Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 84 of 97
Found at i:33103423 original size:6 final size:6
Alignment explanation
Indices: 33103412--33103486 Score: 96
Period size: 6 Copynumber: 12.5 Consensus size: 6
33103402 AGAAGGGAAT
* * * * *
33103412 TATATA TATATA TATATA TATGTA TATGTA TGTATA TATATG TATGTA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
33103460 TATGTA TATATA TATATA TATATA TAT
1 TATATA TATATA TATATA TATATA TAT
33103487 GTATGTATGT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:33103427 original size:10 final size:10
Alignment explanation
Indices: 33103412--33103486 Score: 96
Period size: 10 Copynumber: 7.5 Consensus size: 10
33103402 AGAAGGGAAT
33103412 TATATATATA
1 TATATATATA
33103422 TATATATATA
1 TATATATATA
* *
33103432 TGTATATGTA
1 TATATATATA
*
33103442 TGTATATATA
1 TATATATATA
* *
33103452 TGTATGTATA
1 TATATATATA
*
33103462 TGTATATATA
1 TATATATATA
33103472 TATATATATA
1 TATATATATA
33103482 TATAT
1 TATAT
33103487 GTATGTATGT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 59 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (10 bp):
TATATATATA
Found at i:33106281 original size:20 final size:21
Alignment explanation
Indices: 33106244--33106286 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
33106234 ATAAATTATA
*
33106244 AAAAAGTAATATTTAAAATTT
1 AAAAAGTAATATTGAAAATTT
*
33106265 AAAAATTAA-ATTGAAAATTT
1 AAAAAGTAATATTGAAAATTT
33106285 AA
1 AA
33106287 TATAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAAGTAATATTGAAAATTT
Found at i:33106494 original size:83 final size:83
Alignment explanation
Indices: 33106327--33106498 Score: 199
Period size: 83 Copynumber: 2.1 Consensus size: 83
33106317 AAATATAGAA
* * * *
33106327 TAAAATAAAATAATGATATTAATGTTTTAAATAATACATTACTAATATTTTAAATAAAATATAAA
1 TAAAATAAAATAATCACATTAATGTTTTAAATAACACATTAATAATATTTTAAATAAAATATAAA
** *
33106392 CTATTAATATTTTCAAAAT
66 AAATAAATATTTT-AAAAT
*
33106411 TAAAAT-AAATAATCACATTAAAT-TTTTAAATAACA-ATTTAATAATATTTTAAATAAATTATT
1 TAAAATAAAATAATCACATT-AATGTTTTAAATAACACA-TTAATAATATTTTAAATAAAATA-T
33106473 AAAAAAATAAATATTTT-AAAT
63 -AAAAAATAAATATTTTAAAAT
33106494 TAAAA
1 TAAAA
33106499 ATTAAAATTA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
82 1 0.01
83 52 0.68
84 10 0.13
85 13 0.17
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (83 bp):
TAAAATAAAATAATCACATTAATGTTTTAAATAACACATTAATAATATTTTAAATAAAATATAAA
AAATAAATATTTTAAAAT
Found at i:33112717 original size:2 final size:2
Alignment explanation
Indices: 33112710--33112739 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
33112700 CTCCTTTTCC
33112710 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33112740 GTAATGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33114943 original size:28 final size:28
Alignment explanation
Indices: 33114903--33114960 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
33114893 CAATTATTTG
33114903 TTGGTTAAGTTTATGTTCAAAGGATAAA
1 TTGGTTAAGTTTATGTTCAAAGGATAAA
33114931 TTGGTTAAGTTTATGTTCAAAGGATAAA
1 TTGGTTAAGTTTATGTTCAAAGGATAAA
33114959 TT
1 TT
33114961 TACTTAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.41
Consensus pattern (28 bp):
TTGGTTAAGTTTATGTTCAAAGGATAAA
Found at i:33115947 original size:19 final size:20
Alignment explanation
Indices: 33115905--33115947 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
33115895 TTTTTTTTTC
*
33115905 TTTTGAATTTCATCTTAGAA
1 TTTTGAATTTCATCCTAGAA
33115925 -TTTGAATTTCATCCTA-AA
1 TTTTGAATTTCATCCTAGAA
33115943 TTTTG
1 TTTTG
33115948 TTCCTGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTGAATTTCATCCTAGAA
Found at i:33116066 original size:27 final size:27
Alignment explanation
Indices: 33116036--33116104 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
33116026 AATATTGGTT
33116036 TTGTTCTGCAGATTGTTTAGTTG-GATA
1 TTGTTCTGCAGATTGTTTAGTTGAG-TA
*
33116063 TTGTTCTGTAGATTGTTTAGTTGAGTA
1 TTGTTCTGCAGATTGTTTAGTTGAGTA
*
33116090 TTGTTATGCAGATTG
1 TTGTTCTGCAGATTG
33116105 GTTTGAATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.26, T:0.49
Consensus pattern (27 bp):
TTGTTCTGCAGATTGTTTAGTTGAGTA
Found at i:33130302 original size:19 final size:19
Alignment explanation
Indices: 33130275--33130335 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 19
33130265 ATCTTTCATT
*
33130275 TATAGTTAACAGTGAATTC
1 TATATTTAACAGTGAATTC
* *
33130294 TATATTTAA-GGT-AA-AC
1 TATATTTAACAGTGAATTC
*
33130310 T-T-CTTAACAGTGAATTC
1 TATATTTAACAGTGAATTC
33130327 TATATTTAA
1 TATATTTAA
33130336 GCTAACAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 10
0.64 0.15 0.21
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 4 0.13
17 4 0.13
18 3 0.10
19 12 0.40
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (19 bp):
TATATTTAACAGTGAATTC
Found at i:33130768 original size:19 final size:18
Alignment explanation
Indices: 33130737--33130772 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33130727 ACACTTATCT
33130737 TTTTTTTATTTGATTTAG
1 TTTTTTTATTTGATTTAG
*
33130755 TTTTTTTCTCTTGATTTA
1 TTTTTTTAT-TTGATTTA
33130773 TTAATTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTTTTATTTGATTTAG
Found at i:33131542 original size:2 final size:2
Alignment explanation
Indices: 33131475--33131524 Score: 84
Period size: 2 Copynumber: 25.0 Consensus size: 2
33131465 GTATACATGC
33131475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
33131517 AT AT AT AT
1 AT AT AT AT
33131525 TAAAATTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 44 0.96
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33134926 original size:15 final size:15
Alignment explanation
Indices: 33134898--33134932 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33134888 TTTATAATGC
*
33134898 AATGTGATTACAAGT
1 AATGTAATTACAAGT
*
33134913 AATGTAATTGCAAGT
1 AATGTAATTACAAGT
33134928 AATGT
1 AATGT
33134933 GATTTTAGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (15 bp):
AATGTAATTACAAGT
Found at i:33135199 original size:33 final size:33
Alignment explanation
Indices: 33135154--33135240 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
33135144 TTTTAATGTC
*
33135154 ATATATTTTATTTTTATTTTTTATTATAATATT
1 ATATATTTTATTTTTATTTTTTAATATAATATT
* *
33135187 ATATTTTTTATTTTTATTTTTTAATATAATTTT
1 ATATATTTTATTTTTATTTTTTAATATAATATT
* *
33135220 TTATATTATATATTTTATTTT
1 ATATATTTTAT-TTTTATTTT
33135241 AATTTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 38 0.81
34 9 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (33 bp):
ATATATTTTATTTTTATTTTTTAATATAATATT
Found at i:33135218 original size:26 final size:27
Alignment explanation
Indices: 33135156--33135223 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
33135146 TTAATGTCAT
*
33135156 ATATTTTA-TTTTTATTTTTTATTATA
1 ATATTATATTTTTTATTTTTTATTATA
* *
33135182 ATATTATATTTTTTATTTTTATTTTTTA
1 ATATTATATTTTTTATTTTT-TATTATA
33135210 ATA-TA-ATTTTTTAT
1 ATATTATATTTTTTAT
33135224 ATTATATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 16 0.43
27 13 0.35
28 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (27 bp):
ATATTATATTTTTTATTTTTTATTATA
Found at i:33135248 original size:15 final size:15
Alignment explanation
Indices: 33135230--33135347 Score: 52
Period size: 15 Copynumber: 8.0 Consensus size: 15
33135220 TTATATTATA
33135230 TATTTTATTTTAATT
1 TATTTTATTTTAATT
**
33135245 TATTTTA-CCT-ATAT
1 TATTTTATTTTAAT-T
**
33135259 TATATAAATTTTAATT
1 TAT-TTTATTTTAATT
* * *
33135275 TCTTGTATTTTATTT
1 TATTTTATTTTAATT
33135290 TATTTTAATTTCTAA--
1 TATTTT-ATTT-TAATT
* * *
33135305 T-TCTTATATT-ATA
1 TATTTTATTTTAATT
33135318 TATTTTATTTTAATAT
1 TATTTTATTTTAAT-T
33135334 T-TTTTATTTTAATT
1 TATTTTATTTTAATT
33135348 ATAATATTAT
Statistics
Matches: 74, Mismatches: 18, Indels: 23
0.64 0.16 0.20
Matches are distributed among these distances:
11 1 0.01
12 1 0.01
13 6 0.08
14 16 0.22
15 37 0.50
16 9 0.12
17 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (15 bp):
TATTTTATTTTAATT
Found at i:33152265 original size:53 final size:53
Alignment explanation
Indices: 33152185--33152289 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 53
33152175 GCAAAGAAAG
* * *
33152185 ACCATGAGACGTAGGAAGATGGGGAAAGTTCATACACTAAGAAGGATGTTGAC
1 ACCATGAGACATAGGAAAATGGGGAAAGCTCATACACTAAGAAGGATGTTGAC
*
33152238 ACCATGAGACATAGGAAAATGGGGAAAGCTCATACACTAGGAAGGATGTTGA
1 ACCATGAGACATAGGAAAATGGGGAAAGCTCATACACTAAGAAGGATGTTGA
33152290 TAGTTGATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.39, C:0.13, G:0.30, T:0.18
Consensus pattern (53 bp):
ACCATGAGACATAGGAAAATGGGGAAAGCTCATACACTAAGAAGGATGTTGAC
Found at i:33153237 original size:16 final size:17
Alignment explanation
Indices: 33153212--33153250 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
33153202 AAAAATTAAG
* *
33153212 TAAAAGATGATAG-ATT
1 TAAAAAATGAAAGAATT
33153228 TAAAAAATGAAAGAATT
1 TAAAAAATGAAAGAATT
33153245 TAAAAA
1 TAAAAA
33153251 TAAAGCGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (17 bp):
TAAAAAATGAAAGAATT
Found at i:33155531 original size:175 final size:175
