Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 164 of 410
Found at i:50040153 original size:80 final size:81
Alignment explanation
Indices: 50040020--50040210 Score: 235
Period size: 80 Copynumber: 2.4 Consensus size: 81
50040010 TATAACCACA
* *
50040020 TGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAATGCCTTCGGGTATTAG
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAATGCCTTCGGGTATTAA
50040084 CCCAGATTTAACAACT
66 CCCAGATTTAACAACT
* * * *
50040100 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAATTGCCTTCGGGTCTTA
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAATGCCTTCGGGTATTA
* *
50040163 ACCCGGATTTAACTACT
65 ACCCAGATTTAACAACT
* ** * *
50040180 AGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT
50040211 ATCATTTAAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 91 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (81 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAATGCCTTCGGGTATTAA
CCCAGATTTAACAACT
Found at i:50045629 original size:231 final size:231
Alignment explanation
Indices: 50045212--50045655 Score: 518
Period size: 230 Copynumber: 1.9 Consensus size: 231
50045202 TGGGGGAGTT
* * * *
50045212 TGATCTGTCATAATTTGGTGTAGCAGATTAAACTAGTTTTCACATTTCAGAAGCTTGAATACGAG
1 TGATCTGTCATAATTTGATGTAGCAGATTAAACTAGTTTTCACATTTAAGAAGCATGAATACAAG
* * * **
50045277 CACTTTAGTTGGAATTTAGTTATGTTTTCGTACATTTATTTAAATTCAATAAATTATGTTATTCG
66 CACTTTAGTTGGAATTTAGTCAAGTTTTCGTACATTTATTTAAATTCAATAAAATATGAAATTCG
* * ** * * * * *
50045342 AGTCTTTATTGACCTTAGGGGTTGAATGAGGCCTAAGGGTGAGCTAATATACTTTATGAGTGTGT
131 AGTCTTTATTAAACTTAGGGGCCGAATGAGGCCCAAGAGTGAGCTAACACACTTTATGAGTGTGC
* *
50045407 AGGAGAACATTAGAAGGCGCATTAACTCAATACTGG
196 AAGAGAACACTAGAAGGCGCATTAACTCAATACTGG
* * * *
50045443 TGATCTTTCATAATTT-ATGTAGCAGATTAAACTAGTTTTCGCATTTAAGGAGCATGAATGCAAG
1 TGATCTGTCATAATTTGATGTAGCAGATTAAACTAGTTTTCACATTTAAGAAGCATGAATACAAG
* * * * * * *
50045507 CATTTTTGTTATG-TTTTAGTCAAGTTTTCTTA-ATTTTATTTACATTCAATAAAATGTGAAAAT
66 CACTTTAGTT-GGAATTTAGTCAAGTTTTCGTACA-TTTATTTAAATTCAATAAAATATG-AAAT
* *
50045570 T-GAGTCCTTTATTAAACTTAGGGGCCGAATGAGGCCCAAGAGTGAGCTAACGCACTTTATGGGT
128 TCGAGT-CTTTATTAAACTTAGGGGCCGAATGAGGCCCAAGAGTGAGCTAACACACTTTATGAGT
*
50045634 GTGCAAGAGACCACTAGAAGGC
192 GTGCAAGAGAACACTAGAAGGC
50045656 ATCTTAAACA
Statistics
Matches: 175, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
229 1 0.01
230 89 0.51
231 85 0.49
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (231 bp):
TGATCTGTCATAATTTGATGTAGCAGATTAAACTAGTTTTCACATTTAAGAAGCATGAATACAAG
CACTTTAGTTGGAATTTAGTCAAGTTTTCGTACATTTATTTAAATTCAATAAAATATGAAATTCG
AGTCTTTATTAAACTTAGGGGCCGAATGAGGCCCAAGAGTGAGCTAACACACTTTATGAGTGTGC
AAGAGAACACTAGAAGGCGCATTAACTCAATACTGG
Found at i:50048542 original size:17 final size:16
Alignment explanation
Indices: 50048499--50048555 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
50048489 TAATCACTTT
50048499 AATATTAAATT-AATA
1 AATATTAAATTAAATA
50048514 AA-A-TACAATTAAGATA
1 AATATTA-AATTAA-ATA
*
50048530 AATATTAAATTAAATTT
1 AATATTAAATTAAA-TA
50048547 AATATTAAA
1 AATATTAAA
50048556 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 2 0.06
14 5 0.14
15 3 0.09
16 6 0.17
17 17 0.49
18 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
AATATTAAATTAAATA
Found at i:50057053 original size:49 final size:50
Alignment explanation
Indices: 50056923--50057055 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 50
50056913 ATCTATTGTG
* * * **
50056923 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTGCGTGTATGAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACGAGATAATT
* * *
50056973 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCG-GATAATT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTA-CGAGATAATT
* *
50057023 -GGTTGCATGTGTAGTACTATGTGCAGGCTACTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
50057056 TGCGTACCAG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 28 0.41
50 40 0.58
51 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACGAGATAATT
Found at i:50060077 original size:15 final size:15
Alignment explanation
Indices: 50060057--50060118 Score: 81
Period size: 15 Copynumber: 4.1 Consensus size: 15
50060047 TATCGTATAT
*
50060057 TGGGTTTCTTTACTC
1 TGGGTTTCTTTATTC
50060072 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
*
50060087 TGGGTTTCTCTA-TC
1 TGGGTTTCTTTATTC
*
50060101 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
50060117 TG
1 TG
50060119 TTTTCTTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
14 2 0.05
15 37 0.90
16 2 0.05
ACGTcount: A:0.08, C:0.16, G:0.19, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:50060091 original size:30 final size:30
Alignment explanation
Indices: 50060057--50060118 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
50060047 TATCGTATAT
* *
50060057 TGGGTTTCTTTA-CTCTGGGTTTCTTTATTC
1 TGGGTTTCTCTATCT-TGGATTTCTTTATTC
50060087 TGGGTTTCTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
50060117 TG
1 TG
50060119 TTTTCTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.08, C:0.16, G:0.19, T:0.56
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:50063439 original size:40 final size:39
Alignment explanation
Indices: 50063279--50063441 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
50063269 TGTGTATGAA
*
50063279 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
50063318 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
50063357 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
50063396 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
50063436 TGTGCG
1 TGTGCG
50063442 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:50063457 original size:40 final size:39
Alignment explanation
Indices: 50063279--50063472 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
50063269 TGTGTATGAA
* *
50063279 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
50063318 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
50063357 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
50063396 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
50063436 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
50063473 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:50071363 original size:40 final size:39
Alignment explanation
Indices: 50071203--50071365 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
50071193 TGTGTATGAA
*
50071203 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
50071242 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
50071281 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
50071320 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
50071360 TGTGCG
1 TGTGCG
50071366 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:50071381 original size:40 final size:39
Alignment explanation
Indices: 50071203--50071396 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
50071193 TGTGTATGAA
* *
50071203 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
50071242 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
50071281 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
50071320 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
50071360 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
50071397 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:50081034 original size:29 final size:29
Alignment explanation
Indices: 50081002--50081166 Score: 172
Period size: 29 Copynumber: 5.7 Consensus size: 29
50080992 ATACCCTTCG
** * *
50081002 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * * *
50081031 AGCTTGCACACATGGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
50081060 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
* *
50081089 AGCACGCACACTTAGTGCTATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
50081118 AG-TATGCACACTTAGTGCCATATATTTCC
1 AGCT-CGCACACTTAGTGCCATATATTTCC
*
50081147 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
50081167 ATCTCGTCAC
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
29 112 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:50081069 original size:58 final size:58
Alignment explanation
Indices: 50081015--50081164 Score: 194
Period size: 58 Copynumber: 2.6 Consensus size: 58
50081005 TCGCACACCC
* * ** * *
50081015 AGTGCCGTATTTTTCCAGCTTGCACACATGGTG-TCATATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACATAGTGCT-ATATATTTCCAGCATGCACACTT
* * *
50081073 AGTGCCTTATATTTCCAGCACGCACACTTAGTGCTATATATTTCCAGTATGCACACTT
1 AGTGCCATATATTTCCAGCACGCACACATAGTGCTATATATTTCCAGCATGCACACTT
*
50081131 AGTGCCATATATTTCCAGCACGCACACTTAGTGC
1 AGTGCCATATATTTCCAGCACGCACACATAGTGC
50081165 CAATCTCGTC
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 81 0.99
59 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (58 bp):
AGTGCCATATATTTCCAGCACGCACACATAGTGCTATATATTTCCAGCATGCACACTT
Found at i:50081078 original size:87 final size:87
Alignment explanation
Indices: 50080977--50081166 Score: 202
Period size: 87 Copynumber: 2.2 Consensus size: 87
50080967 AATTTAAGCC
** * * * * *
50080977 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT-TGCACA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAG-TATGCACA
* * *
50081041 CATGGTGTCATATTTTTCCAGCA
65 CATAGTGCCATATATTTCCAGCA
* * * * ** *
50081064 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCTATATATTTCCAGTATGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGTATGCACAC
*
50081129 TTAGTGCCATATATTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
50081151 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50081167 ATCTCGTCAC
Statistics
Matches: 82, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
86 1 0.01
87 81 0.99
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGTATGCACAC
ATAGTGCCATATATTTCCAGCA
Found at i:50084244 original size:13 final size:13
Alignment explanation
Indices: 50084226--50084260 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
50084216 CGGCTAACTT
50084226 ACATAATTAAATA
1 ACATAATTAAATA
50084239 ACATAATTAAATA
1 ACATAATTAAATA
*
50084252 AAATAATTA
1 ACATAATTA
