Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 140 of 325
Found at i:45273645 original size:19 final size:19
Alignment explanation
Indices: 45273621--45273658 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
45273611 TAAAGTAATT
45273621 AAATAAAAGAAATA-AAAGA
1 AAAT-AAAGAAATAGAAAGA
45273640 AAATAAAGAAATAGAAAGA
1 AAATAAAGAAATAGAAAGA
45273659 GGATAGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAATAAAGAAATAGAAAGA
Found at i:45273657 original size:10 final size:9
Alignment explanation
Indices: 45273621--45273658 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
45273611 TAAAGTAATT
45273621 AAATAAAAG
1 AAATAAAAG
45273630 AAATAAAAG
1 AAATAAAAG
45273639 AAA-ATAAAG
1 AAATA-AAAG
45273648 AAATAGAAAG
1 AAATA-AAAG
45273658 A
1 A
45273659 GGATAGAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 1 0.04
9 19 0.73
10 6 0.23
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (9 bp):
AAATAAAAG
Found at i:45275406 original size:20 final size:20
Alignment explanation
Indices: 45275378--45275417 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45275368 GGCCTGGCCC
*
45275378 CACGGGCATGTCCCAAGCCA
1 CACGAGCATGTCCCAAGCCA
*
45275398 CACGAGCATGTCCCAGGCCA
1 CACGAGCATGTCCCAAGCCA
45275418 TATGGGTGTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (20 bp):
CACGAGCATGTCCCAAGCCA
Found at i:45279435 original size:3 final size:3
Alignment explanation
Indices: 45279422--45279469 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
45279412 TTGGGGCTAG
* *
45279422 AGA AAA AGA AGA AGA AG- AGAA AGA AGA AGA AGA AGA AGA AGA GGA
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA
45279467 AGA
1 AGA
45279470 TGCCTGAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45279827 original size:36 final size:36
Alignment explanation
Indices: 45279787--45279925 Score: 181
Period size: 36 Copynumber: 3.9 Consensus size: 36
45279777 CTAAAAACCA
* * *
45279787 GCTTATGTTTTGTA-ATATTGTTGTTGGTATACTGTT
1 GCTTATGTTTT-TATACATGGTTGTTGGTATATTGTT
*
45279823 GCTTATGTTGTTATACATGGTTGTTGGTATATTGTT
1 GCTTATGTTTTTATACATGGTTGTTGGTATATTGTT
* *
45279859 GCTTATGTTTTTATACATGGCTGCTGGTATATTGTT
1 GCTTATGTTTTTATACATGGTTGTTGGTATATTGTT
* * *
45279895 GCTTATGTTGTTATACATGGCTGCTGGTATA
1 GCTTATGTTTTTATACATGGTTGTTGGTATA
45279926 CATGGCTAAC
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 2 0.02
36 92 0.98
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (36 bp):
GCTTATGTTTTTATACATGGTTGTTGGTATATTGTT
Found at i:45279837 original size:20 final size:20
Alignment explanation
Indices: 45279808--45279867 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
45279798 GTAATATTGT
45279808 TGTTGGTATACTGTTGCTTA
1 TGTTGGTATACTGTTGCTTA
*
45279828 TGTTGTTATACATG--G--T-
1 TGTTGGTATAC-TGTTGCTTA
*
45279844 TGTTGGTATATTGTTGCTTA
1 TGTTGGTATACTGTTGCTTA
45279864 TGTT
1 TGTT
45279868 TTTATACATG
Statistics
Matches: 31, Mismatches: 3, Indels: 12
0.67 0.07 0.26
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 2 0.06
19 2 0.06
20 14 0.45
21 2 0.06
ACGTcount: A:0.15, C:0.07, G:0.25, T:0.53
Consensus pattern (20 bp):
TGTTGGTATACTGTTGCTTA
Found at i:45280175 original size:23 final size:24
Alignment explanation
Indices: 45280130--45280175 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
45280120 AAAAATAGAA
* *
45280130 ACATTTGTATTTCTTAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
45280154 ACATTTGT-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
45280176 TATGTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:45281477 original size:2 final size:2
Alignment explanation
Indices: 45281472--45281596 Score: 223
Period size: 2 Copynumber: 62.5 Consensus size: 2
45281462 CACCAACAAT
45281472 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* * *
45281514 CA AA CA CA CA CA CA CA CA CC CA CA CA CA CA CA CA CA CA CC CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45281556 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
45281597 CTAAAAAATA
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 117 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45283568 original size:62 final size:62
Alignment explanation
Indices: 45283491--45283628 Score: 222
Period size: 62 Copynumber: 2.2 Consensus size: 62
45283481 CCATTTTTGT
*
45283491 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGG
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGA
* * * *
45283553 CAGACAACAACCAATACAAAAATAATTTAATACAAGCACAACCATTTTTGTCATGCACATGA
1 CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGA
*
45283615 CAGATAATAACCAA
1 CAGACAATAACCAA
45283629 ACACTTTAAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.21
Consensus pattern (62 bp):
CAGACAATAACCAATACAAAAATAATTTAATACAAACACAACCATTTCTGTCACGCACATGA
Found at i:45283936 original size:18 final size:19
Alignment explanation
Indices: 45283913--45283973 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 19
45283903 CATTAATAAC
45283913 AAAT-AAAACCCAAAATCA
1 AAATCAAAACCCAAAATCA
* *
45283931 AAAT---AACCCTAAATCG
1 AAATCAAAACCCAAAATCA
*
45283947 AAATCAAAA-TCAAAATCA
1 AAATCAAAACCCAAAATCA
45283965 AAATCAAAA
1 AAATCAAAA
45283974 TTGAAATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 14 0.40
18 19 0.54
19 2 0.06
ACGTcount: A:0.64, C:0.20, G:0.02, T:0.15
Consensus pattern (19 bp):
AAATCAAAACCCAAAATCA
Found at i:45283950 original size:6 final size:6
Alignment explanation
Indices: 45283941--45283986 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
45283931 AAATAACCCT
* **
45283941 AAATCG AAATCA AAATCA AAATCA AAATCA AAATTG AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
45283987 AACCCTAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:45284718 original size:48 final size:49
Alignment explanation
Indices: 45284655--45284747 Score: 154
Period size: 48 Copynumber: 1.9 Consensus size: 49
45284645 AACTTAATAA
45284655 AAAAATAATAAATAATTTAATCA-TA-TTTTAATATAATTATTATTTAAT
1 AAAAATAATAAATAATTTAAT-AGTATTTTTAATATAATTATTATTTAAT
*
45284703 AAAAATAATATATAATTTAATAGTATTTTTAATATAATTATTATT
1 AAAAATAATAAATAATTTAATAGTATTTTTAATATAATTATTATT
45284748 ATATTAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
47 1 0.02
48 22 0.52
49 19 0.45
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (49 bp):
AAAAATAATAAATAATTTAATAGTATTTTTAATATAATTATTATTTAAT
Found at i:45284859 original size:8 final size:8
Alignment explanation
Indices: 45284846--45284875 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
45284836 TCAAATATTT
45284846 TATTTTTA
1 TATTTTTA
45284854 TATTTTTA
1 TATTTTTA
45284862 TATTTTTA
1 TATTTTTA
45284870 TATTTT
1 TATTTT
45284876 CTAAGTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTTA
Found at i:45288728 original size:84 final size:85
Alignment explanation
Indices: 45288601--45288770 Score: 281
Period size: 84 Copynumber: 2.0 Consensus size: 85
45288591 ATTTCTGCTA
*
45288601 TTTGAGCTTAGGTTCAACACAAGCTCAACGAATGCAAACCAGCTGACATCAGTATCTAGTGATGT
1 TTTGAGCTTAGGTT-AACACAAGCTCAACGAATGCAAACCAGCTGACATCAATATCTAGTGATGT
45288666 ATACTCATCATGATTTTTCGG
65 ATACTCATCATGATTTTTCGG
*
45288687 TTTGAGCTTAGG-T-ACACAAGCTCCACGACATGCAAACCAGCTGACATCAATATCTAGTGATGT
1 TTTGAGCTTAGGTTAACACAAGCTCAACGA-ATGCAAACCAGCTGACATCAATATCTAGTGATGT
*
45288750 ATACTCATCATGGTTTTTCGG
65 ATACTCATCATGATTTTTCGG
45288771 CAATGGGCCA
Statistics
Matches: 80, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
83 14 0.17
84 53 0.66
85 1 0.01
86 12 0.15
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (85 bp):
TTTGAGCTTAGGTTAACACAAGCTCAACGAATGCAAACCAGCTGACATCAATATCTAGTGATGTA
TACTCATCATGATTTTTCGG
Found at i:45290164 original size:18 final size:18
Alignment explanation
Indices: 45290137--45290203 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
45290127 TACATAGAAT
45290137 ATTA-TACAATTATATAA
1 ATTATTACAATTATATAA
*
45290154 ATTATTACAATTTTCATAA
1 ATTATTACAATTAT-ATAA
* *
45290173 TGTTTTATACAATTAT-TCAA
1 -ATTAT-TACAATTATAT-AA
45290193 ATTATTACAAT
1 ATTATTACAAT
45290204 ATTTGTAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.10
18 14 0.36
19 8 0.21
20 5 0.13
21 8 0.21
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (18 bp):
ATTATTACAATTATATAA
Found at i:45299208 original size:40 final size:40
Alignment explanation
Indices: 45299164--45299351 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
45299154 GCTACTTGCT
*
45299164 CAAATGCATTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
45299204 CAAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
45299244 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
45299284 CAAATGCCTTTGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
45299323 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
45299352 CATCCAAATA
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 99 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:45311584 original size:39 final size:39
Alignment explanation
Indices: 45311483--45311598 Score: 133
Period size: 39 Copynumber: 3.0 Consensus size: 39
45311473 ACAGGAAATC
*
45311483 TTATTCAGTATAATCAGTGGATAATGCTTGTTTGAGCAA
1 TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAA
** * * * * *
45311522 GCATTTAATATAATTAATGGATATTGCTTGTTTGAGTAA
1 TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAA
* * *
45311561 TTATTCAGTAAAATCAGTAGATATTGCTCGTTTGAGCA
