Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 196 of 343
Found at i:64997034 original size:100 final size:101
Alignment explanation
Indices: 64996847--64997054 Score: 251
Period size: 100 Copynumber: 2.1 Consensus size: 101
64996837 CTAAATGACC
* * * * * **
64996847 TTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATTTTGGATCTTGAATATTCGGTCA
1 TTGTATATTCGACCACATAAGTAAGTACACATGTGATGTTAATTTGGATCTTGAATATTCGACCA
** *
64996912 TGAAGGTATGCACAAATGTGATATTATATTTGA-AT
66 TGAAGGTAAACACAAATATGATATTATATTTGATAT
* *
64996947 TTGTATATTCGACCATATAAGTAAGTACACATGTGATGTTAAATTT-GATCTTGCATATTCGACC
1 TTGTATATTCGACCACATAAGTAAGTACACATGTGATGTT-AATTTGGATCTTGAATATTCGACC
*
64997011 AT-ATAGGTAAACACATATATGATATTATATTTGATAT
65 ATGA-AGGTAAACACAAATATGATATTATATTTGATAT
64997048 TGTGTAT
1 T-TGTAT
64997055 TTGGCCAAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
99 1 0.01
100 78 0.86
101 7 0.08
102 5 0.05
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (101 bp):
TTGTATATTCGACCACATAAGTAAGTACACATGTGATGTTAATTTGGATCTTGAATATTCGACCA
TGAAGGTAAACACAAATATGATATTATATTTGATAT
Found at i:64997045 original size:50 final size:50
Alignment explanation
Indices: 64996846--64997055 Score: 192
Period size: 50 Copynumber: 4.2 Consensus size: 50
64996836 GCTAAATGAC
* * * * *
64996846 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTAT-TTTGGAT
1 CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTT-GAT
* ** * *
64996896 CTTGAATATTCGGTCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGACCAT-ATAGGTAAGCACATATGTGATATTATATTTG-AT
* * * * *
64996947 -TTGTATATTCGACCATATAAGTAAGTACACATGTGATGTTAAATTTGAT
1 CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
64996996 CTTGCATATTCGACCATATAGGTAAACACATATATGATATTATATTTGAT
1 CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTTGAT
* *
64997046 ATTGTGTATT
1 CTTGTATATT
64997056 TGGCCAAATG
Statistics
Matches: 129, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.02
50 120 0.93
51 6 0.05
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:65005231 original size:27 final size:28
Alignment explanation
Indices: 65005201--65005273 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
65005191 CCGATTAATA
*
65005201 AAATTATCGAAATACCCCT-AACTTGTG
1 AAATTACCGAAATACCCCTCAACTTGTG
* *
65005228 AAATTACCGAAATA-CCCTCGATTTGTG
1 AAATTACCGAAATACCCCTCAACTTGTG
65005255 AAATTACCGAAATACCCCT
1 AAATTACCGAAATACCCCT
65005274 GTAGGGTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (28 bp):
AAATTACCGAAATACCCCTCAACTTGTG
Found at i:65005287 original size:27 final size:27
Alignment explanation
Indices: 65005257--65005470 Score: 286
Period size: 27 Copynumber: 7.9 Consensus size: 27
65005247 GATTTGTGAA
65005257 ATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
65005284 ATTACTGAAATACCCCTGTAGGGTAAG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
65005311 ATTACCGAAATACCTCTGTAAGGTACG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
65005338 ATTATCGAAATACCCCTAT-GTGGTAGG
1 ATTACCGAAATACCCCTGTAG-GGTAGG
65005365 ATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
*
65005392 ATTATCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
65005419 ATTACCAAAATACCACTGTAGGGCAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
65005446 ATTACCAAAATACCCTTCTAGGGTA
1 ATTACCGAAATACCCCTGTAGGGTA
65005471 AAATGATCGT
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 162 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGG
Found at i:65005288 original size:54 final size:52
Alignment explanation
Indices: 65005230--65005460 Score: 207
Period size: 54 Copynumber: 4.3 Consensus size: 52
65005220 AACTTGTGAA
65005230 ATTACCGAAATACCCTCGATTT-GTGAAATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCC-C-ATTTGGT-AAATTACCGAAATACCCCTGTAGGGTAGG
* * * * *
65005284 ATTACTGAAATACCCC-TGTAGGGTAAGATTACCGAAATACCTCTGTAAGGTACG
1 ATTACCGAAATACCCCAT-T-TGGTAA-ATTACCGAAATACCCCTGTAGGGTAGG
* * *
65005338 ATTATCGAAATACCCCTATGTGGTAGGATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCC-ATTTGGTA-AATTACCGAAATACCCCTGTAGGGTAGG
* * * * * *
65005392 ATTATCGAAATACCCC-TGTAGGGTAGGATTACCAAAATACCACTGTAGGGCAGG
1 ATTACCGAAATACCCCAT-T-TGGTA-AATTACCGAAATACCCCTGTAGGGTAGG
*
65005446 ATTACCAAAATACCC
1 ATTACCGAAATACCC
65005461 TTCTAGGGTA
Statistics
Matches: 148, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
51 1 0.01
52 2 0.01
53 3 0.02
54 141 0.95
56 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (52 bp):
ATTACCGAAATACCCCATTTGGTAAATTACCGAAATACCCCTGTAGGGTAGG
Found at i:65005488 original size:27 final size:27
Alignment explanation
Indices: 65005458--65005524 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
65005448 TACCAAAATA
*
65005458 CCCTTCTAGGGTAAAATGATCGTTTTG
1 CCCTTATAGGGTAAAATGATCGTTTTG
* * *
65005485 CCC-TAAAGAGTAAAATGATTGTTTTG
1 CCCTTATAGGGTAAAATGATCGTTTTG
*
65005511 CCCTTGT-GGGTAAA
1 CCCTTATAGGGTAAA
65005525 TGACTGACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (27 bp):
CCCTTATAGGGTAAAATGATCGTTTTG
Found at i:65005524 original size:26 final size:26
Alignment explanation
Indices: 65005465--65005514 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
65005455 ATACCCTTCT
65005465 AGGGTAAAATGATCGTTTTGCCCTAA
1 AGGGTAAAATGATCGTTTTGCCCTAA
* *
65005491 AGAGTAAAATGATTGTTTTGCCCT
1 AGGGTAAAATGATCGTTTTGCCCT
65005515 TGTGGGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (26 bp):
AGGGTAAAATGATCGTTTTGCCCTAA
Found at i:65007782 original size:31 final size:31
Alignment explanation
Indices: 65007747--65007810 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
65007737 ATGACCTAAT
*
65007747 AAATGAATGTTTTTAAACTAACTCAAAGTAC
1 AAATGAATGTTTTTAAACAAACTCAAAGTAC
65007778 AAATGAATGTTTTTAAACAAACTCAAAGTAC
1 AAATGAATGTTTTTAAACAAACTCAAAGTAC
65007809 AA
1 AA
65007811 CTATGGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (31 bp):
AAATGAATGTTTTTAAACAAACTCAAAGTAC
Found at i:65009023 original size:46 final size:46
Alignment explanation
Indices: 65008948--65009404 Score: 630
Period size: 46 Copynumber: 10.0 Consensus size: 46
65008938 TTATCTTCGA
* * * * * *
65008948 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * *** *
65008994 CAGGTTGCCATGGTATCTTCCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
65009040 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** * *
65009085 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
65009131 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
65009177 CCTGTTGCCATGGTATCTTTCAACCATGTTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
65009223 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
65009269 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
65009315 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
65009361 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
65009405 TTCAAAAAGC
Statistics
Matches: 374, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 43 0.11
46 331 0.89
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:65013317 original size:25 final size:25
Alignment explanation
Indices: 65013289--65013339 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
65013279 ATGAGTATGT
* *
65013289 ATACCTAATGCACCACAAGAGTGAA
1 ATACATAATACACCACAAGAGTGAA
65013314 ATACATAATACACCACAAGAGTGAA
1 ATACATAATACACCACAAGAGTGAA
65013339 A
1 A
65013340 CCTTTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.16
Consensus pattern (25 bp):
ATACATAATACACCACAAGAGTGAA
Found at i:65015464 original size:48 final size:48
Alignment explanation
Indices: 65015245--65015471 Score: 200
Period size: 48 Copynumber: 4.8 Consensus size: 48
65015235 GTTGTGTAAA
*
65015245 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGTA-
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-AG
**** * *
65015293 ATTTTGTGTAAAACCATAGT-TGGG-C-T---ATCGGCATCGATATGAG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGAG
* * * *
65015336 ATCCCATGTAAGACCATGTCTAGAACATGGCATTGGCATTGATCT-ACG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA-G
* ** *
65015384 ATCCTACATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAG
* * * *
65015432 ATCCCATGTAAGACCATATCCGGGATACGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
65015472 CTACTATGTT
Statistics
Matches: 137, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
42 3 0.02
43 27 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 100 0.73
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAG
Found at i:65018423 original size:41 final size:41
Alignment explanation
Indices: 65018378--65018548 Score: 263
Period size: 41 Copynumber: 4.2 Consensus size: 41
65018368 TATCTAAATC
* * *
65018378 AATGAAAAGGATGAAAAGGATGTTATTCGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* *
65018419 AATGAAAAGGTTGAAAAAGAAGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
65018460 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* * *
65018501 AATGAAAAGG-TAAAAAGGATGTTATCCAAAAAGTATAACA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
65018541 AATGAAAA
1 AATGAAAA
65018549 TGACATATTT
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 35 0.29
41 85 0.71
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.20
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
Found at i:65020432 original size:17 final size:17
Alignment explanation
Indices: 65020412--65020445 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65020402 TGTTATTAAA
*
65020412 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
65020429 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
65020446 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:65020451 original size:17 final size:17
Alignment explanation
Indices: 65020414--65020454 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
65020404 TTATTAAAGG
* **
65020414 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
65020431 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
65020448 TTAAAAT
1 TTAAAAT
65020455 AAAGCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:65021390 original size:43 final size:43
Alignment explanation
Indices: 65021300--65021467 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 43
65021290 TACCGAGAGG
* * * * *
65021300 TGATTACATGTAAGACCATGTATGGGACATTGGCATTG-TATTG
1 TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGTTA-TA
* * *
65021343 TGATTACTTGTAAGACTATGTCTAGGACATTGGCATCGTTATA
1 TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGTTATA
* * * * *
65021386 TGATTTCGTATAAGATCCTA--TCTGGGACAGTGGCATCGATACA
1 TGATTACATGTAAGA--CTATGTCTGGGACAGTGGCATCGTTATA
* * *
65021429 TGATAACATGTAAGACTCTATCTGGGACAGTGGCATCGT
1 TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGT
65021468 ACGAGTTATT
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
43 94 0.93
44 2 0.02
