51528803 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
51528736 ACAATCATAC
*
51528746 ATCACATAGGGGCAAAATAGTCTTTTT
1 ATCACATAGGGGCAAAATAGTCATTTT
*
51528773 ATCACATAGGGGCATAATAGTCATTTT
1 ATCACATAGGGGCAAAATAGTCATTTT
51528800 ATCA
1 ATCA
51528804 ATTAGAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (27 bp):
ATCACATAGGGGCAAAATAGTCATTTT
Found at i:51533830 original size:42 final size:42
Alignment explanation
Indices: 51533666--51533819 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
51533656 TACCATACTA
* * * *
51533666 ATGCCACATCCCAGATATGGTCTCACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * * *
51533708 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* ** *
51533751 ATGCCATATCCTAGATATGGTCTTACACGTGGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
*
51533793 ATGCCATATCCCATATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
51533820 TCTAGTCTCA
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 59 0.63
43 34 0.37
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:51537322 original size:49 final size:49
Alignment explanation
Indices: 51537254--51537347 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
51537244 GAAAAGAAAT
* **
51537254 ATTAAACCCAATTCGGAGTGGCTATCACCCAAGACATTGACTGACAAAG
1 ATTAAACCCAATTCAGAGTGGCTATCACCCAAGACACAGACTGACAAAG
*
51537303 ATTAAACCCAATTTAGAGTGGCTATCACCCAAGACACAGACTGAC
1 ATTAAACCCAATTCAGAGTGGCTATCACCCAAGACACAGACTGAC
51537348 GAGGCTCCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (49 bp):
ATTAAACCCAATTCAGAGTGGCTATCACCCAAGACACAGACTGACAAAG
Found at i:51551776 original size:40 final size:40
Alignment explanation
Indices: 51551731--51551860 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
51551721 CGGAATACAA
51551731 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
51551771 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
51551811 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
51551851 CCGGATATAA
1 CCGGATATAA
51551861 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:51556290 original size:30 final size:30
Alignment explanation
Indices: 51556245--51556303 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
51556235 ATTTAATACG
*
51556245 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
51556275 AACTTTTGCATAATTACACTTTTGCCCCT
1 AACTTTGGCAAAATTACACTTTTGCCCCT
51556304 TGGCTCGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:51557937 original size:56 final size:54
Alignment explanation
Indices: 51557870--51557976 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 54
51557860 CATGACAAAG
* *
51557870 CACGCCTCTCAATAGGGCTACATATGAGCACCCGGACCTAGCGTGTATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGCACCCGGACCTAGCGTGTACCACATTAC
*
51557926 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACAT
1 CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCGTGTACCACAT
51557977 AATTACATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 25 0.52
56 23 0.48
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.20
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCACCCGGACCTAGCGTGTACCACATTAC
Found at i:51557989 original size:56 final size:54
Alignment explanation
Indices: 51557870--51558026 Score: 172
Period size: 56 Copynumber: 2.8 Consensus size: 54
51557860 CATGACAAAG
* * *
51557870 CACGCCTCTCAATAGGGCTACATATGAGCACCCGGACCTAGCGTGTATCACATTAC
1 CACGCCTCTCAACAGGGCTACATA--AGCTCCCGGACCTAGCGTGTACCACATTAC
51557926 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATAATTA-
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCAC---ATTAC
* * * * ** *
51557982 CATGCCTCTTAACGGGGCTACACAAGCTCCTAGACCTAGCATGTA
1 CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTA
51558027 TCGTGTCATC
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
54 23 0.26
56 61 0.69
57 4 0.05
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.21
Consensus pattern (54 bp):
CACGCCTCTCAACAGGGCTACATAAGCTCCCGGACCTAGCGTGTACCACATTAC
Found at i:51560609 original size:5 final size:5
Alignment explanation
Indices: 51560601--51560625 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51560591 AAGATGATAG
51560601 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
51560626 TAACTTAATT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:51560786 original size:67 final size:67
Alignment explanation
Indices: 51560678--51560818 Score: 282
Period size: 67 Copynumber: 2.1 Consensus size: 67
51560668 TATTAATTTC
51560678 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
1 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
51560743 AG
66 AG
51560745 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
1 ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
51560810 AG
66 AG
51560812 ATTAAAA
1 ATTAAAA
51560819 TTTCATAGCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (67 bp):
ATTAAAACCATGTTCATAAATATCCAATATCACTTTAGTTGGTCTAATTACCATCGAAGTCCCTT
AG
Found at i:51562926 original size:30 final size:31
Alignment explanation
Indices: 51562890--51562947 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
51562880 TTTCCGAGCC
*
51562890 TAGGGGCAAAATTGTAATTTTGT-AAAGGTT
1 TAGGGGCAAAATTATAATTTTGTCAAAGGTT
51562920 TAGGGGCAAAATTATAATTTTGTCAAAG
1 TAGGGGCAAAATTATAATTTTGTCAAAG
51562948 TTTGAGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (31 bp):
TAGGGGCAAAATTATAATTTTGTCAAAGGTT
Found at i:51563888 original size:55 final size:54
Alignment explanation
Indices: 51563759--51563955 Score: 227
Period size: 54 Copynumber: 3.6 Consensus size: 54
51563749 TTGGTAAGAT
* * * *