1 TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCA
45311599 CCTCAGTAGA
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (39 bp):
TTATTCAGTATAATCAGTGGATATTGCTTGTTTGAGCAA
Found at i:45311660 original size:37 final size:37
Alignment explanation
Indices: 45311567--45312090 Score: 469
Period size: 37 Copynumber: 14.4 Consensus size: 37
45311557 GTAATTATTC
* * *
45311567 AGTAAAATCAGTAGATATTGCTCGTTTGAGCAC-CTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* *
45311603 AGTAGAATCAGTAGACATTGCTCGTTTGAGCACGTTA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * *
45311640 AGTAGGATCAATAGATATTGCTCG-TTGAGCACTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * * *
45311676 AGTAGAATTAGTAGACATTGCTCGTTTGAGCACATTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* ** *
45311713 AGTAGGATTTGTAGATATTGCTC-ATTGAGCACTTTA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * *
45311749 AGTAGAATCAATAGATATTCCTCGTTTGAGCACTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * ** * *
45311786 AGTAAAATCAGTAGACATTGCTTATTTTAGCACATTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTA
** * *
45311824 A-TAGGGTCGGTAGATATTGCTC-CTTGAGCACTTTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-A
*
45311860 A-TAGTATCAGTAGATATTGCTCGTTTGAGCACTTTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-A
* * * * *
45311897 A-TATAATCAGTAGATATTGCTTGTTTGACCATTTTT
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* * *
45311933 AGTAGAATCAATTGACATTGCTCGTTTGAGCACATTT-
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTA
* * * * * *
45311970 AGCAGCAT-TGTAGATATTGCTTGTTTGAGCATTTTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
* *
45312006 AGTAGAATCAGTAGATACTGCTCGTTTGAACACTTTCA
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTT-A
* * *
45312044 A-TAGAACCAATAGATATTGCTCG-TTGAGCAC-TTC
1 AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
*
45312078 AGTAGAATTAGTA
1 AGTAGAATCAGTA
45312091 TTCCATTTTT
Statistics
Matches: 389, Mismatches: 87, Indels: 25
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.00
35 15 0.04
36 148 0.38
37 218 0.56
38 7 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (37 bp):
AGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTA
Found at i:45311663 original size:73 final size:74
Alignment explanation
Indices: 45311541--45312090 Score: 522
Period size: 73 Copynumber: 7.5 Consensus size: 74
45311531 ATAATTAATG
* * * * *
45311541 GATATTGCTTGTTTGAGTAATTATTCAGTAAAATCAGTAGATATTGCTCGTTTGAGCAC-CTCAG
1 GATATTGCTCGTTTGAG-CACT-TTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAG
45311605 TAGAATCAGTA
64 TAGAATCAGTA
* * * * * *
45311616 GACATTGCTCGTTTGAGCACGTTAAGTAGGATCAATAGATATTGCTCG-TTGAGCACTTTTAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
45311680 GAATTAGTA
66 GAATCAGTA
* * * ** * *
45311689 GACATTGCTCGTTTGAGCACATTCAGTAGGATTTGTAGATATTGCTC-ATTGAGCACTTTAAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
45311753 GAATCAATA
66 GAATCAGTA
* * * * ** * * *
45311762 GATATTCCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTTATTTTAGCACATTCAATA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
** *
45311827 GGGTCGGTA
66 GAATCAGTA
* * * *
45311836 GATATTGCTC-CTTGAGCACTTTCAATAGTATCAGTAGATATTGCTCGTTTGAGCACTTTCAATA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
*
45311900 TAATCAGTA
66 GAATCAGTA
* * * * * * * *
45311909 GATATTGCTTGTTTGACCATTTTTAGTAGAATCAATTGACATTGCTCGTTTGAGCACATTT-AGC
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCAC-TTTCAGT
* *
45311973 AGCAT-TGTA
65 AGAATCAGTA
* * * * *
45311982 GATATTGCTTGTTTGAGCATTTTCAGTAGAATCAGTAGATACTGCTCGTTTGAACACTTTCAATA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
* *
45312047 GAACCAATA
66 GAATCAGTA
*
45312056 GATATTGCTCG-TTGAGCAC-TTCAGTAGAATTAGTA
1 GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTA
45312091 TTCCATTTTT
Statistics
Matches: 383, Mismatches: 85, Indels: 17
0.79 0.18 0.04
Matches are distributed among these distances:
72 26 0.07
73 259 0.68
74 80 0.21
75 18 0.05
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (74 bp):
GATATTGCTCGTTTGAGCACTTTCAGTAGAATCAGTAGATATTGCTCGTTTGAGCACTTTCAGTA
GAATCAGTA
Found at i:45311803 original size:110 final size:110
Alignment explanation
Indices: 45311541--45312085 Score: 492
Period size: 110 Copynumber: 5.0 Consensus size: 110
45311531 ATAATTAATG
* * * * *
45311541 GATATTGCTTGTTTGAGTAATTATTCAGTAAAATCAGTAGATATTGCTCGTTTGAGCAC-CTCAG
1 GATATTGCTCGTTTGAGCACTT-TT-AGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAG
* * * * *
45311605 TAGAATCAGTAGACATTGCTCGTTTGAGCACGTTAAGTAGGATCAATA
64 TAGGATCAGTAGATATTGCTC-ATTGAGCACTTTAAGTAGAATCAATA
* *
45311653 GATATTGCTCG-TTGAGCACTTTTAGTAGAATTAGTAGACATTGCTCGTTTGAGCACATTCAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
**
45311717 GGATTTGTAGATATTGCTCATTGAGCACTTTAAGTAGAATCAATA
66 GGATCAGTAGATATTGCTCATTGAGCACTTTAAGTAGAATCAATA
* ** * *
45311762 GATATTCCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTTATTTTAGCACATTCAATA
1 GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * *
45311827 GGGTCGGTAGATATTGCTCCTTGAGCACTTTCAA-TAGTATCAGTA
66 GGATCAGTAGATATTGCTCATTGAGCACTTT-AAGTAGAATCAATA
* * * * * * ** *
45311872 GATATTGCTCGTTTGAGCACTTTCAATATAATCAGTAGATATTGCTTGTTTGACCATTTTTAGTA
1 GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
* * * * * * * **
45311937 GAATCAATTGACATTGCTCGTTTGAGCACATTT-AGCAGCAT-TGTA
66 GGATCAGTAGATATTGCTC-ATTGAGCAC-TTTAAGTAGAATCAATA
* * * * * * *
45311982 GATATTGCTTGTTTGAGCA-TTTTCAGTAGAATCAGTAGATACTGCTCGTTTGAACACTTTCAAT
1 GATATTGCTCGTTTGAGCACTTTT-AGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGT
* * * * *
45312046 AGAACCAATAGATATTGCTCGTTGAGCAC-TTCAGTAGAAT
65 AGGATCAGTAGATATTGCTCATTGAGCACTTTAAGTAGAAT
45312086 TAGTATTCCA
Statistics
Matches: 360, Mismatches: 65, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
107 2 0.01
108 6 0.02
109 74 0.21
110 243 0.68
111 22 0.06
112 13 0.04
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (110 bp):
GATATTGCTCGTTTGAGCACTTTTAGTAAAATCAGTAGACATTGCTCGTTTGAGCACATTCAGTA
GGATCAGTAGATATTGCTCATTGAGCACTTTAAGTAGAATCAATA
Found at i:45313716 original size:15 final size:15
Alignment explanation
Indices: 45313696--45313724 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45313686 AGGAGAAGAA
45313696 ATGAAATTAATGATG
1 ATGAAATTAATGATG
45313711 ATGAAATTAATGAT
1 ATGAAATTAATGAT
45313725 ATTATTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (15 bp):
ATGAAATTAATGATG
Found at i:45320592 original size:54 final size:54
Alignment explanation
Indices: 45320510--45320617 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
45320500 GGGTTACGAA
45320510 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTAAG
1 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTAAG
45320564 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTAAG
1 ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTAAG
45320618 TTCAGAAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (54 bp):
ACATTTCTGGAAAAGATAAAACTTTCTCACCTTCACACAGTTAATCAAACTAAG
Found at i:45328767 original size:16 final size:16
Alignment explanation
Indices: 45328746--45328780 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45328736 ACCAAGTACT
*
45328746 TGATCTGTGTAGACTA
1 TGATCTATGTAGACTA
45328762 TGATCTATGTAGACTA
1 TGATCTATGTAGACTA
45328778 TGA
1 TGA
45328781 CCTTTGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (16 bp):
TGATCTATGTAGACTA
Found at i:45331510 original size:12 final size:11
Alignment explanation
Indices: 45331492--45331522 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
45331482 AATAAAATAA
45331492 AAATTGAATTG
1 AAATTGAATTG
45331503 AAAGTTGAATTG
1 AAA-TTGAATTG
45331515 AAATTGAA
1 AAATTGAA
45331523 AAATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.32
Consensus pattern (11 bp):
AAATTGAATTG
Found at i:45331553 original size:23 final size:22
Alignment explanation
Indices: 45331510--45331557 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
45331500 TTGAAAGTTG
*
45331510 AATTGAAATTGAAAAATTAAATA
1 AATTGAAATGGAAAAATTAAA-A
*
45331533 AATTGAAATGG-AGAATATAAAA
1 AATTGAAATGGAAAAAT-TAAAA
45331555 AAT
1 AAT
45331558 AAGCAGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (22 bp):
AATTGAAATGGAAAAATTAAAA
Found at i:45333093 original size:96 final size:97
Alignment explanation
Indices: 45332965--45333148 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 97
45332955 ATTTAATTTA
* * *
45332965 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCA
1 TTTATTTTTACTTAAGAACATATTGAACCTTTTGACGCGAAGAGAGATCACAGCCAAGAACCCCA
*
45333030 -CCTCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCT-GATTACTCAGCCCAACATACTCCTAATT
* * *
45333062 TTTATTTTT-CTTAAGAACAT-TTCGAACCTTTTGACGCGAAGGGAGATCACAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATATT-GAACCTTTTGACGCGAAGAGAGATCACAGCCAAGAACCCC
45333125 ACCCTGATTACTCAGCCCAACATA
65 ACCCTGATTACTCAGCCCAACATA
45333149 TTCTTAAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
95 2 0.03
96 64 0.82
97 12 0.15
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTGAACCTTTTGACGCGAAGAGAGATCACAGCCAAGAACCCCA
CCCTGATTACTCAGCCCAACATACTCCTAATT
Found at i:45335258 original size:46 final size:46
Alignment explanation