45 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGTTATA
Found at i:65029185 original size:206 final size:204
Alignment explanation
Indices: 65028740--65029230 Score: 752
Period size: 206 Copynumber: 2.4 Consensus size: 204
65028730 CTTCAATTCA
* * *
65028740 TTCTCTAACAATACAGAGATGACAAATCATCTTAGACTTACTTCATCGTAAGCACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGA-TTTCTTCATCGTAAACACGTGAAAGCCA
* *
65028805 AATCAGCTATGTCTTTGATTTGTTCATTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTT
65 AATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGAATGCAAAATCATCTTGGATCTGCTT
* * *
65028870 CAGCATAATCATCTAAAAGTGAGATCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCCGGA
130 CAGCATAATCATCTAAAAGTGAGACCTGCTGTGTATCTGCTCCCCATTAAAGTGGAGATGCCAGA
65028935 CTTCGATTTG
195 CTTCGATTTG
65028945 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTT-CTTCATCGTAAACACGTGAAAGCCA
* * *
65029010 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCAAAATCATCTTGGATCTTGCT
65 AATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGAATGCAAAATCATCTTGGATC-TGCT
* * * *
65029075 TCAGTC-TAATCGTCTGAAGGTCG-GACCTGCTGTGTATCTGCTCCCCATTGAAGTGGAGATGCC
129 TCAG-CATAATCATCTAAAAGT-GAGACCTGCTGTGTATCTGCTCCCCATTAAAGTGGAGATGCC
65029138 AGACTTCGATTTG
192 AGACTTCGATTTG
* *
65029151 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTTCTTCATCGTAAACACATGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAG-ATTTCTTCATCGTAAACACGTGAAAGCCA
*
65029216 AATCAGCTATATCTT
65 AATCAGCTATGTCTT
65029231 TGTTCTGCTC
Statistics
Matches: 263, Mismatches: 18, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
204 2 0.01
205 114 0.43
206 141 0.54
207 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (204 bp):
TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTCTTCATCGTAAACACGTGAAAGCCAA
ATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGAATGCAAAATCATCTTGGATCTGCTTC
AGCATAATCATCTAAAAGTGAGACCTGCTGTGTATCTGCTCCCCATTAAAGTGGAGATGCCAGAC
TTCGATTTG
Found at i:65037350 original size:15 final size:14
Alignment explanation
Indices: 65037308--65037357 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
65037298 ATGACTTTGA
*
65037308 ATGCAAATGATGTG
1 ATGCAAATGATGAG
65037322 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
65037337 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
65037351 ATGCAAA
1 ATGCAAA
65037358 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:65040283 original size:40 final size:40
Alignment explanation
Indices: 65040185--65040447 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
65040175 TCCTCGTTCA
* * * * *
65040185 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
65040224 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65040264 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65040304 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65040344 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
65040384 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
65040424 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65040448 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65047875 original size:40 final size:40
Alignment explanation
Indices: 65047777--65048039 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
65047767 TCCTCGTTCA
* * * * *
65047777 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
65047816 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65047856 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65047896 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65047936 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
65047976 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
65048016 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65048040 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65057883 original size:24 final size:24
Alignment explanation
Indices: 65057833--65057896 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
65057823 TTTGAATACC
* *
65057833 CACACGGGCTGGGACACGGGTAAA
1 CACACGGGCTGGGACACGAGCAAA
**
65057857 CACACGGGCTGGGACACGAGCGGA
1 CACACGGGCTGGGACACGAGCAAA
*
65057881 CACACGGGCTGAGACA
1 CACACGGGCTGGGACA
65057897 TAACCGTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.38, T:0.06
Consensus pattern (24 bp):
CACACGGGCTGGGACACGAGCAAA
Found at i:65057937 original size:18 final size:18
Alignment explanation
Indices: 65057914--65057952 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
65057904 GTGACCCCTA
65057914 TTTTCC-AAATTTTCATGT
1 TTTTCCAAAATTTTC-TGT
65057932 TTTTCCAAAATTTTCTGT
1 TTTTCCAAAATTTTCTGT
65057950 TTT
1 TTT
65057953 GTTTCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.21, C:0.15, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTCCAAAATTTTCTGT
Found at i:65065336 original size:16 final size:16
Alignment explanation
Indices: 65065287--65065338 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
65065277 AAACTAAGTT
*
65065287 AAATTAAT-TAAATGTA
1 AAATTAATCTAAATG-C
**
65065303 AAATTAATCCCGAATGC
1 AAATTAAT-CTAAATGC
65065320 AAATTAATCTAAATGC
1 AAATTAATCTAAATGC
65065336 AAA
1 AAA
65065339 GTATGATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 17 0.59
17 8 0.28
18 4 0.14
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (16 bp):
AAATTAATCTAAATGC
Found at i:65073382 original size:210 final size:210
Alignment explanation
Indices: 65073132--65073715 Score: 638
Period size: 210 Copynumber: 2.8 Consensus size: 210
65073122 GCAATGGGAA
* * * * *
65073132 GAAGCAACAAGCTTGCTCAATAGAATGATGAATGAAGGAGTCCATCCTGATGTTGTGACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* ** * ** *
65073197 TTCTTTAATCAATGCTTTATGCAAGGAAAAGAGGACTTCAGAAGCCTTTACTGTGTTGGAATTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
*
65073262 TGA-TACAGAGAAATGTAAAACCTAACGTTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
131 TGAGT-CAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
65073326 TTCAGGCAAATGGACG
195 TTCAGGCAAATGGACG
*
65073342 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCTTGATGTAGTAACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
65073407 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
** * * * ** * *
65073472 TGAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTG-GATTGTGCAA
131 TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAG-TTTTGCAG
** * *
65073536 TTCAGATAAACGTG-CA
195 TTCAGGCAAATG-GACG
* * * * * * * * * * * * * *
65073552 GAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGATATGGAAACTTT-AA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* * * * * * *
65073616 GATCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACT
66 -TTCTTTAATCAATGCCTTATGCAAGGAAAA-GAGGACTGAAGAAGCCATTACCATGTTGGAACT
* *
65073680 AATGAGTCAGAGAAATGTAATACCTGACATTGTCAC
129 AATGAGTCAGAGAAATGTAAAACCTAACATTGTCAC
65073716 CTACTGCTTT
Statistics
Matches: 316, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
209 3 0.01
210 308 0.97
211 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (210 bp):
GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAGT
TCAGGCAAATGGACG
Found at i:65073777 original size:210 final size:206
Alignment explanation
Indices: 65073198--65073983 Score: 634
Period size: 210 Copynumber: 3.8 Consensus size: 206
65073188 GACTTTCAAT
* * ** * ** *
65073198 TCTTTAATCAATGCTTTATGCAAGGAAAAGAGGACTTCAGAAGCCTTTACTGTGTTGGAATTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * ** * *
65073263 GA-TACAGAGAAATGTAAAACCTAACGTTGTCACATACAATTGTTTAATATAT-GAGTTTTGCAG
65 GAGT-CAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGA-TTGTGCAA
** * * * * * * * * * * *
65073326 TTCAGGCAAATG-GACGGAAGCAACAACCGTGCTCAATAGAATGATGAATGAA-GGAGTACATCT
128 TTCAGATAAACGTG-CAGAAGCCACAAGCTTG-T--ATAGTAGGATG-TTGAATGGAGTCCAGCC
* * * * *
65073389 TGATGTAGTAACTTTCAA-T
188 TGATATGGAAACCTT-AAGA
* * *
65073408 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
** *
65073473 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
*
65073538 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
130 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT---GGAGTCCAGCCTGAT
*
65073603 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* *
65073618 TCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAG-ACTGAAGAAGCCATTACCATGTTGGAACTAA
* ** * * *
65073682 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
64 TGAGTCAGAGAAATGTAAAACCTGACATTGTCACCTAC-AATTGTTTAATACGTGGATTGTGCAA
* * ** ** * *
65073746 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATG
128 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATA
*
65073811 TGGAAACCTTAAGC
193 TGGAAACCTTAAGA
* * * * *** *
65073825 TCTTTAATCAATGCTTTGTGGAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGT-GCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * * * * * *
65073890 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
* * * *
65073955 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
130 CA-GATAAACGTGCAGAAGCCACAAGCTTG
65073984 CTTAGTAAGA
Statistics
Matches: 470, Mismatches: 92, Indels: 31
0.79 0.16 0.05
Matches are distributed among these distances:
206 7 0.01
207 148 0.31
208 8 0.02
209 3 0.01
210 297 0.63
211 7 0.01
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAATG
AGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATTC
AGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:65073924 original size:207 final size:206
Alignment explanation
Indices: 65073408--65073983 Score: 629
Period size: 207 Copynumber: 2.8 Consensus size: 206
65073398 AACTTTCAAT
* * * * *
65073408 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * *
65073473 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
*
65073538 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
129 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT-G-GGAGTCCAGCCTGAT
*
65073603 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* * *
65073618 TCTTTAATCAATGCTTTGTACAAGGAAAACAAG-TATGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGAT-TGAAGAAGCCATTACCATGTTGGAACTAA
* * * *
65073682 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
65 TGAGTCAGAGAGATGTAA-ACCTGACATTGTCACCTAC-G-TTGTTTAATACATGGATTGTGCAA
* * ** ** *
65073746 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAAT-GGAGTCCAGCCTGAT
127 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGAT
* *
65073810 GTGGAAACCTTAAGC
192 ATGGAAACCTTAAGA
* * * *** *
65073825 TCTTTAATCAATGCTTTGTGGAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * *
65073890 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
* * * *
65073955 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
129 CA-GATAAACGTGCAGAAGCCACAAGCTTG
65073984 CTTAGTAAGA
Statistics
Matches: 304, Mismatches: 55, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
206 2 0.01