50084261 TTCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:50084521 original size:20 final size:21
Alignment explanation
Indices: 50084484--50084529 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
50084474 GAGCTGAAAT
50084484 GAGCTAAACTCAAGCTCAAGC
1 GAGCTAAACTCAAGCTCAAGC
* *
50084505 GAGCTAAA-TCGAGCTCAAGT
1 GAGCTAAACTCAAGCTCAAGC
50084525 GAGCT
1 GAGCT
50084530 GATGGAAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (21 bp):
GAGCTAAACTCAAGCTCAAGC
Found at i:50089798 original size:68 final size:66
Alignment explanation
Indices: 50089726--50089897 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
50089716 CATCATGTGT
* * * *
50089726 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
50089789 TGTAG
62 TGTAG
** * *
50089794 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
50089859 AG
65 AG
* * * *
50089861 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
50089898 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:50089831 original size:64 final size:64
Alignment explanation
Indices: 50089750--50089933 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
50089740 AGACATTATG
* * *
50089750 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
50089814 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
50089879 AA
63 AA
* * *
50089881 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
50089934 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:50094220 original size:68 final size:66
Alignment explanation
Indices: 50094148--50094319 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
50094138 CATCATGTGT
* * * *
50094148 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
50094211 TGTAG
62 TGTAG
** * *
50094216 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
50094281 AG
65 AG
* * * *
50094283 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
50094320 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:50094253 original size:64 final size:64
Alignment explanation
Indices: 50094172--50094355 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
50094162 AGACATTATG
* * *
50094172 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
50094236 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
50094301 AA
63 AA
* * *
50094303 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
50094356 AGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:50095441 original size:2 final size:2
Alignment explanation
Indices: 50095434--50095462 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50095424 TCATGACATG
50095434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50095463 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50098417 original size:40 final size:40
Alignment explanation
Indices: 50098362--50098478 Score: 180
Period size: 40 Copynumber: 2.9 Consensus size: 40
50098352 TGGAAAAAAA
*
50098362 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATT
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATT
*
50098402 ATAACCAGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATT
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATT
* * * *
50098442 ATAATCGGGTTAAGTACCGAAGGCATTTGTGCTGGTT
1 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTT
50098479 GTTACATCCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (40 bp):
ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCAGGTTATT
Found at i:50100287 original size:46 final size:47
Alignment explanation
Indices: 50100220--50100391 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 47
50100210 TGTAACCCGC
* * *
50100220 CCATAAGTTAACTCGAACTCAACTCAACGAGCTCGAG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
* *
50100266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC--GTTCGCAT
* * *
50100316 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
* *
50100359 CCATAAGTGAACTCAGACTCAACTCAACAAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
50100392 TAGATGCCCA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 55 0.53
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
Found at i:50100398 original size:93 final size:93
Alignment explanation
Indices: 50100229--50100399 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
50100219 CCCATAAGTT
*
50100229 AACTCGAACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGAACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
* *
50100294 GAGTTCGGATGCCTAGTTACATTTCACG
66 AAGTTCAGATGCCTAGTTACATTTCACG
* *
50100322 AACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 AACTCGAACTCAACTCAACGAGCTCGAG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
50100386 CAAGTTTAGATGCC
65 CAAGTTCAGATGCC
50100400 CAAATATCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCGAACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
AAGTTCAGATGCCTAGTTACATTTCACG
Found at i:50101869 original size:105 final size:105
Alignment explanation
Indices: 50101742--50101957 Score: 414
Period size: 105 Copynumber: 2.1 Consensus size: 105
50101732 TTGTGCTAGA
50101742 CTGTGTAACTCACTGATTTGAACCTAAAGAAACCTTGAGATGACACACGGCCGTGTCACCAAGCC
1 CTGTGTAACTCACTGATTTGAACCTAAAGAAACCTTGAGATGACACACGGCCGTGTCACCAAGCC
50101807 GTGTGTCTCACACGACTGAGTCACACGCTCGTGTCTTAGG
66 GTGTGTCTCACACGACTGAGTCACACGCTCGTGTCTTAGG
*
50101847 CTGTGTAACTCACTGATTTGAACCTAAAGAAACCTTGGGATGACACACGGCCGTGTCACCAAGCC
1 CTGTGTAACTCACTGATTTGAACCTAAAGAAACCTTGAGATGACACACGGCCGTGTCACCAAGCC
50101912 GTGTGTCTCACACGACTGAGTCACACGCTCGTGTCTTAGG
66 GTGTGTCTCACACGACTGAGTCACACGCTCGTGTCTTAGG
*
50101952 CCGTGT
1 CTGTGT
50101958 GGAACCAAAA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 109 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (105 bp):
CTGTGTAACTCACTGATTTGAACCTAAAGAAACCTTGAGATGACACACGGCCGTGTCACCAAGCC
GTGTGTCTCACACGACTGAGTCACACGCTCGTGTCTTAGG
Found at i:50103869 original size:40 final size:41
Alignment explanation
Indices: 50103821--50103930 Score: 168
Period size: 42 Copynumber: 2.7 Consensus size: 41
50103811 CTAAGACTAT
* *
50103821 GTGTAAGACCTTATCTGGGATATGGCATC-TATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCATAAGAGACTTC
*
50103861 GTGTAAGACCATATCTAGGATATGGCATCGATAAGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATC-ATAAGAGACTTC
*
50103903 GTGTAAGACCATATATGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
50103931 TGGTATGGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 27 0.43
42 36 0.57
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCATAAGAGACTTC
Found at i:50104128 original size:15 final size:16
Alignment explanation
Indices: 50104102--50104131 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50104092 ATGAACCCTC
50104102 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
50104118 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
50104132 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:50110449 original size:8 final size:8
Alignment explanation
Indices: 50110436--50110460 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50110426 GAGAACTTTG
50110436 AAAAAAAT
1 AAAAAAAT
50110444 AAAAAAAT
1 AAAAAAAT
50110452 AAAAAAAT
1 AAAAAAAT
50110460 A
1 A
50110461 TGATCCATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:50111038 original size:16 final size:17
Alignment explanation
Indices: 50111019--50111050 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50111009 AATAAATAAC
50111019 TAAAAGAAAA-GAAAAA
1 TAAAAGAAAATGAAAAA
50111035 TAAAAGAAAATGAAAA
1 TAAAAGAAAATGAAAA
50111051 TATTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
TAAAAGAAAATGAAAAA
Found at i:50111085 original size:3 final size:3
Alignment explanation
Indices: 50111077--50111136 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
50111067 TTAAGAAATG
* * * *
50111077 ATA ATA ATA ATA ATA ATA ACA ACA ATA ATA ATA ATA AGA ATT ATA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
50111126 A-A ATA ATA ATA
1 ATA ATA ATA ATA
50111137 TAAATTTTGG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:50111219 original size:11 final size:11
Alignment explanation
Indices: 50111203--50111228 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50111193 AAACAAATCT
50111203 AAAATAAAATA
1 AAAATAAAATA
50111214 AAAATAAAATA
1 AAAATAAAATA
50111225 AAAA
1 AAAA
50111229 GGATAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:50111304 original size:3 final size:3
Alignment explanation
Indices: 50111296--50111381 Score: 72
Period size: 3 Copynumber: 29.0 Consensus size: 3
50111286 AAATAAAACA
* *
50111296 AAT AAT AAT AAT AAT AAT AAT GAGAC AAT AAT AAT AA- AAT AAAG AAT
1 AAT AAT AAT AAT AAT AAT AAT -A-AT AAT AAT AAT AAT AAT -AAT AAT
* * *
50111343 AAT AA- CAT CAT CAT AAT AAT AA- AAT AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50111382 GTTGAAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
2 7 0.10
3 58 0.83
4 4 0.06
5 1 0.01
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:50111344 original size:32 final size:33
Alignment explanation
Indices: 50111299--50111382 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 33
50111289 TAAAACAAAT
50111299 AATAATAATAATAATAATGAGACA-ATAATAATAA
1 AATAATAA-AATAATAATGA-ACACATAATAATAA
* * *
50111333 AATAA-AGAATAATAA-CATCATCATAATAATAA
1 AATAATAAAATAATAATGAACA-CATAATAATAA
50111365 AATAATAAAATAATAATG
1 AATAATAAAATAATAATG
50111383 TTGAAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
30 2 0.05
31 1 0.02
32 23 0.56
33 10 0.24
34 5 0.12
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (33 bp):
AATAATAAAATAATAATGAACACATAATAATAA
Found at i:50112082 original size:10 final size:11
Alignment explanation
Indices: 50112050--50112075 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50112040 TATAATAGAT
50112050 AAAAAATAAAG
1 AAAAAATAAAG
50112061 AAAAAATAAAG
1 AAAAAATAAAG
50112072 AAAA
1 AAAA
50112076 CAAAAGACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAATAAAG
Found at i:50112807 original size:44 final size:44
Alignment explanation
Indices: 50112704--50112948 Score: 149
Period size: 44 Copynumber: 5.6 Consensus size: 44
50112694 TTTATTCCAA
* * * * * * *
50112704 TCCACTATATCTTCAGGGAGATAAGGTTTGCTATCTTCAATCTGC