Alignment explanation
Indices: 33155240--33155586 Score: 491
Period size: 175 Copynumber: 2.0 Consensus size: 175
33155230 TATTCTCCTT
* *
33155240 TCCCTTCATTTTCTTCTTTCCTTTTCTCTCTCTACCCGCAACCACCCTCTAACTTCTCTCTAAAC
1 TCCCTTCATTTTCTTCTTTCCTTTTCTCTCTCTAACCGCAACCACACTCTAACTTCTCTCTAAAC
* * * *
33155305 TCTTCCCTCCGCTGGCCGCTTTCTCCTCCTCTCTCACCTTTCCCTCCACCGGTGGCTTGAAGCTC
66 TCTTCCCTCCGCTGACCGCTTTCTCCTCCTCTCTCACCTTCCCCGCCACCGGTGCCTTGAAGCTC
* * *
33155370 GATCACCTAAAACCCTAAATATCTCTTCCCTCCACCGGCAATTCC
131 GACCACCCAAAACCCCAAATATCTCTTCCCTCCACCGGCAATTCC
** *
33155415 TCCCTTCATTTTCTTCTTTGCC-TTTCTCTCTCTAACCGC-GGCATCACTCTCACTTCTCTCTAA
1 TCCCTTCATTTTCTTCTTT-CCTTTTCTCTCTCTAACCGCAACCA-CACTCTAACTTCTCTCTAA
* * * * * *
33155478 ACTTTTCCTTCTGCTGACCGCTTTGTCCTTCTCTGTCACCTTCCCCGCCACCGGTGCCTTGAAGC
64 ACTCTTCCCTCCGCTGACCGCTTTCTCCTCCTCTCTCACCTTCCCCGCCACCGGTGCCTTGAAGC
*
33155543 TCGGCCACCCAAAACCCCAAATATCTCTTCCCTCCACCGGCAAT
129 TCGACCACCCAAAACCCCAAATATCTCTTCCCTCCACCGGCAAT
33155587 CCCTAGATCT
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
174 2 0.01
175 147 0.97
176 2 0.01
ACGTcount: A:0.15, C:0.42, G:0.10, T:0.33
Consensus pattern (175 bp):
TCCCTTCATTTTCTTCTTTCCTTTTCTCTCTCTAACCGCAACCACACTCTAACTTCTCTCTAAAC
TCTTCCCTCCGCTGACCGCTTTCTCCTCCTCTCTCACCTTCCCCGCCACCGGTGCCTTGAAGCTC
GACCACCCAAAACCCCAAATATCTCTTCCCTCCACCGGCAATTCC
Found at i:33161007 original size:2 final size:2
Alignment explanation
Indices: 33160998--33161026 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
33160988 TATAGTAAAC
33160998 TA TA -A 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
33161027 ACTTACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:33162447 original size:2 final size:2
Alignment explanation
Indices: 33162442--33162476 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
33162432 GTGACGTCAA
*
33162442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33162477 AGTTTCAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:33167523 original size:103 final size:103
Alignment explanation
Indices: 33167404--33167603 Score: 312
Period size: 105 Copynumber: 1.9 Consensus size: 103
33167394 ATTAATTACA
* *
33167404 TATATATATAATAAAGTAATATATTATG-CATATACATATATTTAATTTATACATAAGTATTACT
1 TATATATATAATAAAGTAATATATTATGACATATACATATATTTAATTGATACATAAATATTACT
33167468 ATAACTTATAATAGACTTTATTTATATGATTNCATTAAT
66 ATAACTTATAATAGACTTTATTTATATGATT-CATTAAT
* * *
33167507 TATATATATAATAAAGTCATATATTATGTATATATATATATATTTAATTGATACATAAATATTAC
1 TATATATATAATAAAGTAATATATTATG-ACATATACATATATTTAATTGATACATAAATATTAC
* *
33167572 TGTGACTTATAATAGACTTTATTTATATGATT
65 TATAACTTATAATAGACTTTATTTATATGATT
33167604 ATACTTAAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 27 0.31
105 61 0.69
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (103 bp):
TATATATATAATAAAGTAATATATTATGACATATACATATATTTAATTGATACATAAATATTACT
ATAACTTATAATAGACTTTATTTATATGATTCATTAAT
Found at i:33167780 original size:11 final size:11
Alignment explanation
Indices: 33167707--33167793 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 11
33167697 ATATTATAAC
*
33167707 ATATAATTTGT
1 ATATAATTTAT
33167718 ATCATTAA-TTAT
1 AT-A-TAATTTAT
33167730 ATATATATATTAT
1 ATATA-AT-TTAT
* *
33167743 AAAGTAATATATT
1 ATA-TAATTTA-T
*
33167756 ATATATACTTAT
1 ATATA-ATTTAT
*
33167768 ATTTAATTTAT
1 ATATAATTTAT
*
33167779 ATATAATTTGT
1 ATATAATTTAT
33167790 ATAT
1 ATAT
33167794 TTTATAATTG
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
10 2 0.03
11 22 0.38
12 15 0.26
13 17 0.29
14 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (11 bp):
ATATAATTTAT
Found at i:33171470 original size:41 final size:41
Alignment explanation
Indices: 33171376--33171513 Score: 132
Period size: 42 Copynumber: 3.3 Consensus size: 41
33171366 GACACCTTTG
* * * * *
33171376 TATGTTCCAAGGAGCGAGGATGATACCTTAGCCTCTTATTGA
1 TATGTTCCAAGTAGCAAGGATGATACCATACCCT-TTATTAA
* * * * * *
33171418 TATATTTCAAGTGGTAAGGATGATATCATACCCTTTATTTA
1 TATGTTCCAAGTAGCAAGGATGATACCATACCCTTTATTAA
* *
33171459 TATGTTCCAAGTAGCAAGGATGATACCCTACCCTTTGTATAA
1 TATGTTCCAAGTAGCAAGGATGATACCATACCCTTTAT-TAA
*
33171501 AATGTTCCAAGTA
1 TATGTTCCAAGTA
33171514 ATGAGGGCAA
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 37 0.49
42 39 0.51
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (41 bp):
TATGTTCCAAGTAGCAAGGATGATACCATACCCTTTATTAA
Found at i:33177586 original size:14 final size:14
Alignment explanation
Indices: 33177557--33177595 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
33177547 AAAATAGAAA
*
33177557 AAAATGATATAATAT
1 AAAATTATA-AATAT
33177572 AAAATTATAAATAT
1 AAAATTATAAATAT
*
33177586 AAAAATATAA
1 AAAATTATAA
33177596 TGGTTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAATTATAAATAT
Found at i:33182976 original size:107 final size:107
Alignment explanation
Indices: 33182790--33183003 Score: 401
Period size: 107 Copynumber: 2.0 Consensus size: 107
33182780 CATTTGTATA
*
33182790 ACAATTATACTAGTGATAATCATTTTTAAATTTTTATAGAAAATCTATAATTCTGCATTACTACA
1 ACAATTATACTAATGATAATCATTTTTAAATTTTTATAGAAAATCTATAATTCTGCATTACTACA
33182855 AAAATATGATGAAAATTAATTCTCTCAGTCGGAGTTTGAGCC
66 AAAATATGATGAAAATTAATTCTCTCAGTCGGAGTTTGAGCC
*
33182897 ACAATTATACTAATGATAATCATTTTTAAATTTTTATAGAAAATTTATAATTCTGCATTACTACA
1 ACAATTATACTAATGATAATCATTTTTAAATTTTTATAGAAAATCTATAATTCTGCATTACTACA
*
33182962 AAAATATGATGAAAATTAATTCTCTCAGTCTGAGTTTGAGCC
66 AAAATATGATGAAAATTAATTCTCTCAGTCGGAGTTTGAGCC
33183004 GCAAGTTTAG
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (107 bp):
ACAATTATACTAATGATAATCATTTTTAAATTTTTATAGAAAATCTATAATTCTGCATTACTACA
AAAATATGATGAAAATTAATTCTCTCAGTCGGAGTTTGAGCC
Found at i:33183905 original size:21 final size:20
Alignment explanation
Indices: 33183876--33183916 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
33183866 AATTAAGTTG
33183876 TTTTAGTTTAATTGTACTTTA
1 TTTTAGTTTAATT-TACTTTA
*
33183897 TTTTGGTTTAATTTACTTTA
1 TTTTAGTTTAATTTACTTTA
33183917 AGAAAAGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (20 bp):
TTTTAGTTTAATTTACTTTA
Found at i:33193018 original size:17 final size:17
Alignment explanation
Indices: 33192996--33193051 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
33192986 TCAATATTTC
33192996 TTTTATTCATTTTTTAT
1 TTTTATTCATTTTTTAT
*
33193013 TTTTATT-ATTTTCTTCT
1 TTTTATTCATTTT-TTAT
*
33193030 TTTCTTTTC-TTTTTTAT
1 TTT-TATTCATTTTTTAT
*
33193047 ATTTA
1 TTTTA
33193052 AGAAATATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
16 6 0.19
17 18 0.58
18 7 0.23
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTCATTTTTTAT
Found at i:33196674 original size:29 final size:29
Alignment explanation
Indices: 33196635--33196748 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
33196625 AGTTAGTAAT
* **
33196635 GGTTTGTGGTGATCCTGTTAAAAACCATG
1 GGTTTGTGGTGAACCCATTAAAAACCATG
* *
33196664 GGTTTGTGGTG-ACCCGTT-AAAACCACG
1 GGTTTGTGGTGAACCCATTAAAAACCATG
* * *
33196691 TGTTTGTAGTGAACCCATTAAAAACCATA
1 GGTTTGTGGTGAACCCATTAAAAACCATG
*
33196720 GGTTTGTGGTTGAACCTATTAAAAACCAT
1 GGTTTGTGG-TGAACCCATTAAAAACCAT
33196749 TATAAGGGTT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
27 17 0.24
28 11 0.15
29 25 0.35
30 18 0.25
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.32
Consensus pattern (29 bp):
GGTTTGTGGTGAACCCATTAAAAACCATG
Found at i:33198508 original size:22 final size:20
Alignment explanation
Indices: 33198465--33198506 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
33198455 AAGCCAATTC
33198465 TTCATATATTATGAATCATT
1 TTCATATATTATGAATCATT
33198485 TTCATATATTATGAATCATT
1 TTCATATATTATGAATCATT
33198505 TT
1 TT
33198507 TTTCTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (20 bp):
TTCATATATTATGAATCATT
Found at i:33203836 original size:24 final size:24
Alignment explanation
Indices: 33203804--33204134 Score: 527
Period size: 24 Copynumber: 13.5 Consensus size: 24
33203794 GGTGAGCGGC
33203804 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33203828 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33203852 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33203876 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33203900 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
**
33203924 TGAGAGAGAGGGGCGACCCACGAC
1 TGAGAGAGAGGGGCGACCCACGGT
*
33203948 TGAGACAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33203972 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33203996 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33204020 TGAGAGAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
*
33204044 TGAGAGAGAGGGGCGACCCACGGGCGAGCGGC
1 TGAGAGAGAGGGGCGA--C-C---C-A-CGGT
**
33204076 TGAGAGAGAGGGGCGACCCACGAC
1 TGAGAGAGAGGGGCGACCCACGGT
*
33204100 TGAGACAGAGGGGCGACCCACGGT
1 TGAGAGAGAGGGGCGACCCACGGT
33204124 TGAGAGAGAGG
1 TGAGAGAGAGG
33204135 AAGACGACCA
Statistics
Matches: 287, Mismatches: 12, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
24 260 0.91
25 1 0.00
26 2 0.01
27 1 0.00
29 1 0.00
30 2 0.01
31 1 0.00
32 19 0.07