207 147 0.48
208 4 0.01
209 2 0.01
210 147 0.48
211 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
GAGTCAGAGAGATGTAAACCTGACATTGTCACCTACGTTGTTTAATACATGGATTGTGCAATTCA
GATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:65074165 original size:38 final size:38
Alignment explanation
Indices: 65074122--65074199 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
65074112 CGTGAAGCCG
*
65074122 AATGAATTTACTTACAGGATAATGATTGAAGCA-GTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAG-AGGTGTA
*
65074160 AATGAATTTACTTACAGGGTAATGATCGAAGAGGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAGGTGTA
65074198 AA
1 AA
65074200 GCCATTACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (38 bp):
AATGAATTTACTTACAGGATAATGATCGAAGAGGTGTA
Found at i:65076710 original size:22 final size:23
Alignment explanation
Indices: 65076685--65076744 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
65076675 TGGACTGAAT
65076685 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
65076707 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
65076729 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
65076745 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:65076712 original size:4 final size:4
Alignment explanation
Indices: 65076694--65076727 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
65076684 TATAAAAATT
65076694 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
65076728 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:65078130 original size:23 final size:22
Alignment explanation
Indices: 65078079--65078130 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
65078069 CCTCGTCTTT
*
65078079 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
65078101 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
65078124 TTCTTTT
1 TTCTTTT
65078131 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:65078139 original size:12 final size:12
Alignment explanation
Indices: 65078088--65078142 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
65078078 TTTCTTTTGT
65078088 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
65078101 -TCATTTTC-TC
1 TTCTTTTTCAAC
65078111 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
65078124 TTCTTTTTCAAT
1 TTCTTTTTCAAC
65078136 TTCTTTT
1 TTCTTTT
65078143 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:65078149 original size:17 final size:18
Alignment explanation
Indices: 65078124--65078161 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
65078114 TTTCTTCAAC
* *
65078124 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
65078141 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
65078159 TTC
1 TTC
65078162 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:65080514 original size:22 final size:23
Alignment explanation
Indices: 65080489--65080548 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
65080479 TGGACTGAAT
65080489 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
65080511 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
65080533 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
65080549 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:65080516 original size:4 final size:4
Alignment explanation
Indices: 65080498--65080531 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
65080488 TATAAAAATT
65080498 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
65080532 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:65088022 original size:19 final size:18
Alignment explanation
Indices: 65087993--65088032 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
65087983 GTATATATTT
65087993 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
65088011 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
65088030 TAA
1 TAA
65088033 GTTTTATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:65088039 original size:19 final size:19
Alignment explanation
Indices: 65087993--65088039 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
65087983 GTATATATTT
65087993 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
65088011 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
65088030 TAAGTTTTAT
1 TAAATTTTAT
65088040 CCATATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:65088115 original size:42 final size:42
Alignment explanation
Indices: 65088049--65088145 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
65088039 TCCATATTCT
* * *
65088049 AGGAA-TATTTTTATTTTATCTTTTAGTAGTTTATTAGGACAA
1 AGGAACTA-TTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
* *
65088091 GGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAATAA
1 AGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
65088133 AGGAACTATTTTC
1 AGGAACTATTTTC
65088146 CCAATTAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (42 bp):
AGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
Found at i:65091996 original size:19 final size:19
Alignment explanation
Indices: 65091950--65091997 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
65091940 GTATATATTT
65091950 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
65091968 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
65091987 TAAGTTTTATT
1 TAAATTTTATT
65091998 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:65092078 original size:42 final size:42
Alignment explanation
Indices: 65092014--65092101 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
65092004 CTAAGAATAT
* * *
65092014 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTATTTTATATTTTAATAGTTTATTAGAACAAGGGAACTA
* *
65092056 TTTTCTTTTATATTTTAATAGTTTATTAGAATAAGGGAACTA
1 TTTTATTTTATATTTTAATAGTTTATTAGAACAAGGGAACTA
65092098 TTTT
1 TTTT
65092102 TCCAATTAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.51
Consensus pattern (42 bp):
TTTTATTTTATATTTTAATAGTTTATTAGAACAAGGGAACTA
Found at i:65093396 original size:19 final size:19
Alignment explanation
Indices: 65093372--65093408 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
65093362 TATTTTAAAG
65093372 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
65093391 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
65093409 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:65093495 original size:41 final size:41
Alignment explanation
Indices: 65093450--65093529 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
65093440 ATATTTTATT
*
65093450 TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
*
65093491 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTT
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTT
65093530 TCCAATTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
Found at i:65097233 original size:19 final size:19
Alignment explanation
Indices: 65097209--65097249 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
65097199 TATTTTAAAG
65097209 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
65097228 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
65097247 TTA
1 TTA
65097250 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:65097342 original size:40 final size:40
Alignment explanation
Indices: 65097298--65097375 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
65097288 TATCTTTTAA
65097298 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
1 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
65097338 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
1 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
65097376 CCAATTAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (40 bp):
ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
Found at i:65106023 original size:18 final size:18
Alignment explanation
Indices: 65106000--65106035 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
65105990 ACAACTACTC
65106000 TATTTAACATATAAAACA
1 TATTTAACATATAAAACA
65106018 TATTTAACATATAAAACA
1 TATTTAACATATAAAACA
65106036 AAGGTCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
TATTTAACATATAAAACA
Found at i:65123198 original size:153 final size:154
Alignment explanation
Indices: 65122887--65123197 Score: 436
Period size: 153 Copynumber: 2.0 Consensus size: 154
65122877 ATTTTTCTTT
*
65122887 AAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGCTGAAAAAGATCAAAAC
1 AAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAGATCAAAAC
65122952 TTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTCAAAA
66 TTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTCAAAA
* ****
65123017 TCTAAAATTTCTATTCTTTTTTTA
131 TATAAAATTTCTATTCTTAAAATA
* * *
65123041 AAAAAAATCACTATTTTTCTTAAAAATCAAAA-TTTATTTTAAAATAGTTGAAAAAGATCAAAAC
1 AAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAGATCAAAAC
* * *
65123105 TTTGTTTTAAGAA-TTTAAACTTTTCCTTTAATATGACT-AAAAAACATATTTTTATTTT-ACAA
66 TTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTCA-AA
* *
65123167 ATATAAACTTTCT-TT-TTAAAAAA
130 ATATAAAATTTCTATTCTTAAAATA
65123190 AATAAAAA
1 AA-AAAAA
65123198 ATTTTCCCAA
Statistics
Matches: 141, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
149 5 0.04
150 8 0.06
151 33 0.23
152 23 0.16
153 41 0.29
154 31 0.22
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (154 bp):
AAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAGATCAAAAC
TTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTCAAAA
TATAAAATTTCTATTCTTAAAATA
Found at i:65124060 original size:42 final size:42
Alignment explanation
Indices: 65124004--65124385 Score: 405
Period size: 42 Copynumber: 9.2 Consensus size: 42
65123994 CTTCATATAC
* *
65124004 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * **
65124046 AATGCAATGGAAAGTAAATGAACCTCCACACCTGGGTTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
65124088 AATGCAATGAAAAATAAATGAAAACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATG--GACCTCCACACCTGGGCCTCTA
* * *
65124132 ACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * ** *
65124174 AATGCAATGAAAAGTAAATGGAACTCCACACTTAAGCCTCGA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
65124216 AATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCGCT-
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* ** *
65124257 -ATGCAATGAAACGTAAATGGACCTTTACACTTGGG---CTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * * *
65124295 AATGCAATAAAAAATAAATGGACTTCTACGCTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * ** *
65124337 AATGTAATGAAAAGTGAATGGACCTCCACACCAAGACCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
65124379 AATGCAA
1 AATGCAA
65124386 CGAAGGTTTT
Statistics
Matches: 282, Mismatches: 51, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
37 2 0.01
39 29 0.10
40 30 0.11
42 183 0.65
44 38 0.13
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:65124234 original size:128 final size:125
Alignment explanation
