Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 94 of 259
Found at i:30761960 original size:27 final size:26
Alignment explanation
Indices: 30761915--30761979 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 26
30761905 TTTGCCATAT
*
30761915 TATCTGTTCTGGTGGCTCTGCCACAA
1 TATCTGTTCTGGTGACTCTGCCACAA
* *
30761941 TATCTGTATCTGGTGACTCTGTCTCAA
1 TATCTGT-TCTGGTGACTCTGCCACAA
30761968 TATCTGTTCTGG
1 TATCTGTTCTGG
30761980 CAGCCATGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 12 0.34
27 23 0.66
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (26 bp):
TATCTGTTCTGGTGACTCTGCCACAA
Found at i:30762106 original size:6 final size:6
Alignment explanation
Indices: 30762097--30762200 Score: 79
Period size: 6 Copynumber: 16.8 Consensus size: 6
30762087 TTGCATTCAC
*
30762097 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT- ATTACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
30762147 ATACTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
30762196 ATTCT
1 ATTCT
30762201 AGTTTTGATA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
5 6 0.08
6 60 0.77
7 8 0.10
8 4 0.05
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:30762128 original size:25 final size:25
Alignment explanation
Indices: 30762100--30762188 Score: 142
Period size: 25 Copynumber: 3.6 Consensus size: 25
30762090 CATTCACATT
30762100 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
30762125 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* *
30762150 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTTACCTGATA
*
30762175 CTGATTCTAATTCT
1 CTGATTCTGATTCT
30762189 CATTTTGATT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:30766572 original size:46 final size:45
Alignment explanation
Indices: 30766505--30766679 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
30766495 TGTAACCCGC
* *
30766505 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCAGGCGTTCGTAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GGCATTCGTAT
* * *
30766551 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCATTCGTA--T
* *** * * * *
30766597 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGG-CATTCGTAT
* *
30766644 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
30766680 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
44 4 0.04
45 2 0.02
46 64 0.61
47 31 0.30
49 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGCATTCGTAT
Found at i:30770693 original size:83 final size:84
Alignment explanation
Indices: 30770548--30770715 Score: 266
Period size: 83 Copynumber: 2.0 Consensus size: 84
30770538 TTCACATTAG
* *
30770548 TGATATGAACTCGTCTCGTGAGTTGATTCGAGTCATGTGTTACTCGATCGTTAAAATGGAGAAGT
1 TGATATGAACTCATCTCGTGAGTTGATTCGAGTCATGTGTTACCCGATCGTTAAAATGGAGAAGT
30770613 ATCATTCTTGAACAGAGTA
66 ATCATTCTTGAACAGAGTA
* ** * *
30770632 TGATA-GAACTCATCTCGTGAGTTGATTTGAGTTGTTTGTTGCCCGATCGTTAAAATGGAGAAGT
1 TGATATGAACTCATCTCGTGAGTTGATTCGAGTCATGTGTTACCCGATCGTTAAAATGGAGAAGT
30770696 ATCATTCTTGAACAGAGTA
66 ATCATTCTTGAACAGAGTA
30770715 T
1 T
30770716 TGGTTGAATT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 72 0.94
84 5 0.06
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.35
Consensus pattern (84 bp):
TGATATGAACTCATCTCGTGAGTTGATTCGAGTCATGTGTTACCCGATCGTTAAAATGGAGAAGT
ATCATTCTTGAACAGAGTA
Found at i:30774648 original size:84 final size:83
Alignment explanation
Indices: 30774491--30774659 Score: 293
Period size: 84 Copynumber: 2.0 Consensus size: 83
30774481 CTGATACCAA
*
30774491 ATGATACAACTTATCTCATGAGTTGATTCGAGTCGTTTGTTGCCCGATCGTTAAAATGGAGAAGT
1 ATGATACAACTCATCTCATGAGTTGATTCGAGTCGTTTGTTGCCCGATCGTTAAAATGGAGAAGT
*
30774556 ATCGTTCTTGAACAGAGT
66 ATCATTCTTGAACAGAGT
* *
30774574 ATGATACGAACTCGTCTCATGAGTTGATTCGAGTCGTTTGTTGCCTGATCGTTAAAATGGAGAAG
1 ATGATAC-AACTCATCTCATGAGTTGATTCGAGTCGTTTGTTGCCCGATCGTTAAAATGGAGAAG
30774639 TATCATTCTTGAACAGAGT
65 TATCATTCTTGAACAGAGT
30774658 AT
1 AT
30774660 TGGTCGAATT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 7 0.09
84 74 0.91
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (83 bp):
ATGATACAACTCATCTCATGAGTTGATTCGAGTCGTTTGTTGCCCGATCGTTAAAATGGAGAAGT
ATCATTCTTGAACAGAGT
Found at i:30778195 original size:15 final size:14
Alignment explanation
Indices: 30778175--30778221 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
30778165 AAATAGAGCT
30778175 TGAAAAAGAAACAAG
1 TGAAAAAGAAA-AAG
*
