Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 299 of 325
Found at i:91445320 original size:2 final size:2
Alignment explanation
Indices: 91445315--91445390 Score: 57
Period size: 2 Copynumber: 38.5 Consensus size: 2
91445305 GCATTCCCCC
* * *
91445315 CT CT CT CT CT CT CT CT CT GC- CT CT CC CT CC CT CC CT CT CT CT
1 CT CT CT CT CT CT CT CT CT -CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
91445357 CC CT CG CC CT CT CC CT CT CC CT CT CT CT C- CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
91445391 AATTTAACAC
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
1 2 0.04
2 53 0.95
3 1 0.02
ACGTcount: A:0.00, C:0.61, G:0.03, T:0.37
Consensus pattern (2 bp):
CT
Found at i:91445338 original size:14 final size:14
Alignment explanation
Indices: 91445321--91445386 Score: 73
Period size: 14 Copynumber: 4.7 Consensus size: 14
91445311 CCCCCTCTCT
* *
91445321 CTCTCTCTCTCTGC
1 CTCTCTCTCCCTCC
*
91445335 CTCTCCCTCCCTCC
1 CTCTCTCTCCCTCC
91445349 CTCTCTCTCCCTCGC
1 CTCTCTCTCCCTC-C
91445364 C-CTCTC-CCTCTCC
1 CTCTCTCTCC-CTCC
91445377 CTCTCTCTCC
1 CTCTCTCTCC
91445387 TCTCAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.09
14 36 0.82
15 4 0.09
ACGTcount: A:0.00, C:0.62, G:0.03, T:0.35
Consensus pattern (14 bp):
CTCTCTCTCCCTCC
Found at i:91445361 original size:24 final size:22
Alignment explanation
Indices: 91445319--91445390 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 22
91445309 TCCCCCCTCT
* *
91445319 CTCTCTCTCTCTCTGCCTCTCC
1 CTCTCCCTCTCTCTCCCTCTCC
*
91445341 CTCCCTCCCTCTCTCTCCCTCGCC
1 CT--CTCCCTCTCTCTCCCTCTCC
* *
91445365 CTCTCCCTCTCCCTCTCTCT-C
1 CTCTCCCTCTCTCTCCCTCTCC
91445386 CTCTC
1 CTCTC
91445391 AATTTAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
21 6 0.14
22 17 0.40
24 19 0.45
ACGTcount: A:0.00, C:0.61, G:0.03, T:0.36
Consensus pattern (22 bp):
CTCTCCCTCTCTCTCCCTCTCC
Found at i:91457694 original size:33 final size:33
Alignment explanation
Indices: 91457652--91457748 Score: 167
Period size: 33 Copynumber: 2.9 Consensus size: 33
91457642 TCTTCTTGAC
*
91457652 ATTCCAGCTCCTGTCCAGCAACCAAACACTTCA
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
*
91457685 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
*
91457718 ATTCCAGCTCCTGTCCAGCAATCAAACACTC
1 ATTCCAGCTCCTGTCCAGCAACCAAACACTC
91457749 TCACTCAGAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.29, C:0.41, G:0.09, T:0.21
Consensus pattern (33 bp):
ATTCCAGCTCCTGTCCAGCAACCAAACACTCCA
Found at i:91462533 original size:20 final size:20
Alignment explanation
Indices: 91462508--91462547 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
91462498 ACAGCATTGA
*
91462508 ATAGCTAATCTTTAGGGATT
1 ATAGCTAATCTTTAGAGATT
* *
91462528 ATAGCTGATTTTTAGAGATT
1 ATAGCTAATCTTTAGAGATT
91462548 CTAATTAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.42
Consensus pattern (20 bp):
ATAGCTAATCTTTAGAGATT
Found at i:91464467 original size:13 final size:13
Alignment explanation
Indices: 91464451--91464501 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
91464441 TAAGTTTAAA
91464451 AATTAAAATTTTT
1 AATTAAAATTTTT
*
91464464 AATTAAAAATTTT
1 AATTAAAATTTTT
91464477 AATTAGTTAAATTTTTT
1 AATTA---AAA-TTTTT
91464494 AATTAAAA
1 AATTAAAA
91464502 ATCTATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 17 0.53
14 3 0.09
16 3 0.09
17 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
AATTAAAATTTTT
Found at i:91474934 original size:16 final size:16
Alignment explanation
Indices: 91474913--91474965 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
91474903 AGAGTGGAAA
91474913 GAAAATTAGAAGGATG
1 GAAAATTAGAAGGATG
* *
91474929 GAAAATT-GAAGGGGTA
1 GAAAATTAGAA-GGATG
*
91474945 GAAAACTAGAAGGATG
1 GAAAATTAGAAGGATG
91474961 GAAAA
1 GAAAA
91474966 CATAATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.32, T:0.15
Consensus pattern (16 bp):
GAAAATTAGAAGGATG
Found at i:91477334 original size:23 final size:24
Alignment explanation
Indices: 91477289--91477340 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
91477279 ATTTTGTTTC
91477289 TTTATTGTTATTATTAATGTAATTA
1 TTTATTGTTATTATTAA-GTAATTA
91477314 TTTATTGTTTATT-TTAA-TAATTA
1 TTTATTG-TTATTATTAAGTAATTA
91477337 TTTA
1 TTTA
91477341 CATTAATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.38
25 11 0.42
26 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
TTTATTGTTATTATTAAGTAATTA
Found at i:91477627 original size:14 final size:14
Alignment explanation
Indices: 91477610--91477644 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
91477600 TGTTCTAATC
91477610 TATATTGTCTAAAT
1 TATATTGTCTAAAT
91477624 TATATTGTCTAAAT
1 TATATTGTCTAAAT
*
91477638 TAGATTG
1 TATATTG
91477645 GACTGGTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (14 bp):
TATATTGTCTAAAT
Found at i:91478748 original size:17 final size:16
Alignment explanation
Indices: 91478726--91478775 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
91478716 CCTGGCCTCC
91478726 CACTTCAAATGTTCTTT
1 CACTTCAAATGTT-TTT
*
91478743 CACTTC-GATGTTTGTT
1 CACTTCAAATGTTT-TT
*
91478759 CGCTTCAAATGTTTTT
1 CACTTCAAATGTTTTT
91478775 C
1 C
91478776 CCTGCCTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.04
16 15 0.54
17 12 0.43
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.48
Consensus pattern (16 bp):
CACTTCAAATGTTTTT
Found at i:91480185 original size:27 final size:27
Alignment explanation
Indices: 91480155--91480215 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
91480145 AATGTGCAAT
*
91480155 ATGTGAAATTACAGGGTTGACGTCGTG
1 ATGTGAAATTACAGGGTTGACGCCGTG
* *
91480182 ATGTGAAATTGCAGGGTTGATGCCGTG
1 ATGTGAAATTACAGGGTTGACGCCGTG
*
91480209 ACGTGAA
1 ATGTGAA
91480216 GTTTCGCGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.34, T:0.28
Consensus pattern (27 bp):
ATGTGAAATTACAGGGTTGACGCCGTG
Found at i:91481733 original size:25 final size:25
Alignment explanation
Indices: 91481663--91481725 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
91481653 AGCTTGCAAT
91481663 AGCATCCCGTTATTTAGCTCTTATG
1 AGCATCCCGTTATTTAGCTCTTATG
*
91481688 AGCATCCCATTATTTAGCTCTTATG
1 AGCATCCCGTTATTTAGCTCTTATG
*
91481713 AGCAACCCGTTAT
1 AGCATCCCGTTAT
91481726 ATGGCTCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (25 bp):
AGCATCCCGTTATTTAGCTCTTATG
Found at i:91481746 original size:50 final size:50
Alignment explanation
Indices: 91481663--91481791 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
91481653 AGCTTGCAAT
* * * * * *
91481663 AGCATCCCGTTATTTAGCTCTTATGAGCATCCCATTATTTAGCTCT-TATG
1 AGCATCCCGTTATATGGCTCTCATGAGCTTCCCAATAATTAGCTCTCT-TG
* * *
91481713 AGCAACCCGTTATATGGCTCTCACGAGCTTCCCAATAATTGGCTCTCTTG
1 AGCATCCCGTTATATGGCTCTCATGAGCTTCCCAATAATTAGCTCTCTTG
* *
91481763 AGCTTCCCGTT-TATGGCTCGCATGAGCTT
1 AGCATCCCGTTATATGGCTCTCATGAGCTT
91481792 TCTGATTAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 16 0.25
50 48 0.74
51 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (50 bp):
AGCATCCCGTTATATGGCTCTCATGAGCTTCCCAATAATTAGCTCTCTTG
Found at i:91481805 original size:49 final size:48
Alignment explanation
Indices: 91481718--91481889 Score: 148
Period size: 49 Copynumber: 3.5 Consensus size: 48
91481708 TTATGAGCAA
* * * *
91481718 CCCGTTATATGGCTCTCACGAGCTTCCCAATAATTGGCTCTCTTGAGCTT
1 CCCGTT-TATGGCTCACATGAGCTTTCCAATTA-TGGCTCTCTTGAGCTT
* ** **
91481768 CCCGTTTATGGCTCGCATGAGCTTTCTGATTAATGGCTCTCCGGAGCTT
1 CCCGTTTATGGCTCACATGAGCTTTCCAATT-ATGGCTCTCTTGAGCTT
* * ** *
91481817 CCCGATAATAACTCACATGAGCTTTCCAATTACGGCTCT-TATGAGCTT
1 CCCGTTTATGGCTCACATGAGCTTTCCAATTATGGCTCTCT-TGAGCTT
* *
91481865 CCTGTTTCATGGCTAACATGAGCTT
1 CCCGTTT-ATGGCTCACATGAGCTT
91481890 CCTATCCCAT
Statistics
Matches: 95, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
48 17 0.18
49 71 0.75
50 7 0.07
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (48 bp):
CCCGTTTATGGCTCACATGAGCTTTCCAATTATGGCTCTCTTGAGCTT
Found at i:91487511 original size:40 final size:40
Alignment explanation
Indices: 91487456--91487665 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
91487446 AACATTGGAA
91487456 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
91487496 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
91487536 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
91487576 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
91487615 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
91487656 CTATATCCGG
1 ATATATCCGG
