Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 144 of 226
Found at i:45061177 original size:26 final size:26
Alignment explanation
Indices: 45061152--45061206 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
45061142 ATTATCAATA
45061152 ATAAATATT-TT-AATCATATTTAAAT
1 ATAAATATTATTAAAT-ATATTTAAAT
* *
45061177 ATAATTATTATTAAATATATTTTAAT
1 ATAAATATTATTAAATATATTTAAAT
45061203 -TAAA
1 ATAAA
45061207 ATATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 11 0.44
26 11 0.44
27 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAAATATTATTAAATATATTTAAAT
Found at i:45061213 original size:18 final size:17
Alignment explanation
Indices: 45061191--45061225 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45061181 TTATTATTAA
*
45061191 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45061209 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45061226 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45061283 original size:16 final size:16
Alignment explanation
Indices: 45061262--45061296 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45061252 TGGTAAATTA
45061262 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
*
45061278 TTAAATATTTTTATTG
1 TTAAATATTGTTATTG
45061294 TTA
1 TTA
45061297 TTTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (16 bp):
TTAAATATTGTTATTG
Found at i:45061283 original size:24 final size:24
Alignment explanation
Indices: 45061242--45061320 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
45061232 TAATGAGCAG
*
45061242 AAAT-TTGTT-TTGGTAAATTATT
1 AAATATTGTTATTGTTAAATTATT
45061264 AAATATTGTTATTGTTAAA-TATT
1 AAATATTGTTATTGTTAAATTATT
** *
45061287 -TTTATTGTTA-T-TTAATATATAAT
1 AAATATTGTTATTGTTAA-AT-TATT
45061310 AAATATTGTTA
1 AAATATTGTTA
45061321 ATAATTAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.09
21 2 0.04
22 12 0.27
23 12 0.27
24 15 0.33
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (24 bp):
AAATATTGTTATTGTTAAATTATT
Found at i:45061468 original size:16 final size:16
Alignment explanation
Indices: 45061431--45061472 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45061421 TTAATCATAT
*
45061431 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
45061447 TT-AAATATATTATAA
1 TTAAAATATATTATAA
45061462 TTAAAATATAT
1 TTAAAATATAT
45061473 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:45061479 original size:14 final size:15
Alignment explanation
Indices: 45061440--45061481 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45061430 TTTAAACATA
*
45061440 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45061455 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45061469 A-TATAATTTAATA
1 ATTATAATTAAATA
45061482 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45061563 original size:120 final size:121
Alignment explanation
Indices: 45061429--45061726 Score: 505
Period size: 120 Copynumber: 2.5 Consensus size: 121
45061419 ATTTAATCAT
*
45061429 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
45061494 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
45061551 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
45061614 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* * *
45061670 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
45061727 TAAAATAATT
Statistics
Matches: 169, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
119 7 0.04
120 157 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:45061599 original size:14 final size:15
Alignment explanation
Indices: 45061550--45061601 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45061540 GTAAAATATA
45061550 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
45061565 TATTAAATATATTAT
1 AATTAAATATATTAT
45061580 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
45061593 AATTTAATA
1 AATTAAATA
45061602 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:45061813 original size:24 final size:25
Alignment explanation
Indices: 45061767--45061814 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45061757 TATGAATTTG
45061767 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
45061793 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
45061815 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:45061818 original size:92 final size:92
Alignment explanation
Indices: 45061722--45061950 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
45061712 TGATTTAATA
* * *
45061722 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
45061784 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
45061814 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
** *
45061879 ATTAAATATAATTTAAT-GGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
45061904 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
45061951 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 26 0.22
92 81 0.69
93 9 0.08
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:45073465 original size:254 final size:253
Alignment explanation
Indices: 45073009--45073515 Score: 856
Period size: 254 Copynumber: 2.0 Consensus size: 253
45072999 TTTGATAAGT
*
45073009 GGTTCCAAGGCTTGATTTATGCTTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
1 GGTTCCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
*
45073074 AATTTGATCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAGC
66 AATTTGAGCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAGC
45073139 ATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTATT
131 ATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTATT
* * * *
45073204 TGGGCTTGGTGACCAGGCCA-AGTATGCTACATTTGGTGGTATCAGAGTCAGGTTCAATA
196 CGGGCTTGGCGACCAGGCCAGA-T-TGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
* *
45073263 GGTTTCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAGCTTGACTAAACATT
1 GGTTCCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
* * *
45073328 AATTTGAGCTTGCATGACTTAATATTCGTATGAATGTTATAGTAATAAAAGAAAATAAAAGAGGT
66 AATTTGAGCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAG-
*
45073393 C-TGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTATTAT
130 CATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTAT
*
45073457 TCGGGCTTGGCGACCGGGCCAGATTGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
195 TCGGGCTTGGCGACCAGGCCAGATTGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
45073516 ACTCTTGAAC
Statistics
Matches: 238, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
253 33 0.14
254 203 0.85
255 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (253 bp):
GGTTCCAAGGCTTGATTTATGCCTATTTTATGTTCATTTGTCATTTGACAACTTGACTAAACATT
AATTTGAGCTTGCATGACTTAATATTCGTATGAATGCTATAGTAATAAAAGAAAAGAAAAGAAGC
ATGTATACTAAATGTGACAATTGTGATGAAATCGATGTAAGACGGTGGTGTAGCGTCCTAGTATT
CGGGCTTGGCGACCAGGCCAGATTGCTACATTTGATAGTATCAGAGTCAGGTTCAATA
Found at i:45078442 original size:17 final size:17
Alignment explanation
Indices: 45078417--45078450 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
45078407 TTTAATATAC
*
45078417 AAAGATAACTGCTAACT
1 AAAGATAACAGCTAACT
*
45078434 AAAGTTAACAGCTAACT
1 AAAGATAACAGCTAACT
45078451 GCCTACCGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAGATAACAGCTAACT
Found at i:45085159 original size:3 final size:3
Alignment explanation
Indices: 45085151--45085189 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
45085141 GTTTAGATGG
45085151 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45085190 GTTAGAAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45087407 original size:27 final size:28
Alignment explanation
Indices: 45087369--45087421 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
45087359 AATTGTATCA
45087369 TTGTTATTTTGG-TTTGGTTTAATGTCT
1 TTGTTATTTTGGTTTTGGTTTAATGTCT
45087396 TTGTTATTTTGGTTTTGGTTTAATGT
1 TTGTTATTTTGGTTTTGGTTTAATGT
45087422 GTAAGAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.11, C:0.02, G:0.23, T:0.64
Consensus pattern (28 bp):
TTGTTATTTTGGTTTTGGTTTAATGTCT
Found at i:45091272 original size:9 final size:9
Alignment explanation
Indices: 45091258--45091303 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
45091248 TTGATTCAAA
45091258 TAACTCGAT
1 TAACTCGAT
*
45091267 TAACTCGAA
1 TAACTCGAT
45091276 TAACTCGAT
1 TAACTCGAT
*
45091285 TAACTCGAA
1 TAACTCGAT
45091294 TAACTCGAT
1 TAACTCGAT
45091303 T
1 T
45091304 CGTTTAACTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (9 bp):
TAACTCGAT
Found at i:45091316 original size:23 final size:18
Alignment explanation
Indices: 45091256--45091303 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
45091246 AGTTGATTCA
45091256 AATAACTCGATTAACTCG
1 AATAACTCGATTAACTCG
45091274 AATAACTCGATTAACTCG
1 AATAACTCGATTAACTCG
45091292 AATAACTCGATT
1 AATAACTCGATT
45091304 CGTTTAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (18 bp):
AATAACTCGATTAACTCG
Found at i:45092161 original size:35 final size:35
Alignment explanation
Indices: 45092115--45092186 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
45092105 ACTTACCAAA
45092115 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
1 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
45092150 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
1 TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
45092185 TT
1 TT
45092187 CCCCTTGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
TTAAGGGATGAAAGCTTAAAACTTTGAAACCCTAT
Found at i:45094209 original size:11 final size:11
Alignment explanation
Indices: 45094193--45094362 Score: 104
Period size: 11 Copynumber: 16.4 Consensus size: 11
45094183 ATTTTTTTAA
45094193 TTTTAAAATAT
1 TTTTAAAATAT
45094204 TTTTAAAATACTTTT
1 TTTTAAAATA----T
*
45094219 TTTTTAAAT-T
1 TTTTAAAATAT
*
45094229 TTTT--TA-AT
1 TTTTAAAATAT
45094237 T-TTAAAATAT
1 TTTTAAAATAT
45094247 TTTTAAAATAT
1 TTTTAAAATAT
45094258 TTTTAAAATAT
1 TTTTAAAATAT
45094269 TTTTAAAATACAT
1 TTTTAAAAT--AT
45094282 TTTT--AAT-T
1 TTTTAAAATAT
*
45094290 TTTT---TTA-
1 TTTTAAAATAT
45094297 TTTTAAAATAT
1 TTTTAAAATAT
45094308 TTTTAAAATATT
1 TTTTAAAATA-T
**
45094320 TTTTTTAAT-T
1 TTTTAAAATAT
*
45094330 TTTT---TTA-
1 TTTTAAAATAT
45094337 TTTTAAAATAT
1 TTTTAAAATAT
45094348 TTTTAAAATAT
1 TTTTAAAATAT
45094359 TTTT
1 TTTT
45094363 TTTAATTTTT
Statistics
Matches: 128, Mismatches: 9, Indels: 44
0.71 0.05 0.24
Matches are distributed among these distances:
7 12 0.09
8 8 0.06
9 1 0.01
10 17 0.13
11 67 0.52
12 8 0.06
13 6 0.05
15 9 0.07
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:45094301 original size:39 final size:40
Alignment explanation
Indices: 45094258--45094372 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
45094248 TTTAAAATAT
**
45094258 TTTTAAAATATTTTTAAAATA-CATTTTTAATTTTTTTTA
1 TTTTAAAATATTTTTAAAATATTTTTTTTAATTTTTTTTA
45094297 TTTTAAAATATTTTTAAAATATTTTTTTTAATTTTTTTTA