1 TCCACTGTAACTTCAGGGAGATAAGATTCG-TAACTTCAACCCGC
* * *
50112749 TCCACTGTAGCTTCAGGGAGTTGAGATTCGTAACTTCAACCCGC
1 TCCACTGTAACTTCAGGGAGATAAGATTCGTAACTTCAACCCGC
* * * * **
50112793 TCCATTGTAACTTCAGGGAGATAAGGTTTGTAACTTCAATCTAC
1 TCCACTGTAACTTCAGGGAGATAAGATTCGTAACTTCAACCCGC
** * * ** * *
50112837 TCCACTGTGTCTTTAGGGAGATAAGATTTGT--GGT-AATCTGC
1 TCCACTGTAACTTCAGGGAGATAAGATTCGTAACTTCAACCCGC
* * * * * * **
50112878 TCCTCTGCAACTTCAGAGG-TATGAGATTTGTAACTTCAATCTAC
1 TCCACTGTAACTTCAG-GGAGATAAGATTCGTAACTTCAACCCGC
50112922 TCCACTG-AACTTCAGGGAGATAAGATT
1 TCCACTGTAACTTCAGGGAGATAAGATT
50112949 TGTTATTTTT
Statistics
Matches: 156, Mismatches: 39, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
41 27 0.17
42 5 0.03
43 16 0.10
44 84 0.54
45 24 0.15
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (44 bp):
TCCACTGTAACTTCAGGGAGATAAGATTCGTAACTTCAACCCGC
Found at i:50112986 original size:129 final size:129
Alignment explanation
Indices: 50112742--50112990 Score: 277
Period size: 129 Copynumber: 1.9 Consensus size: 129
50112732 TGCTATCTTC
* * * * *
50112742 AATCTGCTCCACTGTAGCTTCAGGGAGTTGAGATTCGTAACTTCAACCCGCTCCATTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGAGAGTTGAGATTCGTAACTTCAACCCACTCCACTGTAACTTC
* * *** * *
50112807 AGGGAGATAAGGTTTGTAACTTCAATCTACTCCACTGTGTCTTTAGGGAGATAAGATTTGTGGT
66 AGGGAGATAAGATTTGTAACTTCAACCTACTCCACTGCCACTTCAAGGAGATAAGATTTGTGGT
* * * *
50112871 AATCTGCTCCTCTGCAACTTCAGAG-GTATGAGATTTGTAACTTCAATCTACTCCACTG-AACTT
1 AATCTGCTCCACTGCAACTTCAGAGAGT-TGAGATTCGTAACTTCAACCCACTCCACTGTAACTT
** ** *
50112934 CAGGGAGATAAGATTTGTTATTTTTGACCTACTCCATTGCCACTTCAAGGAGATAAG
65 CAGGGAGATAAGATTTG-TAACTTCAACCTACTCCACTGCCACTTCAAGGAGATAAG
50112991 GCTTGCCATA
Statistics
Matches: 97, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
128 23 0.24
129 74 0.76
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (129 bp):
AATCTGCTCCACTGCAACTTCAGAGAGTTGAGATTCGTAACTTCAACCCACTCCACTGTAACTTC
AGGGAGATAAGATTTGTAACTTCAACCTACTCCACTGCCACTTCAAGGAGATAAGATTTGTGGT
Found at i:50113136 original size:45 final size:44
Alignment explanation
Indices: 50113072--50113183 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
50113062 TATGTTCCAT
* ** * * *
50113072 TGCAACTTCAGGGAAATAAGATCTGCTATCTTCAACCTGCTCTAC
1 TGCAACTTCAGGGAGATAAGAT-TAATAGCTTCAACCTACTCGAC
* * * *
50113117 TGCAACTTCAGGGAGATAAGGTTAATGGCTTTAATCTACTCGAC
1 TGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTACTCGAC
50113161 TGCAACTTCAGGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
50113184 CGCCATGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 36 0.64
45 20 0.36
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTAATAGCTTCAACCTACTCGAC
Found at i:50113236 original size:190 final size:181
Alignment explanation
Indices: 50113014--50113787 Score: 680
Period size: 181 Copynumber: 4.2 Consensus size: 181
50113004 ACTTCAATTC
* * * * *
50113014 GTCCCACTGCAACTTCA-AGGGTAT-GAGATTTGTAACTTGTAGCTTAAATATGTTCCATTGCAA
1 GTCCTACTGCAACTTCAGA-GGTATAG-GATTTGTTACTTATAGCTTTAATATGTTCCACTGCAA
* * *
50113077 CTTCAGGGAAATAAGATCTGCTATCTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAG-GTTA
64 CTTCAGGGAAATAAGAT-TGCTATCTTCAGCCTGCTCTACTACAACTTCAGGGAGATAAGATTTA
* * * *
50113141 ATGGCTTTAATCTACTCGACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAGACTTGATCT
128 A---CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G---T--TAGACTTGATCT
* * *
50113204 GACCTACTGCAACTTCAGAGGTATAGGATTTGTGACTTATAGCTTTAATATGTTCCATTGCAACT
1 GTCCTACTGCAACTTCAGAGGTATAGGATTTGTTACTTATAGCTTTAATATGTTCCACTGCAACT
* * * *
50113269 TCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCCACTATAACTTCAGGGAGATAAGACTTTAA
66 TCAGGGAAATAAGATT-GCTATCTTCAGCCTGCTCTACTACAACTTCAGGGAGATAAGA-TTTAA
* * * * * *
50113334 CTTTAACCTGTTCCACTACTACTTCACGGAGAT-A-A-TGTTTG-CTATGATCT
129 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTTAGACT-TGATCT
* * * * *
50113384 GTTCTACTGCAACTTCAGAGAG-ATAAGATCTAT-TTATTTATAGCTTTAATCTATTCCACTGCA
1 GTCCTACTGCAACTTCAGAG-GTATAGGAT-T-TGTTACTTATAGCTTTAATATGTTCCACTGCA
* * *
50113447 ACTTTAGGGAAATGAGATTTGCTATCTTCAGTCTGCTCTACTACAACTTCAGGGAGATAAGACTT
63 ACTTCAGGGAAATAAGA-TTGCTATCTTCAGCCTGCTCTACTACAACTTCAGGGAGATAAGA-TT
* * *
50113512 TAACTTCAACCTGCTCCACTGCTACTTTAGGGAGATAAG---GTTTG-CTATGATCT
126 TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTTAGACT-TGATCT
* * * * * * *
50113565 G-CTCTACTGCAACTTTAGAGAG-ATAAGATCTGTTTATTTGTAGCTTTAATCTGTTCCACTACA
1 GTC-CTACTGCAACTTCAGAG-GTATAGGATTTG-TTACTTATAGCTTTAATATGTTCCACTGCA
* *
50113628 ACTTCAGGGAAATAAGATT-CATTATCTTCAGCCTGCTCTACTGCAACTTCAGGGAGATGAGACT
63 ACTTCAGGGAAATAAGATTGC--TATCTTCAGCCTGCTCTACTACAACTTCAGGGAGATAAGA-T
* * *
50113692 TTAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCCATTATGACTTCAATCC
125 TTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G---TTA-GACTT-GATCT
* * *
50113755 GTCCTACTGTAACTTCAGGGGTATGGGATTTGT
1 GTCCTACTGCAACTTCAGAGGTATAGGATTTGT
50113788 GGATTCACCG
Statistics
Matches: 496, Mismatches: 59, Indels: 59
0.81 0.10 0.10
Matches are distributed among these distances:
179 4 0.01
180 34 0.07
181 275 0.55
182 5 0.01
185 2 0.00
186 1 0.00
187 1 0.00
188 3 0.01
189 31 0.06
190 133 0.27
191 3 0.01
192 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (181 bp):
GTCCTACTGCAACTTCAGAGGTATAGGATTTGTTACTTATAGCTTTAATATGTTCCACTGCAACT
TCAGGGAAATAAGATTGCTATCTTCAGCCTGCTCTACTACAACTTCAGGGAGATAAGATTTAACT
TCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTTAGACTTGATCT
Found at i:50113473 original size:181 final size:179
Alignment explanation
Indices: 50113053--50113731 Score: 747
Period size: 181 Copynumber: 3.7 Consensus size: 179
50113043 TTGTAACTTG
* * * * **
50113053 TAGCTTAAATATGTTCCATTGCAACTTCAGGGAAATAAGA-TCTGCTATCTTCAACCTGCTCTAC
1 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTC-GCTATCTTCAGTCTGCTCTAC
* * * * * * *
50113117 TGCAACTTCAGGGAGATAAG--GTTAATGGCTTTAATCTACTCGACTGCAACTTCAGGGAGATAA
65 TACAACTTCAGGGAGATAAGACTTTAA---CTTCAACCTGCTCCACTGCTACTTCA-GGAGATAA
* * * * * *
50113180 GATTCGCCATGGTAGACTTGATCTGACCTACTGCAACTTCAGAG-GTATAGGAT-TTGTGACTTA
126 GGTT-----TGCT--A--TGATCTGATCTACTGCAACTTCAGAGAG-ATAAGATCTT-TTATTTA
* * *
50113243 TAGCTTTAATATGTTCCATTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCCACT
1 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCTACT
* * * * *
50113308 ATAACTTCAGGGAGATAAGACTTTAACTTTAACCTGTTCCACTACTACTTCACGGAGATAATGTT
66 ACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCA-GGAGATAAGGTT
*
50113373 TGCTATGATCTGTTCTACTGCAACTTCAGAGAGATAAGATCTATTTATTTA
130 TGCTATGATCTGATCTACTGCAACTTCAGAGAGATAAGATCT-TTTATTTA
* * *
50113424 TAGCTTTAATCTATTCCACTGCAACTTTAGGGAAATGAGATTTGCTATCTTCAGTCTGCTCTACT
1 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCTACT
*
50113489 ACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTTAGGGAGATAAGGTT
66 ACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCA-GGAGATAAGGTT
* * *
50113554 TGCTATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTG
130 TGCTATGATCTGATCTACTGCAACTTCAGAGAGATAAGATCT-TTTATTTA
* * ** *
50113605 TAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCATTATCTTCAGCCTGCTCTACT
1 TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCTACT
* * *
50113670 GCAACTTCAGGGAGATGAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAG
66 ACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCAG-GAGATAAG
50113732 ATTCGCCATT
Statistics
Matches: 430, Mismatches: 52, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
180 31 0.07
181 284 0.66
182 2 0.00
184 3 0.01
189 30 0.07
190 74 0.17
191 2 0.00
192 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (179 bp):
TAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCTACT
ACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCTACTTCAGGAGATAAGGTTT
GCTATGATCTGATCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTA
Found at i:50113505 original size:97 final size:96
Alignment explanation
Indices: 50113381--50113693 Score: 319
Period size: 97 Copynumber: 3.4 Consensus size: 96
50113371 TTTGCTATGA
* *
50113381 TCTGTTCTACTGCAACTTCAGAGAGATAAGATCTATTTATTTATAGCTTTAATCTATTCCACTGC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-TTTATTTATAGCTTTAATCTGTTCCACTGC
*
50113446 AACTTTAGGGAAATGAGATTTGCTATCTTCAG
65 AACTTTAGGGAAATAAGATTTGCTATCTTCAG
* * * * * *
50113478 TCTGCTCTACTACAACTTCAGGGAGATAAGA-C-----TTTA-A-CTTCAACCTGCTCCACTGCT
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTATAGCTTTAATCTGTTCCACTGCA
* * *
50113535 ACTTTAGGGAGATAAGGTTTGCTA---TGA-
66 ACTTTAGGGAAATAAGATTTGCTATCTTCAG
* * *
50113562 TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTGTAGCTTTAATCTGTTCCACTAC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCT-TTTATTTATAGCTTTAATCTGTTCCACTGC
* ***
50113627 AACTTCAGGGAAATAAGATTCATTATCTTCAG
65 AACTTTAGGGAAATAAGATTTGCTATCTTCAG
* * *
50113659 CCTGCTCTACTGCAACTTCAGGGAGATGAGA-CTTT
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTT
50113694 AACTTCAACC
Statistics
Matches: 171, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
84 28 0.16
85 3 0.02
88 36 0.21
89 1 0.01
90 4 0.02
91 3 0.02
92 1 0.01
93 33 0.19
95 2 0.01
96 5 0.03
97 55 0.32
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (96 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTTTATTTATAGCTTTAATCTGTTCCACTGCA
ACTTTAGGGAAATAAGATTTGCTATCTTCAG
Found at i:50113527 original size:43 final size:43
Alignment explanation
Indices: 50113438--50113732 Score: 182
Period size: 43 Copynumber: 6.6 Consensus size: 43
50113428 TTTAATCTAT
* * * * * **
50113438 TCCACTGCAACTTTAGGGAAATGAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTT--TAACTTCAACCTGC
* *
50113483 TCTACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
* * * * * *
50113526 TCCACTGCTACTTTAGGGAGATAAG-GTTT-GCTAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTTAACT-TCAACCTGC
* * * * * *
50113567 TCTACTGCAACTTTAGAGAGATAAGATCTGTTTATTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA-C--TTTA-----A-CTTCAACCTGC
* * * * *
50113619 TCCACTACAACTTCAGGGAAATAAGATTCATTATCTTCAGCCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA--CTTTAACTTCAACCTGC