91487666 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:91495646 original size:40 final size:40
Alignment explanation
Indices: 91495591--91495800 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
91495581 AACATTGGAA
91495591 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
91495631 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
91495671 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
91495711 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
91495750 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
91495791 CTATATCCGG
1 ATATATCCGG
91495801 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:91501252 original size:24 final size:24
Alignment explanation
Indices: 91501208--91501259 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
91501198 TTTTTAAAAG
* **
91501208 ATTTAGTATTTATTAGTATAATCT
1 ATTTAGCATTTATTAACATAATCT
*
91501232 ATTTAGCATTTATTAACATAATTT
1 ATTTAGCATTTATTAACATAATCT
91501256 ATTT
1 ATTT
91501260 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATCT
Found at i:91503639 original size:28 final size:28
Alignment explanation
Indices: 91503558--91503640 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 28
91503548 GCTTAGTTTA
* * *
91503558 CAATTTGGCCTTTAAAATATATTCGTTTTCT
1 CAATTTGGCATTTAAAATAT-TT--TTGTCC
* * * * *
91503589 CACTTTGGTACTTAAATTCTTTTTGTCC
1 CAATTTGGCATTTAAAATATTTTTGTCC
91503617 CAATTTGGCATTTAAAATATTTTT
1 CAATTTGGCATTTAAAATATTTTT
91503641 CGTTATATTT
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
28 23 0.59
30 2 0.05
31 14 0.36
ACGTcount: A:0.25, C:0.16, G:0.10, T:0.49
Consensus pattern (28 bp):
CAATTTGGCATTTAAAATATTTTTGTCC
Found at i:91503927 original size:20 final size:21
Alignment explanation
Indices: 91503898--91503942 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
91503888 TAATATTATT
*
91503898 AAAAACTGTAAAAACTATA-A
1 AAAAACTGTAAAAAATATACA
*
91503918 AAAAATTGTAAAAAATATACA
1 AAAAACTGTAAAAAATATACA
91503939 AAAA
1 AAAA
91503943 GGTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAACTGTAAAAAATATACA
Found at i:91504702 original size:23 final size:21
Alignment explanation
Indices: 91504650--91504722 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 21
91504640 ATATATAAAA
*
91504650 AATTTAAAATTTAAAA-ATTT
1 AATTTAAAATTTAAAATATAT
*
91504670 TATTATAAAATTATAAAATATAT
1 AATT-TAAAATT-TAAAATATAT
91504693 AATTCTAAAATTCTAAAATATTATT
1 AATT-TAAAATT-TAAAATA-TA-T
91504718 AATTT
1 AATTT
91504723 CAACTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.07
21 7 0.16
22 5 0.12
23 20 0.47
24 3 0.07
25 5 0.12
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTAAAATTTAAAATATAT
Found at i:91516902 original size:2 final size:2
Alignment explanation
Indices: 91516891--91516921 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
91516881 TGTTATAAAT
91516891 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91516922 AGATAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:91527166 original size:14 final size:15
Alignment explanation
Indices: 91527140--91527172 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
91527130 TTTATGAGCC
91527140 AAAATATAATATCAT
1 AAAATATAATATCAT
*
91527155 AAAATA-AATATCTT
1 AAAATATAATATCAT
91527169 AAAA
1 AAAA
91527173 CGAATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATATAATATCAT
Found at i:91533373 original size:42 final size:42
Alignment explanation
Indices: 91533326--91533409 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
91533316 AAATTAATAC
91533326 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
1 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
91533368 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
1 AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
91533410 GTTGCTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.40
Consensus pattern (42 bp):
AATCCAACTATTATCTCCTTTAACAATCAATTCAATTTAATT
Found at i:91559140 original size:42 final size:42
Alignment explanation
Indices: 91559085--91559165 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
91559075 CCTAATTAGG
* *
91559085 AAAATAATTCCCTTATTCTAATAAACTATTAAAATATAAGGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGGA
*
91559127 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
91559166 AATAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (42 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGGA
Found at i:91559217 original size:19 final size:18
Alignment explanation
Indices: 91559193--91559236 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
91559183 AATATGAATA
*
91559193 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
91559211 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
91559230 AAATTTA
1 AAATTTA
91559237 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:91563083 original size:19 final size:18
Alignment explanation
Indices: 91563059--91563102 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
91563049 AATATGAATA
*
91563059 AAATTTATCTTCCTAAAT
1 AAATTTATCTACCTAAAT
91563077 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
91563096 AAATTTA
1 AAATTTA
91563103 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:91563875 original size:21 final size:21
Alignment explanation
Indices: 91563846--91563885 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
91563836 AAAAAGAAAA
*
91563846 AAGAGAAGAAGAAATAATTTG
1 AAGAGAAGAACAAATAATTTG
* *
91563867 AAGATAAGATCAAATAATT
1 AAGAGAAGAACAAATAATT
91563886 GAACTCTAAG
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:0.57, C:0.03, G:0.17, T:0.23
Consensus pattern (21 bp):
AAGAGAAGAACAAATAATTTG
Found at i:91570812 original size:20 final size:22
Alignment explanation
Indices: 91570789--91570838 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
91570779 ATTAAAATTA
91570789 ATAAAAA-TAT-AA-AATGTATT
1 ATAAAAATTATAAATAAT-TATT
91570809 ATAAATAATTATAAATAATTATT
1 ATAAA-AATTATAAATAATTATT
91570832 ATAAAAA
1 ATAAAAA
91570839 AATTAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.19
21 2 0.08
22 5 0.19
23 11 0.42
24 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAAAAATTATAAATAATTATT
Found at i:91570821 original size:10 final size:10
Alignment explanation
Indices: 91570806--91570830 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91570796 TATAAAATGT
91570806 ATTATAAATA
1 ATTATAAATA
91570816 ATTATAAATA
1 ATTATAAATA
91570826 ATTAT
1 ATTAT
91570831 TATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATAAATA
Found at i:91570847 original size:18 final size:20
Alignment explanation
Indices: 91570824--91570861 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
91570814 TAATTATAAA
*
91570824 TAATTATTA-TAAA-AAAAT
1 TAATTAATATTAAATAAAAT
91570842 TAATTAATATTAAATAAAAT
1 TAATTAATATTAAATAAAAT
91570862 AAAAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAATTAATATTAAATAAAAT
Found at i:91570975 original size:5 final size:5
Alignment explanation
Indices: 91570965--91570998 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
91570955 AGGGAGGATT
*
91570965 TTTTA TTTTA TTTTA TTTTA TATTA TTTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT
91570999 AATATCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:91570994 original size:16 final size:16
Alignment explanation
Indices: 91570965--91571009 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
91570955 AGGGAGGATT
*
91570965 TTTTATTTTA-TTTTA
1 TTTTATATTATTTTTA
91570980 TTTTATATTATTTTTA
1 TTTTATATTATTTTTA
* *
91570996 TTTAATATCATTTT
1 TTTTATATTATTTT
91571010 ATAATACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATATTATTTTTA
Found at i:91571021 original size:12 final size:13
Alignment explanation
Indices: 91570998--91571026 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
91570988 TATTTTTATT
91570998 TAATATCATTTTA
1 TAATATCATTTTA
91571011 TAATA-CATTTTA
1 TAATATCATTTTA
91571023 TAAT
1 TAAT
91571027 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATATCATTTTA
Found at i:91580370 original size:62 final size:63
Alignment explanation
Indices: 91580234--91580372 Score: 149
Period size: 62 Copynumber: 2.2 Consensus size: 63
91580224 CAATTCGATC
* * *
91580234 TTAAATATAATAAATTTAACAAATTTAACACTCAATGTTTACAAAATGTCATTTTAGTTCAAATT
1 TTAAAT-TAAAAAAATTAACAAATTTAACACTCAATCTTTACAAAATG-CATTTTAGTTCAAATT
* * ** ** *
91580299 CTAAA--AAAAAAATTAATAAATTTAGTACTCAATCTTTACAAAATG-ATTTTTTTTCAATTT
1 TTAAATTAAAAAAATTAACAAATTTAACACTCAATCTTTACAAAATGCATTTTAGTTCAAATT