Indices: 65124005--65124316 Score: 366
Period size: 128 Copynumber: 2.5 Consensus size: 125
65123995 TTCATATACA
* *
65124005 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTAAATGCAATGGAAAGTAAAT-GAAC
1 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGAAC
** ** * * *
65124069 CTCCACACCTGGGTTTCTAAATGCAATGAAAAATAAATGAAAACCTCCACACCTGGGTCTCT
66 CTCCACACCTAAGCCTCGAAATGCAATGAAAAATAAATG--AACCTCCACACCTGGGCCGCT
* * *
65124131 AACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
1 -A-TGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
* *
65124196 A-CTCCACACTTAAGCCTCGAAATGCAAT-AAAAAGTAAATGGACCTCCACACCTGGGCCGCT
64 ACCTCCACACCTAAGCCTCGAAATGCAATGAAAAA-TAAATGAACCTCCACACCTGGGCCGCT
* ** * *
65124257 ATGCAATGAAACGTAAATGGACCTTTACACTTGGG---CTAAATGCAATAAAAAATAAATGGA
1 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
65124317 CTTCTACGCT
Statistics
Matches: 160, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
121 23 0.14
124 28 0.17
125 1 0.01
126 18 0.11
127 6 0.04
128 81 0.51
129 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (125 bp):
ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGAAC
CTCCACACCTAAGCCTCGAAATGCAATGAAAAATAAATGAACCTCCACACCTGGGCCGCT
Found at i:65124313 original size:39 final size:39
Alignment explanation
Indices: 65124213--65124331 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 39
65124203 ACTTAAGCCT
** *
65124213 CGAAATGCAATAAAAAGTAAATGGACCTCCACACCTGGG
1 CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
** * *
65124252 CCGCTATGCAATGAAACGTAAATGGACCTTTACACTTGGG
1 -CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
* * *
65124292 CTAAATGCAATAAAAAATAAATGGA-CTTCTACGCTTGGG
1 CGAAATGCAATAAAAAGTAAATGGACCTT-TACACTTGGG
65124331 C
1 C
65124332 CTCTAAATGT
Statistics
Matches: 64, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
38 3 0.05
39 29 0.45
40 32 0.50
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (39 bp):
CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
Found at i:65124828 original size:21 final size:20
Alignment explanation
Indices: 65124777--65124854 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
65124767 TCTTTATTAT
* *
65124777 TTTTTTCTTTCTTTTCTTTTG
1 TTTTTTGTTTTTTTTC-TTTG
*
65124798 TTTTTGGTTTTTTTTCTTTG
1 TTTTTTGTTTTTTTTCTTTG
65124818 TTTTATTGTTTTTTCTTTCTTT-
1 TTTT-TTG-TTTTT-TTTCTTTG
*
65124840 TTTTGTGTTTTTTTT
1 TTTTTTGTTTTTTTT
65124855 ATTTAGGCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.06
20 13 0.27
21 17 0.35
22 9 0.18
23 7 0.14
ACGTcount: A:0.01, C:0.08, G:0.09, T:0.82
Consensus pattern (20 bp):
TTTTTTGTTTTTTTTCTTTG
Found at i:65130203 original size:27 final size:28
Alignment explanation
Indices: 65130166--65130305 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
65130156 AGCATGGCTG
* *
65130166 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
65130192 CCAGATACAGATA-ATTGTGGCAGAGCCA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
65130220 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
65130247 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
65130274 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
65130301 CCAGA
1 CCAGA
65130306 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:65131960 original size:26 final size:26
Alignment explanation
Indices: 65131924--65132007 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
65131914 CATGAAATTC
*
65131924 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
65131950 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
65131976 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
65132002 TTATCA
1 TTATCA
65132008 ATTTGTACCA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 54 0.96
27 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:65135749 original size:3 final size:3
Alignment explanation
Indices: 65135741--65135770 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
65135731 ATTTGATCTT
65135741 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
65135771 ACGTTGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:65136281 original size:15 final size:15
Alignment explanation
Indices: 65136254--65136294 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
65136244 AAATGAAAAG
65136254 TAATAAAATAGGGAAA
1 TAATAAAA-AGGGAAA
*
65136270 TAATGAAAAGGGAAA
1 TAATAAAAAGGGAAA
65136285 TAATAAAAAG
1 TAATAAAAAG
65136295 AAAACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
TAATAAAAAGGGAAA
Found at i:65137759 original size:47 final size:48
Alignment explanation
Indices: 65137708--65137814 Score: 126
Period size: 48 Copynumber: 2.2 Consensus size: 48
65137698 GACCTATAGA
* ** *
65137708 CAAATCGAGGTAACTTATC-CCGGAGTAACTATACCATGGTCCGTACC
1 CAAATCAAGGTAACTTATCTCCAAAATAACTATACCATGGTCCGTACC
* * * * *
65137755 CAAATCAAGGTATCTTCTCTCCAAAATACCTATACCATGGTCGGTAGC
1 CAAATCAAGGTAACTTATCTCCAAAATAACTATACCATGGTCCGTACC
65137803 CAAATCAAGGTA
1 CAAATCAAGGTA
65137815 TTACTTATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
47 16 0.32
48 34 0.68
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (48 bp):
CAAATCAAGGTAACTTATCTCCAAAATAACTATACCATGGTCCGTACC
Found at i:65139231 original size:10 final size:10
Alignment explanation
Indices: 65139208--65139237 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
65139198 TAGACATGAA
65139208 AATAAATAAAG
1 AATAAAT-AAG
65139219 AATAAATAAG
1 AATAAATAAG
65139229 AATAAATAA
1 AATAAATAA
65139238 AAATTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (10 bp):
AATAAATAAG
Found at i:65139454 original size:40 final size:41
Alignment explanation
Indices: 65139399--65139479 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
65139389 TGAAAAGATA
65139399 AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
1 AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
*
65139440 AAAAA-TGTGGAAGACAGAAGACTGATGTAGCAATTAATTT
1 AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
65139480 GCTTTTAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAACTGTGGAAGACAGAAGACTAATGTAGCAATTAATTT
Found at i:65150368 original size:45 final size:41
Alignment explanation
Indices: 65150284--65150373 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 41
65150274 TCATTTTCAT
*
65150284 TTCCATTTCCATTTCGAGAAAACCACATTAATTTCTAAATG
1 TTCCATTTCCATTTCGAGAAAACCACAATAATTTCTAAATG
* *
65150325 ATTCCATTTCTCCATTTCGAGGAAAACCATAATCA-TTCTTAAATG
1 -TTCCA-TT-TCCATTTCGA-GAAAACCACAATAATTTC-TAAATG
65150370 TTCC
1 TTCC
65150374 CCACTTCTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
42 5 0.12
43 2 0.05
44 17 0.41
45 17 0.41
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (41 bp):
TTCCATTTCCATTTCGAGAAAACCACAATAATTTCTAAATG
Found at i:65152690 original size:18 final size:18
Alignment explanation
Indices: 65152667--65152708 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
65152657 AATACTTGAG
* *
65152667 TAAATTGGAATTAAAATT
1 TAAATTAGAAATAAAATT
65152685 TAAATTAGAAATAAAATT
1 TAAATTAGAAATAAAATT
*
65152703 TCAATT
1 TAAATT
65152709 TTGATAACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAATTAGAAATAAAATT
Found at i:65156305 original size:2 final size:2
Alignment explanation
Indices: 65156298--65156325 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
65156288 CTAGAAGTTT
65156298 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65156326 GTTGTAGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65158735 original size:19 final size:19
Alignment explanation
Indices: 65158711--65158809 Score: 123
Period size: 19 Copynumber: 5.2 Consensus size: 19
65158701 AATCTTTAAG
65158711 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65158730 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
65158749 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
65158766 GATATG-ATATGATATGATAT
1 GATATGCA-ATCTTA-GATAT
65158786 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
65158807 GAT
1 GAT
65158810 TTTATAATCT
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
17 17 0.24
18 1 0.01
19 28 0.40
20 14 0.20
21 9 0.13
22 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:65158769 original size:5 final size:5
Alignment explanation
Indices: 65158761--65158791 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
65158751 TATAATCTTA
65158761 GATAT GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT GATAT G
65158792 CAATCTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:65158806 original size:36 final size:39
Alignment explanation
Indices: 65158711--65158809 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 39
65158701 AATCTTTAAG
*
65158711 GATATGCAATCTT--AGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTGAAGATATGATATG-AATCATAGATAT
*
65158749 GATAT--AATCTT--AGATATGATATGATATGATATGATAT
1 GATATGCAATCTTGAAGATATGATATGA-ATCATA-GATAT
65158786 GATATGCAATCTTGAAGATATGAT
1 GATATGCAATCTTGAAGATATGAT
65158810 TTTATAATCT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
35 1 0.02
36 22 0.42
37 10 0.19
38 5 0.09
39 6 0.11
41 9 0.17
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (39 bp):
GATATGCAATCTTGAAGATATGATATGAATCATAGATAT
Found at i:65159181 original size:19 final size:19
Alignment explanation
Indices: 65159157--65159200 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
65159147 TTAATCTTTT
* *
65159157 TATATAGTTTATTTTCAAA
1 TATATAGTTTATATGCAAA
* *
65159176 TATATATTTTCTATGCAAA
1 TATATAGTTTATATGCAAA
65159195 TATATA
1 TATATA
65159201 TTATATTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.50
Consensus pattern (19 bp):
TATATAGTTTATATGCAAA
Found at i:65161398 original size:27 final size:27
Alignment explanation
Indices: 65161366--65161581 Score: 301
Period size: 27 Copynumber: 8.0 Consensus size: 27
65161356 AAAGTACTCC
65161366 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
65161393 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
65161420 -TAGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
65161447 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
65161474 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
65161501 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
65161528 CGATTTTTAAAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
65161555 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
65161582 TGTAGCGACG
Statistics
Matches: 166, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:65161466 original size:81 final size:82
Alignment explanation
Indices: 65161366--65161582 Score: 332
Period size: 81 Copynumber: 2.7 Consensus size: 82
65161356 AAAGTACTCC
* *
65161366 CGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTTAG-TTTACAG
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAGATTTACAG
*
65161430 AATTACTGTTTTACCCT
66 AATTACTATTTTACCCT
* *