* *
50113664 TCTACTGCAACTTCAGGGAGATGAGACTTTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
*
50113707 TCCACTGCAACTTCAGAGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
50113733 TTCGCCATTA
Statistics
Matches: 191, Mismatches: 45, Indels: 30
0.72 0.17 0.11
Matches are distributed among these distances:
41 29 0.15
42 4 0.02
43 69 0.36
45 55 0.29
51 4 0.02
52 28 0.15
53 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGC
Found at i:50116277 original size:39 final size:40
Alignment explanation
Indices: 50116222--50116392 Score: 240
Period size: 39 Copynumber: 4.3 Consensus size: 40
50116212 GGACTAAGAT
* *
50116222 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
50116261 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
50116300 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * * *
50116340 CCGAAGGCATTCGTGCGAGTTACTATAATCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCCGGGTTAAGTC
50116380 CCGAAGGCATTTG
1 CCGAAGGCATTTG
50116393 AGCTAGTCGT
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 73 0.60
40 40 0.33
41 8 0.07
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:50118165 original size:140 final size:137
Alignment explanation
Indices: 50117877--50118236 Score: 542
Period size: 140 Copynumber: 2.6 Consensus size: 137
50117867 TATCTTCAAT
** ** * **
50117877 CAAAATTTGAGTTGCCCTTTTTAGGTTTTCAACTC-AAAACCCCTTTGGTCTCAAGGTGCCCTTT
1 CAAAATTTGAGCCGCCCTTTTCGGGTTTTCAACTCAAAAACTCCTTTGGTCTCAATATGCCCTTT
*
50117941 GCGGGTTTTGGCCTTGGCCTCTCTATGTTTTTTTAAGGTGAAATGCCTATTGACTGAATGGCCAT
66 GCGGG-TTTGGCCTTGGCCTCTCTATGTTTTTTTAAGGTGAAATGCCTATTGACTGAATGCCCAT
50118006 TCTTTGGC
130 TCTTTGGC
* * *
50118014 TAAAATTTGAGCCGCCCTTTTCGGGTTTTCAATTCAAAAACTCTTTTGGTCTCAATATGCCCTTT
1 CAAAATTTGAGCCGCCCTTTTCGGGTTTTCAACTCAAAAACTCCTTTGGTCTCAATATGCCCTTT
*
50118079 GCGGGTGTTGGCCTTGGCCTCTCTAAGTTTTTTTTTAAGGTGAAATGCCTATTGACTGAATGCCC
66 GCGGGT-TTGGCCTTGGCCTCTCT-A-TGTTTTTTTAAGGTGAAATGCCTATTGACTGAATGCCC
50118144 ATTCTTTGGC
128 ATTCTTTGGC
* *
50118154 CAAAATTTGAGCCGCCCTTTTCGTGTTTTCAACTCAAAAACTCCTTTGGTCTCAATACGCCCTTT
1 CAAAATTTGAGCCGCCCTTTTCGGGTTTTCAACTCAAAAACTCCTTTGGTCTCAATATGCCCTTT
*
50118219 GCGGGTTTTGCCTTGGCC
66 GCGGGTTTGGCCTTGGCC
50118237 CGTCCTTTTC
Statistics
Matches: 201, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
137 30 0.15
138 47 0.23
139 12 0.06
140 112 0.56
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (137 bp):
CAAAATTTGAGCCGCCCTTTTCGGGTTTTCAACTCAAAAACTCCTTTGGTCTCAATATGCCCTTT
GCGGGTTTGGCCTTGGCCTCTCTATGTTTTTTTAAGGTGAAATGCCTATTGACTGAATGCCCATT
CTTTGGC
Found at i:50118255 original size:1 final size:1
Alignment explanation
Indices: 50118249--50118315 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
50118239 TCCTTTTCTA
* * * * * * * *
50118249 TTTTTTTTCTTTTTCTTTTTCTTTTCTTTTTTTTTCTTTTTCTTCTTTTTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50118314 TT
1 TT
50118316 AAAGAGTGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.10, G:0.01, T:0.88
Consensus pattern (1 bp):
T
Found at i:50118256 original size:11 final size:11
Alignment explanation
Indices: 50118242--50118312 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
50118232 TGGCCCGTCC
50118242 TTTTCTATTT-T
1 TTTTCT-TTTCT
50118253 TTTTCTTTTTCT
1 TTTTC-TTTTCT
50118265 TTTTCTTTTCT
1 TTTTCTTTTCT
50118276 TTTT-TTTTCT
1 TTTTCTTTTCT
50118286 TTTTC--TTCT
1 TTTTCTTTTCT
50118295 TTTT-TTTT-T
1 TTTTCTTTTCT
*
50118304 TTTTGTTTT
1 TTTTCTTTT
50118313 TTTAAAGAGT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
9 13 0.24
10 16 0.30
11 18 0.33
12 7 0.13
ACGTcount: A:0.01, C:0.11, G:0.01, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:50118263 original size:6 final size:6
Alignment explanation
Indices: 50118242--50118313 Score: 73
Period size: 6 Copynumber: 12.7 Consensus size: 6
50118232 TGGCCCGTCC
*
50118242 TTTTCT ATTT-T TTTTCT TTTTCT TTTTC- TTTTC- TTTT-T TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* *
50118286 TTTTCT TCTTT-T TTTTTT TTTTGT TTTT
1 TTTTCT T-TTTCT TTTTCT TTTTCT TTTT
50118314 TTAAAGAGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
5 20 0.34
6 35 0.60
7 3 0.05
ACGTcount: A:0.01, C:0.11, G:0.01, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:50118279 original size:27 final size:28
Alignment explanation
Indices: 50118241--50118315 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
50118231 TTGGCCCGTC
50118241 CTTTTCTATTTTTTTTCTTTTTCTT-TTT
1 CTTTTCT-TTTTTTTTCTTTTTCTTCTTT
50118269 CTTTTCTTTTTTTTTCTTTTTCTTCTTT
1 CTTTTCTTTTTTTTTCTTTTTCTTCTTT
50118297 -TTTT-TTTTTTTGTT-TTTTT
1 CTTTTCTTTTTTT-TTCTTTTT
50118316 AAAGAGTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
26 12 0.27
27 23 0.51
28 10 0.22
ACGTcount: A:0.01, C:0.12, G:0.01, T:0.85
Consensus pattern (28 bp):
CTTTTCTTTTTTTTTCTTTTTCTTCTTT
Found at i:50120627 original size:24 final size:24
Alignment explanation
Indices: 50120599--50120647 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50120589 TCAGGGTTGA
50120599 TCTTCTAGCACTTTCCCTTGCATC
1 TCTTCTAGCACTTTCCCTTGCATC
*
50120623 TCTTCTGGCACTTTCCCTTGCATC
1 TCTTCTAGCACTTTCCCTTGCATC
50120647 T
1 T
50120648 ATCTTCCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.37, G:0.10, T:0.43
Consensus pattern (24 bp):
TCTTCTAGCACTTTCCCTTGCATC
Found at i:50123220 original size:8 final size:8
Alignment explanation
Indices: 50123207--50123231 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50123197 GAGAACTTTG
50123207 AAAAAAAT
1 AAAAAAAT
50123215 AAAAAAAT
1 AAAAAAAT
50123223 AAAAAAAT
1 AAAAAAAT
50123231 A
1 A
50123232 CGATCCAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:50123795 original size:23 final size:23
Alignment explanation
Indices: 50123770--50123813 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
50123760 GCTAATTGTA
50123770 AAAATAAATAA-A-TAAATAAAAG
1 AAAATAAA-AATATTAAATAAAAG
50123792 AAAATAAAAATATTAAATAAAA
1 AAAATAAAAATATTAAATAAAA
50123814 CAAATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (23 bp):
AAAATAAAAATATTAAATAAAAG
Found at i:50123929 original size:4 final size:4
Alignment explanation
Indices: 50123920--50123962 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
50123910 ATGAAATGAC
* * *
50123920 AATA AATA AACA AATCA AAAA AATA AATA AAAA AATA AATA AA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AATA AA
50123963 AAAGATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (4 bp):
AATA
Found at i:50123945 original size:21 final size:22
Alignment explanation
Indices: 50123920--50123964 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
50123910 ATGAAATGAC
* *
50123920 AATAAATAAACAAATCAA-AAA
1 AATAAATAAAAAAATAAATAAA
50123941 AATAAATAAAAAAATAAATAAA
1 AATAAATAAAAAAATAAATAAA
50123963 AA
1 AA
50123965 AGATAATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (22 bp):
AATAAATAAAAAAATAAATAAA
Found at i:50123949 original size:25 final size:25
Alignment explanation
Indices: 50123920--50123970 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
50123910 ATGAAATGAC
*
50123920 AATAAATAAACAAATCAAAAAA-ATA
1 AATAAAAAAACAAAT-AAAAAAGATA
*
50123945 AATAAAAAAATAAATAAAAAAGATA
1 AATAAAAAAACAAATAAAAAAGATA
50123970 A
1 A
50123971 TAAGTAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (25 bp):
AATAAAAAAACAAATAAAAAAGATA
Found at i:50123973 original size:12 final size:12
Alignment explanation
Indices: 50123920--50123970 Score: 66
Period size: 12 Copynumber: 4.1 Consensus size: 12
50123910 ATGAAATGAC
* *
50123920 AATAAATAAACA
1 AATAAAAAAATA
50123932 AATCAAAAAAATA
1 AAT-AAAAAAATA
50123945 AATAAAAAAATA
1 AATAAAAAAATA
50123957 AATAAAAAAGATA
1 AATAAAAAA-ATA
50123970 A
1 A
50123971 TAAGTAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
12 21 0.60
13 14 0.40
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:50123973 original size:16 final size:16
Alignment explanation
Indices: 50123920--50123962 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
50123910 ATGAAATGAC
*
50123920 AATAAATAAACAAATCAA
1 AATAAATAAATAAA--AA
50123938 AA-AAATAAATAAAAA
1 AATAAATAAATAAAAA
50123953 AATAAATAAA
1 AATAAATAAA
50123963 AAAGATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 4 0.17
16 7 0.30
17 10 0.43
18 2 0.09
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAAATAAATAAAAA
Found at i:50124030 original size:3 final size:3
Alignment explanation
Indices: 50124022--50124115 Score: 93
Period size: 3 Copynumber: 31.0 Consensus size: 3
50124012 AAACAAATGA
* *
50124022 AAT AAT AAT AAT AAT AAT AAT GAGAC AAT AAT AAT AA- AAT AAAG AAT
1 AAT AAT AAT AAT AAT AAT AAT -A-AT AAT AAT AAT AAT AAT -AAT AAT
* * * *
50124069 AAT AA- CAT AAT AAT AAG AAT AAT AAT ACT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50124116 GTTGAAATTA
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
2 3 0.04
3 66 0.89
4 4 0.05
5 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:50124034 original size:23 final size:22
Alignment explanation
Indices: 50124008--50124073 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
50123998 TTGAAAGTAA
50124008 AATAAAACAAATGAAATAATAAT
1 AATAAAA-AAATGAAATAATAAT
* * *
50124031 AATAATAATAATGAGACAATAAT
1 AATAA-AAAAATGAAATAATAAT
50124054 AATAAAATAAA-G-AATAATAA
1 AATAAAA-AAATGAAATAATAA
50124074 CATAATAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 6 0.17
22 3 0.09
23 24 0.69
24 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (22 bp):
AATAAAAAAATGAAATAATAAT
Found at i:50124108 original size:38 final size:38
Alignment explanation
Indices: 50124021--50124114 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 38
50124011 AAAACAAATG
50124021 AAATAATAATAAT-AATAATAATGAGACAATAATAATA
1 AAATAATAATAATAAATAATAATGAGACAATAATAATA
* * * *
50124058 AAATAAAGAATAATAACATAATAATAAGAATAATAATACTGA
1 AAAT-AATAATAATAA-ATAATAATGAG-ACAATAATAAT-A
*
50124100 TAATAATAATAATAA
1 AAATAATAATAATAA
50124115 TGTTGAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
37 4 0.09
38 8 0.17
39 1 0.02
40 10 0.22
41 19 0.41
42 4 0.09
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (38 bp):
AAATAATAATAATAAATAATAATGAGACAATAATAATA