ACGTcount: A:0.26, C:0.22, G:0.45, T:0.07
Consensus pattern (24 bp):
TGAGAGAGAGGGGCGACCCACGGT
Found at i:33209662 original size:35 final size:34
Alignment explanation
Indices: 33209602--33209701 Score: 139
Period size: 35 Copynumber: 2.9 Consensus size: 34
33209592 TCCCATATTG
33209602 AAATAAAAAGAAAGTCATGTTTGTTGGAAATTAG-A
1 AAAT-AAAAGAAAGTCATGTTTGTTGGAAA-TAGAA
* *
33209637 AAATCAAAGGAAAGTCATGTATGTTGGAAATAGAA
1 AAAT-AAAAGAAAGTCATGTTTGTTGGAAATAGAA
33209672 AAATAAAAGAAGAGTCATGTTTGTTGGAAA
1 AAATAAAAGAA-AGTCATGTTTGTTGGAAA
33209702 AGACCAATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
34 9 0.16
35 49 0.84
ACGTcount: A:0.48, C:0.04, G:0.22, T:0.26
Consensus pattern (34 bp):
AAATAAAAGAAAGTCATGTTTGTTGGAAATAGAA
Found at i:33217307 original size:35 final size:35
Alignment explanation
Indices: 33217250--33217335 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
33217240 CTCATATTGG
**
33217250 AATAAAAGGAA-AGTCATGTCTGTTGGAAATTA-AAA
1 AATAAAA-GAAGAGTCACATCTGTTGGAAA-TAGAAA
* *
33217285 AATAAAAGAAGGGTCACATCTGTTTGAAATAGAAA
1 AATAAAAGAAGAGTCACATCTGTTGGAAATAGAAA
33217320 AATAAAAGAAGAGTCA
1 AATAAAAGAAGAGTCA
33217336 TGGTTGTTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
34 5 0.11
35 39 0.89
ACGTcount: A:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (35 bp):
AATAAAAGAAGAGTCACATCTGTTGGAAATAGAAA
Found at i:33217958 original size:29 final size:27
Alignment explanation
Indices: 33217895--33217962 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 27
33217885 TCACATCATT
33217895 ATAAAAATAAATTTAAAATTTTTAAAA
1 ATAAAAATAAATTTAAAATTTTTAAAA
*
33217922 ACTTAAAACTAAATATTAATAATTTTT-AAA
1 A--TAAAAATAAAT-TTAA-AATTTTTAAAA
33217952 ATAAAAA-AAAT
1 ATAAAAATAAAT
33217963 AAATACAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
27 5 0.14
28 5 0.14
29 10 0.29
30 8 0.23
31 7 0.20
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAAAAATAAATTTAAAATTTTTAAAA
Found at i:33217966 original size:31 final size:30
Alignment explanation
Indices: 33217897--33217967 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
33217887 ACATCATTAT
**
33217897 AAAAATAAAT-TTAAAATTTTTAAAAACTT
1 AAAAATAAATATTAAAATTTTTAAAAACAA
*
33217926 AAAACTAAATATTAATAATTTTTAAAATA-AA
1 AAAAATAAATATTAA-AATTTTTAAAA-ACAA
33217957 AAAAATAAATA
1 AAAAATAAATA
33217968 CAATGTTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 9 0.26
30 4 0.11
31 21 0.60
32 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAATAAATATTAAAATTTTTAAAAACAA
Found at i:33218926 original size:87 final size:86
Alignment explanation
Indices: 33218788--33218950 Score: 213
Period size: 87 Copynumber: 1.9 Consensus size: 86
33218778 ACAGGATTAA
* ** *
33218788 ATTTTTTTGACACCTGAAAAATTTCTGAACAATTTTTAACGGAATATTTTTCGTCGAAAAA-TTC
1 ATTTTTTTGACACCTAAAAAATTTCTGAACAATTTTTAACAAAATAGTTTTCGTCGAAAAATTTC
33218852 TATTGAAAAATTTGGCCACATTG
66 -ATT-AAAAATTTGGCCACATTG
* * * *
33218875 ATTTTTTTGAGACCTAAAAAATTTCTG-ACTATTTTCTAACAAAATAGTTTTCGTTGATAAATTT
1 ATTTTTTTGACACCTAAAAAATTTCTGAACAATTTT-TAACAAAATAGTTTTCGTCGAAAAATTT
33218939 CATTAAAAATTT
65 CATTAAAAATTT
33218951 ATTGAAAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 15 0.23
87 48 0.73
88 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (86 bp):
ATTTTTTTGACACCTAAAAAATTTCTGAACAATTTTTAACAAAATAGTTTTCGTCGAAAAATTTC
ATTAAAAATTTGGCCACATTG
Found at i:33220265 original size:2 final size:2
Alignment explanation
Indices: 33220258--33220291 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
33220248 TATTAAATTG
33220258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33220292 GGAGCCATTT
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):
AT
Found at i:33223026 original size:28 final size:28
Alignment explanation
Indices: 33222957--33223020 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
33222947 AAAGCATAAC
* ***
33222957 ATGTTACACACCAAAACTTCAGCAGTTG
1 ATGTTACACACCAAAACTTCAACAACAG
33222985 ATGTTACACACCAAAACTTCAACAACAG
1 ATGTTACACACCAAAACTTCAACAACAG
33223013 ATGTTACA
1 ATGTTACA
33223021 TGCCAAGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (28 bp):
ATGTTACACACCAAAACTTCAACAACAG
Found at i:33223048 original size:34 final size:34
Alignment explanation
Indices: 33222995--33223128 Score: 178
Period size: 34 Copynumber: 3.9 Consensus size: 34
33222985 ATGTTACACA
* *
33222995 CCAAAACTTCAACAACAGATGTTACATGCCAAGG
1 CCAAAGCTTCAACACCAGATGTTACATGCCAAGG
* *
33223029 TCAAAGCTTCAGCACCAGATGTTACATGCCAAGG
1 CCAAAGCTTCAACACCAGATGTTACATGCCAAGG
* * * *
33223063 CCAAAGCTTCAATATCAAATGTTACATGCCAAGA
1 CCAAAGCTTCAACACCAGATGTTACATGCCAAGG
* *
33223097 CCAAAGCTTCAGCACCAGATGTTACACGCCAA
1 CCAAAGCTTCAACACCAGATGTTACATGCCAA
33223129 AGCTTCCTTC
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 85 1.00
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (34 bp):
CCAAAGCTTCAACACCAGATGTTACATGCCAAGG
Found at i:33223104 original size:68 final size:68
Alignment explanation
Indices: 33222995--33223128 Score: 205
Period size: 68 Copynumber: 2.0 Consensus size: 68
33222985 ATGTTACACA
* ** *
33222995 CCAAAACTTCAACAACAGATGTTACATGCCAAGGTCAAAGCTTCAGCACCAGATGTTACATGCCA
1 CCAAAACTTCAACAACAAATGTTACATGCCAAGACCAAAGCTTCAGCACCAGATGTTACACGCCA
33223060 AGG
66 AGG
* * *
33223063 CCAAAGCTTCAATATCAAATGTTACATGCCAAGACCAAAGCTTCAGCACCAGATGTTACACGCCA
1 CCAAAACTTCAACAACAAATGTTACATGCCAAGACCAAAGCTTCAGCACCAGATGTTACACGCCA
33223128 A
66 A
33223129 AGCTTCCTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (68 bp):
CCAAAACTTCAACAACAAATGTTACATGCCAAGACCAAAGCTTCAGCACCAGATGTTACACGCCA
AGG
Found at i:33224057 original size:31 final size:31
Alignment explanation
Indices: 33224022--33224084 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
33224012 GTCATATATA
33224022 TATGGTCGAATGAAACTATAGAAAAAATCTC
1 TATGGTCGAATGAAACTATAGAAAAAATCTC
33224053 TATGGTCGAATGAAACTATAGAAAAAATCTC
1 TATGGTCGAATGAAACTATAGAAAAAATCTC
33224084 T
1 T
33224085 CTTACTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (31 bp):
TATGGTCGAATGAAACTATAGAAAAAATCTC
Found at i:33232317 original size:35 final size:37
Alignment explanation
Indices: 33232266--33232345 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 37
33232256 CAGTGTCTTG
* *
33232266 GTAAAGGTTACACCTAA-TCT-TGCAAAAGGCATGTT
1 GTAAAGGTTACACCTAACTCTATGAAAAAGGCAAGTT
** *
33232301 GTAAAGGTTATGCCTAACTCTATTAAAAAGGCAAGTT
1 GTAAAGGTTACACCTAACTCTATGAAAAAGGCAAGTT
33232338 GATAAAGG
1 G-TAAAGG
33232346 ATTCAAACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 15 0.41
36 3 0.08
37 13 0.35
38 6 0.16
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (37 bp):
GTAAAGGTTACACCTAACTCTATGAAAAAGGCAAGTT
Found at i:33236183 original size:18 final size:18
Alignment explanation
Indices: 33236160--33236204 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
33236150 TTTAAGCTCT
33236160 TTTTTTAAAAAAAAATTA
1 TTTTTTAAAAAAAAATTA
*
33236178 TTTTTT-TAAAAAAATTA
1 TTTTTTAAAAAAAAATTA
*
33236195 CTTTTTAAAA
1 TTTTTTAAAA
33236205 GCTTTTCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTTTAAAAAAAAATTA
Found at i:33238712 original size:31 final size:32
Alignment explanation
Indices: 33238655--33238717 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
33238645 GGGCCTATGG
*
33238655 CACATGCATGCCTTGAGTTAATTGAGTTTCTA
1 CACATGCATGCCTCGAGTTAATTGAGTTTCTA
33238687 CACATGCATGCC-CGAGTTGAA-TGAGTTTCTA
1 CACATGCATGCCTCGAGTT-AATTGAGTTTCTA
33238718 AATATACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (32 bp):
CACATGCATGCCTCGAGTTAATTGAGTTTCTA
Found at i:33239222 original size:32 final size:32
Alignment explanation
Indices: 33239169--33239233 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
33239159 TGGGCCCGTG
*
33239169 ACACATGCATGCTCCAAGTTGATTGAGGTTCT
1 ACACATGCATGCTCCAAGTTGAATGAGGTTCT
* *
33239201 ACACATGCATGC-CCTAGGTTGAATGAGTTTCT
1 ACACATGCATGCTCC-AAGTTGAATGAGGTTCT
33239233 A
1 A
33239234 AATAGGGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (32 bp):
ACACATGCATGCTCCAAGTTGAATGAGGTTCT
Found at i:33241998 original size:18 final size:18
Alignment explanation
Indices: 33241977--33242013 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
33241967 AAACAAACAC
33241977 AAAAGAGAAGAGAAAAAGA
1 AAAAGA-AAGAGAAAAAGA
*
33241996 AAAAGAAAGAGAGAAAGA
1 AAAAGAAAGAGAAAAAGA
33242014 GGTGTGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (18 bp):
AAAAGAAAGAGAAAAAGA
Found at i:33242225 original size:52 final size:51
Alignment explanation
Indices: 33242123--33242226 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 51
33242113 AGGGGATCAT
* * * *
33242123 TAAAAATATATAATAAATAAAAATTTTCCAGAATTTTGGGGGGACCATTAA
1 TAAAAATATATAAGAAATAAAAATTTTCAAAAATTTTGGGGCGACCATTAA
* * *
33242174 TAAAATATATATAAGAATTACATATTTTCAAAAATTTT-GGGCGACCAATTAA
1 TAAAA-ATATATAAGAAATAAAAATTTTCAAAAATTTTGGGGCGACC-ATTAA
33242226 T
1 T
33242227 GGCTTACCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 12 0.27
52 32 0.73
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.34
Consensus pattern (51 bp):
TAAAAATATATAAGAAATAAAAATTTTCAAAAATTTTGGGGCGACCATTAA