30778190 TGAAAAAGATGAAAG
1 TGAAAAAGA-AAAAG
*
30778205 TGAACAAGAAAAAG
1 TGAAAAAGAAAAAG
30778219 TGA
1 TGA
30778222 GGAATGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.25
15 20 0.71
16 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.23, T:0.11
Consensus pattern (14 bp):
TGAAAAAGAAAAAG
Found at i:30789694 original size:27 final size:27
Alignment explanation
Indices: 30789536--30789729 Score: 226
Period size: 27 Copynumber: 7.2 Consensus size: 27
30789526 TTTGTAAAAG
* * *
30789536 TACCAAAATACCCCTGTAAGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
30789563 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** *
30789590 TATTGAAATACCCCTGTATGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
30789617 TACCGAAATACCCCTGTAGGATGGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
30789644 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
**
30789671 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * * * *
30789698 TATCGAGATACGCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
30789725 TACCG
1 TACCG
30789730 TTTTGCCCCG
Statistics
Matches: 139, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:30790269 original size:27 final size:26
Alignment explanation
Indices: 30790225--30790275 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
30790215 CTCGCTGCAA
*
30790225 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
30790252 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
30790276 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:30795882 original size:21 final size:21
Alignment explanation
Indices: 30795853--30795892 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
30795843 AGATGTCTAA
30795853 ACTAAGACATATTTAAAACAT
1 ACTAAGACATATTTAAAACAT
*
30795874 ACTAGGACATATTTAAAAC
1 ACTAAGACATATTTAAAAC
30795893 CCTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (21 bp):
ACTAAGACATATTTAAAACAT
Found at i:30796061 original size:62 final size:62
Alignment explanation
Indices: 30795993--30796116 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
30795983 CTAAAATAAC
30795993 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
1 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
*
30796055 TATAACCAAATTATTTGTTTATTCTAGCAAATAACATGCACAAGCTGAAGAGAGCTAAAATT
1 TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
30796117 GAGCTAGTTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (62 bp):
TATAACCAAATTATTTGTTTATTCTAGCAAATAAAATGCACAAGCTGAAGAGAGCTAAAATT
Found at i:30797585 original size:16 final size:16
Alignment explanation
Indices: 30797564--30797594 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30797554 AATAAAAACT
30797564 AACTAAATAAACTAAC
1 AACTAAATAAACTAAC
*
30797580 AACTAAATTAACTAA
1 AACTAAATAAACTAA
30797595 AAATCGCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (16 bp):
AACTAAATAAACTAAC
Found at i:30799426 original size:26 final size:29
Alignment explanation
Indices: 30799378--30799444 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 29
30799368 TGTTAGCTGA
30799378 ATTAATGTGTCTTGTTCATATTA-AT-AT
1 ATTAATGTGTCTTGTTCATATTATATGAT
*
30799405 -TTAATGTGTCTTAGCTT-A-ATTATATGTT
1 ATTAATGTGTCTT-G-TTCATATTATATGAT
30799433 ATTAATGTGTCT
1 ATTAATGTGTCT
30799445 AAGTTCAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 16 0.47
27 4 0.12
28 3 0.09
29 11 0.32
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.52
Consensus pattern (29 bp):
ATTAATGTGTCTTGTTCATATTATATGAT
Found at i:30817114 original size:27 final size:27
Alignment explanation
Indices: 30817084--30817261 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30817074 ATATTGAGTC
* * * *
30817084 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30817111 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30817138 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30817166 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30817193 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30817220 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30817247 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30817262 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30817223 original size:82 final size:81
Alignment explanation
Indices: 30817105--30817260 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30817095 TGCTATATAA
* *