1 TTTTAAAATATTTTTAAAATATTTTTTTTAATTTTTTTTA
45094337 TTTTAAAATATTTTTAAAATATTTTTTTTAATTTTT
1 TTTTAAAATATTTTTAAAATATTTTTTTTAATTTTT
45094373 AAAATAAATT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 21 0.29
40 52 0.71
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (40 bp):
TTTTAAAATATTTTTAAAATATTTTTTTTAATTTTTTTTA
Found at i:45094301 original size:61 final size:63
Alignment explanation
Indices: 45094193--45094322 Score: 210
Period size: 61 Copynumber: 2.1 Consensus size: 63
45094183 ATTTTTTTAA
*
45094193 TTTTAAAATATTTTTAAAATACTTTTTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTAAAATATTTTTAAAATAC--TATTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAT
*
45094258 TTTTAAAATATTTTTAAAATAC-ATTTTT-AATTTTTTTTATTTTAAAATATTTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTATTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAT
45094319 TTTT
1 TTTT
45094323 TTTAATTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
61 36 0.57
62 5 0.08
65 22 0.35
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (63 bp):
TTTTAAAATATTTTTAAAATACTATTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAT
Found at i:45094823 original size:16 final size:16
Alignment explanation
Indices: 45094802--45094835 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45094792 CAAAATATAA
*
45094802 TTTCTTTCTAAAAGAT
1 TTTCTTTATAAAAGAT
45094818 TTTCTTTATAAAAGAT
1 TTTCTTTATAAAAGAT
45094834 TT
1 TT
45094836 AGTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTCTTTATAAAAGAT
Found at i:45099045 original size:91 final size:90
Alignment explanation
Indices: 45098907--45099149 Score: 255
Period size: 91 Copynumber: 2.7 Consensus size: 90
45098897 GTGTAAAATG
* * * * * * *
45098907 CCCTC-AATTTTTTTAAAATAAAGCTATTAAGTCC-CTGTTTTTATTTTGCATTCACTTGGATA-
1 CCCTCAAACTTTTTCAAAA-AAAGCAATTAAG-CCTCTGCTTCTATTTTGCACTCAATTGGATAC
*
45098969 TTTGAACTTTCAAAATGCATCAAAAAAA
64 TTAG-ACTTTCAAAATGCATCAAAAAAA
*
45098997 TCCTCAAACTTTTTCAAAAAACAGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACT
1 CCCTCAAACTTTTTCAAAAAA-AGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACT
* ***
45099062 TAGACTTTTAAAATGCATCAAAACGG
65 TAGACTTTCAAAATGCATCAAAAAAA
* * * *
45099088 CCCTCAAACTTTTTCAATAAAAGCAATTAAG-CTC--CTTTTTTTTTGCACTCAATTGGGTACTT
1 CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACTT
45099150 GAATTGCCCC
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
87 25 0.19
89 3 0.02
90 18 0.14
91 82 0.63
92 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (90 bp):
CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTGCTTCTATTTTGCACTCAATTGGATACTT
AGACTTTCAAAATGCATCAAAAAAA
Found at i:45099250 original size:19 final size:20
Alignment explanation
Indices: 45099225--45099271 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45099215 AAATGATAAA
45099225 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
45099245 -ATAAAAATTATTAAATTTT
1 AATAAAAATCAATAAAATTT
45099264 AATAAAAA
1 AATAAAAA
45099272 ATATAGAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:45099312 original size:11 final size:12
Alignment explanation
Indices: 45099278--45099327 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 12
45099268 AAAAATATAG
45099278 AAATTATTAAAA
1 AAATTATTAAAA
45099290 AAATTATT--AA
1 AAATTATTAAAA
45099300 AAATT-TTAAAA
1 AAATTATTAAAA
*
45099311 AAATT-GTAAAA
1 AAATTATTAAAA
45099322 AAATTA
1 AAATTA
45099328 AAATTGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 2 0.06
10 7 0.21
11 17 0.50
12 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
AAATTATTAAAA
Found at i:45099314 original size:21 final size:21
Alignment explanation
Indices: 45099238--45099315 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
45099228 AAAAATCAAT
*
45099238 AAAA-TTTATAAAAATTATT-
1 AAAATTTTAAAAAAATTATTA
*
45099257 -AAATTTTAATAAAAAATA-TA
1 AAAATTTTAA-AAAAATTATTA
*
45099277 GAAATTATTAAAAAAATTATTA
1 AAAATT-TTAAAAAAATTATTA
45099299 AAAATTTTAAAAAAATT
1 AAAATTTTAAAAAAATT
45099316 GTAAAAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.06
19 5 0.10
20 7 0.14
21 23 0.47
22 11 0.22
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
AAAATTTTAAAAAAATTATTA
Found at i:45099322 original size:21 final size:22
Alignment explanation
Indices: 45099257--45099330 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
45099247 AAAAATTATT
* *
45099257 AAATT-TTAATAAAAAATAT-AG
1 AAATTATTAA-AAAAATTATAAA
*
45099278 AAATTATTAAAAAAATTATTAA
1 AAATTATTAAAAAAATTATAAA
*
45099300 AAATT-TTAAAAAAATTGTAAA
1 AAATTATTAAAAAAATTATAAA
45099321 AAA--ATTAAAA
1 AAATTATTAAAA
45099331 TTGTAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 6 0.13
21 30 0.65
22 10 0.22
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (22 bp):
AAATTATTAAAAAAATTATAAA
Found at i:45099328 original size:41 final size:41
Alignment explanation
Indices: 45099238--45099330 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
45099228 AAAAATCAAT
* *
45099238 AAAATTTATAAAAATTATTAAATTTTAATAAAAAATATAGA
1 AAAAATTAAAAAAATTATTAAATTTTAATAAAAAATATAGA
** * *
45099279 AATTATTAAAAAAATTATTAAAAATTTTAA-AAAAATTGTA-A
1 AAAAATTAAAAAAATTATT--AAATTTTAATAAAAAATATAGA
45099320 AAAAATTAAAA
1 AAAAATTAAAA
45099331 TTGTAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 25 0.60
42 8 0.19
43 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (41 bp):
AAAAATTAAAAAAATTATTAAATTTTAATAAAAAATATAGA
Found at i:45099332 original size:17 final size:17
Alignment explanation
Indices: 45099310--45099344 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45099300 AAATTTTAAA
45099310 AAAATTGTAAAAAAATT
1 AAAATTGTAAAAAAATT
45099327 AAAATTGTAAAAAAATT
1 AAAATTGTAAAAAAATT
45099344 A
1 A
45099345 TAAAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AAAATTGTAAAAAAATT
Found at i:45099341 original size:11 final size:11
Alignment explanation
Indices: 45099278--45099448 Score: 60
Period size: 11 Copynumber: 17.1 Consensus size: 11
45099268 AAAAATATAG
45099278 AAATTATTAAAA
1 AAATTA-TAAAA
*
45099290 AAATTAT-TAA
1 AAATTATAAAA
*
45099300 AAATTTTAAAA
1 AAATTATAAAA
*
45099311 AAATTGTAAAA
1 AAATTATAAAA
45099322 AAA-T-T---A
1 AAATTATAAAA
*
45099328 AAATTGTAAAA
1 AAATTATAAAA
45099339 AAATTAT-AAA
1 AAATTATAAAA
* *
45099349 ACA-TAT--AG
1 AAATTATAAAA
45099357 AAA-TATAAAA
1 AAATTATAAAA
45099367 GAAATTAT---A
1 -AAATTATAAAA
* *
45099376 AAATT-T-TAT
1 AAATTATAAAA
* *
45099385 AAAGTAGTAAGA
1 AAATTA-TAAAA
45099397 AAATTATAAAA
1 AAATTATAAAA
*
45099408 AAA-TATAAAG
1 AAATTATAAAA
45099418 AAA-TAT---A
1 AAATTATAAAA
45099425 AAATTCATAAAA
1 AAATT-ATAAAA
45099437 AAATTATAAAA
1 AAATTATAAAA
45099448 A
1 A
45099449 TTATTATACT
Statistics
Matches: 121, Mismatches: 18, Indels: 41
0.67 0.10 0.23
Matches are distributed among these distances:
6 4 0.03
7 5 0.04
8 13 0.11
9 11 0.09
10 27 0.22
11 41 0.34
12 20 0.17
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (11 bp):
AAATTATAAAA
Found at i:45099349 original size:9 final size:9
Alignment explanation
Indices: 45099226--45099452 Score: 66
Period size: 9 Copynumber: 23.2 Consensus size: 9
45099216 AATGATAAAA
*
45099226 ATAAAAATCA
1 ATAAAAAT-T
*
45099236 ATAAAATTT
1 ATAAAAATT
45099245 ATAAAAATT
1 ATAAAAATT
**
45099254 ATTAAATTTT
1 A-TAAAAATT
*
45099264 AATAAAAAAT
1 -ATAAAAATT
45099274 ATAGAAATTATT
1 ATA-AAA--ATT
*
45099286 AAAAAAATT
1 ATAAAAATT
45099295 ATTAAAAATTTT
1 A-TAAAAA--TT
*
45099307 AAAAAAATT
1 ATAAAAATT
* *
45099316 GTAAAAA-A
1 ATAAAAATT
*
45099324 ATTAAAATTGT
1 A-TAAAAAT-T
*
45099335 AAAAAAATT
1 ATAAAAATT
45099344 ATAAAACA-T
1 ATAAAA-ATT
*
45099353 ATAGAAATAT
1 ATAAAAAT-T
*
45099363 AAAAGAAATT
1 ATAA-AAATT
45099373 AT-AAAATT
1 ATAAAAATT
* * *
45099381 TTATAAAGT
1 ATAAAAATT
45099390 AGTAAGAAAATT
1 A-T-A-AAAATT
*
45099402 ATAAAAAAAT
1 AT-AAAAATT
*
45099412 ATAAAGAAAT
1 ATAAA-AATT
45099422 AT-AAAATT
1 ATAAAAATT
45099430 CATAAAAAAATT
1 -AT--AAAAATT
45099442 ATAAAAATT
1 ATAAAAATT
45099451 AT
1 AT
45099453 TATACTAAAA
Statistics
Matches: 160, Mismatches: 33, Indels: 49
0.66 0.14 0.20
Matches are distributed among these distances:
8 10 0.06
9 61 0.38
10 51 0.32
11 20 0.12
12 18 0.11
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:45099349 original size:10 final size:10
Alignment explanation
Indices: 45099238--45099452 Score: 71
Period size: 10 Copynumber: 21.8 Consensus size: 10
45099228 AAAAATCAAT
45099238 AAAATT-TATA
1 AAAATTATA-A
*
45099248 AAAATTATTA
1 AAAATTATAA
**
45099258 AATTTTAATAA
1 AAAATT-ATAA
45099269 AAAA-TAT-A
1 AAAATTATAA
*
45099277 GAAATTATTAAA
1 AAAATTA-T-AA
*
45099289 AAAATTATTA
1 AAAATTATAA
*
45099299 AAAATTTTAAA
1 AAAATTAT-AA
*
45099310 AAAATTGTAA
1 AAAATTATAA
*
45099320 AAAA--AT-T
1 AAAATTATAA
*
45099327 AAAATTGTAAA
1 AAAATTAT-AA
45099338 AAAATTATAA
1 AAAATTATAA
*
45099348 AACA-TAT-A
1 AAAATTATAA
*
45099356 GAAA-TATAAA
1 AAAATTAT-AA
45099366 AGAAATTATAA
1 A-AAATTATAA
**
45099377 AATTTTATAA
1 AAAATTATAA
** * *
45099387 AGTAGTA-AG
1 AAAATTATAA
45099396 AAAATTATAA
1 AAAATTATAA
*
45099406 AAAAATATAA
1 AAAATTATAA
45099416 AGAAA-TAT--
1 A-AAATTATAA
45099424 AAAATTCATAAA
1 AAAATT-AT-AA
45099436 AAAATTAT-A
1 AAAATTATAA
45099445 AAAATTAT
1 AAAATTAT
45099453 TATACTAAAA
Statistics
Matches: 151, Mismatches: 32, Indels: 45
0.66 0.14 0.20
Matches are distributed among these distances:
7 7 0.05
8 13 0.09
9 24 0.16
10 58 0.38
11 33 0.22
12 16 0.11
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:45099414 original size:29 final size:29
Alignment explanation
Indices: 45099278--45099447 Score: 116
Period size: 29 Copynumber: 5.7 Consensus size: 29
45099268 AAAAATATAG
**
45099278 AAATTATTAAAAAAATTATTAAAAATTTTAAAA
1 AAATTA-TAAAAAAA-TA-T-AAAATAGTAAAA
* *
45099311 AAATTGTAAAAAAAT-TAAAATTGTAAAA
1 AAATTATAAAAAAATATAAAATAGTAAAA
*
45099339 AAATTAT-AAAACATATAGAAATA-TAAAA
1 AAATTATAAAAAAATATA-AAATAGTAAAA
*** * *
45099367 GAAATTATAAAATTTTATAAAGTAGTAAGA
1 -AAATTATAAAAAAATATAAAATAGTAAAA
* *
45099397 AAATTATAAAAAAATATAAAGA-AAT-ATA
1 AAATTATAAAAAAATATAAA-ATAGTAAAA
45099425 AAATTCATAAAAAAATTATAAAA
1 AAATT-ATAAAAAAA-TATAAAA
45099448 ATTATTATAC
Statistics
Matches: 113, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
27 6 0.05
28 31 0.27
29 45 0.40
30 17 0.15
31 1 0.01
32 8 0.07
33 5 0.04
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (29 bp):
AAATTATAAAAAAATATAAAATAGTAAAA
Found at i:45099695 original size:9 final size:9
Alignment explanation
Indices: 45099647--45099724 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
45099637 TATAAATATT
*
45099647 TTTTTCTAA
1 TTTTTATAA
*
45099656 TTTTTTTATA
1 TTTTTATA-A
45099666 TTTTTATTAA
1 TTTTTA-TAA
** *
45099676 AATTTAAAA
1 TTTTTATAA
45099685 TTTTTATAA
1 TTTTTATAA
45099694 TTTTTATAAA
1 TTTTTAT-AA
*
45099704 TTTTTGT--
1 TTTTTATAA
45099711 TTTTTATAA
1 TTTTTATAA