51563759 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTGTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
51563813 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
51563868 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* ** * *
51563921 GAGGATACCACATAAAACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
51563956 AAGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.02
53 31 0.25
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:51566206 original size:19 final size:19
Alignment explanation
Indices: 51566182--51566220 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
51566172 TATCTCTATG
51566182 CCAATTCAAACAATTAATT
1 CCAATTCAAACAATTAATT
51566201 CCAATTCAAACAATTAATT
1 CCAATTCAAACAATTAATT
51566220 C
1 C
51566221 AATCTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (19 bp):
CCAATTCAAACAATTAATT
Found at i:51567891 original size:46 final size:46
Alignment explanation
Indices: 51567835--51568010 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
51567825 TATTTGGGCA
*
51567835 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * ** *
51567881 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATATAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
51567928 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
51567974 CCCGAGCTCATTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51568011 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 60 0.58
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:51567990 original size:93 final size:93
Alignment explanation
Indices: 51567831--51568003 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
51567821 AGGATATTTG
* * * * *
51567831 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
51567896 TTGAGTCCGAGTTCGTGAGATATAACTA
66 TTGAGTCCGAGTTCGTGAGATATAACTA
* *
51567924 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
*
51567989 TTGAGTTCGAGTTCG
66 TTGAGTCCGAGTTCG
51568004 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATATAACTA
Found at i:51574017 original size:43 final size:43
Alignment explanation
Indices: 51573956--51574043 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
51573946 TAGGCACTGC
*
51573956 CAAAGTTTAGTAATATCATCATCTGACAAAGAAGAGGAAGTGA
1 CAAAGTTTAGTAATATCATCATCTGACAAAGAAGAGGAAGCGA
*
51573999 CAAAGTTTAGTAATATCATCATCTGACAAGGAAGAGGAAGCGA
1 CAAAGTTTAGTAATATCATCATCTGACAAAGAAGAGGAAGCGA
51574042 CA
1 CA
51574044 GCTACATCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (43 bp):
CAAAGTTTAGTAATATCATCATCTGACAAAGAAGAGGAAGCGA
Found at i:51575361 original size:11 final size:11
Alignment explanation
Indices: 51575347--51575372 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51575337 AATTTGTGAA
51575347 AAAATAAAAAT
1 AAAATAAAAAT
51575358 AAAATAAAAAT
1 AAAATAAAAAT
51575369 AAAA
1 AAAA
51575373 ACACACAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:51577939 original size:40 final size:39
Alignment explanation
Indices: 51577894--51578032 Score: 138
Period size: 39 Copynumber: 3.5 Consensus size: 39
51577884 CGGATATAAC
*
51577894 GACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGGTTATAGT
1 GACTCGCACAAATGCCTTCGGGACTGAA-CCCGGTT-TAGT
* * *
51577934 GACTCGCACGAATGCCTTCGGGACTTAACCGGGTTTAGT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGGTTTAGT
* * * * *
51577973 AACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATT
1 GACTCGCACAAATGCCTTCGGGACTGAACCCGG-TTTAGT
* *
51578012 AACTCGCACGAATGCCTTCGG
1 GACTCGCACAAATGCCTTCGG
51578033 ATCCTAGTCC
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 8 0.09
39 47 0.55
40 28 0.33
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
GACTCGCACAAATGCCTTCGGGACTGAACCCGGTTTAGT
Found at i:51578015 original size:39 final size:40
Alignment explanation
Indices: 51577895--51578085 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
51577885 GGATATAACG
* ** *
51577895 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
51577935 ACTCGCACGAATGCCTTCGGGACTTA-ACCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
51577974 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * *
51578013 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
51578053 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
51578086 CATCATTCGA
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 6 0.05
39 53 0.43
40 54 0.44
41 10 0.08
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:51586036 original size:79 final size:81
Alignment explanation
Indices: 51585935--51586119 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
51585925 ACGACTCGCT
** * *
51585935 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
51585998 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
51586015 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
51586079 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
51586095 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51586120 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:51586119 original size:40 final size:39
Alignment explanation
Indices: 51585928--51586119 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
51585918 GGATATAACG
* ** * *
51585928 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51585968 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
51586008 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
51586047 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
51586087 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
51586120 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:51590350 original size:46 final size:45
Alignment explanation
Indices: 51590295--51590457 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