91580359 TTAAATTAAAAAAA
1 TTAAATTAAAAAAA
91580373 ACCACCAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
60 16 0.26
62 41 0.67
65 4 0.07
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (63 bp):
TTAAATTAAAAAAATTAACAAATTTAACACTCAATCTTTACAAAATGCATTTTAGTTCAAATT
Found at i:91584668 original size:21 final size:21
Alignment explanation
Indices: 91584644--91584684 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91584634 TGTAAATATT
91584644 CTCATAGATTAATAAAGTACA
1 CTCATAGATTAATAAAGTACA
* *
91584665 CTCATTGATTTATAAAGTAC
1 CTCATAGATTAATAAAGTAC
91584685 GCTATCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (21 bp):
CTCATAGATTAATAAAGTACA
Found at i:91588563 original size:24 final size:24
Alignment explanation
Indices: 91588514--91588600 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
91588504 GATGGAGACA
* * *
91588514 AAGATGAAGATGA-GTGTGGAGCTG
1 AAGATGAAGACGATG-GTCGAGATG
91588538 AAGATGAAGACGATGGTCGAGATG
1 AAGATGAAGACGATGGTCGAGATG
* ** *
91588562 AAGATGAATACGGGGGTCGAGGTG
1 AAGATGAAGACGATGGTCGAGATG
* *
91588586 AAGATGGAGAAGATG
1 AAGATGAAGACGATG
91588601 AAGACGATGA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 49 0.98
25 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.41, T:0.17
Consensus pattern (24 bp):
AAGATGAAGACGATGGTCGAGATG
Found at i:91590742 original size:34 final size:35
Alignment explanation
Indices: 91590699--91590776 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
91590689 TTTTAAGGTT
*
91590699 TTTA-GGTTTAGGGTTTTGCTAAAATAA-TATA-AG
1 TTTAGGGTTTAAGGTTTTGCTAAAATAAGT-TAGAG
* * *
91590732 TTTAGGGTTTAAGTTTTTGTTAAAATAAGTTAGGG
1 TTTAGGGTTTAAGGTTTTGCTAAAATAAGTTAGAG
91590767 TTTAGGGTTT
1 TTTAGGGTTT
91590777 TAATGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 4 0.11
34 22 0.58
35 12 0.32
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.46
Consensus pattern (35 bp):
TTTAGGGTTTAAGGTTTTGCTAAAATAAGTTAGAG
Found at i:91590858 original size:33 final size:33
Alignment explanation
Indices: 91590813--91590881 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
91590803 TTTAGTATTA
* *
91590813 TTTTATAAAAATTAATTAAATTAGGGTTTATGG
1 TTTTATAAAAATTAAGTAAATTAGGGTTTAGGG
91590846 TTTTA-AATAAATTAAGTAAATTAGGGTTTAGGG
1 TTTTATAA-AAATTAAGTAAATTAGGGTTTAGGG
91590879 TTT
1 TTT
91590882 AAGGTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (33 bp):
TTTTATAAAAATTAAGTAAATTAGGGTTTAGGG
Found at i:91590900 original size:42 final size:40
Alignment explanation
Indices: 91590833--91590918 Score: 120
Period size: 42 Copynumber: 2.1 Consensus size: 40
91590823 ATTAATTAAA
*
91590833 TTAGGGTTTATGGTTTTAAATAAATTAAGTAAATTAGGGT
1 TTAGGGTTTAAGGTTTTAAATAAATTAAGTAAATTAGGGT
*
91590873 TTAGGGTTTAAGG-TTTAAAGTTAAAATTAATTAAATTAGGGT
1 TTAGGGTTTAAGGTTTTAAA--T-AAATTAAGTAAATTAGGGT
91590915 TTAG
1 TTAG
91590919 TTTTTTTAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 6 0.15
40 12 0.29
41 1 0.02
42 22 0.54
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (40 bp):
TTAGGGTTTAAGGTTTTAAATAAATTAAGTAAATTAGGGT
Found at i:91594784 original size:18 final size:18
Alignment explanation
Indices: 91594758--91594800 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
91594748 GACTGAGAAA
*
91594758 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
*
91594776 AGGATACATATAAGGGCT
1 AGGAAACATATAAGGGCT
91594794 AGGAAAC
1 AGGAAAC
91594801 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:91595397 original size:7 final size:7
Alignment explanation
Indices: 91595385--91595413 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91595375 TTATAGACAT
91595385 AATACTA
1 AATACTA
91595392 AATACTA
1 AATACTA
91595399 AATACTA
1 AATACTA
91595406 AATA-TA
1 AATACTA
91595412 AA
1 AA
91595414 ATGACTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:91596390 original size:20 final size:21
Alignment explanation
Indices: 91596362--91596400 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
91596352 GTTAATTAAA
*
91596362 ATTACATAA-ATGAAAAAAAT
1 ATTAAATAATATGAAAAAAAT
*
91596382 ATTAAATAATATTAAAAAA
1 ATTAAATAATATGAAAAAA
91596401 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTAAATAATATGAAAAAAAT
Found at i:91596398 original size:18 final size:18
Alignment explanation
Indices: 91596377--91596460 Score: 52
Period size: 18 Copynumber: 4.7 Consensus size: 18
91596367 ATAAATGAAA
91596377 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
* *
91596395 AAAAAATTAAA-ATTAATT
1 AAAATATTAAATAAT-ATT
*
91596413 AAAATGACATAAATGAA-A--
1 AAAAT-A-TTAAAT-AATATT
*
91596431 AAAATATTAAACAATATT
1 AAAATATTAAATAATATT
91596449 CAAAA-ATTAAAT
1 -AAAATATTAAAT
91596461 TTAACCCTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 3 0.06
18 28 0.57
19 5 0.10
20 5 0.10
22 1 0.02
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATATTAAATAATATT
Found at i:91596423 original size:54 final size:54
Alignment explanation
Indices: 91596353--91596464 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
91596343 AAAATACAAG
* *
91596353 TTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTAAAAAATTAAAA
1 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTAAAAAATTAAAA
* *
91596407 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTCAAAAATTAAAT
1 TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTAAAAAATTAAAA
91596461 TTAA
1 TTAA
91596465 CCCTTACCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (54 bp):
TTAATTAAAATGACATAAATGAAAAAAATATTAAACAATATTAAAAAATTAAAA
Found at i:91596646 original size:21 final size:21
Alignment explanation
Indices: 91596602--91596662 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
91596592 AAATAACTAA
* *
91596602 TTAAAGAGAACTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAGAT
* *
91596623 TTAATGAGAAATTTGAGAGCT
1 TTAAAGAGAAATTTGAGAGAT
** *
91596644 TTAGGGAGAAATTTTAGAG
1 TTAAAGAGAAATTTGAGAG
91596663 TTTTTTTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAGAT
Found at i:91602792 original size:29 final size:30
Alignment explanation
Indices: 91602760--91602822 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
91602750 TTTTTTTAGG
**
91602760 TTTTAAGGGTTTAAAATTTTTT-TACCAACT
1 TTTTAAGGACTTAAAATTTTTTCT-CCAACT
*
91602790 TTTTAAGGACTTAAAATTTTTTCTTCAACT
1 TTTTAAGGACTTAAAATTTTTTCTCCAACT
91602820 TTT
1 TTT
91602823 AAAAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTTAAGGACTTAAAATTTTTTCTCCAACT
Found at i:91604516 original size:30 final size:30
Alignment explanation
Indices: 91604482--91604581 Score: 157
Period size: 30 Copynumber: 3.3 Consensus size: 30
91604472 CAAATACTTT
91604482 AGACCCGTTACAGCAAACCTAAAATAGCTC
1 AGACCCGTTACAGCAAACCTAAAATAGCTC
*
91604512 AGACCCGTTACAACAAA-CTCAAAATAGCTC
1 AGACCCGTTACAGCAAACCT-AAAATAGCTC
* *
91604542 AGACCCGTTACAGCAAACCCAAAATAGCCC
1 AGACCCGTTACAGCAAACCTAAAATAGCTC
91604572 AGACCCGTTA
1 AGACCCGTTA
91604582 TACACACACC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.03
30 61 0.95
31 1 0.02
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.15
Consensus pattern (30 bp):
AGACCCGTTACAGCAAACCTAAAATAGCTC
Found at i:91605959 original size:21 final size:20
Alignment explanation
Indices: 91605935--91606053 Score: 61
Period size: 21 Copynumber: 6.0 Consensus size: 20
91605925 ATATTTTAAC
* *
91605935 TTATATATCTTATATATTTAT
1 TTATATATATTATACA-TTAT
*
91605956 TTATTTATATTATACATTAT
1 TTATATATATTATACATTAT
* * * *
91605976 TT-TAAAAACT-TACATTTT
1 TTATATATATTATACATTAT
*
91605994 TATATTATATATTATAAATTAT
1 T-TA-TATATATTATACATTAT
*
91606016 TTCAT-T-TATTAT-TATT-T
1 TT-ATATATATTATACATTAT
*
91606033 TTATATACTATTATATATTAT
1 TTATATA-TATTATACATTAT
91606054 CTATTTTAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 11 0.15
19 17 0.23
20 11 0.15
21 21 0.28
22 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATACATTAT
Found at i:91606051 original size:26 final size:26
Alignment explanation
Indices: 91606022--91606125 Score: 86
Period size: 27 Copynumber: 3.8 Consensus size: 26
91606012 TTATTTCATT
*
91606022 TATTATTATTTTTATATACTATTATA
1 TATTATTATTTTTATATACTATTAAA
* *
91606048 TATTATCTATTTTAAAATCCACTATTAAA
1 TATTAT-TATTTTTATAT--ACTATTAAA
* *
91606077 TATTA-TATTTTTATGTATTATTAAA
1 TATTATTATTTTTATATACTATTAAA
*
91606102 TGTT-TATATTATTTGATATACTAT
1 TATTAT-TATT-TTT-ATATACTAT
91606126 CATATTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
25 11 0.18
26 10 0.16
27 20 0.33
28 7 0.11
29 13 0.21
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (26 bp):