Found at i:33242764 original size:32 final size:32
Alignment explanation
Indices: 33242723--33242787 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
33242713 TGGAGTCATA
* *
33242723 ACACATGCATGCCCCAAGTTGATTGAGTTTCT
1 ACACATGCATGCCCCAAGTTAAATGAGTTTCT
**
33242755 ACACATGCATGCCCCCGGTTAAATGAGTTTCT
1 ACACATGCATGCCCCAAGTTAAATGAGTTTCT
33242787 A
1 A
33242788 AATATACCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (32 bp):
ACACATGCATGCCCCAAGTTAAATGAGTTTCT
Found at i:33267916 original size:14 final size:15
Alignment explanation
Indices: 33267848--33267916 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 15
33267838 TTTGATGACT
*
33267848 ATTAATATTTAACTA
1 ATTAATATTTAAATA
*
33267863 A-AAATA-TT-AATA
1 ATTAATATTTAAATA
*
33267875 ACTAA-ATTTACAATA
1 ATTAATATTTA-AATA
*
33267890 ATTAAT-TTAAAAT-
1 ATTAATATTTAAATA
33267903 ATTAATATTTAAAT
1 ATTAATATTTAAAT
33267917 TATACAACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
12 5 0.12
13 12 0.29
14 13 0.31
15 12 0.29
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTAATATTTAAATA
Found at i:33268136 original size:74 final size:73
Alignment explanation
Indices: 33268000--33268137 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 73
33267990 AATGGAATAA
* * * *
33268000 ATCTTACTAATGATTATAATAAAAAAAATTCAATGATCATCAATTGAAGAATACACATTTATAAT
1 ATCTTACTAATAATTAAAATAAAAAAAATTCAATAATCATCAATTGAAAAATACACATTTATAAT
33268065 AGGTTTAC
66 AGGTTTAC
* * * * *
33268073 ATCTTACTAATAATTAAAATAAAAAATATTTCAATAATTAT-TATTTAATAAATACATATTTATA
1 ATCTTACTAATAATTAAAATAAAAAA-AATTCAATAATCATCAATTGAA-AAATACACATTTATA
33268137 A
64 A
33268138 GTATAGGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
73 29 0.54
74 25 0.46
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (73 bp):
ATCTTACTAATAATTAAAATAAAAAAAATTCAATAATCATCAATTGAAAAATACACATTTATAAT
AGGTTTAC
Found at i:33270898 original size:21 final size:19
Alignment explanation
Indices: 33270851--33270901 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
33270841 TTCGAAACCT
33270851 ACTAAAAATATAATATATA
1 ACTAAAAATATAATATATA
* *
33270870 AATGAAAAATATACATTTCATA
1 ACT-AAAAATATA-ATAT-ATA
33270892 ACTAAAAATA
1 ACTAAAAATA
33270902 AATTTAGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 9 0.35
21 10 0.38
22 5 0.19
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (19 bp):
ACTAAAAATATAATATATA
Found at i:33289821 original size:22 final size:22
Alignment explanation
Indices: 33289796--33289841 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
33289786 TCCAAGTACA
*
33289796 ATAACTAACTTATATCACTATT
1 ATAACTAACTTACATCACTATT
33289818 ATAACTAACTTACATCACTATT
1 ATAACTAACTTACATCACTATT
33289840 AT
1 AT
33289842 GTATTCTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAACTAACTTACATCACTATT
Found at i:33300536 original size:31 final size:30
Alignment explanation
Indices: 33300501--33300569 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
33300491 TCAAAAAGAC
*
33300501 TTATTTAACTCAAAATAAAAATTATAAAAGT
1 TTATTTAACTCAAAATAAAAA-TATAAAAAT
* * *
33300532 TTATTTGATTTAAAATAAAAATATAAAAAT
1 TTATTTAACTCAAAATAAAAATATAAAAAT
33300562 TTATTTAA
1 TTATTTAA
33300570 ATTGTTTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
TTATTTAACTCAAAATAAAAATATAAAAAT
Found at i:33330727 original size:33 final size:33
Alignment explanation
Indices: 33330662--33330957 Score: 231
Period size: 33 Copynumber: 9.0 Consensus size: 33
33330652 GATACCGCTG
**** *
33330662 TAAGCAGGAC-AGTTAGTAGGGATGACAATCCTT
1 TAAGCAGGACAAG-TAGTAGGGATGATGCCCCTA
* * *
33330695 TAAGCAGGACAAGTAGTAGGGATGTTGCTCCTT
1 TAAGCAGGACAAGTAGTAGGGATGATGCCCCTA
* * *
33330728 TGAGCAGGACAAGTAGCAGGGATGATGCACCTA
1 TAAGCAGGACAAGTAGTAGGGATGATGCCCCTA
* * * **
33330761 TAAACACGCCAAGTCCTAGGGATGATGCCCCTA
1 TAAGCAGGACAAGTAGTAGGGATGATGCCCCTA
* * *
33330794 TAAGCACGCCAAGTCA-TAGGGATGATGCCCTTA
1 TAAGCAGGACAAGT-AGTAGGGATGATGCCCCTA
* *
33330827 TAAGCAGGCCAATTA-TCAGGGATGATGCCCCTA
1 TAAGCAGGACAAGTAGT-AGGGATGATGCCCCTA
* * *
33330860 TAAGCACGCCAACT-GTCAGGGATGATGCCCCTA
1 TAAGCAGGACAAGTAGT-AGGGATGATGCCCCTA
*** **
33330893 TAAGCAGTTTAAGTAACAGGGATGATGCCCCTA
1 TAAGCAGGACAAGTAGTAGGGATGATGCCCCTA
** * *
33330926 TAAGCAGGTTAAGTAGTGGGGAAGATGCCCCT
1 TAAGCAGGACAAGTAGTAGGGATGATGCCCCT
33330958 GTGAGTCGGC
Statistics
Matches: 221, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
32 2 0.01
33 217 0.98
34 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (33 bp):
TAAGCAGGACAAGTAGTAGGGATGATGCCCCTA
Found at i:33330833 original size:99 final size:98
Alignment explanation
Indices: 33330695--33330933 Score: 277
Period size: 99 Copynumber: 2.4 Consensus size: 98
33330685 GACAATCCTT
** * * *
33330695 TAAGCAGGACAAGTAGTAGGGATGTTGCTCCTT-TGAGCAGGACAAGTAGCAGGGATGATGCACC
1 TAAGCAGTCCAAGTAATAGGGATGATGC-CCTTATAAGCAGGACAAGTAGCAGGGATGATGCACC
33330759 TATAAACACGCCAA-GTCCTAGGGATGATGCCCCTA
65 TATAAACACGCCAACGT-C-AGGGATGATGCCCCTA
* * * * *
33330794 TAAGCACG-CCAAGTCATAGGGATGATGCCCTTATAAGCAGGCCAATTATCAGGGATGATGCCCC
1 TAAGCA-GTCCAAGTAATAGGGATGATGCCCTTATAAGCAGGACAAGTAGCAGGGATGATGCACC
*
33330858 TATAAGCACGCCAACTGTCAGGGATGATGCCCCTA
65 TATAAACACGCCAAC-GTCAGGGATGATGCCCCTA
** * *
33330893 TAAGCAGTTTAAGTAACAGGGATGATGCCCCTATAAGCAGG
1 TAAGCAGTCCAAGTAATAGGGATGATGCCCTTATAAGCAGG
33330934 TTAAGTAGTG
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
98 5 0.04
99 111 0.93
100 2 0.02
101 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (98 bp):
TAAGCAGTCCAAGTAATAGGGATGATGCCCTTATAAGCAGGACAAGTAGCAGGGATGATGCACCT
ATAAACACGCCAACGTCAGGGATGATGCCCCTA
Found at i:33330953 original size:66 final size:66
Alignment explanation
Indices: 33330695--33331016 Score: 249
Period size: 66 Copynumber: 4.9 Consensus size: 66
33330685 GACAATCCTT
* ** * * * * * * * *
33330695 TAAGCAGGACAAGTAGTAGGGATGTTGCTCCTTTGAGCAGGACAAGTAGCAGGGATGATGCACCT
1 TAAGCAGGCCAAGTAACAGGGATGATGCCCCTATAAGCACGCCAAGTAGTAGGGATGATGCCCCT
33330760 A
66 A
* * *
33330761 TAAACACGCCAAGT-CCTAGGGATGATGCCCCTATAAGCACGCCAAGTCA-TAGGGATGATGCCC
1 TAAGCAGGCCAAGTAAC-AGGGATGATGCCCCTATAAGCACGCCAAGT-AGTAGGGATGATGCCC
*
33330824 TTA
64 CTA
* * *
33330827 TAAGCAGGCCAATTATCAGGGATGATGCCCCTATAAGCACGCCAACT-GTCAGGGATGATGCCCC
1 TAAGCAGGCCAAGTAACAGGGATGATGCCCCTATAAGCACGCCAAGTAGT-AGGGATGATGCCCC
33330891 TA
65 TA
*** * ** * *
33330893 TAAGCAGTTTAAGTAACAGGGATGATGCCCCTATAAGCAGGTTAAGTAGTGGGGAAGATGCCCCT
1 TAAGCAGGCCAAGTAACAGGGATGATGCCCCTATAAGCACGCCAAGTAGTAGGGATGATGCCCCT
*
33330958 G
66 A
* * * * * * * *
33330959 TGAGTC-GGCCAACT-ACTGGAGAAGATTCCCCCATAAGCAGGCCAAGTAGTAAGGATGA
1 TAAG-CAGGCCAAGTAACAGG-GATGATGCCCCTATAAGCACGCCAAGTAGTAGGGATGA
33331017 AACTATGGCA
Statistics
Matches: 202, Mismatches: 46, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
65 5 0.02
66 192 0.95
67 5 0.02
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.20
Consensus pattern (66 bp):
TAAGCAGGCCAAGTAACAGGGATGATGCCCCTATAAGCACGCCAAGTAGTAGGGATGATGCCCCT
A
Found at i:33332661 original size:2 final size:2
Alignment explanation
Indices: 33332654--33332690 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
33332644 AAAATTCGTA
33332654 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33332691 CTTGTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33333757 original size:15 final size:15
Alignment explanation
Indices: 33333716--33333757 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
33333706 CGTTTGGTAT
33333716 ATTGTTAGGAATGTG
1 ATTGTTAGGAATGTG
*
33333731 ATTGCT-GAGAATGTG
1 ATTGTTAG-GAATGTG
33333746 ATTGTTAGGAAT
1 ATTGTTAGGAAT
33333758 ATAACTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTGTTAGGAATGTG
Found at i:33333992 original size:21 final size:22
Alignment explanation
Indices: 33333966--33334006 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
33333956 ATTTTAAGCA
*
33333966 ATTAAAATAATAA-ATAATAAC
1 ATTAAAAAAATAACATAATAAC
33333987 ATTAAAAAAATAACATAATA
1 ATTAAAAAAATAACATAATA
33334007 TTTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
ATTAAAAAAATAACATAATAAC
Found at i:33334172 original size:16 final size:20
Alignment explanation
Indices: 33334132--33334184 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
33334122 GATAGAAAAT
33334132 TCTATCGATAGATTATATTA
1 TCTATCGATAGATTATATTA
*
33334152 TCTATCGATAGATTATACTA
1 TCTATCGATAGATTATATTA
*
33334172 TTTATCGATAGAT
1 TCTATCGATAGAT
33334185 AAATAATAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
TCTATCGATAGATTATATTA
Found at i:33336199 original size:31 final size:31
Alignment explanation
Indices: 33336138--33336202 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
33336128 CACTGCACCT
* *
33336138 AAAAACTTAAAAGCAAAACTAAGAGGGAAAA
1 AAAAACTAAAAAGCAAAACCAAGAGGGAAAA
* *
33336169 AAAAACTCAAAAAGCAAACCCAAGA-TGAAAA
1 AAAAACT-AAAAAGCAAAACCAAGAGGGAAAA
33336200 AAA
1 AAA
33336203 GGCAATGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.66, C:0.14, G:0.12, T:0.08
Consensus pattern (31 bp):
AAAAACTAAAAAGCAAAACCAAGAGGGAAAA
Found at i:33336201 original size:32 final size:31
Alignment explanation