65161447 C-AGTTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCC-TCGATTTACA
1 CGA-TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAGATTTACA
65161510 GAATTACTATTTTACCCT
65 GAATTACTATTTTACCCT
* * *
65161528 CGATTTTTAAAATTACCGTTTTACCTTCGATTTACAGAATTACCGTTTTACCCTT
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTT
65161583 GTAGCGACGT
Statistics
Matches: 123, Mismatches: 9, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
80 3 0.02
81 118 0.96
82 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (82 bp):
CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAGATTTACAG
AATTACTATTTTACCCT
Found at i:65162727 original size:21 final size:20
Alignment explanation
Indices: 65162701--65162773 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
65162691 ACATATATGT
65162701 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
*
65162722 ATAATAATAGCGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
65162744 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
65162764 GTAACAATAT
1 ATAATAATAT
65162774 TAGTAATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.26
21 25 0.58
22 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:65164026 original size:27 final size:27
Alignment explanation
Indices: 65163988--65164397 Score: 403
Period size: 27 Copynumber: 15.2 Consensus size: 27
65163978 GCCTACTATA
*
65163988 ACCCTCAGTTTACAGAATTGCCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
65164015 ACCCTCAGTTTACAGAATTACCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
65164042 ACCCTC-GATTTATAGAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* *
65164069 ACCCTCGATTTTTA-A-AATTACTGTTTT
1 ACCCTC-A-GTTTACAGAATTACCGTTTT
* *
65164096 ACCCT-TGATTTATAGAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* *
65164123 ACCCTCAGTTTATAGAATTACTGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
* *
65164150 ACCCTC-GATTTATATAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* **
65164177 ACCCTCAGTTTACAAAATTACTATTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
65164204 ACCCTC-GATTTACAGAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* * *
65164231 ACCCTCAGCTTACAGAATTACTGCTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
65164258 ACCCTC-GATTTACAAAATTACCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
* *
65164285 ACCCTCGATTTGTA-A-AATTATCGTTTT
1 ACCCTC-AGTT-TACAGAATTACCGTTTT
* *
65164312 ACCCT-TGATTTACAGAATTACTAG-TTT
1 ACCCTCAG-TTTACAGAATTAC-CGTTTT
* * *
65164339 ACCTTCAGTTTACAAAATTATCGTTTT
1 ACCCTCAGTTTACAGAATTACCGTTTT
*
65164366 ACCCTC-GATTTACAGAATTATCGTTTT
1 ACCCTCAG-TTTACAGAATTACCGTTTT
65164393 ACCCT
1 ACCCT
65164398 TGATTGTGCA
Statistics
Matches: 322, Mismatches: 38, Indels: 46
0.79 0.09 0.11
Matches are distributed among these distances:
25 6 0.02
26 10 0.03
27 291 0.90
28 9 0.03
29 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
ACCCTCAGTTTACAGAATTACCGTTTT
Found at i:65164059 original size:54 final size:54
Alignment explanation
Indices: 65163988--65164397 Score: 512
Period size: 54 Copynumber: 7.6 Consensus size: 54
65163978 GCCTACTATA
* *
65163988 ACCCTC-AGTTTACAGAATTGCCGTTTTACCCTCAGTTTACAGAATTACCGTTTT
1 ACCCTCGA-TTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* *
65164042 ACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTA-A-AATTACTGTTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTC-A-GTTTACAGAATTACTGTTTT
* * *
65164096 ACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTATAGAATTACTGTTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* * * *
65164150 ACCCTCGATTTATATAATTACCGTTTTACCCTCAGTTTACAAAATTACTATTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* *
65164204 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGCTTACAGAATTACTGCTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
* *
65164258 ACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTGTA-A-AATTA-TCGTTTT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACT-GTTTT
* * * *
65164312 ACCCTTGATTTACAGAATTACTAG-TTTACCTTCAGTTTACAAAATTA-TCGTTTT
1 ACCCTCGATTTACAGAATTAC-CGTTTTACCCTCAGTTTACAGAATTACT-GTTTT
*
65164366 ACCCTCGATTTACAGAATTATCGTTTTACCCT
1 ACCCTCGATTTACAGAATTACCGTTTTACCCT
65164398 TGATTGTGCA
Statistics
Matches: 314, Mismatches: 30, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
52 6 0.02
53 8 0.03
54 287 0.91
55 7 0.02
56 6 0.02
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (54 bp):
ACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTTT
Found at i:65164123 original size:81 final size:82
Alignment explanation
Indices: 65164010--65164402 Score: 462
Period size: 81 Copynumber: 4.9 Consensus size: 82
65164000 CAGAATTGCC
*
65164010 GTTTTACCC-TCAGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 GTTTTACCCTTCAGTTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
*
65164074 CGATTTTTAAAATTACT
66 CGATTTATAAAATTACT
* * * *
65164091 GTTTTACCCTTGA-TTTATAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCC
1 GTTTTACCCTTCAGTTTACAAAATTACCGTTTTACCCTCGA-TTTATAGAATTACCGTTTTACCC
* *
65164154 TCGATTTATATAATTACC
65 TCGATTTATAAAATTACT
** *
65164172 GTTTTACCC-TCAGTTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 GTTTTACCCTTCAGTTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
* * *
65164236 C-AGCTTACAGAATTACT
66 CGA-TTTATAAAATTACT
* * * *
65164253 GCTTTACCC-TC-GATTTACAAAATTACCGTTTTACCCTCGATTTGTAAAATTATCGTTTTACCC
1 GTTTTACCCTTCAG-TTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCC
* * *
65164316 TTGATTTACAGAATTACT
65 TCGATTTATAAAATTACT
* * *
65164334 AG-TTTA-CCTTCAGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCC
1 -GTTTTACCCTTCAGTTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCC
*
65164397 TTGATT
65 TCGATT
65164403 GTGCAATTAC
Statistics
Matches: 272, Mismatches: 30, Indels: 20
0.84 0.09 0.06
Matches are distributed among these distances:
80 7 0.03
81 259 0.95
82 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (82 bp):
GTTTTACCCTTCAGTTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
CGATTTATAAAATTACT
Found at i:65164437 original size:27 final size:27
Alignment explanation
Indices: 65164407--65164602 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
65164397 TTGATTGTGC
*
65164407 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65164434 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
65164461 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65164488 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
65164515 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
65164542 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
65164569 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
65164596 AATTACC
1 AATTACC
65164603 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:65164839 original size:27 final size:26
Alignment explanation
Indices: 65164801--65164883 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
65164791 CGGAGGAAGC
*
65164801 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
65164828 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
65164854 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
65164881 GTT
1 GTT
65164884 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:65165240 original size:27 final size:26
Alignment explanation
Indices: 65165194--65165267 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
65165184 TAGGTGGGTT
* * *
65165194 TGCCACATTATCTAATTCTGGTGGCTC
1 TGCCACAATATCT-GTTCTGGTGACTC
65165221 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
65165248 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
65165268 CAGCCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:65165394 original size:6 final size:6
Alignment explanation
Indices: 65165385--65165566 Score: 108
Period size: 6 Copynumber: 29.8 Consensus size: 6
65165375 TTGCATTCAC
* * *
65165385 ATTCTG ATTCTG ATTCT- ATCACGTA ATTCTG ATTCTG ACTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * **
65165434 -TTACTA ATACTG ATTCTA ATTCTG ATTCTG -TCACCAA ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * * *
65165483 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTTTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
65165532 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
65165567 CATTTTGGTT
Statistics
Matches: 134, Mismatches: 25, Indels: 34
0.69 0.13 0.18
Matches are distributed among these distances:
5 11 0.08
6 109 0.81
7 9 0.07
8 5 0.04
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:65165413 original size:25 final size:25
Alignment explanation
Indices: 65165385--65165512 Score: 87
Period size: 25 Copynumber: 4.7 Consensus size: 25
65165375 TTGCATTCAC
*
65165385 ATTCTGATTCTGATTCTATCACGTA
1 ATTCTGATTCTGATTCTATCACCTA
*
65165410 ATTCTGATTCTGACTCTGATTCTGTTA-CTA
1 ATTCTGATTCTGATTCT-A-TC----ACCTA
* * *
65165440 ATACTGATTCTAATTCTGATTCTGTCACCAA
1 ATTCTGATTC----T--GATTCTATCACCTA
*
65165471 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTATCACCTA
65165496 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
65165513 GATTTTGTTA
Statistics
Matches: 82, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
25 46 0.56
26 1 0.01
27 3 0.04
30 12 0.15
31 12 0.15
34 3 0.04
36 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTA
Found at i:65165513 original size:25 final size:25
Alignment explanation
Indices: 65165446--65165513 Score: 118
Period size: 25 Copynumber: 2.7 Consensus size: 25
65165436 ACTAATACTG
*
65165446 ATTCTAATTCTGATTCTGTCACCAA
1 ATTCTGATTCTGATTCTGTCACCAA
*
65165471 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCAA
65165496 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
65165514 ATTTTGTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCAA
Found at i:65165534 original size:86 final size:86
Alignment explanation
Indices: 65165385--65165543 Score: 264
Period size: 86 Copynumber: 1.8 Consensus size: 86
65165375 TTGCATTCAC
*
65165385 ATTCTGATTCTGATTCTATCACGTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
65165450 TAATTCTGATTCTGTCACCAA
66 TAATTCTGATTCTGTCACCAA
* * * *
65165471 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTTTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
*
65165536 TGATTCTG
66 TAATTCTG
65165544 TTACTGATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.46
Consensus pattern (86 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGACTCTGATTCTGTTACTAATACTGATTC
TAATTCTGATTCTGTCACCAA
Found at i:65168243 original size:15 final size:15
Alignment explanation
Indices: 65168223--65168254 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
65168213 CGAGGAAAAG
*
65168223 AGAAAATTCCGGAAT
1 AGAAAATTCCAGAAT
65168238 AGAAAATTCCAGAAT
1 AGAAAATTCCAGAAT
65168253 AG
1 AG
65168255 TTCCAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (15 bp):