45099720 TTTTT
1 TTTTT
45099725 TTGCCACATG
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
7 6 0.11
9 27 0.50
10 19 0.35
11 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45099949 original size:92 final size:90
Alignment explanation
Indices: 45099846--45100098 Score: 270
Period size: 90 Copynumber: 2.8 Consensus size: 90
45099836 TGTATTTGAC
45099846 AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAATTTGGGGACTTAATTGCTTTTTTTGAAAAAGT
1 AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAA--TGGGG-CTTAATTGCTTTTTTTGAAAAAGT
*
45099911 TTGAGGACCTTTTAT-ATATATTTTAAA
63 TTGAGGACCTTTTATGATACATTTTAAA
* * * * **
45099938 AGTTCAAGTACCCAATTGAGTTCAAAATAAAAACA-GAGGTTTAATTGCTTTTTTTTTAAAAGTT
1 AGTTCAAGTACCCAACTGAGTGCAAAA-AAAAA-ATGGGGCTTAATTGCTTTTTTTGAAAAAGTT
* * *
45100002 TGAGGGCCTTTT-TGATGCATTTTGAA
64 TGAGGACCTTTTATGATACATTTTAAA
* * * *
45100028 AGTTCAAGTACCAAAGTGAGTG----AAAAAAATGGGGCTTAATTACTTTTTTTGAAAAA-ATTG
1 AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAATGGGGCTTAATTGCTTTTTTTGAAAAAGTTTG
*
45100088 AGGACTTTTTA
66 AGGACCTTTTA
45100099 CACCCTTAAA
Statistics
Matches: 135, Mismatches: 21, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
84 12 0.09
85 26 0.19
86 1 0.01
89 1 0.01
90 61 0.45
91 3 0.02
92 25 0.19
93 5 0.04
94 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (90 bp):
AGTTCAAGTACCCAACTGAGTGCAAAAAAAAAATGGGGCTTAATTGCTTTTTTTGAAAAAGTTTG
AGGACCTTTTATGATACATTTTAAA
Found at i:45107620 original size:42 final size:42
Alignment explanation
Indices: 45107573--45107659 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
45107563 CATCATTTAA
45107573 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
1 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
45107615 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
1 TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
45107657 TTA
1 TTA
45107660 CATTCATGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (42 bp):
TTAGTTTGCAGGCAACTAACAGTTTACGTAACTTGTCCAATT
Found at i:45108243 original size:18 final size:18
Alignment explanation
Indices: 45108201--45108243 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45108191 CAGTTCTCAT
45108201 AAATAAGAAATACACATA
1 AAATAAGAAATACACATA
* * **
45108219 GACTAAGAAATTTACATA
1 AAATAAGAAATACACATA
45108237 AAATAAG
1 AAATAAG
45108244 GATTTCTCGT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATAAGAAATACACATA
Found at i:45108638 original size:183 final size:183
Alignment explanation
Indices: 45108319--45108684 Score: 662
Period size: 183 Copynumber: 2.0 Consensus size: 183
45108309 ATCATACTTA
45108319 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCACC
1 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCACC
* *
45108384 GCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGCTTTTG
66 GCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTTA
* *
45108449 ACTCAAAGAGCCCTACGCTATCTCTGATATAAGTGTATCATGAATGATAACAC
131 ACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATCATGAATGATAACAC
45108502 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCATC
1 TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCA-C
45108567 C-CCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTT
65 CGCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTT
* *
45108631 AACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATTATGAATGCTAACAC
130 AACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATCATGAATGATAACAC
45108685 CCTGTGCTGT
Statistics
Matches: 176, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 174 0.99
184 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (183 bp):
TATATTTCAAATAGAAATAAATTGGCATTTTTATGATTATGAAACATATAGGGGACTCTATCACC
GCCTATAAGTGGACTCAATCACCACATATTGGATAAACGGATCTCTTTGTAATGCATTGATTTTA
ACTCAAAGAGCCCTACGCTATCTCTAATATAAGTCTATCATGAATGATAACAC
Found at i:45109082 original size:23 final size:23
Alignment explanation
Indices: 45109012--45109083 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
45109002 CATAATCACA
* ** *
45109012 GTTCGTATATCAAATTAGTATAG
1 GTTCGCATATCACTTTAGCATAG
*
45109035 GCTCGCATATCACTTTAGCATAG
1 GTTCGCATATCACTTTAGCATAG
45109058 GTTCGCATATCACTTTAGCATAG
1 GTTCGCATATCACTTTAGCATAG
45109081 GTT
1 GTT
45109084 TGCCATACGT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (23 bp):
GTTCGCATATCACTTTAGCATAG
Found at i:45109147 original size:17 final size:17
Alignment explanation
Indices: 45109127--45109178 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
45109117 CAATCACACA
45109127 ACATAGATTCGCACATC
1 ACATAGATTCGCACATC
* * *
45109144 ACATATAGT--CACATA
1 ACATAGATTCGCACATC
*
45109159 ACATAGGTTCGCACATC
1 ACATAGATTCGCACATC
45109176 ACA
1 ACA
45109179 AGAAGTCACA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
15 11 0.42
17 15 0.58
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (17 bp):
ACATAGATTCGCACATC
Found at i:45109156 original size:32 final size:31
Alignment explanation
Indices: 45109120--45109217 Score: 124
Period size: 32 Copynumber: 3.1 Consensus size: 31
45109110 TCATACACAA
*
45109120 TCACACAACATAGATTCGCACATCACATATAG
1 TCACACAACATAGGTTCGCACATCACA-ATAG
* *
45109152 TCACATAACATAGGTTCGCACATCACAAGAAG
1 TCACACAACATAGGTTCGCACATCACAA-TAG
* *
45109184 TCACACAACATAGGTTCGTACATCATAAATAG
1 TCACACAACATAGGTTCGCACATCA-CAATAG
45109216 TC
1 TC
45109218 GCATAGCATA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.02
32 54 0.95
33 2 0.04
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (31 bp):
TCACACAACATAGGTTCGCACATCACAATAG
Found at i:45109301 original size:24 final size:24
Alignment explanation
Indices: 45109246--45109553 Score: 190
Period size: 24 Copynumber: 12.8 Consensus size: 24
45109236 GTATGTACCA
* * * *
45109246 GGTGATAAGGGCTCACATGTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
* **
45109270 AGTGATAGGGGTTCATAGGTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
* * ** *
45109294 AGTGATAGGGGTTTGTTGCTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
**
45109318 GGTGATAGGGGTTCGCACATGA-CT
1 GGTGATAGGGGTTCGCAGGT-ATCT
* **
45109342 GGTGATAAGGGTTCGCACATGA-CT
1 GGTGATAGGGGTTCGCAGGT-ATCT
* * * *
45109366 AGTGATAAGGGTTCACAGGTATTT
1 GGTGATAGGGGTTCGCAGGTATCT
**
45109390 GGTGATAGGGGTTCGCACCTAAT-T
1 GGTGATAGGGGTTCGCAGGT-ATCT
* *
45109414 GGTGATAGGGGTTCGCAAGTTTCT
1 GGTGATAGGGGTTCGCAGGTATCT
* * *
45109438 AGTGATAGGGGTTCGTAGGTTTCT
1 GGTGATAGGGGTTCGCAGGTATCT
* *
45109462 GGTGATAGGGGTTTGTAGGTATCT
1 GGTGATAGGGGTTCGCAGGTATCT
* * * * * *
45109486 GCTGATAAGTGTTCGTATGTATTT
1 GGTGATAGGGGTTCGCAGGTATCT
* * ** *
45109510 GGTGATAAGGGTTTGCACATGTCT
1 GGTGATAGGGGTTCGCAGGTATCT
*
45109534 GGTGATAGGGGTTCGTAGGT
1 GGTGATAGGGGTTCGCAGGT
45109554 TAATAAAACA
Statistics
Matches: 226, Mismatches: 54, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
23 2 0.01
24 221 0.98
25 3 0.01
ACGTcount: A:0.21, C:0.11, G:0.35, T:0.33
Consensus pattern (24 bp):
GGTGATAGGGGTTCGCAGGTATCT
Found at i:45109347 original size:72 final size:72
Alignment explanation
Indices: 45109271--45109474 Score: 223
Period size: 72 Copynumber: 2.8 Consensus size: 72
45109261 CATGTATCTA
* * * * *
45109271 GTGATAGGGGTTCATAGGTATCTAGTGATAGGGGTTTGTTGCTATCTGGTGATAGGGGTTCGCAC
1 GTGATAGGGGTTCACAAGTATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTTCGCAC
*
45109336 ATGACTG
66 ATAACTG
* * * ** *
45109343 GTGATAAGGGTTCGCACA-TGA-CTAGTGATAAGGGTTCACAGGTATTTGGTGATAGGGGTTCGC
1 GTGATAGGGGTTCACA-AGT-ATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTTCGC
* *
45109406 ACCTAATTG
64 ACATAACTG
* * *
45109415 GTGATAGGGGTTCGCAAGTTTCTAGTGATAGGGGTTCGTAGGTTTCTGGTGATAGGGGTT
1 GTGATAGGGGTTCACAAGTATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTT
45109475 TGTAGGTATC
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
71 1 0.01
72 105 0.98
73 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.36, T:0.32
Consensus pattern (72 bp):
GTGATAGGGGTTCACAAGTATCTAGTGATAGGGGTTCGTAGGTATCTGGTGATAGGGGTTCGCAC
ATAACTG
Found at i:45109500 original size:72 final size:73
Alignment explanation
Indices: 45109315--45109548 Score: 210
Period size: 72 Copynumber: 3.2 Consensus size: 73
45109305 TTTGTTGCTA
* * **
45109315 TCTGGTGATAGGGGTTCGCACATGA-CTGGTGATAAGGGTTCGCACA-TGACTAGTGATAAGGGT
1 TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCA-AGTTTCTAGTGATAAGGGT
*
45109378 TCACAGGTAT
65 TCGCAGGT-T
* * *
45109388 T-TGGTGATAGGGGTTCGCACCTAAT-TGGTGATAGGGGTTCGCAAGTTTCTAGTGATAGGGGTT
1 TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCAAGTTTCTAGTGATAAGGGTT
*
45109451 CGTAGGTT
66 CGCAGGTT
* * * * * * * *
45109459 TCTGGTGATAGGGGTTTGTAGGT-ATCTGCTGATAAGTGTTCGTATGTATT-TGGTGATAAGGGT
1 TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCAAGT-TTCTAGTGATAAGGGT
* ** *
45109522 TTGCACATG
65 TCGCAGGTT
45109531 TCTGGTGATAGGGGTTCG
1 TCTGGTGATAGGGGTTCG
45109549 TAGGTTAATA
Statistics
Matches: 131, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
71 5 0.04
72 123 0.94
73 3 0.02
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (73 bp):
TCTGGTGATAGGGGTTCGCACGTAATCTGGTGATAAGGGTTCGCAAGTTTCTAGTGATAAGGGTT
CGCAGGTT
Found at i:45110745 original size:15 final size:14
Alignment explanation
Indices: 45110724--45110779 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
45110714 TTTAACCCAA
45110724 AATT-TTTAATTCT
1 AATTATTTAATTCT
*
45110737 AATTATTTTAATATTT
1 AATTA-TTTAAT-TCT
* *
45110753 ACTTAATTAATTCCT
1 AATTATTTAATT-CT
45110768 AATTATTTAATT
1 AATTATTTAATT
45110780 ATCTACCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
13 4 0.12
14 1 0.03
15 22 0.67
16 6 0.18
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTATTTAATTCT
Found at i:45116086 original size:13 final size:13
Alignment explanation
Indices: 45116057--45116089 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
45116047 ATGGACCATG
45116057 TTTTCTT-TTCCT
1 TTTTCTTCTTCCT
*
45116069 TTTTCTTCTTCTT
1 TTTTCTTCTTCCT
45116082 TTTTCTTC
1 TTTTCTTC
45116090 ACCTTTGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCTTCTTCCT
Found at i:45117760 original size:54 final size:54
Alignment explanation
Indices: 45117702--45117819 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 54
45117692 CCTCACCCGT
** *
45117702 GTAACTCACTAAGTAGCC-CTACACGCCCGTGTGTTAGACCTTGTGCTAGGCCAC
1 GTAACTCACTAAGTAGCCAC-ACACGCCCGTGTGCCAGACCATGTGCTAGGCCAC
** * * * * * *
45117756 GTAACTTTCTGAGTTGCCACACATGCCCGTGTGCCAGGCCATGTGTTAGGCCAT
1 GTAACTCACTAAGTAGCCACACACGCCCGTGTGCCAGACCATGTGCTAGGCCAC
45117810 GTAACTCACT
1 GTAACTCACT
45117820 GACTTGGAAC
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (54 bp):
GTAACTCACTAAGTAGCCACACACGCCCGTGTGCCAGACCATGTGCTAGGCCAC
Found at i:45121888 original size:44 final size:44
Alignment explanation
Indices: 45121825--45121926 Score: 186
Period size: 44 Copynumber: 2.3 Consensus size: 44