30817105 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30817170 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30817187 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30817251 CACTTAGTGC
65 CACTTAGTGC
30817261 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30823545 original size:194 final size:192
Alignment explanation
Indices: 30823218--30823599 Score: 674
Period size: 194 Copynumber: 2.0 Consensus size: 192
30823208 ACCCTAGCTA
*
30823218 TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTTTAATTTTTT
1 TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTTAAATTTTTT
* * *
30823283 TTAATTCATTTTAATAACTAAATGACCAAAATGCCTTTAATTAAAAACTATGGTGTTTTATCTTC
66 TAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAACTAAAAACTATGGTGTTTTATCTTC
* *
30823348 CTTTAGGTATTTTTGTCCAAACTAGTATAATGGTCTAATTACTCTCCAAGGACCTCCAGGTT
131 CTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCAGGTT
* *
30823410 TGTCTTCCTCATGTGAAATTCTGCCAAGGGGTTGAAGATGGACAAAAATTGGCTTTCAAATTTGT
1 TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTT-AAATTT-T
30823475 TTTAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAACTAAAAACTATGGTGTTTTATCT
64 TTTAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAACTAAAAACTATGGTGTTTTATCT
30823540 TCCTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCA
129 TCCTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCA
30823600 CTTTAAAAAC
Statistics
Matches: 180, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
192 54 0.30
193 5 0.03
194 121 0.67
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (192 bp):
TGTCTTCCTCATGTGAAATTCGGCCAAGGGGTTGAAGATGGACAAAAATTAGCTTTAAATTTTTT
TAAATTCATTTTAATAACTAAATGACCAAAATGCCCTTAACTAAAAACTATGGTGTTTTATCTTC
CTTTAGGTATTTTTGTCCAAACTAGTATAATGATCTAATTACTATCCAAGGACCTCCAGGTT
Found at i:30828863 original size:31 final size:31
Alignment explanation
Indices: 30828817--30828894 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
30828807 TTAACGATTG
*
30828817 CTGGGCCGAACCCTTTTCATAAATCATATCA
1 CTGGGCCGAAGCCTTTTCATAAATCATATCA
* *
30828848 CTGGGCCAAAGCCTTTTCATAAATCATTTCA
1 CTGGGCCGAAGCCTTTTCATAAATCATATCA
*
30828879 CTGAGCCGAAGCCTTT
1 CTGGGCCGAAGCCTTT
30828895 ACTGTAAACG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (31 bp):
CTGGGCCGAAGCCTTTTCATAAATCATATCA
Found at i:30828965 original size:42 final size:42
Alignment explanation
Indices: 30828918--30829009 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
30828908 TGGCCCATAG
* ** *
30828918 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
30828960 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
30829002 GCCCATTT
1 GCCCATTT
30829010 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:30829206 original size:26 final size:26
Alignment explanation
Indices: 30829154--30829277 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
30829144 CCTCTTTAAT
*
30829154 AACTGGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
30829179 AACTGGGGCATAAGACCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30829205 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30829231 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
30829257 AACTGGGGCATTAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
30829278 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 10 0.11
26 80 0.89
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:30830167 original size:27 final size:27
Alignment explanation
Indices: 30830083--30830169 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
30830073 TATTCGTCAT
* *
30830083 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
30830110 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
* *
30830137 TTTACCCTACAGGGGCTTTACGATCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
30830164 TTTACC
1 TTTACC
30830170 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:30830291 original size:29 final size:29
Alignment explanation
Indices: 30830227--30830331 Score: 105
Period size: 28 Copynumber: 3.8 Consensus size: 29
30830217 ATCTACAAAC
*
30830227 CAAGGGTATTTC-AGTAATTTTGTTAAAT
1 CAAGGGTATTTCTAGTAATTTTGTGAAAT
*
30830255 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTCTAGTAATTTTGT-GAAA-T
*
30830284 CAAGGGTATTTCT-GTAACTTTGT-AAAT
1 CAAGGGTATTTCTAGTAATTTTGTGAAAT
* *
30830311 CAGGGGTATTT-TGGTAATTTT
1 CAAGGGTATTTCTAGTAATTTT
30830332 ACAAATTGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
26 1 0.02
27 19 0.29
28 24 0.37
29 20 0.31