Found at i:50124804 original size:13 final size:12
Alignment explanation
Indices: 50124786--50124813 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50124776 TAAAATAGAC
50124786 AAAAAAATCAAG
1 AAAAAAATCAAG
50124798 AAAAAAATCAAG
1 AAAAAAATCAAG
50124810 AAAA
1 AAAA
50124814 TAAAAGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAAATCAAG
Found at i:50127595 original size:48 final size:48
Alignment explanation
Indices: 50127524--50127619 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
50127514 TGTCCATTGA
50127524 CTTTGAATGTAAGCCCAATCTTTATATCTTTGACCTCTACAGCTCCAT
1 CTTTGAATGTAAGCCCAATCTTTATATCTTTGACCTCTACAGCTCCAT
50127572 CTTTGAATGTAAGCCCAGA-CTTTATATCTTTGACCTCTACAGCTCCAT
1 CTTTGAATGTAAGCCCA-ATCTTTATATCTTTGACCTCTACAGCTCCAT
50127620 AAGGATAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.11, T:0.36
Consensus pattern (48 bp):
CTTTGAATGTAAGCCCAATCTTTATATCTTTGACCTCTACAGCTCCAT
Found at i:50133112 original size:40 final size:40
Alignment explanation
Indices: 50133066--50133268 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
50133056 TCGGATTTAA
* * *
50133066 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
50133106 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
50133146 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
50133186 CCGGATATAGTAACTCGCACAACTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
50133226 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGAC-TAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
50133265 CCGG
1 CCGG
50133269 TTATCATCCA
Statistics
Matches: 152, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 10 0.07
40 142 0.93
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:50141222 original size:40 final size:40
Alignment explanation
Indices: 50141118--50141334 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
50141108 AAGCCAAGTA
* * * *
50141118 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
50141157 CCTTC-GGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50141196 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
50141236 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
50141276 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
50141316 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50141335 TTATCATCCA
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 6 0.04
39 32 0.20
40 119 0.76
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50147467 original size:14 final size:14
Alignment explanation
Indices: 50147432--50147469 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
50147422 TTTTCATTCA
*
50147432 TTCTTTTA-TTTCT
1 TTCTTTTATTTTAT
50147445 TTCTTTTATTTTAT
1 TTCTTTTATTTTAT
*
50147459 TTGTTTTATTT
1 TTCTTTTATTT
50147470 AATTACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (14 bp):
TTCTTTTATTTTAT
Found at i:50151083 original size:48 final size:48
Alignment explanation
Indices: 50150962--50151731 Score: 1261
Period size: 48 Copynumber: 16.0 Consensus size: 48
50150952 AGATAAATAT
* *
50150962 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA
50151011 TATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 -ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
50151060 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
50151108 ATATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
50151156 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCAAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
50151204 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
50151252 ATATATATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
50151300 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
50151348 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
50151396 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
50151444 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
50151492 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
50151540 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
50151588 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
50151636 ATATATGTGTGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
50151684 ATATATATGAAATATGAATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
50151732 TGTTGTAACA
Statistics
Matches: 675, Mismatches: 45, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
48 629 0.93
49 2 0.00
50 44 0.07
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:50151815 original size:37 final size:37
Alignment explanation
Indices: 50151765--50151898 Score: 259
Period size: 37 Copynumber: 3.6 Consensus size: 37
50151755 ACATGAAACT
50151765 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
50151802 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
50151839 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
*
50151876 TGGAGATTATGTCCGAGTAAGAC
1 TGGAGATTATGTCCGGGTAAGAC
50151899 TTCGTAATAA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:50156867 original size:20 final size:20
Alignment explanation
Indices: 50156820--50156861 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
50156810 GCACACGCCT
*
50156820 GTGTGGCCTGGGACATGCCC
1 GTGTGGCCTGGAACATGCCC
*
50156840 GTGTGGCCTGGAACATGGCC
1 GTGTGGCCTGGAACATGCCC
50156860 GT
1 GT
50156862 CGGGCCAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.26, G:0.40, T:0.21
Consensus pattern (20 bp):
GTGTGGCCTGGAACATGCCC
Found at i:50158105 original size:40 final size:40
Alignment explanation
Indices: 50158048--50158305 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
50158038 CGGATGATAA
* * *
50158048 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
50158088 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50158128 CCGGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
50158168 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50158208 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
50158248 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
50158288 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50158306 TACCTGGCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.92
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50161341 original size:7 final size:6
Alignment explanation
Indices: 50161309--50161339 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
50161299 CTCAGCGTAG
50161309 TTCTGA TTCTGA TTCTGA TTCTGAA TTCTGA
1 TTCTGA TTCTGA TTCTGA TTCTG-A TTCTGA
50161340 ATAGATGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
TTCTGA
Found at i:50164014 original size:42 final size:43
Alignment explanation
Indices: 50163956--50164066 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
50163946 GATTTATGTA
* *
50163956 TAAGACCATGTCTGGGACATCGGCATC-ATATCTGA-TTTCATG
1 TAAGACCCTGTCTGGGACATCGGCATCAATAT-TGAGTTACATG
**
50163998 TAAGACCCTGTCTGGGACAGAGGCATCAATATTGAGTTACATG
1 TAAGACCCTGTCTGGGACATCGGCATCAATATTGAGTTACATG
*
50164041 TAAGACCAC-GTCTGGGACGTCGGCAT
1 TAAGACC-CTGTCTGGGACATCGGCAT
50164067 TGTAGTTGTT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 27 0.46
43 31 0.53
44 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACATCGGCATCAATATTGAGTTACATG
Found at i:50168395 original size:27 final size:27
Alignment explanation
Indices: 50168364--50168428 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
50168354 AATCACTAAA
* *
50168364 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
50168391 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
50168418 CACTTTGCCAT
1 CACTTTGCCAT
50168429 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:50168528 original size:31 final size:31
Alignment explanation
Indices: 50168492--50168632 Score: 174
Period size: 31 Copynumber: 4.5 Consensus size: 31
50168482 AGTGTAGCTA
* *
50168492 AAGCTACCACTATTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * *
50168523 GAGCTATCACTTTTCACTAATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * *
50168554 AAGCTACTACTTTTCACTCATTAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * **
50168585 AAGCTATCATTTTTCACTGATCAGGTAGCTA
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
50168616 AAGCTACCACTTTTCAC
1 AAGCTACCACTTTTCAC
50168633 ATTGAACACA
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 91 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:50168558 original size:62 final size:62
Alignment explanation
Indices: 50168485--50168632 Score: 197
Period size: 62 Copynumber: 2.4 Consensus size: 62
50168475 TCAGATAAGT
* * * * *
50168485 GTAGCTAAAGCTACCACTATTCACTGATCAGGTAGCTGGAGCTATCACTTTTCACTAATCAG
1 GTAGCCAAAGCTACCACTTTTCACTCATCAGGTAGCCGAAGCTATCACTTTTCACTAATCAG
* * * * *
50168547 GTAGCCGAAGCTACTACTTTTCACTCATTAGGTAGCCGAAGCTATCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTCATCAGGTAGCCGAAGCTATCACTTTTCACTAATCAG
*
50168609 GTAGCTAAAGCTACCACTTTTCAC
1 GTAGCCAAAGCTACCACTTTTCAC
50168633 ATTGAACACA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 73 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (62 bp):
GTAGCCAAAGCTACCACTTTTCACTCATCAGGTAGCCGAAGCTATCACTTTTCACTAATCAG
Found at i:50168676 original size:32 final size:33
Alignment explanation
Indices: 50168625--50168737 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
50168615 AAAGCTACCA
* *
50168625 CTTTTCACA-TTGAACACACAAGGCATACATTTC
1 CTTTTCA-AGTTGTACACACAAAGCATACATTTC
**
50168658 CTTTTCAAG-TGTACACACAAAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGCATACATTTC
* * **
50168690 CTTTTTAAGTTGTACACACACAGTGTACA-TTC
1 CTTTTCAAGTTGTACACACAAAGCATACATTTC
*
50168722 TCTTTTCTAGTTGTAC
1 -CTTTTCAAGTTGTAC
50168738 CTTTTAGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
32 31 0.45
33 38 0.55
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGCATACATTTC
Found at i:50168709 original size:33 final size:33
Alignment explanation
Indices: 50168650--50168737 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 33
50168640 ACACAAGGCA
*
50168650 TACATTTCCTTTTCAAG-TGTACACACAAAGTG
1 TACATTTCCTTTTTAAGTTGTACACACAAAGTG
*
50168682 TACATTTCCTTTTTAAGTTGTACACACACAGTG
1 TACATTTCCTTTTTAAGTTGTACACACAAAGTG
50168715 TACA-TTCTCTTTTCT-AGTTGTAC