45121815 AAATCTATTC
*
45121825 CATTCAACTAAACACAAGAATACTATTACAGTTTTATTTCATTT
1 CATTCAACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
*
45121869 CATTCTACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
1 CATTCAACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
45121913 CATTCAACCAAACA
1 CATTCAACCAAACA
45121927 ATTGAATTAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACAGTTTTATTTCATTT
Found at i:45121960 original size:16 final size:16
Alignment explanation
Indices: 45121939--45121969 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45121929 TGAATTACTG
45121939 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
45121955 ATTACAGCTCTATTC
1 ATTACAGCTCTATTC
45121970 TATTTCAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:45125442 original size:28 final size:28
Alignment explanation
Indices: 45125342--45125449 Score: 79
Period size: 28 Copynumber: 4.0 Consensus size: 28
45125332 TTTTTTTAAT
*
45125342 AATTAATAGAAATTAATTAAACAACATAA
1 AATTAATAGAAATTAATTAAA-ATCATAA
* * * *
45125371 AATT-TTATAAATTTATTAAAAACCAT-A
1 AATTAATAGAAATTAATT-AAAATCATAA
*
45125398 AA--AATAGAAA--AA-T-AAATTATAA
1 AATTAATAGAAATTAATTAAAATCATAA
45125420 AATTAATAGAAATTAATTAAAATCCATAA
1 AATTAATAGAAATTAATTAAAAT-CATAA
45125449 A
1 A
45125450 CTTTTATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 20
0.66 0.11 0.22
Matches are distributed among these distances:
21 5 0.08
22 3 0.05
23 1 0.02
24 9 0.15
26 7 0.12
27 4 0.07
28 18 0.31
29 12 0.20
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (28 bp):
AATTAATAGAAATTAATTAAAATCATAA
Found at i:45125738 original size:21 final size:19
Alignment explanation
Indices: 45125664--45125751 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 19
45125654 TTTTTTATAA
*
45125664 ATTTTATAAAATTTTATG-
1 ATTTTATAATATTTTATGT
*
45125682 ATTTTAATTAAT-TTCTA-GT
1 ATTTT-A-TAATATTTTATGT
45125701 AATTATTATAA-ATTTTAATGAT
1 -ATT-TTATAATATTTT-ATG-T
45125723 ATTTTTATAATA-TTTATGT
1 A-TTTTATAATATTTTATGT
45125742 ATTTTATAAT
1 ATTTTATAAT
45125752 TCTAGAATGA
Statistics
Matches: 56, Mismatches: 3, Indels: 22
0.69 0.04 0.27
Matches are distributed among these distances:
18 15 0.27
19 13 0.23
20 11 0.20
21 13 0.23
22 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTTTATAATATTTTATGT
Found at i:45125746 original size:30 final size:28
Alignment explanation
Indices: 45125665--45125747 Score: 69
Period size: 30 Copynumber: 2.8 Consensus size: 28
45125655 TTTTTATAAA
* *
45125665 TTTTATAAAATTTTATGATTTTAATTAAT
1 TTTTATAATA-TTTATGATTTTAATGAAT
* *
45125694 TTCTAGTAAT-TATTATAAATTTTAATGATAT
1 TTTTA-TAATAT-TTAT-GATTTTAATGA-AT
45125725 TTTTATAATATTTATGTATTTTA
1 TTTTATAATATTTATG-ATTTTA
45125748 TAATTCTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
28 1 0.02
29 8 0.19
30 26 0.62
31 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTATAATATTTATGATTTTAATGAAT
Found at i:45125866 original size:16 final size:15
Alignment explanation
Indices: 45125841--45125878 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
45125831 ATTTTAAAAA
45125841 TATTTTTAATTTTTT
1 TATTTTTAATTTTTT
45125856 TATTCTTTAATTTTTT
1 TATT-TTTAATTTTTT
45125872 TATTTTT
1 TATTTTT
45125879 TTGTTGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTAATTTTTT
Found at i:45132984 original size:16 final size:16
Alignment explanation
Indices: 45132963--45132995 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45132953 AGTATTGAAC
45132963 TTTAATTTGGTAATTT
1 TTTAATTTGGTAATTT
45132979 TTTAATTTGGTAATTT
1 TTTAATTTGGTAATTT
45132995 T
1 T
45132996 CGGAGTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTAATTTGGTAATTT
Found at i:45160801 original size:56 final size:50
Alignment explanation
Indices: 45160730--45160919 Score: 170
Period size: 50 Copynumber: 3.7 Consensus size: 50
45160720 ATTTGGGTAA
*
45160730 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCA-C--CGAG---ATG
* * *
45160786 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAGATG
* * * * *
45160836 AGA-ACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCG-AGATG
* * * *
45160885 AAACATCCCATGTAAGACCATGTCTGAGACATGGC
1 AGAGATCCCATGTAAGACCATGTATGGGACATGGC
45160920 TCTAGCATGT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 32 0.28
50 40 0.34
53 3 0.03
55 1 0.01
56 39 0.34
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCGAGATG
Found at i:45166830 original size:11 final size:12
Alignment explanation
Indices: 45166814--45166855 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
45166804 GAGAGCAGAA
45166814 TTTTCT-TTGAG
1 TTTTCTCTTGAG
* *
45166825 TTTTCTCTAAGAT
1 TTTTCTCT-TGAG
45166838 TTTTCTCTTGAG
1 TTTTCTCTTGAG
45166850 TTTTCT
1 TTTTCT
45166856 TTAGAAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 6 0.24
12 9 0.36
13 10 0.40
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.62
Consensus pattern (12 bp):
TTTTCTCTTGAG
Found at i:45177584 original size:17 final size:17
Alignment explanation
Indices: 45177564--45177597 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
45177554 AATGCTAAAA
45177564 AAAATGATA-TGGCAAAT
1 AAAATG-TAGTGGCAAAT
45177581 AAAATGTAGTGGCAAAT
1 AAAATGTAGTGGCAAAT
45177598 TACAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.24
Consensus pattern (17 bp):
AAAATGTAGTGGCAAAT
Found at i:45180542 original size:137 final size:138
Alignment explanation
Indices: 45180297--45180552 Score: 307
Period size: 137 Copynumber: 1.9 Consensus size: 138
45180287 TTTGCACTCG
* * * * * *
45180297 CTAACTGTGTTGGAGGCTGTGGCTCTTTGCCTGCGAACCTTAATATGATAGTTGACAGCTTTGCT
1 CTAACTATGTTGAAGGCTGTGACTATTCGCCTGCGAACCTTAATATGAAAGTTGACAGCTTTGCT
* * ** * * *
45180362 CTCTCTAACTACATTGGAGGCTGTGGCTTTTTGCCTACGAGCCTTAATATGACAACTGAGAGTTT
66 CTCACTAACGACATTGGAGGCTGCAGCTCTTCGCCTACAAGCCTTAATATGACAACTGAGAGTTT
45180427 TGTCCTGA
131 TGTCCTGA
* ** *
45180435 CTAACTATGTTGAAGGC-GTGACTATTCGCCTGCGAGCCTTAATATGAAAGTTGGGAGCTTTGGT
1 CTAACTATGTTGAAGGCTGTGACTATTCGCCTGCGAACCTTAATATGAAAGTTGACAGCTTTGCT
* * * * *
45180499 CTCACTAACGGCGTTGGAGGCTGCAGCTCTTCGCTTGCAAGCCTTGATATGACA
66 CTCACTAACGACATTGGAGGCTGCAGCTCTTCGCCTACAAGCCTTAATATGACA
45180553 GTTCGGAGCT
Statistics
Matches: 96, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
137 81 0.84
138 15 0.16
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (138 bp):
CTAACTATGTTGAAGGCTGTGACTATTCGCCTGCGAACCTTAATATGAAAGTTGACAGCTTTGCT
CTCACTAACGACATTGGAGGCTGCAGCTCTTCGCCTACAAGCCTTAATATGACAACTGAGAGTTT
TGTCCTGA
Found at i:45180585 original size:69 final size:68
Alignment explanation
Indices: 45180236--45180705 Score: 254
Period size: 69 Copynumber: 6.9 Consensus size: 68
45180226 TGCTAATTTC
* * * * * * * * *
45180236 GTTGAAGGTTGCGACTCTTCGCTTGCGAGCCTTACTA-GCAAAGCTAGGAGCTTTGCACTCGCTA
1 GTTGGAGGTTACGACTCTTCGCCTGCAAGCCTTAATATG-ACAGCTGGGAGCTTTGCTCTC-ATA
45180300 ACTGT
64 ACTGT
* ** * * * * ** *
45180305 GTTGGAGGCTGTGGCTCTTTGCCTGCGAA-CCTTAATATGATAGTTGACAGCTTTGCTCTCTCTA
1 GTTGGAGGTTACGACTCTTCGCCTGC-AAGCCTTAATATGACAGCTGGGAGCTTTGCTCTC-ATA
**
45180369 ACTAC
64 ACTGT
* * ** * * * * * * * * *
45180374 ATTGGAGGCTGTGGCTTTTTGCCTACGAGCCTTAATATGACAACTGAGAGTTTTG-TCCTGACTA
1 GTTGGAGGTTACGACTCTTCGCCTGCAAGCCTTAATATGACAGCTGGGAGCTTTGCT-CTCA-TA
*
45180438 ACTAT
64 ACTGT
* * * * * * *
45180443 GTTGAAGGCGT--GACTATTCGCCTGCGAGCCTTAATATGAAAGTTGGGAGCTTTGGTCTCACTA
1 GTTGGAGG-TTACGACTCTTCGCCTGCAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCA-TA
* *
45180506 ACGGC
64 ACTGT
* * * * * *
45180511 GTTGGAGGCTGC-AGCTCTTCGCTTGCAAGCCTTGATATGACAGTTCGGAGCTTTGCTCTCTATA
1 GTTGGAGGTTACGA-CTCTTCGCCTGCAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTC-ATA
*
45180575 ACTAT
64 ACTGT
* * * * * *
45180580 TTTGGAGGTTACGACTCTTCACATGCCAGCCTTAATACGACAGCTGGGAGCTTTGCTCTCGCTAA
1 GTTGGAGGTTACGACTCTTCGCCTGCAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTC-ATAA
45180645 CTGT
65 CTGT
* *
45180649 GTTGGAGGTTACGACTCTTCGCCTGTAAGCCCT-A-ATGACAGCTGGGAGCTTTGCTCT
1 GTTGGAGGTTACGACTCTTCGCCTGCAAGCCTTAATATGACAGCTGGGAGCTTTGCTCT
45180706 TGCTAACTGT
Statistics
Matches: 312, Mismatches: 77, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
67 23 0.07
68 53 0.17
69 231 0.74
70 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.31
Consensus pattern (68 bp):
GTTGGAGGTTACGACTCTTCGCCTGCAAGCCTTAATATGACAGCTGGGAGCTTTGCTCTCATAAC
TGT
Found at i:45180725 original size:67 final size:68
Alignment explanation
Indices: 45180557--45180746 Score: 202
Period size: 67 Copynumber: 2.8 Consensus size: 68
45180547 ATGACAGTTC
** * * ** * ** *
45180557 GGAGCTTTGCTCTCTATAACTATTTTGGAGGTTACGACTCTTCACATGCCAGCCTTAATACGACA
1 GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCCCTAATA-GACA
45180622 GCTG
65 GCTG
* ** *
45180626 GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGTTACGACTCTTCGCCTGTAAGCCCTAAT-GACAG
1 GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCCCTAATAGACAG
45180690 CTG
66 CTG
* * * *
45180693 GGAGCTTTGCTCTTGCTAACTGTATTCAAGGTTTCGGCTCTTCACCTGTGAGCC
1 GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCC
45180747 TGAATACGAC
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
67 54 0.52
69 50 0.48
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (68 bp):
GGAGCTTTGCTCTCGCTAACTGTATTCAAGGTTACGACTCTTCACCTGTAAGCCCTAATAGACAG
CTG
Found at i:45187484 original size:24 final size:24
Alignment explanation
Indices: 45187457--45187505 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
45187447 TGGCGTGAAT
45187457 CACATGAGCGATACACTTGTAAAC
1 CACATGAGCGATACACTTGTAAAC
* * *
45187481 CACATGAGTGATGCAGTTGTAAAC
1 CACATGAGCGATACACTTGTAAAC
45187505 C
1 C
45187506 TACTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (24 bp):
CACATGAGCGATACACTTGTAAAC
Found at i:45200530 original size:40 final size:40
Alignment explanation
Indices: 45200419--45200616 Score: 218
Period size: 40 Copynumber: 4.9 Consensus size: 40
45200409 GAGGAAGTAA
* * * *
45200419 TGGCAGCTTGTTTGCAACACTGGTGGCTTGACCACATATTAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACA-A-TAT
* * * *
45200461 TGGCATCTTGTCT-CAATACTGGTGACTTGTCCATAATAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* * * *
45200500 TGGCAGCTTATCTGTAATATTGGTGGCTTGTCCACAGTAG
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
*
45200540 TGGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAATAT
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* * * *
45200580 TGGTAGTTTATTTGTAATACTGGTGGCTTGTCCACAA
1 TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAA
45200617 ACTGGTGTGT
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 14 0.11
40 88 0.67
41 18 0.14
42 11 0.08
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TGGCAGCTTATCTGCAATACTGGTGGCTTGTCCACAATAT
Found at i:45200568 original size:20 final size:20
Alignment explanation