30 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.44
Consensus pattern (29 bp):
CAAGGGTATTTCTAGTAATTTTGTGAAAT
Found at i:30830535 original size:80 final size:80
Alignment explanation
Indices: 30830312--30830545 Score: 301
Period size: 80 Copynumber: 2.9 Consensus size: 80
30830302 TTTGTAAATC
* *
30830312 AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG-GGTATTTT
* *
30830377 GGTAATGTTACAAACT
65 AGTAATTTTACAAACT
*
30830393 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAA-TTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-AGGGTATTTT
* * *
30830457 AGCAATTTTATAGACT
65 AGTAATTTTACAAACT
** * * **
30830473 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-AGGGTATTTT
30830537 AGTAATTTT
65 AGTAATTTT
30830546 GTAAATTGAG
Statistics
Matches: 134, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 36 0.27
80 55 0.41
81 43 0.32
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTA
GTAATTTTACAAACT
Found at i:30830675 original size:27 final size:27
Alignment explanation
Indices: 30830200--30830681 Score: 242
Period size: 27 Copynumber: 17.8 Consensus size: 27
30830190 TTTCATCCTA
* * * * *
30830200 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** *
30830227 CAAGGGTATTTCAGTAATTTTGTTAAAT
1 CAAGGGTATTTTGGTAATTTT-ATAAAT
* * *
30830255 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-T
* *
30830284 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
* *
30830311 CAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTGGTAATTTTATAAA-T
* * * *
30830339 GAA-GGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
30830364 CCAGTGGTATTTTGGTAATGTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
30830391 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* * * *
30830419 TAAGGGTATTTCGGTAA-TTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
30830445 CAAGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
30830471 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* * *
30830498 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
30830525 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
** ***** *
30830552 TGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*** * *
30830579 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** * * *
30830606 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
**** *
30830633 CAAGGGTAAAACGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
30830660 CAAGGGTACTTTGGTAATTTTA
1 CAAGGGTATTTTGGTAATTTTA
30830682 CAATTTGAGG
Statistics
Matches: 367, Mismatches: 74, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.00
26 44 0.12
27 274 0.75
28 28 0.08
29 20 0.05
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:30830703 original size:81 final size:80
Alignment explanation
Indices: 30830525--30830705 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 80
30830515 TTTTGTAAAC
* **
30830525 CGAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
1 CGAGGGTA-TTTAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
*
30830590 TAGTAATTCTATAAAT
65 TAGTAATTCTACAAAT
** * ***
30830606 CGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTATAAATCAAGGGTACTT
1 CGAGGGT-ATTTAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAA
* * *
30830671 TGGTAATTTTACAATT
65 TAGTAATTCTACAAAT
*
30830687 TGAGGGTATTTCAGTAATT
1 CGAGGGTATTT-AGTAATT
30830706 TGGTAAACTA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
80 2 0.02
81 79 0.96
82 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (80 bp):
CGAGGGTATTTAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAT
AGTAATTCTACAAAT
Found at i:30837005 original size:68 final size:70
Alignment explanation
Indices: 30836933--30837062 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 70
30836923 ATACTATGTA
* * * *
30836933 GTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CCATGTAGACAAGAGAGCTACGAGAGAG
1 GTAGCTAGGCCACATGTGTGATTCAAGGGAAGGA-CACCATGTAGACAAGAGAGCTACGAGAGAG
30836995 ATAAAT
65 ATAAAT
* *
30837001 GTAGCTAGGCCGCATGTGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGCCACATGTGTGATT-CAAGGGAAGGACACCATGTAGACAAGAGAGCTACGAGA
30837063 CAAATCGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
68 19 0.37
69 1 0.02
70 1 0.02
71 31 0.60
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGCCACATGTGTGATTCAAGGGAAGGACACCATGTAGACAAGAGAGCTACGAGAGAGA
TAAAT
Found at i:30848520 original size:18 final size:17