1 TACATTTC-CTTTT-TAAGTTGTAC
50168738 CTTTTAGGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
32 19 0.37
33 31 0.61
34 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (33 bp):
TACATTTCCTTTTTAAGTTGTACACACAAAGTG
Found at i:50170465 original size:31 final size:31
Alignment explanation
Indices: 50170409--50170471 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
50170399 TATACTAAAT
*
50170409 AAATAATAAAAAAATAATAAATATCTCATTA
1 AAATAATAAAAAAATAATAAATATCTAATTA
* * **
50170440 AAATATTAATAAAATAATATTTATCTAATTA
1 AAATAATAAAAAAATAATAAATATCTAATTA
50170471 A
1 A
50170472 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (31 bp):
AAATAATAAAAAAATAATAAATATCTAATTA
Found at i:50172332 original size:41 final size:41
Alignment explanation
Indices: 50172275--50172353 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
50172265 TATGTATTTC
*
50172275 GGTAATTTAGCTAGCATGGGTTTATTGTGAATTTGCATTAT
1 GGTAATTCAGCTAGCATGGGTTTATTGTGAATTTGCATTAT
50172316 GGTAATTCAGCTAGCATGGGTTTATTGTGAATTTGCAT
1 GGTAATTCAGCTAGCATGGGTTTATTGTGAATTTGCAT
50172354 GAATTTGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.42
Consensus pattern (41 bp):
GGTAATTCAGCTAGCATGGGTTTATTGTGAATTTGCATTAT
Found at i:50172882 original size:56 final size:56
Alignment explanation
Indices: 50172768--50172883 Score: 171
Period size: 56 Copynumber: 2.1 Consensus size: 56
50172758 CTTCGAATAT
* * *
50172768 GTATGACACTTACTGTGCGAGATATCGAGTGTGGCACTTAGTGTGCGAGATATCGA
1 GTATGACACTTACTGTGCGAGATATCGAGTATGGCACTTAGTGTGCAAGAAATCGA
* *
50172824 GTATGGCACTTACTGTGCGAGATATCGAGTATGGCACTTAGTGTGTAAGACAAT-GA
1 GTATGACACTTACTGTGCGAGATATCGAGTATGGCACTTAGTGTGCAAGA-AATCGA
50172880 GTAT
1 GTAT
50172884 TCAATGGCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 52 0.96
57 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (56 bp):
GTATGACACTTACTGTGCGAGATATCGAGTATGGCACTTAGTGTGCAAGAAATCGA
Found at i:50172883 original size:28 final size:28
Alignment explanation
Indices: 50172768--50172868 Score: 166
Period size: 28 Copynumber: 3.6 Consensus size: 28
50172758 CTTCGAATAT
* *
50172768 GTATGACACTTACTGTGCGAGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
*
50172796 GTGTGGCACTTAGTGTGCGAGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
*
50172824 GTATGGCACTTACTGTGCGAGATATCGA
1 GTATGGCACTTAGTGTGCGAGATATCGA
50172852 GTATGGCACTTAGTGTG
1 GTATGGCACTTAGTGTG
50172869 TAAGACAATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.30
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGCGAGATATCGA
Found at i:50175429 original size:47 final size:46
Alignment explanation
Indices: 50175312--50175484 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
50175302 GGATGGTTGA
50175312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
50175359 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
50175402 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
50175452 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
50175485 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:50175481 original size:93 final size:92
Alignment explanation
Indices: 50175312--50175481 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
50175302 GGATGGTTGA
* *
50175312 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
50175377 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
50175404 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
50175469 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
50175482 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50176389 original size:20 final size:20
Alignment explanation
Indices: 50176352--50176394 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
50176342 CTGTTCTGAC
* *
50176352 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
50176372 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
50176392 TTT
1 TTT
50176395 TTTTATATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:50182985 original size:47 final size:46
Alignment explanation
Indices: 50182868--50183040 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
50182858 GGATGGTTGA
50182868 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
50182915 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
50182958 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
50183008 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
50183041 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:50183037 original size:93 final size:92
Alignment explanation
Indices: 50182868--50183037 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
50182858 GGATGGTTGA
* *
50182868 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
50182933 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
50182960 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
50183025 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
50183038 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50194162 original size:11 final size:11
Alignment explanation
Indices: 50194141--50194172 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
50194131 AATGGTGCCT
50194141 TATGAGGCATTA
1 TATG-GGCATTA
50194153 TATGGGCATTA
1 TATGGGCATTA
50194164 TATGGGCAT
1 TATGGGCAT
50194173 AAGTGCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.34
Consensus pattern (11 bp):
TATGGGCATTA
Found at i:50195781 original size:27 final size:27
Alignment explanation
Indices: 50195741--50195797 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
50195731 ACCGAGGTAA
50195741 GTTCATATACAAATAATGTGATGTTAT
1 GTTCATATACAAATAATGTGATGTTAT
*
50195768 GTTCATATAGAAATAATGTGATGTTAT
1 GTTCATATACAAATAATGTGATGTTAT
50195795 GTT
1 GTT
50195798 ATTTTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (27 bp):
GTTCATATACAAATAATGTGATGTTAT
Found at i:50203960 original size:93 final size:93
Alignment explanation
Indices: 50203848--50204019 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
50203838 GCCCATAAGT
* *
50203848 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50203913 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
50203941 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
50204006 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
50204020 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:50204015 original size:46 final size:46
Alignment explanation
Indices: 50203840--50204015 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
50203830 TGTAACCCGC
* * *
50203840 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
50203886 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
50203936 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
50203979 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
50204016 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:50205788 original size:42 final size:42
Alignment explanation
Indices: 50205739--50205823 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
50205729 GTGTCCAGTG
* *
50205739 TTAGAAACCTTGCATTGGACATTTCCTAAGTAATTCCTTGAA
1 TTAGAAACCATACATTGGACATTTCCTAAGTAATTCCTTGAA
50205781 TTAGAAACCATACATTGGACATTTCCTAAGTAATTCCTTGAA
1 TTAGAAACCATACATTGGACATTTCCTAAGTAATTCCTTGAA
50205823 T
1 T
50205824 CACTCCCAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (42 bp):
TTAGAAACCATACATTGGACATTTCCTAAGTAATTCCTTGAA
Found at i:50222807 original size:114 final size:114
Alignment explanation
Indices: 50222675--50223043 Score: 591
Period size: 114 Copynumber: 3.2 Consensus size: 114
50222665 TAAAAAATCA
*
50222675 TAATACACTAAACCACTAAACACTACCAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
1 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
50222740 CTATAAAAATATTTTTTAAAATTATATTACTAAAAAAATCACAATACAC
66 CTATAAAAATATTTTTTAAAATTATATTACTAAAAAAATCACAATACAC
50222789 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
1 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
*
50222854 CTATAAAATTATTTTTTTAAAA-TATATTACTAAAAAAATCACAATACAC
66 CTATAAAAATA-TTTTTTAAAATTATATTACTAAAAAAATCACAATACAC
* * * *
50222903 TAATACACTAAACTACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAACAGAATAA
1 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
*
50222968 CTATAAAATTATTTTTTTTAAAAATATATTATTACTAAAAAAATCACAATACAC
66 CTATAAAA--ATATTTTTT-AAAAT-TA-TATTACTAAAAAAATCACAATACAC
*
50223022 TAATACATTAAA-CACT-AACACT
1 TAATACACTAAACCACTAAACACT
50223044 TTGTAACCTA
Statistics
Matches: 238, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
114 170 0.71
115 16 0.07
116 5 0.02
117 6 0.03
118 5 0.02
119 36 0.15
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.32
Consensus pattern (114 bp):
TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAAAATAG
CTATAAAAATATTTTTTAAAATTATATTACTAAAAAAATCACAATACAC
Found at i:50223232 original size:3 final size:3
Alignment explanation
Indices: 50223226--50223266 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
50223216 ACCCTTTTTT
*
50223226 TTC TTC TTC TTC TTC TTC TTC TTCC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC T
50223267 CCTTTCCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:50225795 original size:45 final size:45
Alignment explanation
Indices: 50225743--50225950 Score: 301
Period size: 45 Copynumber: 4.6 Consensus size: 45
50225733 CAGGCTTCGG
50225743 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTTGA
* *
50225788 GCCTAGCAGGCTATGATACCGGTGAAATACTATTCAGGTCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTTGA
* * * *
50225833 GCCTAGCAGGCTATGATGCCAGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTTGA
* * * *
50225878 GCCTAGCAGGCTATAATGCCGGTGAGATACTATT-TGGGCTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTT-GA
*
50225923 GCCTAGCAGGCTATAATGCCGGTGAAAT
1 GCCTAGCAGGCTATGATGCCGGTGAAAT
50225951 GATATCGGGC
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 6 0.04
45 142 0.96
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTTGA
Found at i:50225900 original size:90 final size:89
Alignment explanation
Indices: 50225738--50225989 Score: 314
Period size: 90 Copynumber: 2.8 Consensus size: 89
50225728 GATATCAGGC
* * * *