AGAAAATTCCAGAAT
Found at i:65168658 original size:39 final size:38
Alignment explanation
Indices: 65168614--65168714 Score: 157
Period size: 39 Copynumber: 2.6 Consensus size: 38
65168604 GCTCTAATGA
65168614 GCTTCAGTAAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGT-AGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
65168653 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
65168692 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAG-TAGCCTTCGGGCTTC
65168715 AGATCACGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 56 0.98
40 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.36
Consensus pattern (38 bp):
GCTTCAGTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:65168696 original size:21 final size:21
Alignment explanation
Indices: 65168632--65168696 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
65168622 AAGCCTTCGG
65168632 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
65168653 GCTTCAG-TTAGC-CTT-CGA
1 GCTTCCGTTTAGCACTTATGT
65168671 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
65168692 GCTTC
1 GCTTC
65168697 AGCTAGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:65178493 original size:3 final size:3
Alignment explanation
Indices: 65178485--65178540 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
65178475 ATAAAAATAC
* *
65178485 AAT AAT AAT AAT AAT -AT ATT AAAT AACA AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AA-T AAT AAT AAT AAT AAT AAT
*
65178531 GAT AAT AAT A
1 AAT AAT AAT A
65178541 TAGAAATATG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 38 0.86
4 4 0.09
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:65178537 original size:28 final size:28
Alignment explanation
Indices: 65178485--65178538 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
65178475 ATAAAAATAC
*
65178485 AATAATAATAATAATATATTAAATAACA
1 AATAATAATAATAATATATGAAATAACA
65178513 AATAATAATAATAATA-ATGATAATAA
1 AATAATAATAATAATATATGA-AATAA
65178539 TATAGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
AATAATAATAATAATATATGAAATAACA
Found at i:65178856 original size:3 final size:3
Alignment explanation
Indices: 65178835--65178872 Score: 51
Period size: 3 Copynumber: 12.3 Consensus size: 3
65178825 ATACTAAGGC
65178835 TAA TAAA TAA TAA GT-A TAA TAA TAA TAA TAA TAA TAA T
1 TAA T-AA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA T
65178873 GAAATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 1 0.03
3 27 0.84
4 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:65185596 original size:26 final size:26
Alignment explanation
Indices: 65185567--65185616 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
65185557 TGATATATAT
65185567 AAATATTA-ATGTTTTTACTATTTGAA
1 AAATATTATAT-TTTTTACTATTTGAA
*
65185593 AAATATTATATTTTTTTCTATTTG
1 AAATATTATATTTTTTACTATTTG
65185617 TTTGTCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (26 bp):
AAATATTATATTTTTTACTATTTGAA
Found at i:65187671 original size:30 final size:30
Alignment explanation
Indices: 65187637--65187699 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
65187627 ACTTATTTTA
65187637 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
65187667 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
65187697 TTG
1 TTG
65187700 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:65187843 original size:12 final size:12
Alignment explanation
Indices: 65187822--65187855 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
65187812 TATATTTTTT
*
65187822 AAAATTATATAA
1 AAAATAATATAA
65187834 AAAATAATATAA
1 AAAATAATATAA
*
65187846 AAATTAATAT
1 AAAATAATAT
65187856 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:65188578 original size:21 final size:21
Alignment explanation
Indices: 65188543--65188592 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
65188533 AAATTAAATT
*
65188543 TAATATTTTTCATAA-AGATAAA
1 TAATA-TTATCATAAGA-ATAAA
65188565 TAATATTATCATAAGAATAAA
1 TAATATTATCATAAGAATAAA
*
65188586 TATTATT
1 TAATATT
65188593 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATATTATCATAAGAATAAA
Found at i:65191314 original size:194 final size:194
Alignment explanation
Indices: 65190971--65191492 Score: 624
Period size: 194 Copynumber: 2.7 Consensus size: 194
65190961 TTAAATATTG
* *
65190971 TTTCTCAAAATTAATACAGCTATAAA-ATATAATGTAAAAACCATTTCAACGTGGTTTCGTGGTG
1 TTTCTCAAAATTAATA-AGCTATAAATATA-AATGTAAAAGCTA-TT--ACGTGGTTTCGTGGTG
65191035 TAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCGGGCGAAGCCATCC
61 TAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCGGGCGAAGCCATCC
* * *** *
65191100 ATGA-AGAATAAATGTTGTTTCATTTTTAAT-A-ATAAAAGAAAATTTTTGGTTTTTTGCACATT
126 AT-ACAGAATAAATGTTGTTTCATTTTTAATAACAAAAAAAAAAAAAATTGG-TTTCTGCACATT
*
65191162 TTGCTACA
189 TTACT--A
*
65191170 TTTCTCAAAATTAATAAAGCTATAAATATAAATGTAAAAGCTATT-C-TGGTTTTGTGGTGTAGT
1 TTTCTCAAAATTAAT-AAGCTATAAATATAAATGTAAAAGCTATTACGTGGTTTCGTGGTGTAGT
*
65191233 TGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCAGTTCGAGTCCGGGCGAAGCCATCCATAC
65 TGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCGGGCGAAGCCATCCATAC
*** *
65191298 AGAATGTGTTTTGTTTCATTTTTAATAACCAAAAAAAAAAAAAATTGGTTTCTGCACATTTTACT
130 AGAATAAATGTTGTTTCATTTTTAATAA-CAAAAAAAAAAAAAATTGGTTTCTGCACATTTTACT
65191363 A
194 A
* * *
65191364 -TT-T----A--CAT-AGCTATAAATAAAAATGTAAAATGCTTTTCAACGTGGTTTCGTGGTGTA
1 TTTCTCAAAATTAATAAGCTATAAATATAAATGTAAAA-GCTATT--ACGTGGTTTCGTGGTGTA
* *
65191420 GTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCAAGTCCGCGCGAAGCCATCCAT
63 GTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCGGGCGAAGCCATCCAT
*
65191485 GCAGAATA
128 ACAGAATA
65191493 TCACAAAAAA
Statistics
Matches: 288, Mismatches: 24, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
184 21 0.07
185 5 0.02
186 2 0.01
188 2 0.01
189 82 0.28
192 1 0.00
193 3 0.01
194 101 0.35
195 2 0.01
196 15 0.05
197 13 0.05
198 2 0.01
199 35 0.12
200 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (194 bp):
TTTCTCAAAATTAATAAGCTATAAATATAAATGTAAAAGCTATTACGTGGTTTCGTGGTGTAGTT
GGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCGGGCGAAGCCATCCATACA
GAATAAATGTTGTTTCATTTTTAATAACAAAAAAAAAAAAAATTGGTTTCTGCACATTTTACTA
Found at i:65192743 original size:19 final size:20
Alignment explanation
Indices: 65192721--65192768 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
65192711 TATTTAAATT
65192721 TTTTATTTAT-A-TATTTTAA
1 TTTTATTTATGAGTATTTT-A
65192740 TTTTA-TTATGAGTATTTTA
1 TTTTATTTATGAGTATTTTA
*
65192759 TTATATTTAT
1 TTTTATTTAT
65192769 TTTATATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTATGAGTATTTTA
Found at i:65192830 original size:22 final size:22
Alignment explanation
Indices: 65192805--65192848 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
65192795 TCTAATTGAG
65192805 TTGGTGTCATGAGTGCTAAGAA
1 TTGGTGTCATGAGTGCTAAGAA
65192827 TTGGTGTCATGAGTGCTAAGAA
1 TTGGTGTCATGAGTGCTAAGAA
65192849 CCAATCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (22 bp):
TTGGTGTCATGAGTGCTAAGAA
Found at i:65202549 original size:21 final size:22
Alignment explanation
Indices: 65202524--65202587 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
65202514 AGAAAACATA
65202524 AAAAT-AAAA-AAAATATTTTTT
1 AAAATGAAAATAAAA-ATTTTTT
*
65202545 AAAATGAAAATTATAAATTTTTT
1 AAAATGAAAA-TAAAAATTTTTT
*
65202568 AAAA--AATATAAACAATTTTT
1 AAAATGAAAATAAA-AATTTTT
65202588 AACCAGATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 15 0.42
22 4 0.11
23 11 0.31
24 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATGAAAATAAAAATTTTTT
Found at i:65212623 original size:18 final size:18
Alignment explanation
Indices: 65212580--65212623 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
65212570 AGTGAAATTT
*
65212580 ATATGAAAATCCCTGAAGA
1 ATAT-AAAATCCCAGAAGA
* *
65212599 ATTTAAAATCCCAGAAGG
1 ATATAAAATCCCAGAAGA
65212617 ATATAAA
1 ATATAAA
65212624 GTTTCTCGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGA
Found at i:65219982 original size:20 final size:20
Alignment explanation
Indices: 65219957--65220009 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
65219947 GGAATATCCT
65219957 CTTCATTTTCCTTTTTTCAC
1 CTTCATTTTCCTTTTTTCAC
* *
65219977 CTTCATTTTCTTTTTTTCCC
1 CTTCATTTTCCTTTTTTCAC
65219997 CTTCATTTTCCTT
1 CTTCATTTTCCTT
65220010 GACTTTCATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (20 bp):
CTTCATTTTCCTTTTTTCAC
Found at i:65225047 original size:43 final size:43
Alignment explanation
Indices: 65224923--65225082 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
65224913 TTATGTGTTA
* *
65224923 TCATGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGATT
* *
65224966 TACGTGTAAGACCATGCCTGGGACATTGGCATCG-TATTTGATT
1 T-CATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * *
65225009 TCATGTAAGACCCTGTCTGGGACAGTGTCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * **
65225052 ACATGTAAGACAATGTCTGGGATGTTGGCAT
1 TCATGTAAGACCATGTCTGGGACATTGGCAT
65225083 TGTATGAGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 29 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
Found at i:65234048 original size:8 final size:7
Alignment explanation
Indices: 65234017--65234044 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
65234007 CTCGAATTCG
65234017 TAAAAAA
1 TAAAAAA
65234024 TAAAAAA
1 TAAAAAA
65234031 TAAAAAA
1 TAAAAAA
65234038 TAAAAAA
1 TAAAAAA
65234045 ATAACATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:65238279 original size:17 final size:18
Alignment explanation
Indices: 65238247--65238281 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
65238237 AGGTTTAGGT
*
65238247 TTAAAATTTTTTAATTAA
1 TTAAAATTTTTAAATTAA
65238265 TTAAAA-TTTTAAATTAA
1 TTAAAATTTTTAAATTAA
65238282 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAATTTTTAAATTAA
Found at i:65240610 original size:20 final size:20
Alignment explanation
Indices: 65240554--65240614 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
65240544 CCTAAACTTA
* *
65240554 AAACCTAAA-CTTGTAGCCAT
1 AAACCTAAACCTTG-AACCCT
65240574 AAACCATAAACCCTTGAACCCT
1 AAACC-TAAA-CCTTGAACCCT
65240596 AAACCTAAACCTTGAACCC
1 AAACCTAAACCTTGAACCC
65240615 CCAAATCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 15 0.42
21 8 0.22
22 9 0.25
23 4 0.11
ACGTcount: A:0.41, C:0.33, G:0.07, T:0.20
Consensus pattern (20 bp):
AAACCTAAACCTTGAACCCT
Found at i:65240708 original size:21 final size:21
Alignment explanation
Indices: 65240675--65240714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65240665 ACCTTAAACA
*
65240675 TTAAGATTTAGGGCTCAAGGT
1 TTAAGATTCAGGGCTCAAGGT
* *
65240696 TTAAGGTTCAGGGTTCAAG
1 TTAAGATTCAGGGCTCAAG
65240715 TTCAAGTCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (21 bp):
TTAAGATTCAGGGCTCAAGGT
Found at i:65245799 original size:4 final size:4