Indices: 45335208--45335383 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
45335198 TGGTTGAGCA
*
45335208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
45335254 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
45335301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45335347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45335384 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45335364 original size:93 final size:93
Alignment explanation
Indices: 45335205--45335376 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
45335195 GGATGGTTGA
* * *
45335205 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
45335270 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
45335298 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
45335363 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
45335377 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45338355 original size:30 final size:29
Alignment explanation
Indices: 45338290--45338346 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
45338280 CATAGTATCG
45338290 TATCTTTGGTTTCTTTATTCTGGATTTCTC
1 TATC-TTGGTTTCTTTATTCTGGATTTCTC
45338320 TATCTTGGATTTCTTTATTC-GG-TTTCT
1 TATCTTGG-TTTCTTTATTCTGGATTTCT
45338347 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 5 0.19
29 6 0.23
30 15 0.58
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.60
Consensus pattern (29 bp):
TATCTTGGTTTCTTTATTCTGGATTTCTC
Found at i:45340832 original size:47 final size:47
Alignment explanation
Indices: 45340714--45340883 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
45340704 GGATGGTTGA
* *
45340714 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
45340762 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* *
45340807 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-ATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
45340854 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
45340884 GCTTATGGGC
Statistics
Matches: 106, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.06
45 31 0.29
46 29 0.27
47 33 0.31
48 2 0.02
49 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:45345463 original size:21 final size:23
Alignment explanation
Indices: 45345437--45345492 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
45345427 GTGAAGGGTA
45345437 GCACATGGCCGTGT-G-ACAGAG
1 GCACATGGCCGTGTGGTACAGAG
* *
45345458 GCACATGCCCATGTGGTACAGAG
1 GCACATGGCCGTGTGGTACAGAG
45345481 GCAC--GGCCGTGT
1 GCACATGGCCGTGT
45345493 AAGACACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 18 0.62
22 1 0.03
23 10 0.34
ACGTcount: A:0.21, C:0.27, G:0.36, T:0.16
Consensus pattern (23 bp):
GCACATGGCCGTGTGGTACAGAG
Found at i:45346599 original size:5 final size:5
Alignment explanation
Indices: 45346589--45346670 Score: 66
Period size: 5 Copynumber: 16.4 Consensus size: 5
45346579 AGTAATAAAT
* *
45346589 AATAA AATAA AATAA AGTAA TGAAT-A AAT-A AATGATA AATTA AATAA
1 AATAA AATAA AATAA AATAA --AATAA AATAA AAT-A-A AATAA AATAA
45346636 AAT-- AATAA AATAA AATAA AATAA AGA-AA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA A-ATAA AATAA AA
45346671 ATTGGGTTGC
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 3 0.05
4 8 0.12
5 45 0.70
6 2 0.03
7 6 0.09
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:45350413 original size:10 final size:10
Alignment explanation
Indices: 45350379--45350428 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
45350369 TTAAATTCTA
45350379 AAAGATAAAT
1 AAAGATAAAT
45350389 ACAA-ATAAA-
1 A-AAGATAAAT
*
45350398 ATAAGATAATT
1 A-AAGATAAAT
45350409 AAAGATAAAT
1 AAAGATAAAT
*
45350419 AAAAATAAAT
1 AAAGATAAAT
45350429 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 3 0.09
10 27 0.82
11 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:45352477 original size:20 final size:20
Alignment explanation
Indices: 45352452--45352500 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
45352442 TTAAATTTTA
45352452 AAAAATAAATACAAT-TAAAT
1 AAAAATAAATA-AATATAAAT
*
45352472 AAAAATAATTAAATATAAAT
1 AAAAATAAATAAATATAAAT
*
45352492 AAAGATAAA
1 AAAAATAAA
45352501 AGTTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAATAAATAAATATAAAT
Found at i:45352484 original size:10 final size:10
Alignment explanation
Indices: 45352452--45352500 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
45352442 TTAAATTTTA
45352452 AAAAATAAAT
1 AAAAATAAAT
* *
45352462 ACAATTAAAT
1 AAAAATAAAT
*
45352472 AAAAATAATT
1 AAAAATAAAT
*
45352482 AAATATAAAT
1 AAAAATAAAT
*
45352492 AAAGATAAA
1 AAAAATAAA
45352501 AGTTAAAATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:45352491 original size:14 final size:14
Alignment explanation
Indices: 45352454--45352493 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45352444 AAATTTTAAA
* *
45352454 AAATAAATACAATT
1 AAATAAAAATAATT
45352468 AAATAAAAATAATT
1 AAATAAAAATAATT
*
45352482 AAATATAAATAA
1 AAATAAAAATAA
45352494 AGATAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAAAATAATT
Found at i:45352536 original size:13 final size:12
Alignment explanation
Indices: 45352518--45352550 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
45352508 ATTAAATCTA
45352518 AATAATAATCCTT
1 AATAATAATCC-T
45352531 AATAATAATCCT
1 AATAATAATCCT
45352543 AAT-ATAAT
1 AATAATAAT
45352551 TGGAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATAATCCT
Found at i:45353142 original size:18 final size:18
Alignment explanation
Indices: 45353119--45353156 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45353109 TATTAATACA
45353119 TCATTTTTTCTTTTTTTT
1 TCATTTTTTCTTTTTTTT
45353137 TCATTTTTTCTTTTTTTT
1 TCATTTTTTCTTTTTTTT
45353155 TC
1 TC
45353157 TCTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.82
Consensus pattern (18 bp):
TCATTTTTTCTTTTTTTT
Found at i:45353168 original size:18 final size:19
Alignment explanation
Indices: 45353117--45353170 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
45353107 ATTATTAATA
*
45353117 CATCATTTTTTCTTTTTTTTT
1 CATC-TTTTTT-TTTTTTTCT
*
45353138 CATTTTTTCTTTTTTTTTCT
1 CATCTTTT-TTTTTTTTTCT
45353158 C-TCTTTTTTTTTT
1 CATCTTTTTTTTTT
45353171 CTTATTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.21
19 5 0.17
20 13 0.45
21 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (19 bp):
CATCTTTTTTTTTTTTTCT
Found at i:45355269 original size:14 final size:15
Alignment explanation
Indices: 45355250--45355287 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
45355240 AATCTTTAAG
45355250 GATATG-CAATCTTA
1 GATATGACAATCTTA
45355264 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
45355281 GATATGA
1 GATATGA
45355288 TATGCAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:45355301 original size:19 final size:19
Alignment explanation
Indices: 45355250--45355328 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
45355240 AATCTTTAAG
45355250 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45355269 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
45355286 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
*
45355305 GATGTGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
45355326 GAT
1 GAT
45355329 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 17 0.32
19 27 0.51
21 9 0.17
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45362135 original size:29 final size:31
Alignment explanation
Indices: 45362102--45362167 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
45362092 TTCTATTTCA
45362102 AAAAAAAG-GAAAAA-AGAAAAG-AAAAAGAG
1 AAAAAAAGAGAAAAAGA-AAAAGAAAAAAGAG
*
45362131 AAAAAGAGAGAAAAAGAAAAAGAAAAAAGAG
1 AAAAAAAGAGAAAAAGAAAAAGAAAAAAGAG
45362162 AAAAAA
1 AAAAAA
45362168 GAAAAATGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.22
30 11 0.34
31 14 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (31 bp):
AAAAAAAGAGAAAAAGAAAAAGAAAAAAGAG
Found at i:45362135 original size:30 final size:32
Alignment explanation
Indices: 45362101--45362167 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
45362091 CTTCTATTTC
45362101 AAAAAAAAG-GAAAAA-AGAAAAG-AAAAAGAG
1 AAAAAAAAGAGAAAAAGA-AAAAGAAAAAAGAG
*
45362131 -AAAAAGAGAGAAAAAGAAAAAGAAAAAAGAG
1 AAAAAAAAGAGAAAAAGAAAAAGAAAAAAGAG
45362162 AAAAAA
1 AAAAAA
45362168 GAAAAATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 7 0.22
30 11 0.34
31 9 0.28
32 5 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (32 bp):
AAAAAAAAGAGAAAAAGAAAAAGAAAAAAGAG
Found at i:45362142 original size:23 final size:22
Alignment explanation
Indices: 45362116--45362173 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 22
45362106 AAAGGAAAAA
45362116 AGAAAAGAAAAAGAGAAAAAGAG
1 AGAAAAGAAAAAGA-AAAAAGAG
45362139 AGAAAAAGAAAAAGAAAAAAGAG
1 AG-AAAAGAAAAAGAAAAAAGAG
*
45362162 AAAAAAGAAAAA
1 AGAAAAGAAAAA
45362174 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 10 0.30
23 11 0.33
24 12 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AGAAAAGAAAAAGAAAAAAGAG
Found at i:45362167 original size:16 final size:16
Alignment explanation
Indices: 45362118--45362173 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
45362108 AGGAAAAAAG
45362118 AAAAG-AAAAAGAGAA
1 AAAAGAAAAAAGAGAA
*
45362133 AAAGAGAGAAAA-AG-A
1 AAA-AGAAAAAAGAGAA
45362148 AAAAGAAAAAAGAGAA
1 AAAAGAAAAAAGAGAA
45362164 AAAAGAAAAA
1 AAAAGAAAAA
45362174 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 7 0.20