Indices: 45200467--45200623 Score: 75
Period size: 20 Copynumber: 8.0 Consensus size: 20
45200457 TTATTGGCAT
*
45200467 CTTGTCT-CAATACTGGTGA
1 CTTGTCTACAATACTGGTGG
* * * **
45200486 CTTGTCCATAATATTGGCAG
1 CTTGTCTACAATACTGGTGG
* ** *
45200506 CTTATCTGTAATATTGGTGG
1 CTTGTCTACAATACTGGTGG
* * * **
45200526 CTTGTCCACAGTAGTGGCAG
1 CTTGTCTACAATACTGGTGG
*
45200546 CTTGTCTGCAATACTGGTGG
1 CTTGTCTACAATACTGGTGG
* * *
45200566 CTTGTCCACAATATTGGTAG
1 CTTGTCTACAATACTGGTGG
* * * **
45200586 TTTATTTGTAATACTGGTGG
1 CTTGTCTACAATACTGGTGG
*
45200606 CTTGTCCACAA-ACTGGTG
1 CTTGTCTACAATACTGGTG
45200624 TGTTATTGGT
Statistics
Matches: 94, Mismatches: 43, Indels: 2
0.68 0.31 0.01
Matches are distributed among these distances:
19 13 0.14
20 81 0.86
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (20 bp):
CTTGTCTACAATACTGGTGG
Found at i:45200579 original size:80 final size:79
Alignment explanation
Indices: 45200419--45200615 Score: 241
Period size: 80 Copynumber: 2.5 Consensus size: 79
45200409 GAGGAAGTAA
* * * * * * * *
45200419 TGGCAGCTTGTTTGCAACACTGGTGGCTTGACCACATATTATTGGCATCTTGTCTCAATACTGGT
1 TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCAC--AGTAGTGGCAGCTTGTCTCAATACTGGT
*
45200484 GACTTGTCCATAATAT
64 GACTTGTCCACAATAT
*
45200500 TGGCAGCTTATCTGTAATATTGGTGGCTTGTCCACAGTAGTGGCAGCTTGTCTGCAATACTGGTG
1 TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCACAGTAGTGGCAGCTTGTCT-CAATACTGGTG
*
45200565 GCTTGTCCACAATAT
65 ACTTGTCCACAATAT
* * *
45200580 TGGTAGTTTATTTGTAATACTGGTGGCTTGTCCACA
1 TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCACA
45200616 AACTGGTGTG
Statistics
Matches: 100, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
79 15 0.15
80 56 0.56
81 29 0.29
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (79 bp):
TGGCAGCTTATCTGTAATACTGGTGGCTTGTCCACAGTAGTGGCAGCTTGTCTCAATACTGGTGA
CTTGTCCACAATAT
Found at i:45203908 original size:13 final size:13
Alignment explanation
Indices: 45203890--45203914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45203880 TGATTGCAGA
45203890 TTTTTCTTCTTTC
1 TTTTTCTTCTTTC
45203903 TTTTTCTTCTTT
1 TTTTTCTTCTTT
45203915 GGATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:45204651 original size:24 final size:24
Alignment explanation
Indices: 45204615--45204684 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
45204605 CATATTTTTG
45204615 AAGTTATCG-TGTATTATTATTCTAA
1 AAGTTAT-GTTGTATTATTATT-TAA
*
45204640 AA-TTAT-TATGTATTATTACTTAA
1 AAGTTATGT-TGTATTATTATTTAA
45204663 AAGTTATGTTGTATTATTATTT
1 AAGTTATGTTGTATTATTATTT
45204685 TATTATTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 5 0.13
24 31 0.79
25 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
AAGTTATGTTGTATTATTATTTAA
Found at i:45207173 original size:44 final size:44
Alignment explanation
Indices: 45207108--45208276 Score: 1492
Period size: 44 Copynumber: 26.7 Consensus size: 44
45207098 GAAACTATAT
* * * * * *
45207108 GTCCTATCTCCTTGAACAGTAGTGGAATAGGTAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* *
45207152 GTCCTAGCTCCCTGACCAGTAGTGGAATAGGTGGAAGACTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * ** *
45207196 GTCCTAGCTCCCTGAACAGTAGTGGAATAGGCAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * *
45207240 ATCCTAGCTTCCTGACTAGCAGTGGAATAGGTGGAAGACTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* *
45207284 GTCCTAGCTCCCTGTA-CAGCAGTGGAATAGGCGGAAGATTGTAA
1 GTCCTAGCTCCCTG-ACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45207328 ATCCTAGCTCTCTGACCAGCAGTGGAATAGGTGGAAGACTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * * *
45207372 GTCCTAGCTCCCTGAACAACAGTGGAATAGGCGAAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45207416 ATCCTAGCTCCCTGACCAACAGTGGAATAGGTGGAAGACTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* *
45207460 GTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* *
45207504 ATCCTAGCTCTCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * * *
45207548 GTCCTAGCTCCCAGACAAGCAGTGTAATAGGTAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
**
45207592 GTCC-AGCTCCCTGACCAGTGGTGG-A-AGGTGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * *
45207633 GTCCTAGCTCCCTGACCAGTAGTGTAATAGGTAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
*
45207677 GTCCTAGCTCCCTGACCAGTAGTGG-A-AGGTGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
**
45207719 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTAAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * *
45207763 GTCCTAGCTCCCTGAACAGTAGTGGAATAGGTAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45207807 ATCCTAGCTTCCTGACCAGCAGTGGAATAGGTGGAAGACTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45207851 GTCCTAGCTCCCTGTA-CAGCAGTGGAATAGGCGAAAGATTGTAA
1 GTCCTAGCTCCCTG-ACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45207895 ATCCTAGCTCTCTGACCAGCAGTGGAATAGGTGGAAGACTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * *
45207939 GTCCTAGCTCCCTGAACAACAGTGGAATAGGCGGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * *
45207983 ATCCTAGCTCCCTGACCAACAGTGGAATAGGTGGAAGGCTGAAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* *
45208027 GTCCTAGCTCCCTGAACAGCAGTGGAATAGGCGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
*
45208071 ATCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * * * *
45208115 GTCCTAACTCCCTGACAAGCAGTGTAATAGGTAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
**
45208159 GTCCTAGCTCCCTGACCAATAGTGG-A-AGGTGGAAGACTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45208201 GTCCTAGCTCCCTGACCAGCAGTGGAAGAGGTAGAAGATTGTAA
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
* * *
45208245 GTCCTAGCTCCCTGAGCAGCTGTGGAGTAGGT
1 GTCCTAGCTCCCTGACCAGCAGTGGAATAGGT
45208277 TGAAAATTAC
Statistics
Matches: 968, Mismatches: 146, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
41 18 0.02
42 94 0.10
43 22 0.02
44 832 0.86
45 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
GTCCTAGCTCCCTGACCAGCAGTGGAATAGGTGGAAGACTGTAA
Found at i:45208337 original size:44 final size:42
Alignment explanation
Indices: 45208266--45208429 Score: 123
Period size: 44 Copynumber: 3.7 Consensus size: 42
45208256 CTGAGCAGCT
* * * **
45208266 GTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTCGGTTGTA
1 GTGGAGCAGGTTGAAGA-TACAGATCTTGCCTCCCTC-GTTGTA
* * * *
45208310 GTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACA
1 GTGGAGCAGGTTGAAGATA-CAGATCTTGCCTCCCT-CGTTG-TA
* * *
45208355 GTGAAGCAGATTGAAGACACA-AGTCTTGCCTCCCTCAGTTGTA
1 GTGGAGCAGGTTGAAGATACAGA-TCTTGCCTCCCTC-GTTGTA
* *
45208398 GTGGAACAGGTTGAAGATAGCAGGTCTTGCCT
1 GTGGAGCAGGTTGAAGATA-CAGATCTTGCCT
45208430 TCTTGCATCG
Statistics
Matches: 92, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
43 20 0.22
44 54 0.59
45 18 0.20
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
GTGGAGCAGGTTGAAGATACAGATCTTGCCTCCCTCGTTGTA
Found at i:45208369 original size:45 final size:44
Alignment explanation
Indices: 45208308--45208458 Score: 139
Period size: 44 Copynumber: 3.4 Consensus size: 44
45208298 CCCTCGGTTG
* *
45208308 TAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGA
1 TAGTGAAGCAGATTGAAGATAGCAGATCTTGCCTTCCT-CATCGA
* * * *
45208353 CAGTGAAGCAGATTGAAGACA-CA-AGTCTTGCCTCCCTCAGTTG-
1 TAGTGAAGCAGATTGAAGATAGCAGA-TCTTGCCTTCCTCA-TCGA
* * *
45208396 TAGTGGAA-CAGGTTGAAGATAGCAGGTCTTGCCTTCTTGCATCGA
1 TAGT-GAAGCAGATTGAAGATAGCAGATCTTGCCTTCCT-CATCGA
*
45208441 TAGTGAAGCAGATCGAAG
1 TAGTGAAGCAGATTGAAG
45208459 CCAATGGTCC
Statistics
Matches: 83, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
43 17 0.20
44 35 0.42
45 31 0.37
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (44 bp):
TAGTGAAGCAGATTGAAGATAGCAGATCTTGCCTTCCTCATCGA
Found at i:45208400 original size:88 final size:88
Alignment explanation
Indices: 45208296--45208458 Score: 263
Period size: 88 Copynumber: 1.9 Consensus size: 88
45208286 CAAATCTTAT
* *
45208296 CTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGTGAAG
1 CTCCCTCAGTTGTAGTGGAACAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGTGAAG
*
45208361 CAGATTGAAGACACAAGTCTTGC
66 CAGATCGAAGACACAAGTCTTGC
* * * *
45208384 CTCCCTCAGTTGTAGTGGAACAGGTTGAAGATAGCAGGTCTTGCCTTCTTGCATCGATAGTGAAG
1 CTCCCTCAGTTGTAGTGGAACAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGTGAAG
45208449 CAGATCGAAG
66 CAGATCGAAG
45208459 CCAATGGTCC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (88 bp):
CTCCCTCAGTTGTAGTGGAACAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGTGAAG
CAGATCGAAGACACAAGTCTTGC
Found at i:45210066 original size:24 final size:24
Alignment explanation
Indices: 45210030--45210099 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
45210020 CATATTTTTG
*
45210030 AAGTTATTGTGTATTATTATTCTAA
1 AAGTTATTATGTATTATTATT-TAA
*
45210055 AA-TTATTATGTATTATTACTTAA
1 AAGTTATTATGTATTATTATTTAA
**
45210078 AAGTTATGCTGTATTATTATTT
1 AAGTTATTATGTATTATTATTT
45210100 TATTATTTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 5 0.13
24 32 0.82
25 2 0.05
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.53
Consensus pattern (24 bp):
AAGTTATTATGTATTATTATTTAA
Found at i:45211979 original size:16 final size:18
Alignment explanation
Indices: 45211950--45211982 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
45211940 ATAATAAAAT
45211950 AATTAACTATTAAATTAA
1 AATTAACTATTAAATTAA
45211968 AATTAAC-A-TAAATTA
1 AATTAACTATTAAATTA
45211983 TTTTTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAACTATTAAATTAA
Found at i:45235392 original size:18 final size:18
Alignment explanation
Indices: 45235365--45235403 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
45235355 TTTTTCTATC
*
45235365 TTTATTTCA-TTGTTTCT
1 TTTATTTCATTTCTTTCT
45235382 TTTATTTTCATTTCTTTCT
1 TTTA-TTTCATTTCTTTCT
45235401 TTT
1 TTT
45235404 GTTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTCATTTCTTTCT
Found at i:45235496 original size:23 final size:23
Alignment explanation
Indices: 45235462--45235505 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
45235452 AAGTATGTAA
45235462 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
45235485 ATATATTTATTACACATGTAT
1 ATATATTAATTACAAATGTAT
45235506 TTATAATTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:45244023 original size:150 final size:148
Alignment explanation
Indices: 45243770--45244053 Score: 390
Period size: 150 Copynumber: 1.9 Consensus size: 148
45243760 ACATGACAAA
* * * *
45243770 GCCATGTCCCAGACATGGTCTTACATGTGATGTTTCTTGTACTGCCAATGCCATATCCCAGATAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCTTTCTTG-ACTGCCAACGCCATATCCCAGACAT
** * *
45243835 GGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGAC
65 GGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGAC
45243900 CTCTCATCTCAGTGTCAAC