Alignment explanation
Indices: 65245790--65245814 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
65245780 AGATTTTTAC
65245790 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
65245815 CGAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:65246495 original size:44 final size:44
Alignment explanation
Indices: 65246441--65246538 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
65246431 GGTTTAGGAA
* *
65246441 TTGTCACTTCGATCCAATCCATTGCAACTTCAGGGAGATAAGAC
1 TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
* * *
65246485 TTGTAGCTTCGATCCACTTCACTGCAACTTCAGGGAGATAAGAC
1 TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
65246529 TTGTAACTTC
1 TTGTAACTTC
65246539 AATCTGCTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
Found at i:65246661 original size:88 final size:88
Alignment explanation
Indices: 65246504--65246886 Score: 200
Period size: 89 Copynumber: 4.3 Consensus size: 88
65246494 CGATCCACTT
* * * *** *
65246504 CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCGCTGCTACTTCAGGGAGATG
1 CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
65246569 AGATTTGTGTCTTCAATTTGCTC
66 AGATTTGTGTCTTCAATTTGCTC
* *
65246592 CACTGCAACCTCAGGGAGATAA-AATGTGTAGCTGT-AATTTGC-TCTGCTGCAACTTCAAAAAG
1 CACTGCAACCTCAGGGAGATAAGAAT-TGTAACT-TCAATCTGCTTC-GCTGCAACTTCAAAAAG
* * * ** *
65246654 ATAAGATTTGTTATTTTTAACCTGCTT
63 ATAAGATTTG-TGTCTTCAATTTGCTC
** * ** * * * **
65246681 CACTGCAATTTTAGGGAGATAAGGTTTG-AGTCTTTAATCTG-TTCCACTGCAACTTCAAGGAGA
1 CACTGCAACCTCAGGGAGATAAGAATTGTA-ACTTCAATCTGCTT-CGCTGCAACTTCAAAAAGA
*
65246744 TAAGATTTGTAGCCCGTCTTCAATCTGCTC
64 TAAGATTTGT-----GTCTTCAATTTGCTC
* * * * * * * * * * * ***
65246774 TACTGCAACTTCAGGGTGATTAGACTTGTAGCTTAAATCTGCTCCACTACAACTTTAGGGAGATA
1 CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
* ** *
65246839 AGATTTGCTATCTTTGATTTACTC
66 AGATTTG-TGTCTTCAATTTGCTC
* * *
65246863 TACTGCAACTTCAGTGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGA
65246887 TTTTCTATCT
Statistics
Matches: 227, Mismatches: 51, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
87 4 0.02
88 58 0.26
89 95 0.42
90 2 0.01
93 65 0.29
94 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (88 bp):
CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
AGATTTGTGTCTTCAATTTGCTC
Found at i:65246779 original size:49 final size:45
Alignment explanation
Indices: 65246458--65246937 Score: 323
Period size: 44 Copynumber: 10.7 Consensus size: 45
65246448 TTCGATCCAA
* * ** **
65246458 TCCATTGCAACTTCAGGGAGATAAGACTTGTAG-CTTCGATCCAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCTTAAATCTGC
* * * *
65246502 TTCACTGCAACTTCAGGGAGATAAGACTTGTA-ACTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCTTAAATCTGC
* * * * * *
65246546 TTCGCTGCTACTTCAGGGAGATGAGATTTGT-GTCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCTTAAATCTGC
* * * *
65246590 TCCACTGCAACCTCAGGGAGATAAAATGTGTAG-CTGT-AATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCT-TAAATCTGC
** *** * * *
65246634 TCTGCTGCAACTTCAAAAAGATAAGATTTGTTA-TTTTTAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAGTCTTAAATCTGC
* * * * * *
65246679 TTCACTGCAATTTTAGGGAGATAAGGTTTG-AGTCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCTTAAATCTGC
* *
65246723 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCCGTCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTA----GTCTTAAATCTGC
* * * *
65246772 TCTACTGCAACTTCAGGGTGATTAGACTTGTAG-CTTAAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCTTAAATCTGC
* * ** * *
65246816 TCCACTACAACTTTAGGGAGATAAGATTTGCTA-TCTTTGATTTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAGTCTTAAATCTGC
* * * ** * *
65246861 TCTACTGCAACTTCAGTGAGATAAGATTTTCTA-TCTTCGATTTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGTCTTAAATCTGC
* *
65246906 TCCACTGCAACTTCAAGGAGATAAGACTTGTA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTA
65246938 ACACCCCCTA
Statistics
Matches: 345, Mismatches: 75, Indels: 32
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.00
44 203 0.59
45 100 0.29
46 3 0.01
49 38 0.11
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAGTCTTAAATCTGC
Found at i:65248071 original size:42 final size:42
Alignment explanation
Indices: 65248024--65248128 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
65248014 TATGACACAC
65248024 AAGTGCCTGAAACGACACACGAGGTG-CTTGATACGACACATA
1 AAGTGCCTGAAACGACACACGAGGTGTC-TGATACGACACATA
*
65248066 AAGTGCCTGAAACGACACATGAGGTGTCTGATACGACACATA
1 AAGTGCCTGAAACGACACACGAGGTGTCTGATACGACACATA
65248108 AAGTGCCTGATATACGACACA
1 AAGTGCCTGA-A-ACGACACA
65248129 TAAAGTGTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
42 49 0.83
43 2 0.03
44 8 0.14
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (42 bp):
AAGTGCCTGAAACGACACACGAGGTGTCTGATACGACACATA
Found at i:65248126 original size:23 final size:22
Alignment explanation
Indices: 65248024--65248135 Score: 124
Period size: 21 Copynumber: 5.2 Consensus size: 22
65248014 TATGACACAC
**
65248024 AAGTGCCTGAA-ACGACACACG
1 AAGTGCCTGAATACGACACATA
* *
65248045 AGGTGCTTG-ATACGACACATA
1 AAGTGCCTGAATACGACACATA
*
65248066 AAGTGCCTGAA-ACGACACATG
1 AAGTGCCTGAATACGACACATA
* *
65248087 AGGTGTCTG-ATACGACACATA
1 AAGTGCCTGAATACGACACATA
65248108 AAGTGCCTGATATACGACACATA
1 AAGTGCCTGA-ATACGACACATA
65248131 AAGTG
1 AAGTG
65248136 TCTATTGGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
20 2 0.03
21 54 0.73
22 1 0.01
23 17 0.23
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (22 bp):
AAGTGCCTGAATACGACACATA
Found at i:65250018 original size:89 final size:88
Alignment explanation
Indices: 65249850--65250584 Score: 563
Period size: 89 Copynumber: 8.3 Consensus size: 88
65249840 AATCGGTTCT
* * ** * *
65249850 ACTGCAACTTCAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAA-TCTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCCACTGCAACT-TCAGGGAGAT
* * *
65249914 AAGACTTGTGA-CTTCAACCTGCTTC
64 AAGATTTAT-ATCTTCAATCTGCTTC
* * * ** *
65249939 ACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCTACTTTACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
65250004 TATTTACTATCTTCAATCTACTCC
66 GATTTA-TATCTTCAATCTGCTTC
* * * * *
65250028 ACTACATCTTCAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
65250093 GGTTTATAGT-TTTAATCTACTTT
66 GATTTATA-TCTTCAATCTGCTTC
* * * * **
65250116 ACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
65250181 AGACTTGTA-AT-TTCAACCTCCTCC
65 AGA-TT-TATATCTTCAATCTGCTTC
* * * ** *
65250205 ACTACAACTTTAGGGAGATAAGGA-TTATAGCTTTAATCTGCTTTACTGCAACTTCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAA-GATTTATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
65250269 AGATTTGCTATCTTCAGTTTG-TTCC
65 AGATTT-ATATCTTCAATCTGCTT-C
* * * * * *
65250294 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
65250359 TATTTGTTATCTTCAATCTGC-TC
66 GATTT-ATATCTTCAATCTGCTTC
* * * *
65250382 TACTGTAACTTCAGGGAGATAAGACTTATAA-TTTCAACCTGCTCCACTGCAACTTCAGCGAGAT
1 -ACTGCAACTTCAGGGAGATAAGATTTATAACTTT-AATCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
65250446 AAGGTTTATAGCTTTAATCTTC-TC
64 AAGATTTATATCTTCAATCTGCTTC
* ** * * * * * * * *
65250470 TTCTGCAACTTCAAAGAGACAAGATTTGCTATCTTCAGTCTACTCCACTGCAATTTCAGGGAGAC
1 -ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
* ** * *
65250535 AAGATTTGTGGCTTTAATCTGCTCC
64 AAGATTTATATCTTCAATCTGCTTC
65250560 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
65250585 CACCATGATG
Statistics
Matches: 514, Mismatches: 113, Indels: 38
0.77 0.17 0.06
Matches are distributed among these distances:
86 1 0.00
87 2 0.00
88 146 0.28
89 355 0.69
90 8 0.02
91 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTTATATCTTCAATCTGCTTC
Found at i:65250041 original size:133 final size:133
Alignment explanation
Indices: 65249849--65250582 Score: 648
Period size: 133 Copynumber: 5.5 Consensus size: 133
65249839 TAATCGGTTC
* * * * * *
65249849 TACTGCAACTTCAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAATC-TCAGGGAGA
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGC-ATCTTCAGGGAGA
* * *
65249913 TAAGACTTGTGACTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCT
65 TAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCT
65249978 ACTT
130 ACTT
* * *
65249982 TACTGCAACTTCAGAGAGATAATATTTACTATCTTCAATCTACTCCACTACATCTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * *
65250047 AAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTA
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
65250112 CTT
131 CTT
* * * * *
65250115 TACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * * * *
65250180 AAGACTTGTAATTTCAACCTCCTCCACTACAACTTTAGGGAGATAAGGATTATAGCTTTAATCTG
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
65250245 CTT
131 CTT
* * ** * * * *
65250248 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTTTGTTCCACTGGAACTTCAGGTAGAC
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * * * * * * * ** * * *
65250313 AAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAATATTTGTTATCTTCAATCT
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTT-ATAGCTTTAATCT
* *
65250378 GCTC
130 ACTT
* * * * * * * *
65250382 TACTGTAACTTCAGGGAGATAAGACTT-ATAAT-TTCAACCTGCTCCACTGCAACTTCAGCGAGA
1 TACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTTCAATCTACTCCACTGCATCTTCAGGGAGA
** * * * * * ** * ** * * * * * *
65250445 TAAGGTTTATAGCTTTAATCTTCTCTTCTGCAACTTCAAAGAGACAAGATTTGCTATCTTCAGTC
65 TAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTT-ATAGCTTTAATC
*
65250510 TACTC
129 TACTT
* * * * ** * * *
65250515 CACTGCAATTTCAGGGAGACAAGATTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
65250579 AAGA
66 AAGA
65250583 TTCACCATGA
Statistics
Matches: 507, Mismatches: 89, Indels: 10
0.84 0.15 0.02
Matches are distributed among these distances:
132 3 0.01
133 465 0.92
134 39 0.08
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (133 bp):
TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
CTT
Found at i:65250225 original size:222 final size:222
Alignment explanation
Indices: 65249850--65250584 Score: 841
Period size: 222 Copynumber: 3.3 Consensus size: 222
65249840 AATCGGTTCT
* * * ** *
65249850 ACTGCAACTTCAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAA-TCTCAGGGAGAT
1 ACTGCAACTTCAGGGAGACAAGATTT-ATAGCTTTAATCTACTCCACTGCAACT-TCAGGGAGAT
* * * * * ** *
65249914 AAGACTTGTGA-CTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTATAACTTT-AATC
64 AAGATTTGTTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAA-TTTCAACC
** * * * * * * *
65249977 TACTTTACTGCAACTTCAGAGAGATAATATTTACTATCTTCAATCTACTCCACTACATCTTCAGG
128 TACTCCACTGCAACTTCAGAGAGATAAGATTTA-TAGCTTTAATCTACTCTACTGCAACTTCAGA
* **
65250042 GAGATAAGATTTG-TAACTTCAACCTGCTCC
192 GAGATAAGATTTGCTATCTTCAGTCTGCTCC