15 9 0.26
16 15 0.43
17 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAGAGAA
Found at i:45362173 original size:6 final size:6
Alignment explanation
Indices: 45362112--45362157 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
45362102 AAAAAAAGGA
* *
45362112 AAAAAG -AAAAG AAAAAG AGAAAA- AGAGAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG AAAAAG AAAAA
45362158 AGAGAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 7 0.21
6 22 0.67
7 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:45363130 original size:44 final size:44
Alignment explanation
Indices: 45363070--45363482 Score: 288
Period size: 44 Copynumber: 9.4 Consensus size: 44
45363060 CAAAGAAACA
*
45363070 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * ** ***
45363114 AGATCTGACATTCCTGTGCTTACAGCAAAGCAGATCGAAGATTTT
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
45363159 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
45363202 AGATTTGGTATCCCTGTGTTTATAGGGAGCAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
** * * * * * * * **
45363246 AGATCTAACATTCCTGTGCTTACAGCGAAGTAGATCAAATATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
45363291 AG--CATGGCATCCATGTGTTTATAGAGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
45363334 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * ***
45363378 AGATCTGGCA-CTCATGTGCTTACAGTGAAGCAGATCGAGGATTTT
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
45363423 AGCAT-T-GCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGT
1 AG-ATCTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
45363466 AGATTTGGCATCTCTGT
1 AGATCTGGCATCCCTGT
45363483 ATTGTCAGAG
Statistics
Matches: 276, Mismatches: 74, Indels: 38
0.71 0.19 0.10
Matches are distributed among these distances:
42 5 0.02
43 35 0.13
44 191 0.69
45 43 0.16
46 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:45363308 original size:132 final size:132
Alignment explanation
Indices: 45363070--45363482 Score: 655
Period size: 132 Copynumber: 3.1 Consensus size: 132
45363060 CAAAGAAACA
45363070 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
45363135 ACAGCAAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
45363200 GC
131 GC
* * *
45363202 AGATTTGGTATCCCTGTGTTTATAGGGAGCAGATCGAAGATAGCAGATCTAACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * * * * *
45363267 ACAGCGAAGTAGATCAAATATTTCAGCATGGCATCCATGTGTTTATAGAGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
45363332 GC
131 GC
* * * *
45363334 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGGCACTCATGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * *
45363399 ACAGTGAAGCAGATCGAGGATTTTAGCATTGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
45363464 GT
131 GC
*
45363466 AGATTTGGCATCTCTGT
1 AGATTTGGCATCCCTGT
45363483 ATTGTCAGAG
Statistics
Matches: 253, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 253 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:45363507 original size:44 final size:44
Alignment explanation
Indices: 45363457--45363549 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
45363447 GGAACAAGTT
** * *
45363457 GAAGATAGTAGATTTGGCATCTCTGTATTGTCAGAGAGAAGATC
1 GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGAAGATC
* *
45363501 GAAGATACCAGATTTGACATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGAAGATC
*
45363545 AAAGA
1 GAAGA
45363550 CATAGCTGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (44 bp):
GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGAAGATC
Found at i:45363898 original size:205 final size:205
Alignment explanation
Indices: 45363536--45364250 Score: 1261
Period size: 205 Copynumber: 3.5 Consensus size: 205
45363526 TATTGGCGGA
* * * *
45363536 GAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* *
45363601 TTGGCATCTTTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
*
45363666 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGGTGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
45363731 TGCTTACAAG
196 TGCTTACAAG
45363741 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
45363806 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
* *
45363871 CACATAGCAGATCCAAACTTCAGATGTTTATACTGATGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
45363936 TGCTTACAAG
196 TGCTTACAAG
* **
45363946 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACGTTGAAGTAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
*
45364011 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
*
45364076 AACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
*
45364141 TACTTACAAG
196 TGCTTACAAG
*
45364151 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATT-AAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAA-CAAATCTAAGATGA
*
45364215 TTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
65 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
45364251 AAGCAGATTT
Statistics
Matches: 487, Mismatches: 22, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
204 2 0.00
205 485 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:45364794 original size:19 final size:19
Alignment explanation
Indices: 45364770--45364867 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
45364760 GATCTTTAAG
45364770 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45364789 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45364808 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
45364825 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
45364844 GATGTGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
45364865 GAT
1 GAT
45364868 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:45364801 original size:36 final size:35
Alignment explanation
Indices: 45364761--45364845 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 35
45364751 TGGAAATATG
45364761 ATCTTTAAGGATATG-CAATCTTAGATATGATATGCA
1 ATCTTT-A-GATATGACAATCTTAGATATGATATGCA
45364797 ATC-TTAGATATGATACAATCTTAGATATGATATGCA
1 ATCTTTAGATATG--ACAATCTTAGATATGATATGCA
45364833 ATC-TTAGATATGA
1 ATCTTTAGATATGA
45364846 TGTGCAATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (35 bp):
ATCTTTAGATATGACAATCTTAGATATGATATGCA
Found at i:45364846 original size:36 final size:36
Alignment explanation
Indices: 45364776--45364846 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
45364766 TAAGGATATG
45364776 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
45364812 CAATCTTAGATATGATATGCAATCTTAGATATGAT
1 CAATCTTAGATATGATATGCAATCTTAGATATGAT
45364847 GTGCAATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:45369111 original size:40 final size:40
Alignment explanation
Indices: 45368951--45369175 Score: 192
Period size: 40 Copynumber: 5.7 Consensus size: 40
45368941 TTGAATGCTG
* * * *
45368951 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ATTAAA
** * *
45368991 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA-CAAGT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATATTAA-A
* * *
45369031 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* * *
45369071 TCCGGGTAAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
* * *
45369111 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATA-TTAAA
* *
45369151 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
45369176 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
39 29 0.19
40 112 0.73
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATTAAA
Found at i:45369193 original size:79 final size:80
Alignment explanation
Indices: 45369031--45369208 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 80
45369021 AGATACAAGT
* *
45369031 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTAAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGTAAAGTCCCGAAGGCATTC
** * *
45369096 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * *
45369111 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAAT-CGGGCT-ATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACT-AAATCCGGG-TAAAGTCCCGAAGGCAT
* *
45369173 TTGAACGAG-GAGCTATA
64 TCGAACGAGTGA-CTAAA
*
45369190 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45369209 TACGTGATTT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
78 16 0.19
79 43 0.52
80 24 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGTAAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:45378867 original size:13 final size:14
Alignment explanation
Indices: 45378824--45378868 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
45378814 GCTAAATTGG
45378824 AAAG-TGATAAAATT
1 AAAGATGAT-AAATT
45378838 AAAGATGATAAAATT
1 AAAGATGAT-AAATT
45378853 AAAGATGAT-AATT
1 AAAGATGATAAATT
45378866 AAA
1 AAA
45378869 TTAAATAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 19 0.63
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (14 bp):
AAAGATGATAAATT
Found at i:45378873 original size:18 final size:15
Alignment explanation
Indices: 45378824--45378863 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
45378814 GCTAAATTGG
45378824 AAAG-TGATAAAATT
1 AAAGATGATAAAATT
45378838 AAAGATGATAAAATT
1 AAAGATGATAAAATT
45378853 AAAGATGATAA
1 AAAGATGATAA
45378864 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (15 bp):
AAAGATGATAAAATT
Found at i:45382624 original size:43 final size:43
Alignment explanation