TATTATTATTTTTATATACTATTAAA
Found at i:91607447 original size:26 final size:24
Alignment explanation
Indices: 91607407--91607466 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
91607397 TTATTTTATT
* * *
91607407 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
91607431 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
91607457 AAATAAATAT
1 AAATAAATAT
91607467 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:91607478 original size:22 final size:22
Alignment explanation
Indices: 91607437--91607495 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
91607427 ATAATAAATC
* *
91607437 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
91607457 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
91607479 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
91607496 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:91610371 original size:37 final size:37
Alignment explanation
Indices: 91610330--91610403 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
91610320 AACTCCGATA
*
91610330 ATTCTGTCAGGCCATTTTGAGTGGCTATTGTAATCTT
1 ATTCTGTCAGGCCATTTTGAGTGGCTATTATAATCTT
*
91610367 ATTCTGTTAGGCCATTTTGAGTGGCTATTATAATCTT
1 ATTCTGTCAGGCCATTTTGAGTGGCTATTATAATCTT
91610404 TCGAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (37 bp):
ATTCTGTCAGGCCATTTTGAGTGGCTATTATAATCTT
Found at i:91611525 original size:19 final size:20
Alignment explanation
Indices: 91611501--91611541 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
91611491 ATGAATCAAA
91611501 TTATTTTTTAA-ATTATATT
1 TTATTTTTTAATATTATATT
*
91611520 TTATTTTTTAATATTTTATT
1 TTATTTTTTAATATTATATT
91611540 TT
1 TT
91611542 TAAACAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTTTTTAATATTATATT
Found at i:91614037 original size:128 final size:129
Alignment explanation
Indices: 91613850--91614089 Score: 392
Period size: 128 Copynumber: 1.9 Consensus size: 129
91613840 AACTCAATCA
91613850 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
1 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
*
91613915 AAAAACTTAAAAATCCTAATGTCTTGAATTCAAATATGATCATATAAAACTCAATCGGGAGACG
66 AAAAACTTAAAAATCCTAATGTCTTAAATTCAAATATGATCATATAAAACTCAATCGGGAGACG
* *
91613979 AGAGTTTTATAGATAATATATTTATAT-AAAAATTAGTTAAAGCTTTGGTTGAAATAATAATGTT
1 AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
* * * ** *
91614043 AAAAGCTTAAAATTTCTAATGTCTTAAATTTTAATATGATTATATAA
66 AAAAACTTAAAAATCCTAATGTCTTAAATTCAAATATGATCATATAA
91614090 CTTTTATATT
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
128 76 0.75
129 26 0.25
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.37
Consensus pattern (129 bp):
AGAGTTATATAGATAATATATTTATATAAAAAATTAGGTAAAGCTTTGGTTGAAATAATAATGTT
AAAAACTTAAAAATCCTAATGTCTTAAATTCAAATATGATCATATAAAACTCAATCGGGAGACG
Found at i:91615073 original size:14 final size:15
Alignment explanation
Indices: 91615054--91615086 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
91615044 TAAGTAAAAA
91615054 ATAATATA-AAATTT
1 ATAATATATAAATTT
*
91615068 ATAATATATAACTTT
1 ATAATATATAAATTT
91615083 ATAA
1 ATAA
91615087 AAAAAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATATATAAATTT
Found at i:91617166 original size:22 final size:22
Alignment explanation
Indices: 91617118--91617166 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
91617108 ATATATAAAC
*
91617118 AATAACAATAAAATAGTAGTAA
1 AATAACAATAAAATAGTAATAA
* * * *
91617140 GATAATAATGAAATGGTAATAA
1 AATAACAATAAAATAGTAATAA
91617162 AATAA
1 AATAA
91617167 AGAGAAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.24
Consensus pattern (22 bp):
AATAACAATAAAATAGTAATAA
Found at i:91620321 original size:2 final size:2
Alignment explanation
Indices: 91620314--91620351 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
91620304 GACATAGAGT
91620314 TA TA TA TA TA TA TA TA TA T- TCA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA T
91620352 TCAAATGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91620341 original size:19 final size:19
Alignment explanation
Indices: 91620317--91620355 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
91620307 ATAGAGTTAT
91620317 ATATATATATATATATTCA
1 ATATATATATATATATTCA
91620336 ATATATATATATATATTCA
1 ATATATATATATATATTCA
91620355 A
1 A
91620356 ATGATTGCAG
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:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATATATATATATTCA
Found at i:91622293 original size:6 final size:6
Alignment explanation
Indices: 91622282--91622307 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
91622272 TGACTCAACT
91622282 TCTTCA TCTTCA TCTTCA TCTTCA TC
1 TCTTCA TCTTCA TCTTCA TCTTCA TC
91622308 CTCCTCCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCA
Found at i:91625701 original size:2 final size:2
Alignment explanation
Indices: 91625694--91625722 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
91625684 AACAAAAATA
91625694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91625723 AACTAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91626760 original size:40 final size:40
Alignment explanation
Indices: 91626695--91626789 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
91626685 CCATCTCCGT
* * * *
91626695 CCAACCCAACACACC-A-TGTGGGGATAAAATCGACCTAC
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
* *
91626733 CCAGCCCTACACACCAAGTATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
91626773 CCAACCCTACACACCAA
1 CCAACCCTACACACCAA
91626790 ATGGTACAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 13 0.27
39 1 0.02
40 34 0.71
ACGTcount: A:0.38, C:0.37, G:0.13, T:0.13
Consensus pattern (40 bp):
CCAACCCTACACACCAAGTATGGGGATAAAATCAACCCAC
Found at i:91629574 original size:11 final size:11
Alignment explanation
Indices: 91629558--91629583 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
91629548 TCCACAGAAG
91629558 TTAATATTCGA
1 TTAATATTCGA
91629569 TTAATATTCGA
1 TTAATATTCGA
91629580 TTAA
1 TTAA
91629584 GCTCCAAAGG
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (11 bp):
TTAATATTCGA
Found at i:91632179 original size:18 final size:18
Alignment explanation
Indices: 91632158--91632204 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
91632148 TAATTTATCC
91632158 ATTTTTATTTTTA-TTATA
1 ATTTTTATTTTTAGTT-TA
91632176 A-TTTTATTTTTTAGTTTA
1 ATTTTTA-TTTTTAGTTTA
91632194 ATTTTTATTTT
1 ATTTTTATTTT
91632205 CTAATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.19
18 14 0.54
19 7 0.27
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:91632187 original size:19 final size:19
Alignment explanation
Indices: 91632158--91632204 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
91632148 TAATTTATCC
91632158 ATTTTTA-TTTTTA-TTATA
1 ATTTTTATTTTTTAGTT-TA
91632176 A-TTTTATTTTTTAGTTTA
1 ATTTTTATTTTTTAGTTTA
91632194 ATTTTTATTTT
1 ATTTTTATTTT
91632205 CTAATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTATTTTTTAGTTTA
Found at i:91635195 original size:18 final size:19
Alignment explanation
Indices: 91635158--91635195 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
91635148 GAGTAATTAT
*
91635158 TTAAAATATACATATATAA
1 TTAAAATATAAATATATAA
*
91635177 TTAAAATA-AAATATTTAA
1 TTAAAATATAAATATATAA
91635195 T
1 T
91635196 AATGCATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAATATAAATATATAA
Found at i:91641585 original size:40 final size:40
Alignment explanation
Indices: 91641541--91641643 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 40
91641531 CAGATAGAGT
* *
91641541 ATTAGCGGCACTTTTTGAAAAACACCACTATAGGTCGAGC
1 ATTAGCGGCACTTTTTGAAAAACACCACTATAGGCCGACC
* * * * * *
91641581 ATTAGCAGCGCTTCTTAAAAAATACCGCTATAGGCCGACC
1 ATTAGCGGCACTTTTTGAAAAACACCACTATAGGCCGACC
*
91641621 ATTAGCGGTACTTTTTGAAAAAC
1 ATTAGCGGCACTTTTTGAAAAAC
91641644 GCCGCAAAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (40 bp):
ATTAGCGGCACTTTTTGAAAAACACCACTATAGGCCGACC
Found at i:91642964 original size:16 final size:16
Alignment explanation
Indices: 91642943--91642973 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91642933 TATTTCATCT
*
91642943 ATTTTCTTTTGTTTTG
1 ATTTTCTTTTATTTTG
91642959 ATTTTCTTTTATTTT
1 ATTTTCTTTTATTTT
91642974 TTTATTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
ATTTTCTTTTATTTTG
Found at i:91642988 original size:2 final size:2
Alignment explanation
Indices: 91642983--91643016 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
91642973 TTTTATTTCT