Indices: 33336138--33336202 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 31
33336128 CACTGCACCT
* * *
33336138 AAAAACTTAAAAGCAAAACTAAGAGGGAAAA
1 AAAAACTAAAAAGCAAAACCAAGAGGAAAAA
* *
33336169 AAAAACTCAAAAAGCAAACCCAAGATGAAAAA
1 AAAAACT-AAAAAGCAAAACCAAGAGGAAAAA
33336201 AA
1 AA
33336203 GGCAATGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.66, C:0.14, G:0.12, T:0.08
Consensus pattern (31 bp):
AAAAACTAAAAAGCAAAACCAAGAGGAAAAA
Found at i:33336434 original size:14 final size:15
Alignment explanation
Indices: 33336404--33336434 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33336394 TTGATGACTA
33336404 AAAACCAAAATAAAG
1 AAAACCAAAATAAAG
33336419 AAAACCAAAA-AAAG
1 AAAACCAAAATAAAG
33336433 AA
1 AA
33336435 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.77, C:0.13, G:0.06, T:0.03
Consensus pattern (15 bp):
AAAACCAAAATAAAG
Found at i:33346606 original size:2 final size:2
Alignment explanation
Indices: 33346599--33346670 Score: 117
Period size: 2 Copynumber: 36.0 Consensus size: 2
33346589 GGATTGGTCA
*
33346599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
33346641 AT CT AN 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
33346671 TATCATTTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:33348255 original size:8 final size:8
Alignment explanation
Indices: 33348239--33348287 Score: 64
Period size: 8 Copynumber: 6.1 Consensus size: 8
33348229 TTTGATTAAA
33348239 TATTATTT
1 TATTATTT
*
33348247 TATTTTTT
1 TATTATTT
33348255 TATTATTT
1 TATTATTT
33348263 TATTATTT
1 TATTATTT
33348271 TAATTA-TT
1 T-ATTATTT
*
33348279 AATTATTT
1 TATTATTT
33348287 T
1 T
33348288 TCATATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATTATTT
Found at i:33348266 original size:24 final size:24
Alignment explanation
Indices: 33348222--33348287 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
33348212 TAGGATTCGA
**
33348222 TTATTTTTTTGATTA-AATATTATT
1 TTATTTTTTT-ATTATTTTATTATT
33348246 TTATTTTTTTATTATTTTATTATT
1 TTATTTTTTTATTATTTTATTATT
* * *
33348270 TTAATTATTAATTATTTT
1 TTATTTTTTTATTATTTT
33348288 TCATATTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 4 0.11
24 32 0.89
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTTTTTATTATTTTATTATT
Found at i:33367295 original size:2 final size:2
Alignment explanation
Indices: 33367290--33367316 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33367280 CACCCCCTAC
33367290 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 C
33367317 TTCTTTCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:33377796 original size:22 final size:23
Alignment explanation
Indices: 33377768--33377811 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
33377758 CTTTATTTTC
*
33377768 TTGTTC-TTTCAGTTATTTTTAT
1 TTGTTCTTTTAAGTTATTTTTAT
33377790 TTGTTCTTTTAAGTTATTTTTA
1 TTGTTCTTTTAAGTTATTTTTA
33377812 AAACAGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.16, C:0.07, G:0.09, T:0.68
Consensus pattern (23 bp):
TTGTTCTTTTAAGTTATTTTTAT
Found at i:33405238 original size:2 final size:2
Alignment explanation
Indices: 33405231--33405259 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33405221 TATCCACATT
33405231 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 T
33405260 TTNNNNNNNN
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33405304 original size:2 final size:2
Alignment explanation
Indices: 33405297--33405325 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33405287 ATATCCACAT
33405297 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 T
33405326 TTTGGAGAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33410367 original size:21 final size:21
Alignment explanation
Indices: 33410338--33410385 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
33410328 ATTTAACATA
33410338 AAATATTAAAAAAATAATATTT
1 AAAT-TTAAAAAAATAATATTT
* *
33410360 AAATTTAAAATATTAATATTT
1 AAATTTAAAAAAATAATATTT
33410381 AAATT
1 AAATT
33410386 ATACAACACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTAAAAAAATAATATTT
Found at i:33410595 original size:74 final size:74
Alignment explanation
Indices: 33410467--33410608 Score: 185
Period size: 74 Copynumber: 1.9 Consensus size: 74
33410457 ATAAATGGAA
* * * **
33410467 TAAATCTGACTAATAATTATAATAAAAAATATTTTAATGATCATCATTTGATGAATACACATTTA
1 TAAATCTGACAAATAATTATAATAAAAAATATTTTAATAATCATCAATCAATGAATACACATTTA
33410532 TAATAGGTT
66 TAATAGGTT
* * * * **
33410541 TAAATCTTACAAATAATTATAATAAAAATTATTTTAATAATTATTAATCAATGAATACTTATTTA
1 TAAATCTGACAAATAATTATAATAAAAAATATTTTAATAATCATCAATCAATGAATACACATTTA
33410606 TAA
66 TAA
33410609 GTATAGGTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (74 bp):
TAAATCTGACAAATAATTATAATAAAAAATATTTTAATAATCATCAATCAATGAATACACATTTA
TAATAGGTT
Found at i:33422030 original size:42 final size:42
Alignment explanation
Indices: 33421983--33422065 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
33421973 TCAGAGTTAG
*
33421983 AAACTGAACTGTTAATTCCACTAAATATTGCAATTCTTACTC
1 AAACTGAACTGTTAATTCCACTAAATATTGCAACTCTTACTC
*
33422025 AAACTGAACTGTTAATTCCAGTAAATATTGCAACTCTTACT
1 AAACTGAACTGTTAATTCCACTAAATATTGCAACTCTTACT
33422066 TGCTAATCCC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (42 bp):
AAACTGAACTGTTAATTCCACTAAATATTGCAACTCTTACTC
Found at i:33456977 original size:29 final size:29
Alignment explanation
Indices: 33456919--33457010 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
33456909 AAGCATTAAA
* * * *
33456919 GTGTAATAA-AATA-TTTTTGAATATGTC
1 GTGTAACAACAATATTTTTTCAACATGAC
33456946 GTGTAACAACAATATTTTTTCAACATGAC
1 GTGTAACAACAATATTTTTTCAACATGAC
*
33456975 GTGTAACAACAATATTTTTTTTAACATGAC
1 GTGTAACAACAATA-TTTTTTCAACATGAC
33457005 GTGTAA
1 GTGTAA
33457011 TAACTTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
27 8 0.14
28 4 0.07
29 25 0.44
30 20 0.35
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (29 bp):
GTGTAACAACAATATTTTTTCAACATGAC
Found at i:33457001 original size:30 final size:29
Alignment explanation
Indices: 33456919--33457095 Score: 124
Period size: 30 Copynumber: 6.3 Consensus size: 29
33456909 AAGCATTAAA
* * * *
33456919 GTGTAATAA-AATA-TTTTTGAATATGTC
1 GTGTAACAACAATATTTTTTTAACATGAC
*
33456946 GTGTAACAACAATATTTTTTCAACATGAC
1 GTGTAACAACAATATTTTTTTAACATGAC
33456975 GTGTAACAACAATATTTTTTTTAACATGAC
1 GTGTAACAACAATA-TTTTTTTAACATGAC
* *
33457005 GTGTAATAAC----TTTTTTTAACTATAAC
1 GTGTAACAACAATATTTTTTTAAC-ATGAC
* * *
33457031 --GT-ATAAC-ATGTTTTTAT-ACATGAC
1 GTGTAACAACAATATTTTTTTAACATGAC
* *
33457055 ATGTAACAATAATATTTTTTTTTAACATGAC
1 GTGTAACAACAATA--TTTTTTTAACATGAC
*
33457086 ATGTAACAAC
1 GTGTAACAAC
33457096 CTAATCATAA
Statistics
Matches: 122, Mismatches: 14, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
23 5 0.04
24 6 0.05
25 12 0.10
26 12 0.10
27 11 0.09
28 6 0.05
29 25 0.20
30 29 0.24
31 16 0.13
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (29 bp):
GTGTAACAACAATATTTTTTTAACATGAC
Found at i:33457012 original size:24 final size:23
Alignment explanation
Indices: 33456985--33457060 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
33456975 GTGTAACAAC
33456985 AATATTTTTTTTAACATGACGTGT
1 AATA-TTTTTTTAACATGACGTGT
* *
33457009 AATAACTTTTTTTAACTATAACGTAT
1 AAT-A-TTTTTTTAAC-ATGACGTGT
* * *
33457035 AACATGTTTTTATACATGACATGT
1 AATATTTTTTTA-ACATGACGTGT
33457059 AA
1 AA
33457061 CAATAATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
24 18 0.44
25 14 0.34
26 9 0.22
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.45
Consensus pattern (23 bp):
AATATTTTTTTAACATGACGTGT
Found at i:33457125 original size:80 final size:76
Alignment explanation
Indices: 33456949--33457126 Score: 169
Period size: 81 Copynumber: 2.2 Consensus size: 76
33456939 ATATGTCGTG
* * *
33456949 TAACAACAATATTTTTTCAACATGACGTGTAACAACAATATTTTTTTTAACATGACGTGTAATAA
1 TAACAAC-ATATTTTTT-AACATGACATGTAACAACAATATTTTTTTTAACATGACATGTAACAA
** **
33457014 CTTTTTTTAACTA
64 CTAATCATAACTA
* *
33457027 TAACGTATAACAT-GTTTTTATACATGACATGTAACAATAATATTTTTTTTTAACATGACATGTA
1 TAAC----AACATATTTTTTA-ACATGACATGTAACAACAATA-TTTTTTTTAACATGACATGTA
33457091 ACAACCTAATCATAACGTA
60 ACAA-CTAATCATAAC-TA
33457110 TAACAACAGTATTTTTT
1 TAACAACA-TATTTTTT
33457127 TTCAATATGA
Statistics
Matches: 80, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
78 4 0.05
79 5 0.06
80 25 0.31
81 30 0.38
82 10 0.12
83 6 0.08
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (76 bp):
TAACAACATATTTTTTAACATGACATGTAACAACAATATTTTTTTTAACATGACATGTAACAACT
AATCATAACTA
Found at i:33457246 original size:34 final size:34
Alignment explanation
Indices: 33457203--33457269 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
33457193 CTAACCATGG
* *
33457203 CTTGTCACATGTTTTTGTACATGGCGTGTAACAA
1 CTTGTCACATATTTTTGTACATGACGTGTAACAA
*
33457237 CTTGTCACATATTTTTGTACATGATGTGTAACA
1 CTTGTCACATATTTTTGTACATGACGTGTAACA
33457270 TGTTTTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.40
Consensus pattern (34 bp):
CTTGTCACATATTTTTGTACATGACGTGTAACAA
Found at i:33457270 original size:24 final size:24