Indices: 45382536--45382649 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
45382526 GATGTGATTA
***
45382536 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGGTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCAATTACG
*
45382579 TGTAAGACCATGTCTGGGACATTGGCATTGTTATT-CAATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGCAATTACG
* * * *
45382622 TGTAAGACCCTGTTTGGGATAGTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
45382650 CAATATGTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 58 0.94
44 4 0.06
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCAATTACG
Found at i:45382769 original size:63 final size:63
Alignment explanation
Indices: 45382670--45382797 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
45382660 TAACATGTAA
*
45382670 GACCATATCTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATTCTTAACGATTTT
1 GACCATATCTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTT
*
45382733 GACCATATTTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTT
1 GACCATATCTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTT
45382796 GA
1 GA
45382798 ATGGTTCAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.38
Consensus pattern (63 bp):
GACCATATCTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTT
Found at i:45392302 original size:22 final size:21
Alignment explanation
Indices: 45392277--45392331 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
45392267 TTAGGGTTTT
*
45392277 TTAGGATTTAATT-GATTTAGGG
1 TTAGGATTT--TTAGATTTAAGG
45392299 TTAGGATTTTTAAGATTTAAGG
1 TTAGGATTTTT-AGATTTAAGG
45392321 TTAGGATTTTT
1 TTAGGATTTTT
45392332 TAGAGTTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
22 28 0.93
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
TTAGGATTTTTAGATTTAAGG
Found at i:45392490 original size:15 final size:16
Alignment explanation
Indices: 45392457--45392490 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45392447 GGATTAATTG
45392457 ATTAAATTAGAGATTA
1 ATTAAATTAGAGATTA
*
45392473 ATTAAATTA-AGGTTA
1 ATTAAATTAGAGATTA
45392488 ATT
1 ATT
45392491 GATTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
ATTAAATTAGAGATTA
Found at i:45392497 original size:19 final size:19
Alignment explanation
Indices: 45392443--45392532 Score: 105
Period size: 19 Copynumber: 4.8 Consensus size: 19
45392433 AAATTAGGGT
*
45392443 ATTAGGATTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
* *
45392462 ATTAGAG---ATTAATTAA
1 ATTAGGGTTAATTGATTAA
*
45392478 ATTAAGGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
45392497 ATTTAGGGTTAATTGATTAA
1 A-TTAGGGTTAATTGATTAA
*
45392517 TTTAGGGTTAATTGAT
1 ATTAGGGTTAATTGAT
45392533 ACATAATCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
16 13 0.22
19 29 0.49
20 17 0.29
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:45392916 original size:7 final size:7
Alignment explanation
Indices: 45392906--45392931 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
45392896 CTATTAATTT
45392906 TAAATAC
1 TAAATAC
45392913 TAAATAC
1 TAAATAC
45392920 TAAATAC
1 TAAATAC
45392927 TAAAT
1 TAAAT
45392932 TAGAGTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAATAC
Found at i:45393298 original size:126 final size:125
Alignment explanation
Indices: 45393070--45393497 Score: 658
Period size: 126 Copynumber: 3.4 Consensus size: 125
45393060 TTTTTGCAAG
* *
45393070 AATAATTTTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
45393135 AGCAAAATTTCTAAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCT-AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
45393196 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
45393261 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCT-AAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * * *
45393322 AATAATTTTGAGTAGACGTTTCTGAATAAATAGTGTCCAAAACGCTTCAAGCAAGATGCATTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
45393387 AGCAAAATTTCTAACAAAAGCTCCTACGTGGACGCTATTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAA-AAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
45393448 AATAATTCTTAGTAAACGTTTTTGAACAAATAGTGTCGAAAACGCTTCAA
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAA
45393498 ACGTTTTATG
Statistics
Matches: 275, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
125 2 0.01
126 273 0.99
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (125 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:45396055 original size:18 final size:18
Alignment explanation
Indices: 45396029--45396069 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45396019 GACTAGGAAA
* *
45396029 AGGAAACATATAAAGGTT
1 AGGATACATATAAAGGCT
*
45396047 AGGATACATATAAGGGCT
1 AGGATACATATAAAGGCT
45396065 AGGAT
1 AGGAT
45396070 TCGCACCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:45397702 original size:52 final size:49
Alignment explanation
Indices: 45397636--45397797 Score: 114
Period size: 48 Copynumber: 3.3 Consensus size: 49
45397626 TTTAATTACA
* *
45397636 ATTGCATAAATTAATTAATGCAAACATCATAAATGAAAAAAAAATCAAGCAGT
1 ATTGCA-AATTTAATTAAT--AAACA-CATAAATGAAAAAAAAATCAAACAGT
** * * *
45397689 ATTG-AAATTTTAATT-ATAATTACATAAATGAATAAAATATCAAATAGT
1 ATTGCAAA-TTTAATTAATAAACACATAAATGAAAAAAAAATCAAACAGT
**** * * * *
45397737 ATTGCAAATTTAATTAA-ATTTGCATAAATTAAAAAAATATCGAATAGT
1 ATTGCAAATTTAATTAATAAACACATAAATGAAAAAAAAATCAAACAGT
*
45397785 ATTGAAAATTTAA
1 ATTGCAAATTTAA
45397798 AATTATCAAT
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
48 71 0.76
49 7 0.08
51 4 0.04
52 7 0.08
53 4 0.04
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (49 bp):
ATTGCAAATTTAATTAATAAACACATAAATGAAAAAAAAATCAAACAGT
Found at i:45397715 original size:48 final size:46
Alignment explanation
Indices: 45397663--45397797 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 46
45397653 ATGCAAACAT
* *
45397663 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTA
1 CATAAATGAAAAAAATATCAA-TAGTATTGAAA-TTTAATTA-AATTTA
* *
45397711 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAATTAAATTTA
*
45397759 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAA
45397798 AATTATCAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.03
48 69 0.91
49 5 0.07
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAAATATCAATAGTATTGAAATTTAATTAAATTTA
Found at i:45397998 original size:20 final size:19
Alignment explanation
Indices: 45397966--45398004 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
45397956 AATTTCAATG
* *
45397966 AAATTTGATAGAATTTTGA
1 AAATTTGAAAGAATGTTGA
45397985 AAATATTGAAAGAATGTTGA
1 AAAT-TTGAAAGAATGTTGA
45398005 GAGTTATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (19 bp):
AAATTTGAAAGAATGTTGA
Found at i:45398936 original size:18 final size:18
Alignment explanation
Indices: 45398899--45398936 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
45398889 AAAAAATCAC
*
45398899 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
45398917 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
45398935 AT
1 AT
45398937 ATGGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:45401878 original size:13 final size:13
Alignment explanation
Indices: 45401860--45401938 Score: 59
Period size: 13 Copynumber: 5.5 Consensus size: 13
45401850 GCCGTGTGTC
45401860 ACACACGGCCTAG
1 ACACACGGCCTAG
* *
45401873 ACACACGCCCGTGTG
1 ACACACGGCC-T-AG
45401888 TCACACACGGCCTAG
1 --ACACACGGCCTAG
* *
45401903 ACACACGCCCGTGTTG
1 ACACACGGCC---TAG
45401919 ACACACGGCCTAG
1 ACACACGGCCTAG
45401932 ACACACG
1 ACACACG
45401939 CCCGTGTGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
13 27 0.53
14 1 0.02
15 2 0.04
16 12 0.24
17 9 0.18
ACGTcount: A:0.27, C:0.39, G:0.23, T:0.11
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:45401932 original size:29 final size:30
Alignment explanation
Indices: 45401851--45401946 Score: 176
Period size: 30 Copynumber: 3.2 Consensus size: 30
45401841 ATGGGGCAGG
45401851 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
45401881 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
*
45401911 CCGTGT-TGACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGGCCTAGACACACGC
45401940 CCGTGTG
1 CCGTGTG
45401947 CCTACTCGTG
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 28 0.44
30 36 0.56
ACGTcount: A:0.22, C:0.39, G:0.25, T:0.15
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACACGC
Found at i:45402702 original size:47 final size:47
Alignment explanation
Indices: 45402641--45402803 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 47
45402631 CTGCCAATGC
* * *
45402641 CATGTCCCAGACATGGTTTTACATTGACTATCATCTCGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACATTGACTCTCATCTCGTAGCCGATG
* * *
45402688 CATGTCCCAGACAT-GTCTTACACT-AGCTCTCATCTCATTGCCGATG
1 CATGTCCCAGACATGGTCTTACATTGA-CTCTCATCTCGTAGCCGATG
* * *
45402734 CCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACATTGACTCTCAT-CTCGTAGCCGATG
45402782 CATGTCCCAGACAT-GTCTTACA
1 CATGTCCCAGACATGGTCTTACA
45402804 CTAGCCCACA
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 32 0.32
47 42 0.42
48 24 0.24
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACATTGACTCTCATCTCGTAGCCGATG
Found at i:45402798 original size:94 final size:94
Alignment explanation
Indices: 45402632--45402808 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 94