* * * ** * *
65250072 ACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTACTTTACTGCAGCTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* * *
65250137 GATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTCC
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAATTTCAACCTAC
* * * * *
65250202 TCCACTACAACTTTAGGGAGATAAGGA-TTATAGCTTTAATCTGCTTTACTGCAACTTCAGAGAG
131 TCCACTGCAACTTCAGAGAGATAA-GATTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAG
* *
65250266 ATAAGATTTGCTATCTTCAGTTTGTTCC
195 ATAAGATTTGCTATCTTCAGTCTGCTCC
* * *
65250294 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * *
65250359 TATTTGTTATCTTCAATCTGCTCTACTGTAACTTCAGGGAGATAAGACTTATAATTTCAACCTGC
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAATTTCAACCTAC
* * * * *
65250424 TCCACTGCAACTTCAGCGAGATAAGGTTTATAGCTTTAATCTTCTCTTCTGCAACTTCAAAGAGA
131 TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGA
* *
65250489 CAAGATTTGCTATCTTCAGTCTACTCC
196 TAAGATTTGCTATCTTCAGTCTGCTCC
* * * *
65250516 ACTGCAATTTCAGGGAGACAAGATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
65250581 GATT
66 GATT
65250585 CACCATGATG
Statistics
Matches: 434, Mismatches: 73, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
221 77 0.18
222 356 0.82
223 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (222 bp):
ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
GATTTGTTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAATTTCAACCTAC
TCCACTGCAACTTCAGAGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGAGAGA
TAAGATTTGCTATCTTCAGTCTGCTCC
Found at i:65250455 original size:44 final size:44
Alignment explanation
Indices: 65249850--65250584 Score: 536
Period size: 44 Copynumber: 16.6 Consensus size: 44
65249840 AATCGGTTCT
* * * * * *
65249850 ACTGCAACTTCAGGGAAATAAGATTTCCTATTTTTAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAATTTCAATCTGCTCC
* * * * * *
65249895 ACTGCAA-TCTCAGGGAGATAAGACTTGTGACTTCAACCTGCTTC
1 ACTGCAACT-TCAGGGAGATAAGATTTATAATTTCAATCTGCTCC
* * * **
65249939 ACTGCAACTTTAGGGAGATAAGGTTTATAACTTT-AATCTACTTT
1 ACTGCAACTTCAGGGAGATAAGATTTATAA-TTTCAATCTGCTCC
* * *
65249983 ACTGCAACTTCAGAGAGATAATATTTACT-ATCTTCAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTTA-TAAT-TTCAATCTGCTCC
* * * * *
65250028 ACTACATCTTCAGGGAGATAAGATTTGTAACTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTATAATTTCAATCTGCTCC
* * * * **
65250072 ACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTACTTT
1 ACTGCAACTTCAGGGAGATAAGATTTATAATTTCAATCTGCTCC
* * * * *
65250116 ACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTATAAT-TTCAATCTGCTCC
* * * *
65250161 ACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTCCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTATAATTTCAATCTGCTCC
* * * **
65250205 ACTACAACTTTAGGGAGATAAGGA-TTATAGCTTT-AATCTGCTTT
1 ACTGCAACTTCAGGGAGATAA-GATTTATA-ATTTCAATCTGCTCC
* * * * *
65250249 ACTGCAACTTCAGAGAGATAAGATTTGCT-ATCTTCAGTTTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAAT-TTCAATCTGCTCC
* * * * * *
65250294 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTT-AATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTATA-ATTTCAATCTGCTCC
* * * *
65250338 ACTGCAACTTCAGGGAGATAATATTTGTTATCTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTATAAT-TTCAATCTGCTCC
* * *
65250383 ACTGTAACTTCAGGGAGATAAGACTTATAATTTCAACCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTATAATTTCAATCTGCTCC
* * * * *
65250427 ACTGCAACTTCAGCGAGATAAGGTTTATAGCTTT-AATCTTCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTATA-ATTTCAATCTGCTCC
* ** * * * *
65250471 TCTGCAACTTCAAAGAGACAAGATTTGCT-ATCTTCAGTCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAAT-TTCAATCTGCTCC
* * * **
65250516 ACTGCAATTTCAGGGAGACAAGATTTGTGGCTTT-AATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTAT-AATTTCAATCTGCTCC
65250560 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
65250585 CACCATGATG
Statistics
Matches: 531, Mismatches: 135, Indels: 49
0.74 0.19 0.07
Matches are distributed among these distances:
43 6 0.01
44 326 0.61
45 197 0.37
46 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTATAATTTCAATCTGCTCC
Found at i:65251483 original size:5 final size:5
Alignment explanation
Indices: 65251473--65251509 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
65251463 CCTCTCACTT
65251473 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
65251510 GCTCTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.26
5 23 0.74
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:65260643 original size:50 final size:50
Alignment explanation
Indices: 65260523--65260707 Score: 237
Period size: 50 Copynumber: 3.7 Consensus size: 50
65260513 CTGGTATGCA
*
65260523 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
* * * *
65260572 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
* * * * * * *
65260622 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-TTATCCGGTACACG
*
65260673 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTA
65260708 GCTACATATA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 31 0.27
50 46 0.40
51 39 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
Found at i:65260725 original size:101 final size:99
Alignment explanation
Indices: 65260523--65260707 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
65260513 CTGGTATGCA
* * *
65260523 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
65260588 GTACTACACACGTGACCTAACTATCTGATACACG
66 GTACTACACACGCGACCTAACTATCTGATACACG
* * * *
65260622 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAATACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
65260687 TAGTACTACACATGCGACCTA
64 TAGTACTACACACGCGACCTA
65260708 GCTACATATA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAATACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACTATCTGATACACG
Found at i:65264503 original size:22 final size:22
Alignment explanation
Indices: 65264478--65264521 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
65264468 TTTTCATATA
65264478 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
65264500 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
65264522 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:65264557 original size:13 final size:13
Alignment explanation
Indices: 65264541--65264566 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65264531 TTTCAATTTT
65264541 ATTTTAAAAATAA
1 ATTTTAAAAATAA
65264554 ATTTTAAAAATAA
1 ATTTTAAAAATAA
65264567 TAATATTATT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTTAAAAATAA
Found at i:65264624 original size:15 final size:15
Alignment explanation
Indices: 65264604--65264660 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
65264594 ATTCAATATT
65264604 AATATTTTAATAATA
1 AATATTTTAATAATA
*
65264619 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
65264638 AATATATTAATAATA
1 AATATTTTAATAATA
65264653 AATATTTT
1 AATATTTT
65264661 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:65265101 original size:14 final size:14
Alignment explanation
Indices: 65265082--65265120 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
65265072 CTAAAAAAGT
65265082 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
65265096 AAATTATTTTTCGA
1 AAATTATTTTTCAA
65265110 AAATTATTTTT
1 AAATTATTTTT
65265121 AATGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:65271643 original size:25 final size:26
Alignment explanation
Indices: 65271592--65271694 Score: 69
Period size: 25 Copynumber: 4.2 Consensus size: 26
65271582 TATAACTGGT
*
65271592 AGCTCC-GAATAGCCAT-TAATCGAGA
1 AGCTCCAGAATAGCCATAT-ATCGGGA
65271617 AGCTCCAG-ATAGCCATATATCGGGA
1 AGCTCCAGAATAGCCATATATCGGGA
* * *
65271642 AGTTCAAGCA-AGCC--ATATCGGGA
1 AGCTCCAGAATAGCCATATATCGGGA
* * *
65271665 AGCTCTA-AAGAGCCA-ATTAACGGGA
1 AGCTCCAGAATAGCCATA-TATCGGGA
65271690 AGCTC
1 AGCTC
65271695 ACGAAGAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
22 1 0.02
23 18 0.28
24 1 0.02
25 42 0.65
26 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
AGCTCCAGAATAGCCATATATCGGGA
Found at i:65271706 original size:25 final size:23
Alignment explanation
Indices: 65271652--65271726 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 23
65271642 AGTTCAAGCA
*
65271652 AGCC-ATATCGGGAAGCTCTAAAG
1 AGCCAATAACGGGAAGCTC-AAAG
65271675 AGCCAATTAACGGGAAGCTCACGAAG
1 AGCCAA-TAACGGGAAGCTCA--AAG
* *
65271701 AG-CAATAACAGGACGCTCATAAG
1 AGCCAATAACGGGAAGCTCA-AAG
65271724 AGC
1 AGC
65271727 TAAGGTGTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
23 9 0.21
24 14 0.33
25 15 0.35
26 5 0.12
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.13
Consensus pattern (23 bp):
AGCCAATAACGGGAAGCTCAAAG
Found at i:65271718 original size:24 final size:26
Alignment explanation
Indices: 65271672--65271719 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
65271662 GGAAGCTCTA
*
65271672 AAGAGCCAATTAACGGGAAGCTCACG
1 AAGAGCCAATTAACAGGAAGCTCACG
*
65271698 AAGAG-CAA-TAACAGGACGCTCA
1 AAGAGCCAATTAACAGGAAGCTCA
65271720 TAAGAGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 3 0.15
26 5 0.25
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (26 bp):
AAGAGCCAATTAACAGGAAGCTCACG
Found at i:65276727 original size:18 final size:18
Alignment explanation
Indices: 65276704--65276764 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
65276694 GCAGTTGAAT
*
65276704 AACTCAATTTCTAGTATA
1 AACTCAATTTCCAGTATA
65276722 AACTCAATTTCCAGTATA
1 AACTCAATTTCCAGTATA
*
65276740 AACTCAATTTCCAGCATA
1 AACTCAATTTCCAGTATA
*
65276758 GACTCAA
1 AACTCAA
65276765 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (18 bp):
AACTCAATTTCCAGTATA
Found at i:65277553 original size:15 final size:15
Alignment explanation
Indices: 65277535--65277564 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65277525 AAATTTTAAT
*
65277535 TTTTTATAGTTTATA
1 TTTTTATAATTTATA
65277550 TTTTTATAATTTATA
1 TTTTTATAATTTATA
65277565 AAAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:65278078 original size:27 final size:27
Alignment explanation
Indices: 65278040--65278097 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
65278030 CATTTTGAGC
* *
65278040 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
65278067 TTCTCTAACTCCAATCTCACCCTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
65278094 TTCT
1 TTCT
65278098 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.40, G:0.02, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCACCCTCTCA
Found at i:65279836 original size:3 final size:3
Alignment explanation
Indices: 65279830--65279854 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65279820 GATGATGGTT
65279830 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
65279855 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Done.