130 CTCTCATCTCAGTGTCAAC
* * *
45243919 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTG-GTGCCAACGCCTTGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGA--TCTT-TCTTGACTGCCAACGCCATATCCCAGAC
* * * *
45243983 ATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
63 ATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
45244048 ACCTCT
128 ACCTCT
45244054 TTACCCAAAT
Statistics
Matches: 117, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
149 29 0.25
150 80 0.68
151 3 0.03
152 5 0.04
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (148 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCTTTCTTGACTGCCAACGCCATATCCCAGACATG
GTCTTACATGGGACCTCTCATATCGATGCCAACGCCATGTCCCAGACATGGTCTTACAGGGGACC
TCTCATCTCAGTGTCAAC
Found at i:45244054 original size:50 final size:50
Alignment explanation
Indices: 45243770--45244054 Score: 351
Period size: 50 Copynumber: 5.7 Consensus size: 50
45243760 ACATGACAAA
* * * * *
45243770 GCCATGTCCCAGACATGGTCTTACATGTGA--TGTT-TCTTGTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--GTGCCAAC
* * ** * * * * *
45243819 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
* * * *
45243869 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTGTCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
*
45243919 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
*
45243969 GCCTTGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
45244019 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
45244055 TACCCAAATG
Statistics
Matches: 205, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
49 27 0.13
50 173 0.84
51 2 0.01
52 3 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAAC
Found at i:45249390 original size:50 final size:52
Alignment explanation
Indices: 45249329--45249435 Score: 173
Period size: 50 Copynumber: 2.1 Consensus size: 52
45249319 ATAAAGTCAA
* *
45249329 GCATTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGACAT
1 GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGACAT
*
45249379 GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGTCAT
1 GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGACAT
45249431 GCATT
1 GCATT
45249436 CAGTTACTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 24 0.46
51 12 0.23
52 16 0.31
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (52 bp):
GCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGACAT
Found at i:45252061 original size:20 final size:20
Alignment explanation
Indices: 45252036--45252115 Score: 106
Period size: 20 Copynumber: 4.0 Consensus size: 20
45252026 TTGTACAGGA
*
45252036 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
45252056 TTTGCACTTTGGTGCTTTTG
1 TTTGCACTTCGGTGCCTCTG
*
45252076 TTTGCACTTCGATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
45252096 TCTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
45252116 CTATGCATCT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.06, C:0.26, G:0.24, T:0.44
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:45253654 original size:24 final size:24
Alignment explanation
Indices: 45253626--45253690 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
45253616 CACTCAGTTA
45253626 AATGAGAAGGTCACTTCCTCAGAG
1 AATGAGAAGGTCACTTCCTCAGAG
45253650 AATGAGAAGGTCACTTCCTCAGAG
1 AATGAGAAGGTCACTTCCTCAGAG
*
45253674 AATGAGAAGGTTACTTC
1 AATGAGAAGGTCACTTC
45253691 AGAGGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (24 bp):
AATGAGAAGGTCACTTCCTCAGAG
Found at i:45255459 original size:54 final size:54
Alignment explanation
Indices: 45255379--45255486 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
45255369 TTTTTCATTT
* * * * *
45255379 TTTCTCCACATGATGCCATAGTCCCAAACTAGGTCTTACACTATGTGGTCTTCA
1 TTTCCCCACATGATACCATAGACCCAAACTAGGTCTAACACTATATGGTCTTCA
*
45255433 TTTCCCCATATGATACCATAGACCCAAACTAGGTCTAACACTATATGGTCTTCA
1 TTTCCCCACATGATACCATAGACCCAAACTAGGTCTAACACTATATGGTCTTCA
45255487 CTTGCCATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (54 bp):
TTTCCCCACATGATACCATAGACCCAAACTAGGTCTAACACTATATGGTCTTCA
Found at i:45258680 original size:21 final size:21
Alignment explanation
Indices: 45258654--45258705 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
45258644 TCACTTCGTT
45258654 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
45258675 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
45258696 TCTTTTTGTC
1 TCTTTTTGTC
45258706 TAACTCACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.23, G:0.12, T:0.56
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:45258716 original size:21 final size:21
Alignment explanation
Indices: 45258634--45258716 Score: 85
Period size: 21 Copynumber: 3.8 Consensus size: 21
45258624 ACAAAAAAGA
*
45258634 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
45258658 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
45258679 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
* *
45258700 TTTGTCTAACTCACTTC
1 TTTGTCCAAGTCACTTC
45258717 GTTTTTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 37 0.71
24 15 0.29
ACGTcount: A:0.13, C:0.24, G:0.11, T:0.52
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:45261471 original size:391 final size:391
Alignment explanation
Indices: 45260685--45261855 Score: 2253
Period size: 391 Copynumber: 3.0 Consensus size: 391
45260675 TTACGAAAAT
45260685 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
*
45260750 CCTTTAGATATTGCATATCTTTTTCTTGG-AGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
*
45260814 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCATTT
131 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
45260879 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATT-A---GTCACTCCTT
196 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
45260940 ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
261 ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
45261005 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
326 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
45261070 A
391 A
*
45261071 GAGGTTCTGAAACTACATTTTCTGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
*
45261136 CCTTTTGATATTGCATATCTTTTCCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
45261201 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
131 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
45261266 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
196 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
*
45261331 ATGGTCTCACCGTAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
261 ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
45261396 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
326 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
45261461 A
391 A
45261462 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
1 GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
45261527 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
66 CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
45261592 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
131 AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
45261657 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
196 GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
45261722 ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
261 ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
*
45261787 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTT
326 AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
45261852 A
391 A
45261853 GAG
1 GAG
45261856 ATTCGATTTA
Statistics
Matches: 771, Mismatches: 9, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
386 91 0.12
387 149 0.19
388 1 0.00
391 530 0.69
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (391 bp):
GAGGTTCTGAAACTACATTTTCCGACGTGACTTAAATCTGGTTGTTATATGAAAAATCTCCATCT
CCTTTTGATATTGCATATCTTTTTCTTGGTAGAAGTAACATGTGAAGTACGAAAAAATTATCCAA
AAATAATCTTACCATGTCAATCCATGTATATAGATCTAAAAGTTAGATAAAATAGTCAGTCCTTT
GCCTTGTTGGCTAGTGAAAAAGGGAAGACTCTTAGTTTAATTTGCTCATTAATTGGTCACTCCTT
ATGGTCTCACCATAGAACACACCACATGGAACTCCTTAAAGTGCTTGTGAGGATCTTCGTTCTCT
AGATCATGAAAAGTAGGAAATAAATGAATTACTCCAAATTTTATTTCAAAAGATACCTCAAGTTC
A
Found at i:45264758 original size:14 final size:15
Alignment explanation
Indices: 45264729--45264762 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
45264719 GTACATTGAA
45264729 TTTCATGCTTCAGTT
1 TTTCATGCTTCAGTT
*
45264744 TTTCAT-CTTCGGTT
1 TTTCATGCTTCAGTT
45264758 TTTCA
1 TTTCA
45264763 AATGCGAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.12, C:0.21, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTCATGCTTCAGTT
Found at i:45268586 original size:122 final size:123
Alignment explanation
Indices: 45268369--45268711 Score: 573
Period size: 122 Copynumber: 2.8 Consensus size: 123
45268359 TTATTTCGAG
*
45268369 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTAT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTAT
* *
45268433 GAAATTGCGCCCTCGTGGATGCGATTTTGCTACAGTAGGTCATGTAAGAAAT-TTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTT
* *
45268491 TTGACGTTTCTGAGCAAATAGTATAAAATTGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
* * *
45268556 AAATCACGCCCTCATGGACGCGATTTTGCTATAGTAGGTCATGTAAGAAATATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTT
* *
45268614 TTTACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAAGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
45268679 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACA
45268712 ATAGCAAGTT
Statistics
Matches: 204, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
122 106 0.52
123 98 0.48
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATATTTTTT
Found at i:45271841 original size:10 final size:10
Alignment explanation
Indices: 45271826--45271850 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45271816 CAAATCTAAC
45271826 ATTATGTAAA
1 ATTATGTAAA
45271836 ATTATGTAAA
1 ATTATGTAAA
45271846 ATTAT
1 ATTAT
45271851 TAATTCTCAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:45271901 original size:18 final size:18
Alignment explanation
Indices: 45271878--45271961 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
45271868 TTAATGGTTA
45271878 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
* ***
45271896 GTAAAATTATTAAGCCA-
1 GTAAAATTATCAAATTAT
** * *
45271913 AAAAAATTTTAATTAAATTAG
1 GTAAAA--TT-ATCAAATTAT
45271934 GTAAAATTATCAAATTAT
1 GTAAAATTATCAAATTAT
45271952 GTAAAATTAT
1 GTAAAATTAT
45271962 TAAGTCCAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
17 4 0.08
18 31 0.63
19 4 0.08
20 6 0.12
21 4 0.08
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (18 bp):
GTAAAATTATCAAATTAT
Found at i:45271990 original size:56 final size:55
Alignment explanation