45402622 ATGGGTAAGC
* * *
45402632 TGCCAATGCCATGTCCCAGACATGGTTTTACATTGACTATCATCTCGTAGCTGATGCATGTCCCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATATCGTAGCCGATGCATGTCCCA
45402697 GACATGTCTTACACTAGCTCTCATCTCAT
66 GACATGTCTTACACTAGCTCTCATCTCAT
* * * *
45402726 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGCCGATGCATGTCCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCAT-ATCGTAGCCGATGCATGTCCC
45402790 AGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
45402809 CCACAAAGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 74 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (94 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATTGACTATCATATCGTAGCCGATGCATGTCCCA
GACATGTCTTACACTAGCTCTCATCTCAT
Found at i:45403361 original size:4 final size:4
Alignment explanation
Indices: 45403352--45403376 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45403342 AGCAAATGTG
45403352 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
45403377 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:45405658 original size:30 final size:30
Alignment explanation
Indices: 45405624--45405681 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45405614 AAATTCACAT
* *
45405624 CTTTGATAAAATGACCATTTTGCCCCTAGA
1 CTTTGACAAAATGACCATTTTACCCCTAGA
* *
45405654 CTTTGGCATAATGACCATTTTACCCCTA
1 CTTTGACAAAATGACCATTTTACCCCTA
45405682 TGCTCGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (30 bp):
CTTTGACAAAATGACCATTTTACCCCTAGA
Found at i:45411699 original size:67 final size:67
Alignment explanation
Indices: 45411486--45411791 Score: 328
Period size: 67 Copynumber: 4.6 Consensus size: 67
45411476 GGCTGTAACA
* * * * **
45411486 GGGT-TAATGTATAAGACCATAGCTCGGCTATGGAAACATAGAGAGTTTTCCAATACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAGGACATTAAACA
45411550 TG
66 TG
* * ** * * *
45411552 GGGTATATTGTGTAAGACCATAGCTTGACTATATCAATATAGAGAG-TCTACAGGACATTAATCA
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAGGACATTAAACA
45411616 TG
66 TG
* * * * * * *
45411618 TGGTATATTATGTAAGACCATAGGTCGACTGTGGCAACAGAGAGAGTCCTCCAGGACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAGGACATTAAACA
45411683 TG
66 TG
* * * * * *
45411685 GTGTATAATGTGTAAGACCATAGCTCAACTATGACAACATAGTGAGTTTTCTAGGACATTAAACA
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAGGACATTAAACA
45411750 TG
66 TG
* * * *
45411752 GGGTATGATGTGTAAAACCATATCTCAACTATGGCAACAT
1 GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACAT
45411792 TTGGAGTCAA
Statistics
Matches: 195, Mismatches: 43, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
66 56 0.29
67 139 0.71
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (67 bp):
GGGTATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCTCCAGGACATTAAACA
TG
Found at i:45412929 original size:17 final size:17
Alignment explanation
Indices: 45412907--45412945 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
45412897 CCCATGGAAA
* *
45412907 ATACTATCCGCCAGGTG
1 ATACTATCCACCACGTG
45412924 ATACTATCCACCACGTG
1 ATACTATCCACCACGTG
45412941 ATACT
1 ATACT
45412946 TATTCGCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (17 bp):
ATACTATCCACCACGTG
Found at i:45413232 original size:34 final size:34
Alignment explanation
Indices: 45413189--45413262 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
45413179 CTTTTTGCCC
*
45413189 TTTGTATCTAGATTGGACAAAAGTATAGTCATAG
1 TTTGTATCTAGATTGGACAAAAGTATAGTCACAG
*
45413223 TTTGTATCTAGATTGGACAGAAGTATAGTCACAG
1 TTTGTATCTAGATTGGACAAAAGTATAGTCACAG
45413257 -TTGTAT
1 TTTGTAT
45413263 AGTCCAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.16
34 32 0.84
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (34 bp):
TTTGTATCTAGATTGGACAAAAGTATAGTCACAG
Found at i:45415699 original size:25 final size:27
Alignment explanation
Indices: 45415654--45415704 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
45415644 TTTTAACTAA
* *
45415654 AGTGTACATTTATATTGTAAA-AAAAT
1 AGTGTACATTAATATTATAAATAAAAT
45415680 AGTGTA-ATTAATATTATAAATAAAA
1 AGTGTACATTAATATTATAAATAAAA
45415705 CATGAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (27 bp):
AGTGTACATTAATATTATAAATAAAAT
Found at i:45419445 original size:93 final size:93
Alignment explanation
Indices: 45419286--45419456 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
45419276 GGATGGTTGA
* * * *
45419286 GCATCCGAACTCGTTGAATTGAGTCCGGGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
45419351 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
45419379 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTC-CTTTATGGATGCGAACGTCCGATCTCATTGAG
1 GCATCCGAACTCGTTGAATTGAGTCCGAGTTCAC-TTATGGATGCAAACGTCCGAACTCATTGAG
45419443 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
45419457 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45419723 original size:19 final size:20
Alignment explanation
Indices: 45419686--45419723 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45419676 ATAAGGTGGT
45419686 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
45419706 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
45419724 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:45426248 original size:49 final size:47
Alignment explanation
Indices: 45426134--45426303 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
45426124 TATTTGAATA
45426134 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
45426183 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
45426230 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
45426277 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
45426304 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 99 0.89
49 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:45431172 original size:46 final size:46
Alignment explanation
Indices: 45431122--45431293 Score: 202
Period size: 46 Copynumber: 3.7 Consensus size: 46
45431112 TGGTTGAGCA
*
45431122 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
**** * * ** *
45431168 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAACG
* *
45431214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
45431260 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45431294 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
45 1 0.01
46 99 0.98
47 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45431276 original size:92 final size:92
Alignment explanation
Indices: 45431119--45431288 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
45431109 GGATGGTTGA
* *
45431119 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
45431184 TGAGTCCGAGTTCGGAGATGTAACTAG
66 TGAGTCCGAGTTCGGAGATGTAACTAG
* * *
45431211 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
45431276 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
45431289 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGGAGATGTAACTAG
Found at i:45431555 original size:19 final size:20
Alignment explanation
Indices: 45431518--45431555 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45431508 ATAAGGTGGT
45431518 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
45431538 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
45431556 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:45453910 original size:27 final size:26
Alignment explanation
Indices: 45453862--45453913 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
45453852 GCGAGGCTGC
*
45453862 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
45453888 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
45453914 TTTCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:45460068 original size:25 final size:25
Alignment explanation
Indices: 45460040--45460089 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45460030 GAATTAAGAT
45460040 TGTATAAATTGAAATTGAAATTGTA
1 TGTATAAATTGAAATTGAAATTGTA
45460065 TGTATAAATTGAAATTGAAATTGTA
1 TGTATAAATTGAAATTGAAATTGTA
45460090 AAAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (25 bp):
TGTATAAATTGAAATTGAAATTGTA
Found at i:45460091 original size:19 final size:19
Alignment explanation
Indices: 45460045--45460091 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
45460035 AAGATTGTAT
45460045 AAATTG-AAATTGAAATTG
1 AAATTGTAAATTGAAATTG
* *
45460063 -TATGTATAAATTGAAATTG
1 AAAT-TGTAAATTGAAATTG
45460082 AAATTGTAAA
1 AAATTGTAAA
45460092 AATAAATAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 5
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.09
18 1 0.05
19 17 0.77
20 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (19 bp):
AAATTGTAAATTGAAATTG
Found at i:45460096 original size:25 final size:25
Alignment explanation
Indices: 45460043--45460106 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
45460033 TTAAGATTGT
***
45460043 ATAAATTGAAATTGAAATTGTATGT
1 ATAAATTGAAATTGAAATTGTAAAA
45460068 ATAAATTGAAATTGAAATTGTAAAA
1 ATAAATTGAAATTGAAATTGTAAAA
*
45460093 ATAAATAG-AATTGA
1 ATAAATTGAAATTGA
45460107 GGGAAAAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 6 0.17
25 29 0.83
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (25 bp):
ATAAATTGAAATTGAAATTGTAAAA
Found at i:45461528 original size:24 final size:24
Alignment explanation
Indices: 45461501--45461548 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
45461491 TATATTTTTT