91642983 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91643017 CAAAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:91643846 original size:25 final size:25
Alignment explanation
Indices: 91643818--91643866 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
91643808 TCGCTTACCC
91643818 TTTCATGTTA-TTTATTTAGTTATTG
1 TTTC-TGTTATTTTATTTAGTTATTG
*
91643843 TTTCTGTTATTTTATTTATTTATT
1 TTTCTGTTATTTTATTTAGTTATT
91643867 AATTCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTCTGTTATTTTATTTAGTTATTG
Found at i:91643872 original size:25 final size:24
Alignment explanation
Indices: 91643823--91643872 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
91643813 TACCCTTTCA
**
91643823 TGTTATTTATTTAGTTATTGTTTC
1 TGTTATTTATTTAGTTATTAATTC
*
91643847 TGTTATTTTATTTATTTATTAATTC
1 TGTTA-TTTATTTAGTTATTAATTC
91643872 T
1 T
91643873 ATTCTTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.20, C:0.04, G:0.08, T:0.68
Consensus pattern (24 bp):
TGTTATTTATTTAGTTATTAATTC
Found at i:91644500 original size:29 final size:30
Alignment explanation
Indices: 91644423--91644500 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 30
91644413 AGCTTTAGAT
* *
91644423 CATTTA-TTACTATTATATTTCTTCTATATT
1 CATTTATTTACTATTAT-TTTCTTCTACATA
* *
91644453 CATTTATTTAATCTT-TTTTCTTC-ACATA
1 CATTTATTTACTATTATTTTCTTCTACATA
91644481 CATTTATTTTACT-TTATTTT
1 CATTTA-TTTACTATTATTTT
91644501 ACGATTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
28 11 0.28
29 16 0.40
30 7 0.17
31 6 0.15
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (30 bp):
CATTTATTTACTATTATTTTCTTCTACATA
Found at i:91644678 original size:3 final size:3
Alignment explanation
Indices: 91644658--91644698 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
91644648 TATTGTTTCC
* *
91644658 ATT ATC ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
91644699 CTATGCATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:91647218 original size:7 final size:7
Alignment explanation
Indices: 91647199--91647274 Score: 55
Period size: 7 Copynumber: 10.9 Consensus size: 7
91647189 AGCCCTTAAT
91647199 CCCTAAA
1 CCCTAAA
*
91647206 CTCTAAA
1 CCCTAAA
* *
91647213 GCCTAAT
1 CCCTAAA
91647220 CCCTAAA
1 CCCTAAA
*
91647227 -CCTTAA
1 CCCTAAA
91647233 CACCTAAA
1 C-CCTAAA
91647241 CCCTAAA
1 CCCTAAA
**
91647248 ATCTAAA
1 CCCTAAA
* *
91647255 GCCTAAC
1 CCCTAAA
91647262 CCCTAAA
1 CCCTAAA
*
91647269 TCCTAA
1 CCCTAA
91647275 TCCATGAACT
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
6 5 0.10
7 40 0.78
8 6 0.12
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:91647219 original size:21 final size:21
Alignment explanation
Indices: 91647195--91647268 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
91647185 TTTCAGCCCT
91647195 TAATCCCTAAACTCTAAAGCC
1 TAATCCCTAAACTCTAAAGCC
91647216 TAATCCCTAAAC-CTTAACA-CC
1 TAATCCCTAAACTC-TAA-AGCC
* *
91647237 TAAACCCTAAAATCTAAAGCC
1 TAATCCCTAAACTCTAAAGCC
*
91647258 TAACCCCTAAA
1 TAATCCCTAAA
91647269 TCCTAATCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.42, C:0.34, G:0.03, T:0.22
Consensus pattern (21 bp):
TAATCCCTAAACTCTAAAGCC
Found at i:91648258 original size:257 final size:258
Alignment explanation
Indices: 91647917--91648385 Score: 735
Period size: 257 Copynumber: 1.8 Consensus size: 258
91647907 ACGTTTGGCC
** * * *
91647917 TTGTTATTAGTGGCGTTTCGCCAAAAAACGCTGCAAAATGTGTTAAGTGTTAGCAAAATGGTGTT
1 TTGTTATTAGTGGCGTTTCGCCAAAAAACGCCACAAAATGTGTTAAGTGTTAGCAAAACGATGCT
* * *
91647982 GTTTTATTCTTTATATTTAGTGGTGCTTCTATAAAACGCCACAAATGTGTATTATGAGTCCATAA
66 GTTTTATTCTTTATATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATAA
** * * * *
91648047 AATGATGCCGTTTTATCCTTTTTGTTAGTGGCATTTTGTCCAAAACGTCGCAATAGGCTATGCAT
131 AATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCAT
91648112 TACCGGCGTTTTAGCCAGGCCGCAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTATCG
196 TACCGGCGTTTTAGCCAGGCCGCAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTATCG
*
91648175 TTGTTATTAGTGGCGTTT-TCC-AAAAACGCCACAAATATGTGTTAAGTGTTAGCAAAACGATGC
1 TTGTTATTAGTGGCGTTTCGCCAAAAAACGCCACAAA-ATGTGTTAAGTGTTAGCAAAACGATGC
* *
91648238 TGTTTTGTTCTTTGTATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATA
65 TGTTTTATTCTTTATATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATA
**
91648303 AAATGACACCGTTTTATCCGTGTTATTAGTGGTGTTTTGTCCAAAACGCCGCAATAGGCTATGCA
130 AAATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCA
*
91648368 TTACCGGCTTTTTAGCCA
195 TTACCGGCGTTTTAGCCA
91648386 AAAATGCAAT
Statistics
Matches: 190, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
256 12 0.06
257 160 0.84
258 18 0.09
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (258 bp):
TTGTTATTAGTGGCGTTTCGCCAAAAAACGCCACAAAATGTGTTAAGTGTTAGCAAAACGATGCT
GTTTTATTCTTTATATTTAGTGGCGCTTCCATAAAACGCCACAAATGTGTATTACGAGTCCATAA
AATGACACCGTTTTATCCGTGTTATTAGTGGCATTTTGTCCAAAACGCCGCAATAGGCTATGCAT
TACCGGCGTTTTAGCCAGGCCGCAAATATGTGTTAGGTGTTAGTAAAACGACACCATTTATCG
Found at i:91648681 original size:27 final size:27
Alignment explanation
Indices: 91648627--91648686 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
91648617 TACATCGCCG
* * *
91648627 GACTCGACCATCTGTTGCATCGCTGTC
1 GACTCGACCATCTGCTGCATCACCGTC
91648654 GACTCGACCATCTGCTGCGA-CACCGTC
1 GACTCGACCATCTGCTGC-ATCACCGTC
91648681 GCACTC
1 G-ACTC
91648687 CTCTGTCACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.17, C:0.38, G:0.22, T:0.23
Consensus pattern (27 bp):
GACTCGACCATCTGCTGCATCACCGTC
Found at i:91653245 original size:20 final size:19
Alignment explanation
Indices: 91653216--91653254 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
91653206 TTAATTGCTT
*
91653216 AAGTTGCTAACTTAGAATGA
1 AAGTTGCTAA-TTACAATGA
*
91653236 AAGTTTCTAATTACAATGA
1 AAGTTGCTAATTACAATGA
91653255 TGATTAGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (19 bp):
AAGTTGCTAATTACAATGA
Found at i:91660124 original size:24 final size:26
Alignment explanation
Indices: 91660092--91660148 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 26
91660082 TGTTTATAAC
91660092 TGCATTGCATT-CATC-T-CATACATT
1 TGCATTGCATTGCATCATGCAT-CATT
91660116 TGCATTGCATTGCATCATTGCATCATT
1 TGCATTGCATTGCATCA-TGCATCATT
91660143 TGCATT
1 TGCATT
91660149 AGATTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 11 0.38
25 4 0.14
27 11 0.38
28 3 0.10
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (26 bp):
TGCATTGCATTGCATCATGCATCATT
Found at i:91663177 original size:26 final size:25
Alignment explanation
Indices: 91663148--91663221 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
91663138 ATAAAAAATA
***
91663148 AAAATAAAAAAAAGAGAAGAAAACTT
1 AAAATAAAAAAAAGA-AAGAAAAAAG
* *
91663174 AAAA-AAAGAAAATAAAGAAAAAAG
1 AAAATAAAAAAAAGAAAGAAAAAAG
91663198 AAAATAAAAAAGAAGAAAGAAAAA
1 AAAATAAAAAA-AAGAAAGAAAAA
91663222 GAGAGGGCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 11 0.28
25 13 0.33
26 15 0.38
ACGTcount: A:0.80, C:0.01, G:0.12, T:0.07
Consensus pattern (25 bp):
AAAATAAAAAAAAGAAAGAAAAAAG
Found at i:91663184 original size:15 final size:14
Alignment explanation
Indices: 91663135--91663215 Score: 63
Period size: 16 Copynumber: 5.2 Consensus size: 14
91663125 AAAAGAGATC
*
91663135 AAAATAAAAAATAAA
1 AAAATAAAAAA-AAG
*
91663150 AATAAAAAAAAGAGAAG
1 AA-AATAAAAA-A-AAG
*
91663167 AAAACTTAAAAAAAG
1 AAAA-TAAAAAAAAG
91663182 AAAATAAAGAAAAAAG
1 AAAAT-AA-AAAAAAG
91663198 AAAATAAAAAAGAAG
1 AAAATAAAAAA-AAG
91663213 AAA
1 AAA
91663216 GAAAAAGAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
14 5 0.09
15 18 0.33
16 22 0.41
17 9 0.17
ACGTcount: A:0.80, C:0.01, G:0.10, T:0.09
Consensus pattern (14 bp):
AAAATAAAAAAAAG
Found at i:91663196 original size:16 final size:15
Alignment explanation
Indices: 91663135--91663215 Score: 69
Period size: 15 Copynumber: 5.2 Consensus size: 15
91663125 AAAAGAGATC
91663135 AAAATAAAAAATAAA-
1 AAAATAAAAAA-AAAG
91663150 AATAA-AAAAAAGAGAAG
1 AA-AATAAAAAA-A-AAG
*
91663167 AAAACT-TAAAAAAAG
1 AAAA-TAAAAAAAAAG
91663182 AAAATAAAGAAAAAAG
1 AAAATAAA-AAAAAAG
*
91663198 AAAATAAAAAAGAAG
1 AAAATAAAAAAAAAG
91663213 AAA
1 AAA
91663216 GAAAAAGAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
14 1 0.02
15 26 0.47
16 22 0.40
17 6 0.11
ACGTcount: A:0.80, C:0.01, G:0.10, T:0.09
Consensus pattern (15 bp):
AAAATAAAAAAAAAG
Found at i:91663209 original size:19 final size:16
Alignment explanation
Indices: 91663175--91663215 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