Indices: 45271834--45271990 Score: 194
Period size: 56 Copynumber: 2.8 Consensus size: 55
45271824 ACATTATGTA
* **
45271834 AAATTATGTAAAATTATTAATTCTCAAACTTTTGTTAATGGTTA-GTAAAATTATC
1 AAATTATGTAAAATTATTAAGTC-CAAAAATTTGTTAATGGTTAGGTAAAATTATC
* **
45271889 AAATTATGTAAAATTATTAAG-CCAAAAAAATT-TTAATTAAATTAGGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCC-AAAAATTTGTTAA-T-GGTTAGGTAAAATTATC
45271945 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGG
1 AAATTATGTAAAATTATTAAGTCCAAAAATT-TGTTAATGGTTAGG
45271991 GTTAGGGTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
53 5 0.06
54 7 0.08
55 23 0.27
56 43 0.50
57 4 0.05
58 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.39
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTTGTTAATGGTTAGGTAAAATTATC
Found at i:45272034 original size:17 final size:18
Alignment explanation
Indices: 45271991--45272263 Score: 136
Period size: 18 Copynumber: 16.7 Consensus size: 18
45271981 AATGGTTAGG
45271991 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
45272009 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
45272027 TTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
45272038 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
45272056 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
45272074 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
45272085 GTTAGTGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
45272103 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
45272121 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
*
45272132 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
45272150 GTTAGGGTTTTTAATTAG
1 GTTAGGGTTTTTAATTAA
**** *
45272168 GTTAGGG-TTAGGGTTAGG
1 GTTAGGGTTTTTAATTA-A
*
45272186 GTTAGGATTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
* **
45272204 ATTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
45272215 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
45272233 GTTAGGGTTTTTAAATAA
1 GTTAGGGTTTTTAATTAA
*
45272251 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
45272264 TTACATCAAA
Statistics
Matches: 185, Mismatches: 40, Indels: 60
0.65 0.14 0.21
Matches are distributed among these distances:
11 13 0.07
12 6 0.03
13 4 0.02
14 8 0.04
15 8 0.04
16 4 0.02
17 12 0.06
18 125 0.68
19 5 0.03
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:45272107 original size:65 final size:65
Alignment explanation
Indices: 45272038--45272263 Score: 230
Period size: 65 Copynumber: 3.5 Consensus size: 65
45272028 TTAGGTTAGG
*
45272038 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGTGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * * *
45272103 GTTAGGGTTTTTAATTAAGTTA-GGTTAGGGTTAGGATT--TTTA-ATTA-AGTTAGGGTTTTTA
1 GTTAGGGTTTTTAATTAAGTTAGGGTT---TTTA--ATTAAATTAGGTTAGGGTTAGGGTTTTTA
*
45272163 ATTAG
61 ATTAA
**** * *
45272168 GTTAGGG-TTAGGGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
1 GTTAGGGTTTTTAATTA-AGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
45272232 A
65 A
* *
45272233 GTTAGGGTTTTTAAATAAATTAGGGTTTTTA
1 GTTAGGGTTTTTAATTAAGTTAGGGTTTTTA
45272264 TTACATCAAA
Statistics
Matches: 124, Mismatches: 25, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
61 3 0.02
63 6 0.05
64 12 0.10
65 84 0.68
66 10 0.08
67 6 0.05
69 3 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (65 bp):
GTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:45272178 original size:6 final size:6
Alignment explanation
Indices: 45272167--45272191 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45272157 TTTTTAATTA
45272167 GGTTAG GGTTAG GGTTAG GGTTAG G
1 GGTTAG GGTTAG GGTTAG GGTTAG G
45272192 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTTAG
Found at i:45272218 original size:29 final size:29
Alignment explanation
Indices: 45272179--45272238 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
45272169 TTAGGGTTAG
45272179 GGTTAGGGTTAGGATTTTTAATTAAATTA
1 GGTTAGGGTTAGGATTTTTAATTAAATTA
* *
45272208 GGTTAGGGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTAGGATTTTTAATTAAATTA
45272237 GG
1 GG
45272239 GTTTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (29 bp):
GGTTAGGGTTAGGATTTTTAATTAAATTA
Found at i:45272256 original size:47 final size:47
Alignment explanation
Indices: 45271984--45272188 Score: 356
Period size: 47 Copynumber: 4.3 Consensus size: 47
45271974 TTGTGTTAAT
*
45271984 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
*
45272031 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
*
45272078 GGTTAGGGTTAGTGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
* *
45272125 GGTTAGGGTTAGGATTTTTAATTAAGTTAGGGTTTTTAATTAGGTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
45272172 GGGTTAGGGTTAGGGTT
1 -GGTTAGGGTTAGGGTT
45272189 AGGATTTTTA
Statistics
Matches: 150, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 135 0.90
48 15 0.10
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (47 bp):
GGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAGTTA
Found at i:45272327 original size:25 final size:25
Alignment explanation
Indices: 45272259--45272327 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
45272249 AAATTAGGGT
* *
45272259 TTTTATTACATCAAATAGAATTTATC
1 TTTTATTACATCAAATA-AACTTATA
* * *
45272285 TTTTATTATATTAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTATA
*
45272310 TTTTATTACATCAGATAA
1 TTTTATTACATCAAATAA
45272328 TAAATTTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTATA
Found at i:45273426 original size:7 final size:7
Alignment explanation
Indices: 45273416--45273440 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45273406 TTATATACAT
45273416 AATACTA
1 AATACTA
45273423 AATACTA
1 AATACTA
45273430 AATACTA
1 AATACTA
45273437 AATA
1 AATA
45273441 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:45274557 original size:31 final size:32
Alignment explanation
Indices: 45274522--45274587 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
45274512 GCTATTGATG
45274522 AAAATAT-AAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTTAAAATTATTTTAAA
45274553 AAAATATAAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTTAAAATTATTTTAAA
45274585 AAA
1 AAA
45274588 TGAAATTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (32 bp):
AAAATATAAAAAAAATTTAAAATTATTTTAAA
Found at i:45275295 original size:6 final size:6
Alignment explanation
Indices: 45275282--45275314 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
45275272 TTTTATTTTA
45275282 TAAT-T TAATAT TAATAT TAATAT TAATAT TAAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAAT
45275315 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:45276132 original size:9 final size:10
Alignment explanation
Indices: 45276105--45276129 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45276095 ACGGTGTTAA
45276105 AATTTTGGAT
1 AATTTTGGAT
45276115 AATTTTGGAT
1 AATTTTGGAT
45276125 AATTT
1 AATTT
45276130 GGACAATGGT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (10 bp):
AATTTTGGAT
Found at i:45276193 original size:18 final size:18
Alignment explanation
Indices: 45276170--45276204 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45276160 ACCAGACAAA
45276170 AAAATAA-GTATCAAATTG
1 AAAATAAGGTAT-AAATTG
45276188 AAAATAAGGTATAAATT
1 AAAATAAGGTATAAATT
45276205 AGGGTGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAATAAGGTATAAATTG
Found at i:45278349 original size:13 final size:13
Alignment explanation
Indices: 45278331--45278356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45278321 ATTCTAGACA
45278331 AAATTTAAATTTT
1 AAATTTAAATTTT
45278344 AAATTTAAATTTT
1 AAATTTAAATTTT
45278357 TTATAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AAATTTAAATTTT
Found at i:45282704 original size:25 final size:24
Alignment explanation
Indices: 45282672--45282758 Score: 120
Period size: 24 Copynumber: 3.6 Consensus size: 24
45282662 ACGAGCTGCA
* *
45282672 AATCGGTAAGCTCATATGAGTTGAG
1 AATCGGTAAGCTCTTATGAGTTG-C
* *
45282697 AATTGGTAAGCTCTTACGAGTTGC
1 AATCGGTAAGCTCTTATGAGTTGC
*
45282721 AATCGTTAAGCTCTTATGAGTTGC
1 AATCGGTAAGCTCTTATGAGTTGC
45282745 AATCGGTAAGCTCT
1 AATCGGTAAGCTCT
45282759 CACAAGCTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
24 34 0.63
25 20 0.37
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (24 bp):
AATCGGTAAGCTCTTATGAGTTGC
Found at i:45282734 original size:24 final size:24
Alignment explanation
Indices: 45282647--45282758 Score: 116
Period size: 25 Copynumber: 4.6 Consensus size: 24
45282637 ACGAGCTATG
* * * *
45282647 AATCGGTATGTTCTCACGAGCTGC
1 AATCGGTAAGCTCTTACGAGTTGC
* * *
45282671 AAATCGGTAAGCTCATATGAGTTGAG
1 -AATCGGTAAGCTCTTACGAGTTG-C
*
45282697 AATTGGTAAGCTCTTACGAGTTGC
1 AATCGGTAAGCTCTTACGAGTTGC
* *
45282721 AATCGTTAAGCTCTTATGAGTTGC
1 AATCGGTAAGCTCTTACGAGTTGC
45282745 AATCGGTAAGCTCT
1 AATCGGTAAGCTCT
45282759 CACAAGCTGT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
24 34 0.48
25 37 0.52
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (24 bp):
AATCGGTAAGCTCTTACGAGTTGC
Found at i:45282739 original size:49 final size:49
Alignment explanation
Indices: 45282647--45282767 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 49
45282637 ACGAGCTATG
* * * *
45282647 AATCGGTATGTTCTCACGAGCTGCAAATCGGTAAGCTCATATGAGTTGAG
1 AATCGGTAAGCTCTTACGAGCTGCAAATCGGTAAGCTCATATGAGTTG-C
* * * *
45282697 AATTGGTAAGCTCTTACGAGTTGC-AATCGTTAAGCTCTTATGAGTTGC
1 AATCGGTAAGCTCTTACGAGCTGCAAATCGGTAAGCTCATATGAGTTGC
* *
45282745 AATCGGTAAGCTCTCACAAGCTG
1 AATCGGTAAGCTCTTACGAGCTG
45282768 TAATCGATAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
48 19 0.32
49 21 0.36
50 19 0.32
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (49 bp):
AATCGGTAAGCTCTTACGAGCTGCAAATCGGTAAGCTCATATGAGTTGC
Found at i:45282773 original size:48 final size:49
Alignment explanation
Indices: 45282647--45282773 Score: 139
Period size: 48 Copynumber: 2.6 Consensus size: 49
45282637 ACGAGCTATG
* * *
45282647 AATCGGTATGTTCTCACGAGCTGCAAATCGGTAAGCTCATATGAGTTGAG
1 AATCGGTAAGCTCTCACGAGCTG-AAATCGGTAAGCTCATATGAGTTGAC
* * * * * *
45282697 AATTGGTAAGCTCTTACGAGTTGCAATCGTTAAGCTCTTATGAGTTG-C
1 AATCGGTAAGCTCTCACGAGCTGAAATCGGTAAGCTCATATGAGTTGAC
* *
45282745 AATCGGTAAGCTCTCACAAGCTGTAATCG
1 AATCGGTAAGCTCTCACGAGCTGAAATCG
45282774 ATAATCCCTA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
48 24 0.38
49 21 0.33
50 18 0.29
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (49 bp):
AATCGGTAAGCTCTCACGAGCTGAAATCGGTAAGCTCATATGAGTTGAC
Found at i:45286602 original size:48 final size:48
Alignment explanation
Indices: 45286531--45286727 Score: 259
Period size: 48 Copynumber: 4.1 Consensus size: 48
45286521 AACAGATTTC
* * * *
45286531 TCGGTAGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGATTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