Alignment explanation
Indices: 33457243--33457291 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
33457233 ACAACTTGTC
33457243 ACATATTTTTGTACATGATGTGTA
1 ACATATTTTTGTACATGATGTGTA
*
33457267 ACATGTTTTTGTACATGATGTGTA
1 ACATATTTTTGTACATGATGTGTA
33457291 A
1 A
33457292 TATCATAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (24 bp):
ACATATTTTTGTACATGATGTGTA
Found at i:33462419 original size:23 final size:23
Alignment explanation
Indices: 33462393--33462439 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
33462383 TTGGTGAGAT
33462393 GCCATGGAAGGAATCTGTGACAC
1 GCCATGGAAGGAATCTGTGACAC
** *
33462416 GCCATGGTGGGAATTTGTGACAC
1 GCCATGGAAGGAATCTGTGACAC
33462439 G
1 G
33462440 TCAGCGTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (23 bp):
GCCATGGAAGGAATCTGTGACAC
Found at i:33462465 original size:47 final size:47
Alignment explanation
Indices: 33462409--33462549 Score: 210
Period size: 47 Copynumber: 3.0 Consensus size: 47
33462399 GAAGGAATCT
*
33462409 GTGACACGCCATGGTGGGAATTTGTGACACGTCAGCGTTCAGAGTTG
1 GTGACACGCCATGGAGGGAATTTGTGACACGTCAGCGTTCAGAGTTG
* *
33462456 GTGAGACGCCATGGAGGGAATTTGTGACACGTCAGAGTTCAGAGTTG
1 GTGACACGCCATGGAGGGAATTTGTGACACGTCAGCGTTCAGAGTTG
* * * * *
33462503 GTGACACGACATGGAGAGAATCTGTGACACGTCAACGTTTAGAGTTG
1 GTGACACGCCATGGAGGGAATTTGTGACACGTCAGCGTTCAGAGTTG
33462550 CTGTCATTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (47 bp):
GTGACACGCCATGGAGGGAATTTGTGACACGTCAGCGTTCAGAGTTG
Found at i:33464069 original size:18 final size:17
Alignment explanation
Indices: 33464036--33464070 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33464026 ACTAGTTTGA
*
33464036 TGGTTTTTGGGGTTAAC
1 TGGTTTTTGGGATTAAC
33464053 TGGTTTTTGGTGATTAAC
1 TGGTTTTTGG-GATTAAC
33464071 GGGTCAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.06, G:0.31, T:0.49
Consensus pattern (17 bp):
TGGTTTTTGGGATTAAC
Found at i:33464167 original size:31 final size:31
Alignment explanation
Indices: 33464118--33464319 Score: 287
Period size: 31 Copynumber: 6.5 Consensus size: 31
33464108 GTCAGCGTTA
* *
33464118 GCGTGTGACAACATTTTACTTATTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
33464149 GCGTGTCAGAACAATTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
33464180 GCGTGTCACAACGTTTAACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
33464211 GCGTGTCAGAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
33464242 GCGTGTCACAACATTGTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
*
33464273 GCGTGTCACAACATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
33464304 GTGTGTCACAATATTT
1 GCGTGTCACAACATTT
33464320 ATTCCTTATT
Statistics
Matches: 154, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 154 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:33465401 original size:31 final size:31
Alignment explanation
Indices: 33465319--33465403 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
33465309 TTGCAAGAAG
* ** *
33465319 TCAGCGTGTCATGCCATAAGCCTGGATTAAG
1 TCAGCGTGTCATGCCATAAGTCTAAATTAAC
33465350 TCAGCGTGTCATGCCATAAGTCTAAATTAAC
1 TCAGCGTGTCATGCCATAAGTCTAAATTAAC
* *
33465381 TCAGCATGTCACGCCATAAGTCT
1 TCAGCGTGTCATGCCATAAGTCT
33465404 GCTTGCACTC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (31 bp):
TCAGCGTGTCATGCCATAAGTCTAAATTAAC
Found at i:33467371 original size:9 final size:9
Alignment explanation
Indices: 33467349--33467384 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
33467339 TGCCTCATCA
*
33467349 GTAGCCACT
1 GTAGTCACT
*
33467358 ATAGTCACT
1 GTAGTCACT
33467367 GTAGTCACT
1 GTAGTCACT
33467376 GTAGTCACT
1 GTAGTCACT
33467385 ATCCTAGGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (9 bp):
GTAGTCACT
Found at i:33468975 original size:31 final size:31
Alignment explanation
Indices: 33468929--33469232 Score: 405
Period size: 31 Copynumber: 9.8 Consensus size: 31
33468919 TTTGTCAGTC
* * *
33468929 ATGTTGTTACACGCCATGTATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
33468960 ATGTAGTAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
33468991 ATG-TGCTAATACGCCATGCAAATAACATAAA
1 ATGTTG-TAACACGCCATGCATATAACGTAAA
*
33469022 ATGTTATAACACGCCATGCATATAACGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * *
33469053 ATATGGTAACACGCCATGCATATAATGTAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* *
33469084 ATGTGGTAACACGCCATGCATATAACGAAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
* * * *
33469115 ATG-TGATAACACTCCATGCATAAAATGTTAA
1 ATGTTG-TAACACGCCATGCATATAACGTAAA
*
33469146 ATGTTGTAACACGCCATGCATATAACGTTAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
*
33469177 ATGTTGTAACACGCCATGCATATAACATAAA
1 ATGTTGTAACACGCCATGCATATAACGTAAA
33469208 ATGTTGTAACACGCCATGCATATAA
1 ATGTTGTAACACGCCATGCATATAA
33469233 TCAATGTCGT
Statistics
Matches: 239, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
30 2 0.01
31 234 0.98
32 3 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATAACGTAAA
Found at i:33470134 original size:29 final size:29
Alignment explanation
Indices: 33470092--33470152 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
33470082 ACGTTGAATT
*
33470092 TAACCAACAATTAACAGATTTATAATAGA
1 TAACCAACAATTAACAGATTCATAATAGA
* *
33470121 TAACCAACTATTAATAGATTCATAATAGA
1 TAACCAACAATTAACAGATTCATAATAGA
33470150 TAA
1 TAA
33470153 TAATTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.30
Consensus pattern (29 bp):
TAACCAACAATTAACAGATTCATAATAGA
Found at i:33473951 original size:16 final size:17
Alignment explanation
Indices: 33473930--33473961 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33473920 TGATCTTCAA
33473930 AATAATT-TTTTTATTT
1 AATAATTATTTTTATTT
33473946 AATAATTATTTTTATT
1 AATAATTATTTTTATT
33473962 CCTCAAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATAATTATTTTTATTT
Found at i:33476878 original size:18 final size:19
Alignment explanation
Indices: 33476829--33476878 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
33476819 CAAATTCATA
33476829 TAATT-AATTG-AATTAAT
1 TAATTAAATTGTAATTAAT
* *
33476846 TAATAAAATTATAATT-AT
1 TAATTAAATTGTAATTAAT
33476864 TAATTAAATTGTAAT
1 TAATTAAATTGTAAT
33476879 GTCTTTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
TAATTAAATTGTAATTAAT
Found at i:33477390 original size:15 final size:17
Alignment explanation
Indices: 33477362--33477396 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
33477352 TATTTTATAT
33477362 TAATATTATAAAAATTA
1 TAATATTATAAAAATTA
33477379 TAAT-TTAT-AAAATTA
1 TAATATTATAAAAATTA
33477394 TAA
1 TAA
33477397 AATTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATATTATAAAAATTA
Found at i:33477810 original size:133 final size:133
Alignment explanation
Indices: 33477641--33477973 Score: 411
Period size: 133 Copynumber: 2.5 Consensus size: 133
33477631 CCAAGACCCT
* * * *
33477641 AGTTGCTGGCCTACCA-AGCCACGTTCGACTCTTTCATCAATTCATCTTTCTTTTCTCCCCAGCC
1 AGTTGCTAGCCTACCACA-CCACGCTCGGCTCCTTCATCAATTCATCTTTCTTTTCTCCCCAGCC
* ** * *
33477705 GCTTAGCCACAGCCACGCCTTG-CTGGTTGCCTCGGTGTCGCCCCAAGCCCCACACCCTTGTTCT
65 ACCCAGCCACAGCCACGCCCTGTC-GGCTGCCTCGGTGTCGCCCCAAGCCCCACACCCTTGTTCT
33477769 TCCCC
129 TCCCC
* * * *
33477774 AGTTGCTAGCTTACCACACCACGCTCGGCTCCTTCATCAGTTCATCTTTCTTTTTTCCCCAGCTA
1 AGTTGCTAGCCTACCACACCACGCTCGGCTCCTTCATCAATTCATCTTTCTTTTCTCCCCAGCCA
* ** *
33477839 CCCAGCCACAGCCATGCCCTGTCGGCTGCCTCGGTGTCGCCCCAAGCCCCATGCCCTTGTTCTTT
66 CCCAGCCACAGCCACGCCCTGTCGGCTGCCTCGGTGTCGCCCCAAGCCCCACACCCTTGTTCTTC
*
33477904 CCT
131 CCC
* * * * *
33477907 AGTTGCCAGCCTACCACGCCACGCTCGGATCCTTCAT-AAGTTCATCTTTATTTTCTCCCCACCC
1 AGTTGCTAGCCTACCACACCACGCTCGGCTCCTTCATCAA-TTCATCTTTCTTTTCTCCCCAGCC
33477971 ACC
65 ACC
33477974 GTTATTAGCA
Statistics
Matches: 170, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
132 1 0.01
133 167 0.98
134 2 0.01
ACGTcount: A:0.15, C:0.41, G:0.16, T:0.29
Consensus pattern (133 bp):
AGTTGCTAGCCTACCACACCACGCTCGGCTCCTTCATCAATTCATCTTTCTTTTCTCCCCAGCCA
CCCAGCCACAGCCACGCCCTGTCGGCTGCCTCGGTGTCGCCCCAAGCCCCACACCCTTGTTCTTC
CCC
Found at i:33481473 original size:14 final size:14
Alignment explanation
Indices: 33481420--33481514 Score: 56
Period size: 14 Copynumber: 7.0 Consensus size: 14
33481410 TATGTGCTTG
33481420 GTTATTTAAGTTTA
1 GTTATTTAAGTTTA
33481434 TGTTATTT--GTTTA
1 -GTTATTTAAGTTTA
* * **
33481447 GATCTTTGTGTTTA
1 GTTATTTAAGTTTA
33481461 GTTATTTAAGTTTA
1 GTTATTTAAGTTTA
* *
33481475 TGTT-GTT-A-TTTG
1 -GTTATTTAAGTTTA
* * *
33481487 GATATTTATGTATA
1 GTTATTTAAGTTTA
33481501 GTTATTTAAGTTTA
1 GTTATTTAAGTTTA
33481515 TATTGTTGTA
Statistics
Matches: 58, Mismatches: 16, Indels: 13
0.67 0.18 0.15
Matches are distributed among these distances:
11 2 0.03
12 10 0.17
13 6 0.10
14 30 0.52
15 10 0.17
ACGTcount: A:0.23, C:0.01, G:0.17, T:0.59
Consensus pattern (14 bp):
GTTATTTAAGTTTA
Found at i:33481514 original size:40 final size:40
Alignment explanation
Indices: 33481356--33481558 Score: 223
Period size: 40 Copynumber: 5.0 Consensus size: 40
33481346 TGTTTAACTA
33481356 GTTGTTTGGATATTTAT-TTTAGTTATTTAAGTTTATGTT