51590285 GTTGATGCCG
* * *
51590295 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACTGT-GCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---TGTAGCCGACGCA
*
51590341 TGTCCCAGACATGTCTTAGACT-AGCACATCTTGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTTGTAGCCGACGCA
* * * *
51590385 TGTCCCAGACATGTCTGACACTG-GCTAACATCTCG-AGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC--ACATCTTGTA-GCCGACGCA
51590431 TGTCCCAGACATGTCTTACACT-AGCAC
1 TGTCCCAGACATGTCTTACACTGAGCAC
51590458 TCATCTCAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
43 3 0.03
44 32 0.32
45 2 0.02
46 63 0.63
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTTGTAGCCGACGCA
Found at i:51590463 original size:46 final size:45
Alignment explanation
Indices: 51590332--51590546 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 45
51590322 ATGTAACTGT
* *
51590332 GCCGATGCATGTCCCAGACATGTCTTAGACTAGCA-CATCTTGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCG-AG
* * * *
51590376 GCCGACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-ATCATCTCGAG
* * *
51590422 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCGAG
* * * * * * *
51590468 ACCGATGCCACGTCCCAAACATGGTCTTACACTGGCTCTCAT-TATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCATCT-CGAG
* *
51590516 GCCGATGCATGTCCCAAACATGTCTAACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
51590547 GGTGCACATA
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
44 30 0.22
45 3 0.02
46 57 0.41
47 26 0.19
48 22 0.16
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCGAG
Found at i:51595587 original size:20 final size:20
Alignment explanation
Indices: 51595562--51595599 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51595552 GTTTATTCGC
*
51595562 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51595582 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51595600 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51596939 original size:28 final size:28
Alignment explanation
Indices: 51596907--51596975 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51596897 GCGTAGATCA
51596907 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51596935 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51596963 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51596976 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51599698 original size:28 final size:28
Alignment explanation
Indices: 51599633--51599733 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51599623 ATAGTGAATC
*
51599633 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
51599662 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51599690 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
51599720 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51599734 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51607619 original size:28 final size:28
Alignment explanation
Indices: 51607554--51607654 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51607544 ATAGTGAATC
*
51607554 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
51607583 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51607611 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
51607641 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51607655 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51614303 original size:20 final size:20
Alignment explanation
Indices: 51614278--51614315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51614268 GTTTATTCGC
*
51614278 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51614298 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51614316 TTTGGATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51615649 original size:28 final size:28
Alignment explanation
Indices: 51615617--51615685 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51615607 GCGTAGATCA
51615617 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51615645 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51615673 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51615686 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51617611 original size:29 final size:29
Alignment explanation
Indices: 51617539--51617603 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
51617529 GTGACGAGAT
51617539 CGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATA
*
51617568 TGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAATATA
51617597 CGGCACT
1 CGGCACT
51617604 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (29 bp):
CGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:51622261 original size:40 final size:40
Alignment explanation
Indices: 51622176--51622326 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
51622166 AATTGAATGA
* * *
51622176 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
51622216 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
51622257 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
51622296 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
51622327 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:51622340 original size:40 final size:40
Alignment explanation
Indices: 51622213--51622342 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
51622203 ATGCTGGAAA
* * * *
51622213 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
51622253 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
51622293 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
51622333 TTATATCCGG
1 TTATATCCGG
51622343 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Done.