*
45461501 TTATAATTTTTATATTATGT-TATA
1 TTATAATTTTGATA-TATGTGTATA
45461525 TTATAATTTTGATATATGTGTATA
1 TTATAATTTTGATATATGTGTATA
45461549 AGATGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (24 bp):
TTATAATTTTGATATATGTGTATA
Found at i:45474930 original size:46 final size:46
Alignment explanation
Indices: 45474784--45475000 Score: 151
Period size: 46 Copynumber: 4.7 Consensus size: 46
45474774 AGTATATCTG
* * * * *
45474784 TGCCGATTCCATGTCCTAGACATGGTCTTCCACT-G-ACACATCTCG
1 TGCCGA-TGCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCA
* * *
45474829 TAGCCGATGCATGTCCCAGACAT-GTCTTATACTAGC-TTACGTCTCGA
1 T-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCACT-CATCTC-A
* *
45474876 GGCCGATGCATGTCCTAGACAT-GTCTTACACTAGCACTCATCTCAA
1 TGCCGATGCATGTCCCAGACATGGTCTTACACTAGCACTCATCTC-A
* * * * * * *
45474922 TGCTGATGCCATGTCCCAAACATGGTATTACACTGGCTCTCATAAT-G
1 TGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCACTCAT-CTCA
*
45474969 TGGCCGATGCATGTCCCAAACAT-GTCTTACAC
1 T-GCCGATGCATGTCCCAGACATGGTCTTACAC
45475001 CAGCTCACAA
Statistics
Matches: 137, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 8 0.06
45 16 0.12
46 62 0.45
47 28 0.20
48 22 0.16
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGGTCTTACACTAGCACTCATCTCA
Found at i:45476303 original size:42 final size:43
Alignment explanation
Indices: 45476240--45476347 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 43
45476230 GAAGTTTGAA
* * * *
45476240 CTCGTTGAGTGGTCCGGGTTCATGATATATGTGA-CATCTGAG
1 CTCGTTGAGTGGTCCGAGTTCATGATAGATGTGAGCACCCGAG
* * *
45476282 CTCGTTGAGTGGTCCAAGTTCATTATGGATGTGAGCACCCGAG
1 CTCGTTGAGTGGTCCGAGTTCATGATAGATGTGAGCACCCGAG
*
45476325 CTCGTTGAGTGGTCTGAGTTCAT
1 CTCGTTGAGTGGTCCGAGTTCAT
45476348 AATGGATGCG
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 29 0.52
43 27 0.48
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.32
Consensus pattern (43 bp):
CTCGTTGAGTGGTCCGAGTTCATGATAGATGTGAGCACCCGAG
Found at i:45476338 original size:43 final size:42
Alignment explanation
Indices: 45476240--45476355 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 42
45476230 GAAGTTTGAA
* * ** * *
45476240 CTCGTTGAGTGGTCCGGGTTCATGATATATGTGACATCTGAG
1 CTCGTTGAGTGGTCCGAGTTCATAATGGATGTGACACCCGAG
* *
45476282 CTCGTTGAGTGGTCCAAGTTCATTATGGATGTGAGCACCCGAG
1 CTCGTTGAGTGGTCCGAGTTCATAATGGATGTGA-CACCCGAG
*
45476325 CTCGTTGAGTGGTCTGAGTTCATAATGGATG
1 CTCGTTGAGTGGTCCGAGTTCATAATGGATG
45476356 CGATACATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCGAGTTCATAATGGATGTGACACCCGAG
Found at i:45477944 original size:19 final size:19
Alignment explanation
Indices: 45477920--45477956 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45477910 TTACACGGTT
**
45477920 GGAGGACATTGGCGTGTCA
1 GGAGGACACCGGCGTGTCA
45477939 GGAGGACACCGGCGTGTC
1 GGAGGACACCGGCGTGTC
45477957 CCCTGTCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (19 bp):
GGAGGACACCGGCGTGTCA
Found at i:45479086 original size:27 final size:28
Alignment explanation
Indices: 45479047--45479100 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
45479037 TAAGGATATT
45479047 AAGACATTAGTGGGTACTC-TTGAGTTGA
1 AAGACATTAGT-GGTACTCATTGAGTTGA
*
45479075 AAGA-ATTTGTGGTACTCATTGAGTTG
1 AAGACATTAGTGGTACTCATTGAGTTG
45479101 GCTTGTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 13 0.54
28 4 0.17
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.35
Consensus pattern (28 bp):
AAGACATTAGTGGTACTCATTGAGTTGA
Found at i:45489912 original size:10 final size:10
Alignment explanation
Indices: 45489897--45489922 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
45489887 AAACACTAAG
45489897 AGTTTGAATA
1 AGTTTGAATA
45489907 AGTTTGAATA
1 AGTTTGAATA
45489917 AGTTTG
1 AGTTTG
45489923 TTGCTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (10 bp):
AGTTTGAATA
Found at i:45495595 original size:19 final size:19
Alignment explanation
Indices: 45495571--45495608 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45495561 TTTGTACAGG
45495571 TATGTACATAAAGTTTATA
1 TATGTACATAAAGTTTATA
45495590 TATGTACATAAAGTTTATA
1 TATGTACATAAAGTTTATA
45495609 AGCATTGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
TATGTACATAAAGTTTATA
Found at i:45496281 original size:18 final size:19
Alignment explanation
Indices: 45496258--45496293 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45496248 GAAGAGTTTT
45496258 ATTG-AAAACCTTGCTTTC
1 ATTGAAAAACCTTGCTTTC
*
45496276 ATTGAAAAACCTTTCTTT
1 ATTGAAAAACCTTGCTTT
45496294 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (19 bp):
ATTGAAAAACCTTGCTTTC
Found at i:45497597 original size:28 final size:29
Alignment explanation
Indices: 45497556--45497646 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
45497546 AAGTCTACAT
*
45497556 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
45497584 TCATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
45497613 ACATTCATATGGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCA-CTAGGCCCAAATC
45497642 A-ATTC
1 ACATTC
45497647 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:45502406 original size:40 final size:40
Alignment explanation
Indices: 45502322--45502456 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
45502312 ACTCAGATCC
* * * **
45502322 GAAGGCATTTGTGCTAGTTACTATATCCGGAATAAGATCC-
1 GAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAG-TCCT
* *
45502362 GAAGGCAATT-GTGCTAGCTATTATAACTGGGTTAAGTCCT
1 GAAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAGTCCT
**
45502402 GAAGGCATTCGTGCCGGTTATTATAACCGGGTTAAGT-CT
1 GAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCT
45502441 CGAAGGCATTCGTGCT
1 -GAAGGCATTCGTGCT
45502457 GGTTGTTACA
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
39 8 0.10
40 69 0.86
41 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (40 bp):
GAAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCT
Found at i:45510492 original size:40 final size:40
Alignment explanation
Indices: 45510430--45510512 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
45510420 TATTTGGATG
* * *
45510430 ATATCCGGACTCAGATCTGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
* *
45510470 ATATTCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
45510510 ATA
1 ATA
45510513 ACTGGGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:45510530 original size:40 final size:40
Alignment explanation
Indices: 45510486--45510562 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
45510476 GGACTAAGAT
* *
45510486 CCGAAGGCAATT-GTGCTAGTTATTATAACTGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCGAGTTATTATAACCGGGTTAAGTC
*
45510526 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAA
1 CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAA
45510563 ATTCTCTGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 30 0.91
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTATAACCGGGTTAAGTC
Found at i:45512758 original size:24 final size:24
Alignment explanation
Indices: 45512730--45512789 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
45512720 TAAATACCAA
* *
45512730 TCCAACCTTGCACTCCGTATCCCT
1 TCCAACCCTACACTCCGTATCCCT
*
45512754 TCCAACCCTACACTCTGTATCCCT
1 TCCAACCCTACACTCCGTATCCCT
45512778 TCCAACCCTACA
1 TCCAACCCTACA
45512790 GTCGTCAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.22, C:0.47, G:0.05, T:0.27
Consensus pattern (24 bp):
TCCAACCCTACACTCCGTATCCCT
Found at i:45513328 original size:29 final size:28
Alignment explanation
Indices: 45513264--45513348 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 28
45513254 ACATACATGG
* * *
45513264 ATATGGCCCACTAGGTCCAATCTCATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
*
45513292 ATACGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
45513321 ATATGGCCCATCT-GGCCCGAATCA-ATTC
1 ATATGGCCCAT-TAGGCCC-AATCACATTC
45513349 CAAGCCATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.39
29 29 0.59
30 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:45520971 original size:18 final size:18
Alignment explanation
Indices: 45520933--45520996 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
45520923 CAATGATATG
45520933 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
45520950 CAATCTTAGATATGATTA
1 CAATCTTAGATATGATTA
* *
45520968 CAATCTTAGGTATGATATG
1 CAATCTTAGATATGAT-TA
45520987 CAATCTTAGA
1 CAATCTTAGA
45520997 AGATATGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
17 15 0.36
18 17 0.40
19 10 0.24
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:45521003 original size:17 final size:19
Alignment explanation
Indices: 45520925--45520996 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 19
45520915 ATAATCTTCA
45520925 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45520944 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
45520961 ATGAT-TACAATCTTAGGT
1 ATGATATGCAATCTTAGAT
45520979 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
45520997 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.34
18 15 0.32
19 16 0.34
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:45521032 original size:21 final size:23
Alignment explanation
Indices: 45520988--45521032 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
45520978 TATGATATGC
*
45520988 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