1 GTTGTTTGGATATTTATGTTTAGTTATTTAAGTTTATGTT
* * *
33481395 GTTGTTGTTTGA-ATATATGTGCTTGGTTATTTAAGTTTATGTT
1 GTTG-T-TTGGATATTTATGT--TTAGTTATTTAAGTTTATGTT
* * * *
33481438 ATTTGTTTAGATCTTTGTGTTTAGTTATTTAAGTTTATGTT
1 -GTTGTTTGGATATTTATGTTTAGTTATTTAAGTTTATGTT
* * *
33481479 GTTATTTGGATATTTATGTATAGTTATTTAAGTTTATATT
1 GTTGTTTGGATATTTATGTTTAGTTATTTAAGTTTATGTT
* *
33481519 GTTGTATT-GATATTTGTTTTTAGTTATTTAAGTTTATGTT
1 GTTGT-TTGGATATTTATGTTTAGTTATTTAAGTTTATGTT
33481559 TAAGATCTTT
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.03
40 71 0.53
41 27 0.20
42 4 0.03
43 26 0.19
44 3 0.02
ACGTcount: A:0.21, C:0.01, G:0.18, T:0.60
Consensus pattern (40 bp):
GTTGTTTGGATATTTATGTTTAGTTATTTAAGTTTATGTT
Found at i:33495627 original size:3 final size:3
Alignment explanation
Indices: 33495580--33495608 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33495570 TTCACATACC
33495580 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33495609 ACCAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33505047 original size:17 final size:18
Alignment explanation
Indices: 33505013--33505047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33505003 TTGTTTTTTT
33505013 TAAATATTTTCAGAAAAA
1 TAAATATTTTCAGAAAAA
* *
33505031 TAAATTTTTTCTGAAAA
1 TAAATATTTTCAGAAAA
33505048 GCTTCAGAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
TAAATATTTTCAGAAAAA
Found at i:33507847 original size:35 final size:35
Alignment explanation
Indices: 33507796--33507868 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
33507786 TATTGTACAG
33507796 AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
1 AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
* *
33507831 AGAATAACTAGAACAAGTGAAGTGTTACTTCACGC
1 AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
33507866 AGA
1 AGA
33507869 GTAAGTGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (35 bp):
AGAACAACTAGAACAAGTGAAGTGCTACTTCACGC
Found at i:33507893 original size:26 final size:26
Alignment explanation
Indices: 33507845--33507894 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
33507835 TAACTAGAAC
** * *
33507845 AAGTGAAGTGTTACTTCACGCAGAGT
1 AAGTGAAGTACTACTTAAAGCAGAGT
33507871 AAGTGAAGTACTACTTAAAGCAGA
1 AAGTGAAGTACTACTTAAAGCAGA
33507895 ATAATTAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (26 bp):
AAGTGAAGTACTACTTAAAGCAGAGT
Found at i:33508177 original size:29 final size:29
Alignment explanation
Indices: 33508144--33508235 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
33508134 TCTTACCTTG
* *
33508144 TTCTCGTACACCTATTCAT-GTACAGTTTC
1 TTCTCGTACACCTATTC-TCGTACAGCTTA
* *
33508173 TTCTCTTATACCTATTCTCGTACAGCTTA
1 TTCTCGTACACCTATTCTCGTACAGCTTA
* ** * *
33508202 TTCTCTTGTACCTATTCTCGTATAGCTTT
1 TTCTCGTACACCTATTCTCGTACAGCTTA
33508231 TTCTC
1 TTCTC
33508236 TTGTACCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 1 0.02
29 54 0.98
ACGTcount: A:0.17, C:0.27, G:0.09, T:0.47
Consensus pattern (29 bp):
TTCTCGTACACCTATTCTCGTACAGCTTA
Found at i:33508219 original size:14 final size:14
Alignment explanation
Indices: 33508173--33508252 Score: 51
Period size: 14 Copynumber: 5.7 Consensus size: 14
33508163 GTACAGTTTC
*
33508173 TTCTCTTATACCTA
1 TTCTCTTGTACCTA
33508187 TTCTC--GTACAGCTTA
1 TTCTCTTGTAC--C-TA
33508202 TTCTCTTGTACCTA
1 TTCTCTTGTACCTA
* * * *
33508216 TTCTCGTATAGCTTT
1 TTCTCTTGTA-CCTA
33508231 TTCTCTTGTACCT-
1 TTCTCTTGTACCTA
33508244 TT-TCTTGTA
1 TTCTCTTGTA
33508253 TATCTCTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
12 10 0.19
13 2 0.04
14 18 0.35
15 18 0.35
17 4 0.08
ACGTcount: A:0.15, C:0.25, G:0.09, T:0.51
Consensus pattern (14 bp):
TTCTCTTGTACCTA
Found at i:33508236 original size:29 final size:29
Alignment explanation
Indices: 33508173--33508264 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
33508163 GTACAGTTTC
* * *
33508173 TTCTCTTATACCTATTCTCGTACAGCTTA
1 TTCTCTTGTACCTATTCTCGTATAGCTTT
33508202 TTCTCTTGTACCTATTCTCGTATAGCTTT
1 TTCTCTTGTACCTATTCTCGTATAGCTTT
* * *
33508231 TTCTCTTGTACCTTTTCTTGTATATCTCTT
1 TTCTCTTGTACCTATTCTCGTATAGCT-TT
33508261 TTCT
1 TTCT
33508265 ATTACCTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
29 50 0.89
30 6 0.11
ACGTcount: A:0.14, C:0.25, G:0.08, T:0.53
Consensus pattern (29 bp):
TTCTCTTGTACCTATTCTCGTATAGCTTT
Found at i:33509398 original size:102 final size:101
Alignment explanation
Indices: 33509137--33509425 Score: 328
Period size: 102 Copynumber: 2.8 Consensus size: 101
33509127 AACAAAAAAA
* *
33509137 TCATATTCAGCCGCTAGCTTTATCGTTTATATTTTGACTGTAATTG-TATTATACTATTGGTCGC
1 TCATATTCAGCCGCTAGCTTTATCGCTCATATTTTGACTGTAA-TGATATTATACTATTGGTCGC
** *
33509201 AAGCTTTATCACTCATTCTTTGACCATAGTTCATCAT
65 AAGCTTTATTGCTCATTCTTTGACCATAATTCATCAT
* * * * * * * *
33509238 TCTTACTTCAGCCACAAGCTTTACCGCTCATATTTTGGCTGCAATGATATTTTTCTATTGGTCGC
1 TCATA-TTCAGCCGCTAGCTTTATCGCTCATATTTTGACTGTAATGATATTATACTATTGGTCGC
* * *
33509303 AAGCTTTATTGCTTATTCTTTGACCATAATTGATTAT
65 AAGCTTTATTGCTCATTCTTTGACCATAATTCATCAT
* * * * * **
33509340 TCATATTTCAGTCGCTAGCTTTATCGCTCATAATTTGACTGTAATGATGTTATGCTATTGGCCTT
1 TCATA-TTCAGCCGCTAGCTTTATCGCTCATATTTTGACTGTAATGATATTATACTATTGGTCGC
33509405 AAGCTTTATTGCTCACTTCTT
65 AAGCTTTATTGCTCA-TTCTT
33509426 GGCCCTAGCT
Statistics
Matches: 153, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
101 6 0.04
102 142 0.93
103 5 0.03
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (101 bp):
TCATATTCAGCCGCTAGCTTTATCGCTCATATTTTGACTGTAATGATATTATACTATTGGTCGCA
AGCTTTATTGCTCATTCTTTGACCATAATTCATCAT
Found at i:33509536 original size:26 final size:27
Alignment explanation
Indices: 33509489--33509543 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
33509479 AAGGGTTGAA
33509489 TTAATCTCCTTCATATCAAGTT-AGAG
1 TTAATCTCCTTCATATCAAGTTGAGAG
* *
33509515 TTAATCTCCTTGATGT-AGAGTTGAGAG
1 TTAATCTCCTTCATATCA-AGTTGAGAG
33509542 TT
1 TT
33509544 CCCTTTTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 18 0.72
27 6 0.24
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
TTAATCTCCTTCATATCAAGTTGAGAG
Found at i:33512833 original size:3 final size:3
Alignment explanation
Indices: 33512815--33512868 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
33512805 TGTAACTTCA
* * *
33512815 AAT AAA AAT AAT -AT AAT AATT AAA AAT TAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT AAT
33512861 AAT AAT AA
1 AAT AAT AA
33512869 CTTGAGGCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33513909 original size:81 final size:80
Alignment explanation
Indices: 33513747--33513898 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 80
33513737 TTTTTTATGA
*
33513747 AAAAGATATTAAATATTATTACATAATCAATAAAATATTACAAAAAATATTGACATTAAAAAAAA
1 AAAAGATATGAAATATTATTACATAATCAATAAAATATTACAAAAAATATTGACATTAAAAAAAA
*
33513812 TGTAATCAAATATTAC
66 -GAAATCAAATATTAC
* * *
33513828 AAAAGATATGAAATATTATTATATAATCAATCAAATATTACAAAAGATATTGACATTACAAGAAA
1 AAAAGATATGAAATATTATTACATAATCAATAAAATATTACAAAAAATATTGACATTA-AA-AAA
33513893 AA-AAAT
64 AAGAAAT
33513899 TTGGTCTTAC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
81 57 0.89
82 2 0.03
83 5 0.08
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (80 bp):
AAAAGATATGAAATATTATTACATAATCAATAAAATATTACAAAAAATATTGACATTAAAAAAAA
GAAATCAAATATTAC
Found at i:33513941 original size:15 final size:15
Alignment explanation
Indices: 33513921--33513973 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
33513911 CTTACACAAG
33513921 GCATTACTATCTAAA
1 GCATTACTATCTAAA
** *
33513936 GCATTACTGGCTAAG
1 GCATTACTATCTAAA
**
33513951 GTGTTACTATCTAAA
1 GCATTACTATCTAAA
*
33513966 GCAGTACT
1 GCATTACT
33513974 GCCCAAGGCA
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (15 bp):
GCATTACTATCTAAA
Found at i:33513988 original size:30 final size:30
Alignment explanation
Indices: 33513917--33513988 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
33513907 ACACCTTACA
* *
33513917 CAAGGCATTACTATCTAAAGCATTACTGGC
1 CAAGGCATTACTATCTAAAGCAGTACTGCC
* **
33513947 TAAGGTGTTACTATCTAAAGCAGTACTGCC
1 CAAGGCATTACTATCTAAAGCAGTACTGCC
33513977 CAAGGCATTACT
1 CAAGGCATTACT
33513989 GCTCAAAGTG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (30 bp):
CAAGGCATTACTATCTAAAGCAGTACTGCC
Found at i:33514207 original size:35 final size:35
Alignment explanation
Indices: 33514163--33514235 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
33514153 TATTGTACAG
*
33514163 AGAACAACTAGAACAAGTGAAGTGCTACTTCACAC
1 AGAACAACTAGAACAAGTAAAGTGCTACTTCACAC
* *
33514198 AGAATAACTAGAACAAGTAAAGTGCTACTTCACGC
1 AGAACAACTAGAACAAGTAAAGTGCTACTTCACAC
33514233 AGA
1 AGA
33514236 GTAAGTGAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (35 bp):
AGAACAACTAGAACAAGTAAAGTGCTACTTCACAC
Found at i:33514552 original size:29 final size:28
Alignment explanation
Indices: 33514520--33514586 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
33514510 GTTCTCGTAC
*
33514520 ACCTATTCATGTACAGCTTCTTCTCTTGT
1 ACCTATTC-TGTACAACTTCTTCTCTTGT
* *
33514549 ACCTATTCTCGTATAACTTCTTTTCTTGT
1 ACCTATTCT-GTACAACTTCTTCTCTTGT