91663165 AGAAAACTTA
91663175 AAAAAAGAAAATAAAG
1 AAAAAAGAAAATAAAG
91663191 AAAAAAGAAAATAAA-
1 AAAAAAGAAAATAAAG
*
91663206 AAAGAAGAAA
1 AAAAAAGAAA
91663216 GAAAAAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (16 bp):
AAAAAAGAAAATAAAG
Found at i:91669349 original size:32 final size:32
Alignment explanation
Indices: 91669308--91669371 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
91669298 GCACCTCAAT
91669308 TGAAAATTTATTATCATGTCTACTAAGTGTTC
1 TGAAAATTTATTATCATGTCTACTAAGTGTTC
91669340 TGAAAATTTATTATCATGTCTACTAAGTGTTC
1 TGAAAATTTATTATCATGTCTACTAAGTGTTC
91669372 ATATTTACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (32 bp):
TGAAAATTTATTATCATGTCTACTAAGTGTTC
Found at i:91669448 original size:2 final size:2
Alignment explanation
Indices: 91669441--91669471 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
91669431 TAAATCCACT
91669441 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91669472 CAAAACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91683108 original size:131 final size:130
Alignment explanation
Indices: 91682945--91683273 Score: 441
Period size: 131 Copynumber: 2.5 Consensus size: 130
91682935 TGTTTAAAAG
* **
91682945 AAAATTCTTTAAAGCGAAGGCGATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTGTGC
1 AAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTGTGC
** **
91683010 TAGGTTGCAATTTCCTGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCACTCATATCTTT
66 TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATAT-TTT
91683075 A
130 A
*
91683076 AAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
1 AAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTGTGC
* *
91683141 TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATGTTTTC
66 TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATTTTA
* * ** * * * *
91683206 TAAA-T-TTTAAAAC-AA-GACAATGTTCAATGGCTAGAAATTCGAGGAATCGTGCCCTACTGTG
1 AAAATTCTTTAAAACGAAGGA-AATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTGTG
*
91683267 CTGGGTT
65 CTAGGTT
91683274 TCGGTTTCTC
Statistics
Matches: 177, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
126 2 0.01
127 43 0.24
128 8 0.05
129 1 0.01
130 6 0.03
131 117 0.66
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (130 bp):
AAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATTGTGC
TAGGTTGCAATTTCCCATTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATTTTA
Found at i:91694807 original size:88 final size:88
Alignment explanation
Indices: 91694714--91694951 Score: 262
Period size: 88 Copynumber: 2.7 Consensus size: 88
91694704 TAGATCTTGC
* * *
91694714 CTCCCTGAAGTTACAGTGGAGTAGATCGAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGTGAA
1 CTCCCTAAAGTTACAGTGGAGTAGACCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAA
* * *
91694779 GCATATTTAAGCCACCACCTTAT
66 GCAGATTGAAGCCACCACCCTAT
** * ** * *
91694802 CTCCCTAAAGTTGTAGTGGAGTAGGCCGAAGATTGCAAATCTTGTCTTCTTAAAGTTGCAGTGAA
1 CTCCCTAAAGTTACAGTGGAGTAGACCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAA
91694867 GCAGATTGAAGCCACCACCCTAT
66 GCAGATTGAAGCCACCACCCTAT
** * * ** * * *
91694890 CTCCCTAAAGTTGTAATAGAGTA-AGCCGAAGATTGCAGATCTTGTCTTCCTGAAGTTGCAGT
1 CTCCCTAAAGTTACAGTGGAGTAGA-CCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGT
91694952 AGAGAAAATC
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
88 130 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (88 bp):
CTCCCTAAAGTTACAGTGGAGTAGACCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAA
GCAGATTGAAGCCACCACCCTAT
Found at i:91694812 original size:133 final size:133
Alignment explanation
Indices: 91694584--91694824 Score: 385
Period size: 133 Copynumber: 1.8 Consensus size: 133
91694574 ATCTTGTTTT
* * * * *
91694584 CCTGAAGTTGCGGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTCCTCAAGTTGCAGTGAAGTA
1 CCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
91694649 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTATGTTGAAGATTGTAGATCTTGC
66 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTATGTTGAAGATTGTAGATCTTGC
91694714 CTC
131 CTC
* *
91694717 CCTGAAGTTACAGTGGAGTAGATCGAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
1 CCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
* *
91694782 TATTTAAGCCACCA-CCTTATCTCCCTAAAGTTGTAGTGGAGTA
66 GATTTAAGCCACCATCC-TATCTCCCTAAAGTTGTAGTAGAGTA
91694825 GGCCGAAGAT
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
132 2 0.02
133 96 0.98
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
CCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTATGTTGAAGATTGTAGATCTTGC
CTC
Found at i:91694833 original size:133 final size:133
Alignment explanation
Indices: 91694584--91694877 Score: 383
Period size: 133 Copynumber: 2.2 Consensus size: 133
91694574 ATCTTGTTTT
* * * * *
91694584 CCTGAAGTTGCGGTGGAGCAGATCGAAGACGGCAAATCTTGTCTTCCTCAAGTTGCAGTGAAGTA
1 CCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
* ** * *
91694649 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTATGTTGAAGATTGTAGATCTTGC
66 GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCCGAAGATTGCAAATCTTGC
91694714 CTC
131 CTC
* *
91694717 CCTGAAGTTACAGTGGAGTAGATCGAAGACGGCGAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
1 CCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
* *
91694782 TATTTAAGCCACCA-CCTTATCTCCCTAAAGTTGTAGTGGAGTAGGCCGAAGATTGCAAATCTTG
66 GATTTAAGCCACCATCC-TATCTCCCTAAAGTTGTAGTAGAGTAGGCCGAAGATTGCAAATCTTG
* *
91694846 TCTT
130 CCTC
* * * * *
91694850 CTTAAAGTTGCAGTGAAGCAGATTGAAG
1 CCTGAAGTTACAGTGGAGCAGATCGAAG
91694878 CCACCACCCT
Statistics
Matches: 138, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 2 0.01
133 136 0.99
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (133 bp):
CCTGAAGTTACAGTGGAGCAGATCGAAGACGGCAAATCTTGGCTTCCTAAAGTTGCAGTGAAGCA
GATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTAGAGTAGGCCGAAGATTGCAAATCTTGC
CTC
Found at i:91694902 original size:43 final size:43
Alignment explanation
Indices: 91694762--91694902 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 43
91694752 ATCTTGGCTT
* *
91694762 CCTAAAGTTGCAGTGAAGCATATTTAAGCCACCACCTTATCTC
1 CCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCACCTTATCTC
* * * *** * * * * *
91694805 CCTAAAGTTGTAGTGGAGTAGGCCGAAGATTGCA-AATCTTGTCTT
1 CCTAAAGTTGCAGTGAAGCAGATTGAAG---CCACCACCTTATCTC
* *
91694850 CTTAAAGTTGCAGTGAAGCAGATTGAAGCCACCACCCTATCTC
1 CCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCACCTTATCTC
91694893 CCTAAAGTTG
1 CCTAAAGTTG
91694903 TAATAGAGTA
Statistics
Matches: 67, Mismatches: 27, Indels: 8
0.66 0.26 0.08
Matches are distributed among these distances:
42 2 0.03
43 35 0.52
45 28 0.42
46 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
CCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCACCTTATCTC
Found at i:91697233 original size:2 final size:2
Alignment explanation
Indices: 91697226--91697255 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91697216 AAAATTTTAC
91697226 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
91697256 CCTTAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91697329 original size:14 final size:14
Alignment explanation
Indices: 91697310--91697340 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91697300 TATTTGCTTG
91697310 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
91697324 TTAGTCCATTATTT
1 TTAGTCCATCATTT
91697338 TTA
1 TTA
91697341 TGTCATGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.55
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:91697865 original size:131 final size:131
Alignment explanation
Indices: 91697723--91698001 Score: 422
Period size: 131 Copynumber: 2.2 Consensus size: 131
91697713 AAAAAAAAAA
* ** *
91697723 TTTAAAGCGAAGGCGATGTTCGATGTTTGGTAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
1 TTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
* **
91697788 CAATTTCCTGTTTGTTCAAAATAATCGAATATCCCTTTGGAATTTCACTCATATCTTTAAAAATT
66 CAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATCTTTAAAAATT
91697853 C
131 C
* *
91697854 TTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGTGAATCGTGCGCTATCGTGCTGGGTTG
1 TTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
* **
91697919 CAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATGT-TTTCTAAA-T
66 CAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATCTTTAAAAATT
91697982 -