* * * *
45286579 TTGGTGTCCTCCACACAGTCCGTGCCACCCTTGTATCATAACAAAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
* * *
45286627 TCGGTGGCTTGCACACAGTCTGTGCCACCCTTGTATCATAATAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
* * * *
45286675 TCGGTGGCCTGCACACAATCCGTGCCACTCTTGTGTCATAACAGAACA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
45286723 TCGGT
1 TCGGT
45286728 ACGCATAATA
Statistics
Matches: 127, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 127 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
Found at i:45293677 original size:24 final size:24
Alignment explanation
Indices: 45293650--45293695 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45293640 CCATTTCATA
45293650 TTTCA-ATATATCATGTAATATAAT
1 TTTCATATATATCATGT-ATATAAT
* *
45293674 TTTCATGTATTTCATGTATATA
1 TTTCATATATATCATGTATATA
45293696 CTTGTAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (24 bp):
TTTCATATATATCATGTATATAAT
Found at i:45295158 original size:15 final size:16
Alignment explanation
Indices: 45295127--45295159 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45295117 ACTAAAATAG
45295127 TAAGAAAATAAATTTT
1 TAAGAAAATAAATTTT
45295143 TAAGAAAATAAATTTT
1 TAAGAAAATAAATTTT
45295159 T
1 T
45295160 TGACTTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAGAAAATAAATTTT
Found at i:45295797 original size:14 final size:14
Alignment explanation
Indices: 45295778--45295807 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45295768 TAATCCTAAG
45295778 TGGATGATGGGCTA
1 TGGATGATGGGCTA
45295792 TGGATGATGGGCTA
1 TGGATGATGGGCTA
45295806 TG
1 TG
45295808 TATGTGTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.43, T:0.30
Consensus pattern (14 bp):
TGGATGATGGGCTA
Found at i:45299698 original size:13 final size:13
Alignment explanation
Indices: 45299664--45299700 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
45299654 TGCAAACATT
45299664 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
45299677 AAA-ATAAGAAAAG
1 AAAGA-AAGAAAAG
45299690 AAAGAAAGAAA
1 AAAGAAAGAAA
45299701 TAGTAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:45300895 original size:54 final size:54
Alignment explanation
Indices: 45300822--45300995 Score: 181
Period size: 54 Copynumber: 3.2 Consensus size: 54
45300812 CCCAAGTCAT
* * * *
45300822 TGAGTTACATGGGTA-GAGACATGGGCTGAGACACGATCATGTGTCTCAATTTAG
1 TGAGTTACACGGG-AGGAGACATGGGCTGGGACACGACCATGTGTCTCAACTTAG
* * * * * *
45300876 TGAGTTACACGGGCGGAGACACGGGCTGGGACA-TAGCCGTGTGTCTCAAGTCAG
1 TGAGTTACACGGGAGGAGACATGGGCTGGGACACGA-CCATGTGTCTCAACTTAG
* * *
45300930 TGAGTTACATGGGAGGAGACATGGGCTGGGATACGACCATGTGTCCCAACTTAG
1 TGAGTTACACGGGAGGAGACATGGGCTGGGACACGACCATGTGTCTCAACTTAG
* *
45300984 AGAGTCACACGG
1 TGAGTTACACGG
45300996 TCTGGGGCAT
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
53 1 0.01
54 94 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (54 bp):
TGAGTTACACGGGAGGAGACATGGGCTGGGACACGACCATGTGTCTCAACTTAG
Found at i:45313853 original size:138 final size:140
Alignment explanation
Indices: 45313586--45313871 Score: 452
Period size: 138 Copynumber: 2.1 Consensus size: 140
45313576 GAGAACACAT
* *
45313586 ATATAATTAAGATATGAATTTGATTCCTAAAAAATATTAATTGTATATATTTTAATGAATTTATT
1 ATATAATTAAGATATGAATTCGATTCATAAAAAATATTAATTGTATATATTTTAATGAATTTATT
* *
45313651 AATATATAAACAGTTATATTAATTAATTTTAGTCAAAATATAAAAGAGATGGAAATTAATATTCT
66 AATATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCT
* *
45313716 TTTGGATAGA
131 TTTGAAAAGA
* *
45313726 ATATAATTAATATATGAATTCGATTCATACAAAATATTAATTGTATATATTTTACA-GAATTTAT
1 ATATAATTAAGATATGAATTCGATTCATAAAAAATATTAATTGTATATATTTTA-ATGAATTTAT
* *
45313790 T-A-ATATAAATAGTTATATTAATTAATTTCCGTCAAAATATAAAAGACATGGAAATTAATATTC
65 TAATATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTC
45313853 TTTTGAAAAGA
130 TTTTGAAAAGA
45313864 ATATAATT
1 ATATAATT
45313872 CATTTTTCTA
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
138 74 0.55
139 1 0.01
140 59 0.44
141 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (140 bp):
ATATAATTAAGATATGAATTCGATTCATAAAAAATATTAATTGTATATATTTTAATGAATTTATT
AATATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCT
TTTGAAAAGA
Found at i:45317840 original size:25 final size:25
Alignment explanation
Indices: 45317806--45317891 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
45317796 TGACAGATAA
*
45317806 CTGGAAAGCCTTTGTGGTATATTAT
1 CTGGAAAGCCTTTGTGGCATATTAT
* *
45317831 CTGGAAAGCCTTTATGGCATGTTAT
1 CTGGAAAGCCTTTGTGGCATATTAT
* * *
45317856 CTTGAAAGCTTTTGTGACATATTAT
1 CTGGAAAGCCTTTGTGGCATATTAT
45317881 CTGGAAAGCCT
1 CTGGAAAGCCT
45317892 ATATGGCGAA
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (25 bp):
CTGGAAAGCCTTTGTGGCATATTAT
Found at i:45320521 original size:125 final size:125
Alignment explanation
Indices: 45320282--45320845 Score: 794
Period size: 126 Copynumber: 4.5 Consensus size: 125
45320272 AAATCAAAGT
* * * * * * *
45320282 AGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCACTTTTGCTACAGTAGG
1 AGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* * *
45320346 TCCTGGAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAACACTTCAAGC
65 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
* * * **
45320407 AAGATGCT-TTATGAGAAGAATTTCTGAAATAGTTCCCTCGTGGACGCGCTTTTGCTACAGTAGG
1 AGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* * * * *
45320471 TCCTGGAAGAAATACTTTCGAGTTGACGTTTGTGAGAAAATAGTTTAAAAAACGCTTTAAAC
65 TCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
45320533 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
1 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
* * *
45320598 CTTGGAAGAAATAATTTCTAGTTGACATTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
66 CCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
*
45320659 AGGATGCTATTTGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
1 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
* * * *
45320724 CCTAGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTACTAA-C
66 CCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC-AAGC
*
45320783 AGGATGGTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
1 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
45320846 CATGTTTGGG
Statistics
Matches: 396, Mismatches: 40, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
124 72 0.18
125 97 0.24
126 225 0.57
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
CCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
Found at i:45323976 original size:21 final size:21
Alignment explanation
Indices: 45323950--45324072 Score: 138
Period size: 21 Copynumber: 5.8 Consensus size: 21
45323940 TCAAATTATA
45323950 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
45323971 TTTAAGTTAAGTGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
45323992 TTTTATTTAAAGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
45324013 TTAAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* **
45324035 TTTAATTTAAGGGTTACCGTT
1 TTTAAGTTAAGGGTTAGGGTT
45324056 TTTAAGTTAAGGGTTAG
1 TTTAAGTTAAGGGTTAG
45324073 AGTTAGGGTT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
21 65 0.77
22 19 0.23
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:45324050 original size:43 final size:43
Alignment explanation
Indices: 45323950--45324070 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
45323940 TCAAATTATA
* * *
45323950 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGTG-TTAAGGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAAGGTT
* * * * *
45323992 TTTTATTTAAAGGTTATGGTTTTAAAGTTAAGGGTTTATGGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAAGGTT
*
45324035 TTTAATTTAAGGGTTACCGTTTTTAAGTTAAGGGTT
1 TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTT
45324071 AGAGTTAGGG
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 28 0.42
43 38 0.58
ACGTcount: A:0.26, C:0.02, G:0.25, T:0.48
Consensus pattern (43 bp):
TTTAATTTAAGGGTTACGGTTTTTAAGTTAAGGGTTTAAGGTT
Found at i:45324383 original size:21 final size:21
Alignment explanation
Indices: 45324359--45324405 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
45324349 GCGGCGGTTG
*
45324359 TGGTTCCTCCGGTCGGG-ATTC
1 TGGTTCCTCCGGTAGGGCA-TC
*
45324380 TGGTTCTTCCGGTAGGGCATC
1 TGGTTCCTCCGGTAGGGCATC
45324401 TGGTT
1 TGGTT
45324406 GTCAGAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.06, C:0.23, G:0.34, T:0.36
Consensus pattern (21 bp):
TGGTTCCTCCGGTAGGGCATC
Found at i:45325464 original size:20 final size:20
Alignment explanation
Indices: 45325427--45325464 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45325417 TTTATTTTTA
*
45325427 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
45325447 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
45325465 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:45326403 original size:51 final size:51
Alignment explanation
Indices: 45326348--45326447 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
45326338 AATTATTTTA
45326348 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTT-AGAGAAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAA-TTTGAGAGAAAATTGAGATT
* * * * *
45326399 AAATATGTATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAATTTGAGAGAAAATTGAGA
45326448 GAAAATTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.07
51 38 0.90
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAATTTGAGAGAAAATTGAGATT
Found at i:45326421 original size:11 final size:11
Alignment explanation
Indices: 45326407--45326461 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
45326397 TTAAATATGT
45326407 ATTTGAGAGAA
1 ATTTGAGAGAA
*
45326418 ATTTG-GAAGGA
1 ATTTGAG-AGAA
45326429 ATTTGAGAGCAA
1 ATTTGAGAG-AA
45326441 A-TTGAGAGAAA
1 ATTTGAGAG-AA
45326452 ATTTGAGAGA
1 ATTTGAGAGA
45326462 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:45331446 original size:17 final size:17
Alignment explanation
Indices: 45331405--45331446 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
45331395 TTTCAAAATT
*
45331405 CTCTAAATTTTTAAAAC
1 CTCTAAATTCTTAAAAC
45331422 CT-TAAAATTCTTAAAAC
1 CTCT-AAATTCTTAAAAC
45331439 CTCTAAAT
1 CTCTAAAT
45331447 CTCATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (17 bp):
CTCTAAATTCTTAAAAC
Found at i:45334795 original size:34 final size:34
Alignment explanation
Indices: 45334752--45334822 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
45334742 CCGAGTAATT
45334752 CCAACCTTTATCATTCAACAATAGAAACTCTTTC
1 CCAACCTTTATCATTCAACAATAGAAACTCTTTC
*
45334786 CCAACCTTTATCATTCAACAGTAGAAACTCTTTC
1 CCAACCTTTATCATTCAACAATAGAAACTCTTTC
45334820 CCA
1 CCA
45334823 CTTATTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (34 bp):
CCAACCTTTATCATTCAACAATAGAAACTCTTTC
Done.