45521011 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
45521032 A
1 A
45521033 GATTCCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:45522448 original size:12 final size:12
Alignment explanation
Indices: 45522433--45522457 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45522423 TAACACTCGA
45522433 TTTAAAAATGGT
1 TTTAAAAATGGT
45522445 TTTAAAAATGGT
1 TTTAAAAATGGT
45522457 T
1 T
45522458 ACGACAGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTAAAAATGGT
Found at i:45526679 original size:8 final size:7
Alignment explanation
Indices: 45526666--45526721 Score: 62
Period size: 7 Copynumber: 7.9 Consensus size: 7
45526656 TCTATTTCAA
45526666 AAAAAAGG
1 AAAAAA-G
45526674 AAAAAA-
1 AAAAAAG
*
45526680 AGAAAAG
1 AAAAAAG
45526687 AAAAAGAG
1 AAAAA-AG
45526695 AAAAAA-
1 AAAAAAG
45526701 AGAAAAAG
1 A-AAAAAG
45526709 AAAAAAG
1 AAAAAAG
45526716 AAAAAA
1 AAAAAA
45526722 TGGAGAGGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
6 6 0.14
7 22 0.52
8 14 0.33
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:45526685 original size:6 final size:6
Alignment explanation
Indices: 45526676--45526720 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
45526666 AAAAAAGGAA
*
45526676 AAAAAG -AAAAG AAAAAG -AGAA- AAAAAG AAAAAG AAAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAA
45526721 ATGGAGAGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
5 11 0.33
6 16 0.48
7 6 0.18
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:45526699 original size:22 final size:21
Alignment explanation
Indices: 45526666--45526721 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 21
45526656 TCTATTTCAA
45526666 AAAAAAGGAAAAAAAG-AAAAG
1 AAAAAA-GAAAAAAAGAAAAAG
45526687 AAAAAGAGAAAAAAAGAAAAAG
1 AAAAA-AGAAAAAAAGAAAAAG
45526709 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
45526722 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 22 0.67
22 11 0.33
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAGAAAAAG
Found at i:45528057 original size:78 final size:78
Alignment explanation
Indices: 45527955--45528405 Score: 708
Period size: 78 Copynumber: 5.8 Consensus size: 78
45527945 CAAAGAAACA
* * * * *
45527955 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGTAGATCTAACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
45528020 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
45528033 AATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGATCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
45528098 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
45528111 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
45528175 AGCAGATCCAAGTT
65 AGCAGATCCAAGAT
* * *
45528189 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGATCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
45528254 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
45528267 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
45528331 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
45528345 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
45528406 GTGTTTACAT
Statistics
Matches: 344, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
77 2 0.01
78 340 0.99
79 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:45528498 original size:45 final size:45
Alignment explanation
Indices: 45528419--45528617 Score: 223
Period size: 45 Copynumber: 4.5 Consensus size: 45
45528409 TTTACATTGA
* *
45528419 AGCAGATC-CAAGATGACAGATTTGGCATCTCTGTATTAGACAGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGA-AGGG
* *
45528464 AGCAAATCAG-AGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGA-AGGG
* * *
45528509 AGCAGAT-TGAAGA-AGCAGATTTGGCGTCTCTG-ATTAGAAGGGG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGAA-GGG
* *
45528552 AGCAGATC-GAAGATAACAGATTTGGCGTCTCTGTATTAGATGGAG
1 AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGAAGG-G
*
45528597 AGCAGATCA-AAGATAGCAGAT
1 AGCAGATCAGAAGATAACAGAT
45528618 ATCGCCTTCC
Statistics
Matches: 134, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
43 21 0.16
44 38 0.28
45 75 0.56
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (45 bp):
AGCAGATCAGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGG
Found at i:45528566 original size:88 final size:90
Alignment explanation
Indices: 45528419--45528617 Score: 264
Period size: 88 Copynumber: 2.2 Consensus size: 90
45528409 TTTACATTGA
*
45528419 AGCAGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCAGAGATAACAG
1 AGCAGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCAGAGATAACAG
*
45528483 ATTTGGCATCTCTGTATTAGACGGGG
65 ATTTGGCATCTCTGTATTAGACGGAG
** * *
45528509 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTG-ATTAGA-AGGGGAGCAGATC-GAAGATAACA
1 AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACA-GGGAGCAAATCAG-AGATAACA
* *
45528570 GATTTGGCGTCTCTGTATTAGATGGAG
64 GATTTGGCATCTCTGTATTAGACGGAG
45528597 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCAAAGATAGCAGAT
45528618 ATCGCCTTCC
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
87 2 0.02
88 59 0.61
89 23 0.24
90 12 0.12
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.24
Consensus pattern (90 bp):
AGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCAGAGATAACAGA
TTTGGCATCTCTGTATTAGACGGAG
Found at i:45529007 original size:18 final size:18
Alignment explanation
Indices: 45528969--45529032 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
45528959 CAATGATATG
45528969 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
45528986 CAATCTTAGATATGATTA
1 CAATCTTAGATATGATTA
* *
45529004 CAATCTTAGGTATGATATG
1 CAATCTTAGATATGAT-TA
45529023 CAATCTTAGA
1 CAATCTTAGA
45529033 AGATATGATT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
17 15 0.36
18 17 0.40
19 10 0.24
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:45529039 original size:17 final size:19
Alignment explanation
Indices: 45528961--45529032 Score: 105
Period size: 17 Copynumber: 3.9 Consensus size: 19
45528951 ATAATCTTCA
45528961 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
45528980 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
45528997 ATGAT-TACAATCTTAGGT
1 ATGATATGCAATCTTAGAT
45529015 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
45529033 AGATATGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 16 0.34
18 15 0.32
19 16 0.34
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:45530483 original size:12 final size:12
Alignment explanation
Indices: 45530468--45530492 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45530458 TAAAACTCAA
45530468 TTTAAAAATGGT
1 TTTAAAAATGGT
45530480 TTTAAAAATGGT
1 TTTAAAAATGGT
45530492 T
1 T
45530493 ACCACAGCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTAAAAATGGT
Found at i:45535445 original size:25 final size:25
Alignment explanation
Indices: 45535398--45535446 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45535388 TGTAGAGAAA
*
45535398 AAATTCTCTAAATAAATTATTTTAG
1 AAATTCTCTAAAGAAATTATTTTAG
* * *
45535423 AAATTTTCTAAAGATATTTTTTTA
1 AAATTCTCTAAAGAAATTATTTTA
45535447 TTTACAACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (25 bp):
AAATTCTCTAAAGAAATTATTTTAG
Found at i:45541821 original size:105 final size:105
Alignment explanation
Indices: 45541664--45542230 Score: 980
Period size: 105 Copynumber: 5.4 Consensus size: 105
45541654 ATGCAGAAGG
45541664 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
45541729 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAAT
66 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAAT
*
45541769 ACAATTTAATTTAATTAGGTAATTTAACAATAAAACAAAAGTAAACAAAATATTTTTCGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
45541834 AATT-AAA-AAAATAAAATATTTAAAATAAAACTTTAAAT
66 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAAT
45541872 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
*
45541937 AATTAAAATAAAATAAAATATTTAAAATAAAATTTTAAAT
66 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAAT
*
45541977 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTTATTA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
*
45542042 AATTAAAATAACAT-AAATATTTAAAATAAAACTTTAAAT
66 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAAT
* * *
45542081 ATAATTTAATTTAATTAGGTGATTTAAAAATAAAATAAAAGTAGAA-AAAATATTTTTCGTGATT
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTA-AACAAAATATTTTTCGTGATT
45542145 AAATTAAAATAAAATAAAATAACATATTCAAAATAAAACTTTAAAT
65 AAATTAAAATAAAATAAAAT---AT-TT-AAAATAAAACTTTAAAT
*
45542191 ACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAA
45542231 TATTTAAAAT
Statistics
Matches: 440, Mismatches: 13, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
103 99 0.22
104 101 0.23
105 181 0.41
108 2 0.00
109 2 0.00
110 55 0.12
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (105 bp):
ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAAT
Found at i:45541975 original size:13 final size:14
Alignment explanation
Indices: 45541945--45541975 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45541935 TAAATTAAAA
45541945 TAAAATAAAATATT
1 TAAAATAAAATATT
45541959 TAAAATAAAAT-TT
1 TAAAATAAAATATT
45541972 TAAA
1 TAAA
45541976 TACAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAATAAAATATT
Done.