*
33514578 ACCTTTTCT
1 ACCTATTCT
33514587 TGTATATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 1 0.03
29 32 0.97
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.49
Consensus pattern (28 bp):
ACCTATTCTGTACAACTTCTTCTCTTGT
Found at i:33514591 original size:29 final size:29
Alignment explanation
Indices: 33514536--33514617 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
33514526 TCATGTACAG
* * *
33514536 CTTCTTCTCTTGTACCTATTCTCGTATAA
1 CTTCTTTTCTTGTACCTTTTCTTGTATAA
*
33514565 CTTCTTTTCTTGTACCTTTTCTTGTATAT
1 CTTCTTTTCTTGTACCTTTTCTTGTATAA
*
33514594 C-TATTTTCTAT-TACCTTTTACTTG
1 CTTCTTTTCT-TGTACCTTTT-CTTG
33514618 AGAATAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 15 0.33
29 31 0.67
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (29 bp):
CTTCTTTTCTTGTACCTTTTCTTGTATAA
Found at i:33516630 original size:16 final size:16
Alignment explanation
Indices: 33516611--33516644 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33516601 ATTTGTCTGT
*
33516611 ACATGGTGAGTAGTAA
1 ACATGGTGAGTAGCAA
*
33516627 ACATGGTGTGTAGCAA
1 ACATGGTGAGTAGCAA
33516643 AC
1 AC
33516645 TATTTTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (16 bp):
ACATGGTGAGTAGCAA
Found at i:33516664 original size:27 final size:27
Alignment explanation
Indices: 33516626--33516692 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
33516616 GTGAGTAGTA
*
33516626 AACATGGTGTGTAGCAAACTATTTTTG
1 AACATGGCGTGTAGCAAACTATTTTTG
*
33516653 AACGTGGCGTGTAGCAAACTATTTTTG
1 AACATGGCGTGTAGCAAACTATTTTTG
*
33516680 AACATGGCATGTA
1 AACATGGCGTGTA
33516693 CCAACTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (27 bp):
AACATGGCGTGTAGCAAACTATTTTTG
Found at i:33519985 original size:203 final size:203
Alignment explanation
Indices: 33519610--33520002 Score: 536
Period size: 203 Copynumber: 1.9 Consensus size: 203
33519600 GTTGCTACAC
* *
33519610 GCCATGCCTAGCAAGTTAAATGTTGTTACATGTTATGCATAAATATGAAGCTACACACCGTACCT
1 GCCATGCCTAGCAAGTTAAATGTTGTTACACGTTATGCATAAATATGAAGCTACACACCATACCT
* *
33519675 AATGACTAAATTACACACCATTCCTAAATATATTGGTAAATATGATGGCTCAATAGGGCAAGCCA
66 AATGACTAAATTACACACCATGCCTAAATATATTAGTAAATATGATGGCTCAATAGGGCAAGCCA
* * * ** * * * *
33519740 TGCCTAGTAGGCAATTGTTGCTACCCGTCATGCTTGTAAAATGTGTTGTTAAATGTAATTTATGT
131 GGCCTAGTAGGCAATTGTTGCTACACGCCACACCTATAAAATGTATTGTTAAATGCAATTTATGT
33519805 TGTTATAT
196 TGTTATAT
* * * *
33519813 GCCATTCCTGGCAAGTTAAATGTTGTTACACGTTATGCATAAATATGATGCTACACGCCATGA-C
1 GCCATGCCTAGCAAGTTAAATGTTGTTACACGTTATGCATAAATATGAAGCTACACACCAT-ACC
* * * * * *
33519877 TAATGACTAAATTACTCGCCATGCCTAAATATGTTAGTAAATGTGATGGCTCAATATGGCAAGCT
65 TAATGACTAAATTACACACCATGCCTAAATATATTAGTAAATATGATGGCTCAATAGGGCAAGCC
* * *
33519942 AGGCTTAGTAGGTAATTGTTGCTGCACGCCACACCTATAAAATGTATTGTTAAATGCAATT
130 AGGCCTAGTAGGCAATTGTTGCTACACGCCACACCTATAAAATGTATTGTTAAATGCAATT
33520003 ACTATGCATC
Statistics
Matches: 163, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
203 162 0.99
204 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (203 bp):
GCCATGCCTAGCAAGTTAAATGTTGTTACACGTTATGCATAAATATGAAGCTACACACCATACCT
AATGACTAAATTACACACCATGCCTAAATATATTAGTAAATATGATGGCTCAATAGGGCAAGCCA
GGCCTAGTAGGCAATTGTTGCTACACGCCACACCTATAAAATGTATTGTTAAATGCAATTTATGT
TGTTATAT
Found at i:33531504 original size:21 final size:20
Alignment explanation
Indices: 33531480--33531523 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
33531470 TTAATTTAAG
33531480 TTATTTTAG-TGTAATTTTACT
1 TTATTTT-GCTGTAA-TTTACT
*
33531501 TTATTTTGCTTTAATTTACT
1 TTATTTTGCTGTAATTTACT
33531521 TTA
1 TTA
33531524 AAAAGAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (20 bp):
TTATTTTGCTGTAATTTACT
Found at i:33534837 original size:30 final size:30
Alignment explanation
Indices: 33534803--33534868 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
33534793 ACGCCATACT
* *
33534803 TAAAAATAATTGGTTACTACACACCAACCA
1 TAAAAATAATTAGTTACAACACACCAACCA
* * * *
33534833 TAAAAATTATTAGTTACAACACGCCAAGCT
1 TAAAAATAATTAGTTACAACACACCAACCA
33534863 TAAAAA
1 TAAAAA
33534869 CACTTAATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (30 bp):
TAAAAATAATTAGTTACAACACACCAACCA
Found at i:33534837 original size:60 final size:60
Alignment explanation
Indices: 33534771--33534907 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 60
33534761 ACACGCGATG
** * * **
33534771 CCTAAAAATCATTGGTTATTATACGCCATA-CTTAAAAATAATTGGTTACTACACACCA-A
1 CCTAAAAATCATTGGTTACAACACGCCA-AGCTTAAAAACAATTAATTACTACACACCATA
* * * **
33534830 CCATAAAAATTATTAGTTACAACACGCCAAGCTTAAAAACACTTAATTGTTACACACCATA
1 CC-TAAAAATCATTGGTTACAACACGCCAAGCTTAAAAACAATTAATTACTACACACCATA
33534891 CCTAAAAATCATTGGTT
1 CCTAAAAATCATTGGTT
33534908 GAGACACACC
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
59 3 0.05
60 56 0.90
61 3 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (60 bp):
CCTAAAAATCATTGGTTACAACACGCCAAGCTTAAAAACAATTAATTACTACACACCATA
Found at i:33534897 original size:30 final size:30
Alignment explanation
Indices: 33534863--33534941 Score: 88
Period size: 30 Copynumber: 2.6 Consensus size: 30
33534853 ACGCCAAGCT
33534863 TAAAAACACTTAATTGTTACACACCATACC
1 TAAAAACACTTAATTGTTACACACCATACC
** ** *
33534893 TAAAAATCA-TTGGTTGAGACACACCATGCC
1 TAAAAA-CACTTAATTGTTACACACCATACC
*
33534923 TAAAAGCACTTAATTGTTA
1 TAAAAACACTTAATTGTTA
33534942 AATGCCATGC
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
29 2 0.05
30 33 0.89
31 2 0.05
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (30 bp):
TAAAAACACTTAATTGTTACACACCATACC
Found at i:33534927 original size:60 final size:60
Alignment explanation
Indices: 33534820--33534941 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
33534810 AATTGGTTAC
* * *
33534820 TACACACCAACCATAAAAATTATTAGTTACAACACGCCAAGCTTAAAAACACTTAATTGT
1 TACACACCAACCATAAAAATCATTAGTTACAACACACCAAGCCTAAAAACACTTAATTGT
* * * *
33534880 TACACACCATACC-TAAAAATCATTGGTTGA-GACACACCATGCCTAAAAGCACTTAATTGT
1 TACACACCA-ACCATAAAAATCATTAGTT-ACAACACACCAAGCCTAAAAACACTTAATTGT
33534940 TA
1 TA
33534942 AATGCCATGC
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 49 0.92
61 4 0.08
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (60 bp):
TACACACCAACCATAAAAATCATTAGTTACAACACACCAAGCCTAAAAACACTTAATTGT
Found at i:33538617 original size:30 final size:28
Alignment explanation
Indices: 33538545--33538622 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 28
33538535 CAACCCATTT
*
33538545 TTTAATTTATAAATT-AAATCATTTTTA
1 TTTAATTTATAAATTAAAATTATTTTTA
33538572 --TAATTT-TATAA-TAAAATTATTTTATGA
1 TTTAATTTATA-AATTAAAATTATTTT-T-A
*
33538599 TTTAATTTATAAATTAAAACTATT
1 TTTAATTTATAAATTAAAATTATT
33538623 AATTTGATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
24 3 0.07
25 17 0.41
26 1 0.02
27 1 0.02
29 8 0.20
30 11 0.27
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.53
Consensus pattern (28 bp):
TTTAATTTATAAATTAAAATTATTTTTA
Found at i:33538708 original size:22 final size:23
Alignment explanation
Indices: 33538680--33538747 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 23
33538670 ATATTATTGG
*
33538680 TAATTAAATTATTAATTTTATA-
1 TAATTAAATTATTAATTTTAAAT
*
33538702 TAATTAAATATATAAAATTATTAAAT
1 TAATTAAAT-TAT-TAATT-TTAAAT
*
33538728 TAATTAAAATTATTTATTTT
1 TAATT-AAATTATTAATTTT
33538748 TTTGGCCCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 9 0.24
23 3 0.08
24 6 0.16
25 7 0.19
26 8 0.22
27 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTAAATTATTAATTTTAAAT
Found at i:33538727 original size:8 final size:8
Alignment explanation
Indices: 33538682--33538741 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
33538672 ATTATTGGTA
33538682 ATTAAATT
1 ATTAAATT
33538690 ATT-AATT
1 ATTAAATT
* *
33538697 -TTATATA
1 ATTAAATT
33538704 ATTAAATAT
1 ATTAAAT-T
*
33538713 ATAAAATT
1 ATTAAATT
33538721 ATTAAATT
1 ATTAAATT
33538729 AATTAAAATT
1 -ATT-AAATT
33538739 ATT
1 ATT
33538742 TATTTTTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
6 2 0.05
7 6 0.15
8 16 0.39
9 12 0.29
10 5 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTAAATT
Found at i:33540189 original size:27 final size:27
Alignment explanation
Indices: 33540080--33540257 Score: 103
Period size: 27 Copynumber: 6.6 Consensus size: 27
33540070 TGTTGTATAA
* * *
33540080 TAACAACATTTTTTTCAACATCGAGTC
1 TAACAACATTTTTTTCAACATGGCGTG
* * *
33540107 TAACAACCTTTATTTT-AGCATGGTGTG
1 TAACAACATTT-TTTTCAACATGGCGTG
* * ** *
33540134 TGAA-AATATTTTTTTCAAAATTACATG
1 T-AACAACATTTTTTTCAACATGGCGTG
* *
33540161 TAGCAACATTTTTTTGAACATGGCGTG
1 TAACAACATTTTTTTCAACATGGCGTG
* *
33540188 TAACAACAATATTTTTTTAACATGACGTG
1 TAACAAC-AT-TTTTTTCAACATGGCGTG
* * * *
33540217 GAACAGC-TTCTTTTCACCATGGCGTG
1 TAACAACATTTTTTTCAACATGGCGTG
*
33540243 TAGCTAA-ATTTTTTT
1 TAAC-AACATTTTTTT
33540258 TTTAACATGG
Statistics
Matches: 110, Mismatches: 33, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
26 21 0.19
27 60 0.55
28 8 0.07
29 21 0.19
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (27 bp):
TAACAACATTTTTTTCAACATGGCGTG
Done.