131 C
91697982 TTTAAAAC-AAGGAAATGTTC
1 TTTAAAACGAAGGAAATGTTC
91698002 AATGGCTAGA
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
127 12 0.09
128 8 0.06
129 1 0.01
130 6 0.04
131 109 0.80
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (131 bp):
TTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTG
CAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAAAATTTCACTCATATCTTTAAAAATT
C
Found at i:91698650 original size:13 final size:13
Alignment explanation
Indices: 91698632--91698665 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
91698622 GGGAAAAACT
91698632 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
91698645 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
*
91698658 AGAAGAAA
1 AAAAGAAA
91698666 TTTAGGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:91700568 original size:14 final size:14
Alignment explanation
Indices: 91700549--91700575 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91700539 ATTGAGTTCA
91700549 AAAAATAATAATAT
1 AAAAATAATAATAT
91700563 AAAAATAATAATA
1 AAAAATAATAATA
91700576 AAATAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAATAATAT
Found at i:91700574 original size:17 final size:16
Alignment explanation
Indices: 91700548--91700582 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
91700538 TATTGAGTTC
*
91700548 AAAAAATAATAATATA
1 AAAAAATAATAAAATA
91700564 AAAATAATAATAAAATA
1 AAAA-AATAATAAAATA
91700581 AA
1 AA
91700583 TATGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAAATAATAAAATA
Found at i:91702733 original size:27 final size:27
Alignment explanation
Indices: 91702693--91702833 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
91702683 AGGAAGCGTC
*
91702693 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
91702720 CTGGTGGCTCTGCCAC-ATATATCT-AT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
91702746 CTTGGTGGCTATGCCACAATTATCTGAT
1 C-TGGTGGCTCTGCCACAATTATCTGAT
*
91702774 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
91702801 CTGGTGGCTCTGCAACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
91702828 CTGGTG
1 CTGGTG
91702834 ACTTCGTCAC
Statistics
Matches: 101, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
26 13 0.13
27 82 0.81
28 6 0.06
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:91702776 original size:54 final size:54
Alignment explanation
Indices: 91702693--91702833 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
91702683 AGGAAGCGTC
91702693 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
*
91702746 CTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
* *
91702801 CTGGTGGCTCTGCAACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
91702834 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
53 7 0.09
54 73 0.89
55 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
Found at i:91702845 original size:27 final size:26
Alignment explanation
Indices: 91702706--91702851 Score: 106
Period size: 27 Copynumber: 5.4 Consensus size: 26
91702696 GTGGCTATGC
*
91702706 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
* *
91702733 CACATATATC--TATCTTGGTGGCTATGC
1 CACA-ATATCTGTATC-TGGTGGCT-CGT
*
91702760 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
91702787 CACATATATCTGT-TCTGGTGGCTC-T
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
91702812 GCAACAATATCTGTATCTGGTGACTTCGT
1 -C-ACAATATCTGTATCTGGTGGC-TCGT
91702841 CACAATATCTG
1 CACAATATCTG
91702852 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 4, Indels: 30
0.75 0.03 0.22
Matches are distributed among these distances:
26 13 0.13
27 78 0.78
28 8 0.08
29 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:91702845 original size:81 final size:80
Alignment explanation
Indices: 91702693--91702851 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 80
91702683 AGGAAGCGTC
* *
91702693 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCTTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTATCTTGGTGACTAT
91702758 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
91702774 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCAACA-ATATCTGTATC-TGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCAACATATATC--TATCTTGGTGAC
*
91702836 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
91702852 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 14 0.20
81 51 0.74
82 4 0.06
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTATCTTGGTGACTAT
GCCACAATATCTGAT
Found at i:91706221 original size:23 final size:22
Alignment explanation
Indices: 91706186--91706228 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
91706176 ATCCATAGCA
* *
91706186 AAGGTTAAGAAGAATACAAAAAT
1 AAGGGTAAAAAGAA-ACAAAAAT
91706209 AAGGGTAAAAAGAAACAAAA
1 AAGGGTAAAAAGAAACAAAA
91706229 CAGTTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.65, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAGGGTAAAAAGAAACAAAAAT
Found at i:91711275 original size:20 final size:19
Alignment explanation
Indices: 91711239--91711284 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
91711229 AATATATGTA
91711239 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
91711259 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
91711278 TTGATAT
1 TT-ATAT
91711285 CTTCCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:91711295 original size:23 final size:18
Alignment explanation
Indices: 91711239--91711284 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 18
91711229 AATATATGTA
91711239 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
91711259 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
91711278 TTGATAT
1 TT-ATAT
91711285 CTTCCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:91711417 original size:16 final size:15
Alignment explanation
Indices: 91711398--91711466 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
91711388 ATTAACCATG
91711398 TATTATTTCATATTAT
1 TATTATTT-ATATTAT
91711414 TATTA-TT-TATTAT
1 TATTATTTATATTAT
*
91711427 ATATT-TTTAAATTAT
1 -TATTATTTATATTAT
*
91711442 TATTATTT-TA-CAT
1 TATTATTTATATTAT
91711455 TATTATTTATAT
1 TATTATTTATAT
91711467 ATTTTTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 16 0.36
14 13 0.30
15 10 0.23
16 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:91711441 original size:38 final size:38
Alignment explanation
Indices: 91711399--91711507 Score: 91
Period size: 38 Copynumber: 2.9 Consensus size: 38
91711389 TTAACCATGT
*
91711399 ATTATT-TCATATTATTATTATT-TATTATATATTTTTAA
1 ATTATTATCATATTA-CATTATTAT-TTATATATTTTTAA
* * *
91711437 ATTATTATTATTTTACATTATTATTTATATATTTTTAC
1 ATTATTATCATATTACATTATTATTTATATATTTTTAA
* * *
91711475 TTGTATTAT-ATCTT-TATTAATTATTTATATATT
1 AT-TATTATCATATTACATT-ATTATTTATATATT
91711508 ATACATTATT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
37 3 0.05
38 44 0.73
39 13 0.22
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (38 bp):
ATTATTATCATATTACATTATTATTTATATATTTTTAA
Found at i:91711459 original size:57 final size:61
Alignment explanation
Indices: 91711398--91711526 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 61
91711388 ATTAACCATG
*
91711398 TATTATTTCATATTATTATTA-TT-TATTATATATTT-TTAAATTA-TTAT-TATTTTACAT
1 TATTATTTCATATTATTATTACTTGTATTATATATTTATT-AATTATTTATATATTATACAT
* *
91711455 TATTATTT-ATA-TATTTTTACTTGTATTATATCTTTATTAATTATTTATATATTATACAT
1 TATTATTTCATATTATTATTACTTGTATTATATATTTATTAATTATTTATATATTATACAT
91711514 TATT-TTTGCATAT
1 TATTATTT-CATAT
91711527 ATACTTTCAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
55 7 0.11
56 5 0.08
57 24 0.39
58 9 0.15
59 13 0.21
60 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (61 bp):
TATTATTTCATATTATTATTACTTGTATTATATATTTATTAATTATTTATATATTATACAT
Found at i:91711485 original size:19 final size:18
Alignment explanation
Indices: 91711418--91711507 Score: 69
Period size: 19 Copynumber: 4.8 Consensus size: 18
91711408 TATTATTATT
91711418 ATTTATTATATATTTTTA
1 ATTTATTATATATTTTTA
*
91711436 AATTATTAT-TA-TTTTA
1 ATTTATTATATATTTTTA
91711452 CATTATTATTTATATATTTTTA
1 -A-T-TTA-TTATATATTTTTA
* *
91711474 CTTGTATTATATCTTTATTA
1 ATT-TATTATATATTT-TTA
91711494 A-TTATTTATATATT
1 ATTTA-TTATATATT
91711508 ATACATTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 10 0.18
19 22 0.39
20 10 0.18
21 2 0.04
22 5 0.09
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (18 bp):
ATTTATTATATATTTTTA
Found at i:91715331 original size:14 final size:14
Alignment explanation