50225738 TTCGGGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCAGGCCTTTGAGCCTAGCAGGCTATG
1 TTCGAGCCTAGCAGGCTATGATGCCGGTG-AATATTATTCGGGCCTTTGAGCCTAGCAGGCTATA
* *
50225803 ATACCGGTGAAATACTATTCAGGTCT
65 ATGCCGGTGAAATACTATT-AGGGCT
*
50225829 TT-GAGCCTAGCAGGCTATGATGCCAGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATA
1 TTCGAGCCTAGCAGGCTATGATGCCGGTGA-ATATTATTCGGGCCTTTGAGCCTAGCAGGCTATA
* *
50225893 ATGCCGGTGAGATACTATTTGGGCT
65 ATGCCGGTGAAATACTATTAGGGCT
* * * * *
50225918 TTCGAGCCTAGCAGGCTATAATGCCGGTGAA-ATGATATCGGGCC-TCGAGCCTAGTAGGCGA-A
1 TTCGAGCCTAGCAGGCTATGATGCCGGTGAATATTAT-TCGGGCCTTTGAGCCTAGCAGGCTATA
50225980 ATGCCGGTGA
65 ATGCCGGTGA
50225990 TTAGAGAAAA
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
87 11 0.08
88 18 0.13
89 15 0.10
90 97 0.68
91 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (89 bp):
TTCGAGCCTAGCAGGCTATGATGCCGGTGAATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAA
TGCCGGTGAAATACTATTAGGGCT
Found at i:50227188 original size:55 final size:54
Alignment explanation
Indices: 50227061--50227188 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 54
50227051 CGTGTCAATC
* *
50227061 TAACAGGTTCGACCACGAGTGCTAGACACGGGGGTGTCGCACGCCCGTGCTGTTT
1 TAACAGGTTCGACCACG-GTGCTAGACACGGGCGTGTCGCACGCCCGTGCTATTT
* * ** * *
50227116 TAACAAGTTC-ACACACGGTTCTTCTACACGGGCGTGTCGCACGTCCGTGTTATTT
1 TAACAGGTTCGAC-CACGGTGC-TAGACACGGGCGTGTCGCACGCCCGTGCTATTT
**
50227171 TGGCAGGTTCGACCACGG
1 TAACAGGTTCGACCACGG
50227189 CCATGTCGCA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 5 0.08
55 52 0.88
56 2 0.03
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (54 bp):
TAACAGGTTCGACCACGGTGCTAGACACGGGCGTGTCGCACGCCCGTGCTATTT
Found at i:50232931 original size:43 final size:44
Alignment explanation
Indices: 50232868--50232953 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 44
50232858 ATCAAAATAT
*
50232868 GATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAC
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
*
50232912 GATA-TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
50232954 TGAAATGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:50233293 original size:38 final size:38
Alignment explanation
Indices: 50233248--50233388 Score: 210
Period size: 38 Copynumber: 3.7 Consensus size: 38
50233238 GGCTTAAAAA
*
50233248 CCCGCAGGCTTCGTACTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAAT
* * *
50233286 CACGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAAT
*
50233324 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAAT
* * *
50233362 CCCGGAGGCCTAGTACTGGTATTATAT
1 CCCGCAGGCTTCGTACTGGTATTATAT
50233389 TCAGGCCTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 93 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTACTGGTATTATATCCGGGTTAAAT
Found at i:50234825 original size:48 final size:48
Alignment explanation
Indices: 50234731--50234834 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
50234721 TGTGCTAAGC
* * *
50234731 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
50234779 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
50234827 ATAAGACC
1 GTAAGACC
50234835 ACAGTCGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:50238271 original size:108 final size:108
Alignment explanation
Indices: 50238082--50238298 Score: 425
Period size: 108 Copynumber: 2.0 Consensus size: 108
50238072 CTTATGCATG
50238082 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
*
50238147 ATATGTGAGTAAGGATAAAATCATTGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
50238190 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
1 TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
50238255 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
66 ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
50238298 T
1 T
50238299 GGGCTATGTG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (108 bp):
TTAAATCGATTGAAATTGAATCATGAATGTGAATTGAGAAGCATAGGTGAAAATGCCTATGTCAT
ATATGTGAGTAAGGATAAAATCATCGTAAATTATCGATAAGGA
Found at i:50240755 original size:29 final size:29
Alignment explanation
Indices: 50240720--50240793 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
50240710 GTTGTGAGAT
* *
50240720 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
50240749 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
50240778 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50240794 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:50244556 original size:46 final size:46
Alignment explanation
Indices: 50244506--50244674 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 46
50244496 TGGTTGAGCA
*
50244506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* * * * * * * *
50244552 TCCGAACTCATTGAGTTGAGTCCGAATTC-GTGAAATGTA-ACTAGGTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ATG
*
50244599 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
* * *
50244645 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
50244675 ATTAGGGGCG
Statistics
Matches: 97, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 60 0.62
47 35 0.36
48 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
Found at i:50249086 original size:22 final size:23
Alignment explanation
Indices: 50249058--50249100 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
50249048 TATATACCGA
*
50249058 TCAC-AAAGTCTTAAATTTGATG
1 TCACAAAAGACTTAAATTTGATG
*
50249080 TCACAAAAGACTTGAATTTGA
1 TCACAAAAGACTTAAATTTGA
50249101 GACAGCGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (23 bp):
TCACAAAAGACTTAAATTTGATG
Found at i:50249353 original size:12 final size:12
Alignment explanation
Indices: 50249336--50249360 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50249326 CCAAGAGAAA
50249336 AGTGTGAAGCTG
1 AGTGTGAAGCTG
50249348 AGTGTGAAGCTG
1 AGTGTGAAGCTG
50249360 A
1 A
50249361 TACGGGATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.40, T:0.24
Consensus pattern (12 bp):
AGTGTGAAGCTG
Found at i:50256184 original size:46 final size:45
Alignment explanation
Indices: 50256134--50256298 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
50256124 TGAGCATCCA
50256134 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * * *
50256180 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCCG
*
50256227 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCC-G
*
50256273 AGCTCGTTGAGTTGAGTCCGAGTTCA
1 AACTCGTTGAGTTGAGTCCGAGTTCA
50256299 ATTAGGGGCG
Statistics
Matches: 99, Mismatches: 10, Indels: 20
0.77 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 51 0.52
47 29 0.29
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCG
Found at i:50256286 original size:93 final size:93
Alignment explanation
Indices: 50256127--50256297 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
50256117 GGATGGTTGA
*
50256127 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCGAACTCGTTGAGT
50256192 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
50256220 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAAG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCC-GAACTCGTTGAG
50256284 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
50256298 AATTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50257924 original size:38 final size:38
Alignment explanation
Indices: 50257863--50258173 Score: 442
Period size: 38 Copynumber: 8.1 Consensus size: 38
50257853 ATTTGATGTG
* *
50257863 TATCCGGGCTTAAAGACCCGCAGGCTTCGTACTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* *
50257903 TATTCGGGTTAAATCCCGCAGGTTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
50257941 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
50257979 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
50258017 TATCCGGGCATAAAGACCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* *
50258057 TATCTGGGTTAAATCCCACAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
50258095 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
50258133 TATCCAGGTTAAATCCCGCAGGCCTAGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
50258171 TAT
1 TAT
50258174 TCAGGCCTTT
Statistics
Matches: 246, Mismatches: 23, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
38 195 0.79
39 13 0.05
40 38 0.15
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:50258067 original size:116 final size:114
Alignment explanation
Indices: 50257863--50258173 Score: 424
Period size: 116 Copynumber: 2.7 Consensus size: 114
50257853 ATTTGATGTG
* * * * * *
50257863 TATCCGGGCTTAAAGACCCGCAGGCTTCGTACTGGTAATATATTCGGGTTAAATCCCGCAGGTTT
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATATATCCGGGATAAAACCCGCAGGCTT
*
50257928 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
64 CGTGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATA
50257979 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGCATAAAGACCCGCAGGCTT
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGG-ATAAA-ACCCGCAGGCTT
* *
50258044 CGTGCTGGTAATATATCTGGGTTAAATCCCACAGGCTTCGTGCTGGTAATA
64 CGTGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATA
* * * * * * *
50258095 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTAAATCCCGCAGGCCTAG
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGATAAAACCCGCAGGCTTCG
* *
50258160 TACTGGTATTATAT
66 TGCTGGTAATATAT
50258174 TCAGGCCTTT
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
114 53 0.30
115 13 0.07
116 109 0.62
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (114 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGATAAAACCCGCAGGCTTCG
TGCTGGTAATATATCCGGGTTAAATCCCACAGGCTTCATGCTGGTAATA
Found at i:50258143 original size:154 final size:154
Alignment explanation
Indices: 50257863--50258173 Score: 516
Period size: 154 Copynumber: 2.0 Consensus size: 154
50257853 ATTTGATGTG
* * *
50257863 TATCCGGGCTTAAAGACCCGCAGGCTTCGTACTGGTAATATATTCGGGTTAAATCCCGCAGGTTT
1 TATCCGGGCATAAAGACCCGCAGGCTTCGTACTGGTAATATATTCGGGTTAAATCCCACAGGCTT
*
50257928 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATCCGGGTTAAAT
66 CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATCCAGGTTAAAT
* * *
50257993 CCCGCAGGCTTCGTGCTGGTAATA