Indices: 91715312--91715341 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91715302 AAGATATTCT
91715312 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
91715326 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
91715340 TT
1 TT
91715342 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:91715380 original size:14 final size:16
Alignment explanation
Indices: 91715361--91715397 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
91715351 TCGATATCCT
91715361 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
91715375 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
91715391 TTT-CATC
1 TTTGCATC
91715398 GCATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:91715397 original size:15 final size:15
Alignment explanation
Indices: 91715361--91715410 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
91715351 TCGATATCCT
91715361 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
91715375 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
91715391 TTT-CATCGCAT-CG
1 TTTGCATCTCATGCA
91715404 TTTGCAT
1 TTTGCAT
91715411 TCAAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:91717252 original size:19 final size:22
Alignment explanation
Indices: 91717213--91717252 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
91717203 AGAAACCCAA
91717213 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
91717235 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
91717253 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:91717376 original size:27 final size:26
Alignment explanation
Indices: 91717314--91717455 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
91717304 AGCATGGCTG
* *
91717314 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
91717340 CCAAATACAGATAATCGTGGCAGAGTCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
91717368 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
91717395 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
91717422 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
91717449 CCAGAAC
1 CCAGAAC
91717456 GCTTCCTCCA
Statistics
Matches: 105, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.04
27 84 0.80
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:91717452 original size:54 final size:55
Alignment explanation
Indices: 91717314--91717453 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
91717304 AGCATGGCTG
* * * *
91717314 CCAGAACAGATA-ATGTGACAGAGTCACCAAATACAGATAATCGTGGCAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* *
91717368 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
91717422 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
91717454 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (55 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:91717596 original size:28 final size:28
Alignment explanation
Indices: 91717556--91717633 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
91717546 CAAAATTAAC
* *
91717556 CCTAGGGGTATAACGGTAATTTTGCATA
1 CCTAGGGGTATAACAGTAATTTTCCATA
91717584 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCATA
* * * *
91717612 CATAGGGATATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
91717634 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (28 bp):
CCTAGGGGTATAACAGTAATTTTCCATA
Found at i:91719111 original size:26 final size:26
Alignment explanation
Indices: 91719075--91719184 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
91719065 CATGAAATTC
91719075 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
91719101 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
91719127 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
91719153 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
91719179 TTATCA
1 TTATCA
91719185 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:91727043 original size:204 final size:204
Alignment explanation
Indices: 91726593--91727350 Score: 1138
Period size: 204 Copynumber: 3.7 Consensus size: 204
91726583 GCAGATCTGG
* *
91726593 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAACCGAAGACATAGAT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
** *
91726658 GATTTGGCTTTCATGTGTTTACGCTGAAAAAAATCTAAGATGATTTGGTATCTCTGTATTGTTAG
66 GATTTGGCTTTCATGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTC--TATTGTCAG
* * *
91726723 AGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGGGGGCAGATACATAGCAGATCTCACTTTC
129 AGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTC
*
91726788 AGATGTTTTCA
194 AGATGATTTCA
* * * **
91726799 CTAAAGCAAGATCCAAGATGATCTGGCATCATTGTGCTTACAAGGAACAAATCGAAGACATACCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
* *
91726864 GATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTTTCAGAG
66 GATTTGGCTTTCATGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTGTCAGAG
*
91726929 AACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTCTG
131 AACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTCAG
91726994 ATGATTTCA
196 ATGATTTCA
* * *
91727003 TTGAAGCAAGATCCAAGATGATTTGGCATCCTTATGCTTACAAAGAACAAATCGAAGACATAGAT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
*
91727068 GATTTGGCTTTCATGTGTTTACGCTGAAGCAAATTTAAGATGATTTGGTATCTCTATTGTCAGAG
66 GATTTGGCTTTCATGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTGTCAGAG
* * *
91727133 AACAAATCGAAGTCTGGCATCTCCACTTTGATGGAGAGTAGATACATAGCAGATCTCACCTTCAG
131 AACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTCAG
*
91727198 ATAATTTCA
196 ATGATTTCA
* * * *
91727207 CTGAAGCAAGATCCAAGATGGTTTGGTACCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
* ** * * ** * *
91727272 GATTTGGTTTTTGTGTGCTTACGCTAAAGCAAATCTAAGATGATTTGCCATCTTTGTATTGTCAA
66 GATTTGGCTTTCATGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATC--TCTATTGTCAG
91727337 AGAACAAATCGAAG
129 AGAACAAATCGAAG
91727351 AAGCAGATTT
Statistics
Matches: 500, Mismatches: 50, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
204 368 0.74
206 132 0.26
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (204 bp):
CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGAT
GATTTGGCTTTCATGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGTATCTCTATTGTCAGAG
AACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGAGCAGATACATAGCAGATCTCACCTTCAG
ATGATTTCA
Found at i:91729022 original size:20 final size:19
Alignment explanation
Indices: 91728986--91729031 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
91728976 AATATATGTA
91728986 TTATATTTTATATTATTTAC
1 TTATATTTTATATTA-TTAC
91729006 TTATATTTTAT-TATATTAC
1 TTATATTTTATAT-TATTAC
91729025 TTGATAT
1 TT-ATAT
91729032 CTTCCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATATTTTATATTATTAC
Found at i:91729042 original size:23 final size:18
Alignment explanation
Indices: 91728986--91729031 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 18
91728976 AATATATGTA
91728986 TTATATTTTATATTATTTAC
1 TTATA-TTT-TATTATTTAC
91729006 TTATATTTTATTATATTAC
1 TTATATTTTATTAT-TTAC
91729025 TTGATAT
1 TT-ATAT
91729032 CTTCCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATTTTATTATTTAC
Found at i:91729164 original size:16 final size:15
Alignment explanation
Indices: 91729145--91729213 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
91729135 ATTAACCATG
91729145 TATTATTTCATATTAT
1 TATTATTT-ATATTAT
91729161 TATTA-TT-TATTAT
1 TATTATTTATATTAT
*
91729174 ATATT-TTTAAATTAT
1 -TATTATTTATATTAT
*
91729189 TATTATTT-TA-CAT
1 TATTATTTATATTAT
91729202 TATTATTTATAT
1 TATTATTTATAT
91729214 AGTTTTACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
13 16 0.36
14 13 0.30
15 10 0.23
16 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTATTTATATTAT
Found at i:91729334 original size:22 final size:22
Alignment explanation
Indices: 91729309--91729353 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
91729299 TATTTTATAT
91729309 TATGTCATTT-TTTATACTATTA
1 TATGTCATTTATTTATAC-ATTA
**
91729331 TATGTTTTTTATTTATACATTA
1 TATGTCATTTATTTATACATTA
91729353 T
1 T
91729354 TATCATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (22 bp):
TATGTCATTTATTTATACATTA
Found at i:91732308 original size:2 final size:2
Alignment explanation
Indices: 91732303--91732351 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
91732293 TTAAAACTGT
91732303 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
91732345 TA TA TA T
1 TA TA TA T
91732352 CAGTAGCATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.