131 CCCGCAGGCCTAGTACTGGTAATA
*
50258017 TATCCGGGCATAAAGACCCGCAGGCTTCGTGCTGGTAATATA-TCTGGGTTAAATCCCACAGGCT
1 TATCCGGGCATAAAGACCCGCAGGCTTCGTACTGGTAATATATTC-GGGTTAAATCCCACAGGCT
*
50258081 TCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTATTATATCCAGGTTAAA
65 TCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATCCAGGTTAAA
*
50258146 TCCCGCAGGCCTAGTACTGGTATTA
130 TCCCGCAGGCCTAGTACTGGTAATA
50258171 TAT
1 TAT
50258174 TCAGGCCTTT
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
153 2 0.01
154 144 0.99
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (154 bp):
TATCCGGGCATAAAGACCCGCAGGCTTCGTACTGGTAATATATTCGGGTTAAATCCCACAGGCTT
CGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATCCAGGTTAAAT
CCCGCAGGCCTAGTACTGGTAATA
Found at i:50267907 original size:2 final size:2
Alignment explanation
Indices: 50267861--50267890 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50267851 CGGCTCTAGC
50267861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50267891 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50268695 original size:40 final size:40
Alignment explanation
Indices: 50268598--50268777 Score: 166
Period size: 40 Copynumber: 4.5 Consensus size: 40
50268588 TCGAATGGTG
* * * *
50268598 TCCGGGCTAAGCCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
50268639 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
50268679 ACCGGGTTAAGTCCCGAAGTCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * *
50268719 TCCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
50268760 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
50268778 ACAATCGAGC
Statistics
Matches: 112, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
40 85 0.76
41 27 0.24
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50268736 original size:80 final size:80
Alignment explanation
Indices: 50268635--50268791 Score: 190
Period size: 80 Copynumber: 2.0 Consensus size: 80
50268625 GCTAAGTGAC
* * * * *
50268635 TAAATCCGGGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGTC
1 TAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGAC
* *
50268700 ATTCGTGCGAGTTAT
66 AATCGAGCGAGTTAT
* * * * *
50268715 TAAATCCGGG-CTAATTCCCGAAGGCAATTGTGTGAATCACTATAACCGGGCTATGTCCCGAAGA
1 TAAATCCGGGTC-AACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGA
50268779 CAATCGAGCGAGT
65 CAATCGAGCGAGT
50268792 CGCTATATCC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 63 0.98
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (80 bp):
TAAATCCGGGTCAACTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGAC
AATCGAGCGAGTTAT
Found at i:50270750 original size:37 final size:37
Alignment explanation
Indices: 50270700--50270773 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
50270690 ATTGGTCACC
50270700 CTCTAACATCCATGCACACTTGTAAACTTCAAAGGTA
1 CTCTAACATCCATGCACACTTGTAAACTTCAAAGGTA
*
50270737 CTCTAACATCCATGCACACTTGTAAGCTTCAAAGGTA
1 CTCTAACATCCATGCACACTTGTAAACTTCAAAGGTA
50270774 TTTTACATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (37 bp):
CTCTAACATCCATGCACACTTGTAAACTTCAAAGGTA
Found at i:50274813 original size:46 final size:47
Alignment explanation
Indices: 50274726--50274828 Score: 154
Period size: 46 Copynumber: 2.2 Consensus size: 47
50274716 TACATGAATT
* *
50274726 ATTCCTGTCTCCAATGCCATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCA-ATATATCTAATATGGACTTACATGGCTC
*
50274774 ATTCCTGTCTCCAAAGCC-ATATATCTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCAATATATCTAATATGGACTTACATGGCTC
*
50274820 ATTTCTGTC
1 ATTCCTGTC
50274829 CTGTCTTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
46 34 0.67
48 17 0.33
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (47 bp):
ATTCCTGTCTCCAAAGCCAATATATCTAATATGGACTTACATGGCTC
Found at i:50284269 original size:20 final size:20
Alignment explanation
Indices: 50284231--50284278 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
50284221 TTAAATTCTA
* **
50284231 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
50284251 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
50284271 AAA-ATAAA
1 AAAGATAAA
50284279 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:50284303 original size:27 final size:26
Alignment explanation
Indices: 50284273--50284334 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
50284263 AGATAATTAA
50284273 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
50284300 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
50284327 AATAAAAT
1 AATAAAAT
50284335 AGAGTCTTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:50288007 original size:78 final size:81
Alignment explanation
Indices: 50287840--50288023 Score: 236
Period size: 78 Copynumber: 2.3 Consensus size: 81
50287830 GCTACTCGTT
* * *
50287840 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
50287904 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
**
50287920 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACT-GCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
*
50287981 GGATATAGTCACTTAGCA
65 GGATATAGTAAC-TAGCA
50287999 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50288024 CATCATTCGA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
77 3 0.03
78 38 0.41
79 36 0.39
80 15 0.16
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:50288023 original size:40 final size:40
Alignment explanation
Indices: 50287821--50288023 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
50287811 CGGAATTTAA
** *
50287821 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
50287861 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
50287901 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
50287940 CCGGA-ATTAGTAACT-GCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
50287979 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
50288019 CCGGA
1 CCGGA
50288024 CATCATTCGA
Statistics
Matches: 141, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
37 2 0.01
38 14 0.10
39 35 0.25
40 80 0.57
41 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:50296118 original size:76 final size:76
Alignment explanation
Indices: 50295976--50296176 Score: 239
Period size: 77 Copynumber: 2.6 Consensus size: 76
50295966 CCTTCAGAAT
* * *
50295976 TTAACCGGATATAGCTACTCGTCA-AATGCCTTCGGGACATAGCCCGTTATAGTAACTCGCATAA
1 TTAACCGGATATAG-TACTCG-CACAATGCCTTCGGGACTTAGCCCGATATAGTAACTCGCACAA
50296040 ATGCCTTCGGA-C
64 ATGCCTTCGGATC
*
50296052 TTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGG-CTTAGCCCGA-ATTAGTAACTCGCACA
1 TTAA-CCGGATATAGT-ACTCGCACAATGCCTTCGGGACTTAGCCCGATA-TAGTAACTCGCACA
50296115 AATGCCTTCGGATC
63 AATGCCTTCGGATC
* * *
50296129 TTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 TTA-ACCGGATATAGT-AC-TCGCACAATGCCTTCGGGACTTAGCCCG
50296177 GACATCATTC
Statistics
Matches: 108, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
75 1 0.01
76 40 0.37
77 42 0.39
78 16 0.15
79 9 0.08
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (76 bp):
TTAACCGGATATAGTACTCGCACAATGCCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAAT
GCCTTCGGATC
Found at i:50296119 original size:38 final size:39
Alignment explanation
Indices: 50295998--50296176 Score: 186
Period size: 38 Copynumber: 4.6 Consensus size: 39
50295988 AGCTACTCGT
* *
50295998 CAAATGCCTTCGGGACATAGCCCG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGAATATAGTAACTCGCA
* * * * *
50296037 TAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGAATATAGTAACTCGCA
50296076 C-AATGCCTTCGGGCTTAGCCCGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGAATATAGTAACTCGCA
* * * * *
50296113 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGAATATAGTAAC-TCGCA
50296154 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGG-CTTAGCCCG
50296177 GACATCATTC
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
37 13 0.11
38 39 0.33
39 35 0.30
40 22 0.19
41 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGAATATAGTAACTCGCA
Found at i:50296164 original size:40 final size:37
Alignment explanation
Indices: 50295998--50296178 Score: 175
Period size: 39 Copynumber: 4.6 Consensus size: 37
50295988 AGCTACTCGT
* *
50295998 CAAATGCCTTCGGGACATAGCCC-GTTATAGTAACTCGCA
1 CAAA-GCCTTC-GGACTTAGCCCGGAT-TAGTAACTCGCA
* *
50296037 TAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAA-GCCTTCGGACTTAGCCCGGA-TTAGTAACTCGCA
* * *
50296076 CAATGCCTTCGGGCTTAGCCCGAATTAGTAACTCGCA
1 CAAAGCCTTCGGACTTAGCCCGGATTAGTAACTCGCA
* * *
50296113 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAA-GCCTTCGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
50296154 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTC-GGACTTAGCCCGGA
50296179 CATCATTCGA
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
37 16 0.13
38 34 0.29
39 35 0.29
40 23 0.19
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (37 bp):
CAAAGCCTTCGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:50296900 original size:2 final size:2
Alignment explanation
Indices: 50296893--50296918 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50296883 TCATGTGCAA
50296893 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
50296919 GCAAGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50298545 original size:22 final size:22
Alignment explanation
Indices: 50298518--50298559 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50298508 TTATTAACCC
50298518 AAATTAAATTAGA-TATAAATTA
1 AAATT-AATTAGATTATAAATTA
*
50298540 AAATTAATTATATTATAAAT
1 AAATTAATTAGATTATAAAT
50298560 AAATACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTAATTAGATTATAAATTA
Found at i:50305749 original size:40 final size:39
Alignment explanation
Indices: 50305638--50305788 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
50305628 TTAATCACGT
* * *
50305638 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
50305678 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
50305718 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
50305758 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
50305789 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Done.