Alignment explanation
Indices: 30848499--30848560 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
30848489 ATACTCACTC
30848499 TCTTTTTCAATCTTCTTT
1 TCTTTTTCAAT-TTCTTT
** *
30848517 TCTTGATCAATTTTTTT
1 TCTTTTTCAATTTCTTT
30848534 TCTTTTTCAATTTCATTTT
1 TCTTTTTCAATTTC--TTT
30848553 TCTTTTTC
1 TCTTTTTC
30848561 TCACTTTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
17 16 0.44
18 9 0.25
19 11 0.31
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTTTTCAATTTCTTT
Found at i:30848568 original size:21 final size:19
Alignment explanation
Indices: 30848501--30848584 Score: 68
Period size: 17 Copynumber: 4.4 Consensus size: 19
30848491 ACTCACTCTC
30848501 TTTTTCAATCTTC-TTTTC-
1 TTTTTCAAT-TTCTTTTTCT
**
30848519 TTGATCAATTT-TTTTTC-
1 TTTTTCAATTTCTTTTTCT
30848536 TTTTTCAATTTCATTTTTCT
1 TTTTTCAATTTC-TTTTTCT
*
30848556 TTTTCTCACTTTCTTTTTACT
1 TTTT-TCAATTTCTTTTT-CT
30848577 TTCTTTCA
1 TT-TTTCA
30848585 CACTATTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
17 16 0.30
18 7 0.13
19 6 0.11
20 9 0.17
21 14 0.26
22 2 0.04
ACGTcount: A:0.13, C:0.19, G:0.01, T:0.67
Consensus pattern (19 bp):
TTTTTCAATTTCTTTTTCT
Found at i:30848585 original size:21 final size:20
Alignment explanation
Indices: 30848530--30848598 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
30848520 TGATCAATTT
*
30848530 TTTTTC-TTTTTCAATTTCA
1 TTTTTCTTTTTTCACTTTCA
30848549 TTTTTCTTTTTCTCACTTTC-
1 TTTTTCTTTTT-TCACTTTCA
**
30848569 TTTTTACTTTCTTTCACACT-A
1 TTTTT-CTTT-TTTCACTTTCA
30848590 TTTTTCTTT
1 TTTTTCTTT
30848599 CATTTCTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
19 6 0.14
20 13 0.31
21 21 0.50
22 2 0.05
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTCTTTTTTCACTTTCA
Found at i:30849527 original size:19 final size:18
Alignment explanation
Indices: 30849494--30849529 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30849484 ACTTCTCACC
*
30849494 TTTTTTTATATTTCAAAA
1 TTTTTTTATACTTCAAAA
30849512 TTTTTTTATAACTTCAAA
1 TTTTTTTAT-ACTTCAAA
30849530 GTAATGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTTATACTTCAAAA
Found at i:30852754 original size:33 final size:33
Alignment explanation
Indices: 30852717--30852788 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
30852707 CCCACAATGC
*
30852717 TACTGTATAGGGCTAAGGCCCAAACTGTACTGT
1 TACTGTATAGGGCTAAGGCCCAAACTGTACTGA
* ** *
30852750 TACTGAATAGGGCTTTGGCCCAGACTGTACTGA
1 TACTGTATAGGGCTAAGGCCCAAACTGTACTGA
30852783 TACTGT
1 TACTGT
30852789 GTTGTTTACT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (33 bp):
TACTGTATAGGGCTAAGGCCCAAACTGTACTGA
Found at i:30853891 original size:20 final size:21
Alignment explanation
Indices: 30853848--30853891 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
30853838 TATATTCATT
*
30853848 CTAGACATATTTAAACAACAA
1 CTAGACATACTTAAACAACAA
* *
30853869 CTAGACA-ACTTAAATAACTA
1 CTAGACATACTTAAACAACAA
30853889 CTA
1 CTA
30853892 ACCAATTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.50, C:0.20, G:0.05, T:0.25
Consensus pattern (21 bp):
CTAGACATACTTAAACAACAA
Found at i:30855745 original size:27 final size:27
Alignment explanation
Indices: 30855707--30855762 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
30855697 ATTAAACAGA
*
30855707 TAGGTGAGTTTACGAGAACTCAGTGTG
1 TAGGTGAGTTTACGAAAACTCAGTGTG
*
30855734 TAGGTGAGTTTATGAAAACTCAGTGTG
1 TAGGTGAGTTTACGAAAACTCAGTGTG
30855761 TA
1 TA
30855763 ATCCCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (27 bp):
TAGGTGAGTTTACGAAAACTCAGTGTG
Found at i:30856288 original size:27 final size:27
Alignment explanation
Indices: 30856258--30856321 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
30856248 GGGGTTAAAT
*
30856258 AGTCATTTTAGCACATAAGGGCAAAGC
1 AGTCATTTTACCACATAAGGGCAAAGC
* *
30856285 AGTCATGTTACCTCATAAGGGCAAAGC
1 AGTCATTTTACCACATAAGGGCAAAGC
30856312 AGTCATTTTA
1 AGTCATTTTA
30856322 TTGATTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGCAAAGC
Found at i:30863636 original size:141 final size:142
Alignment explanation
Indices: 30863363--30863646 Score: 543
Period size: 141 Copynumber: 2.0 Consensus size: 142
30863353 AAGATCCTAG
30863363 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
1 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
30863428 GTGTTTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACA
66 GTG-TTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACA
30863493 TCTTTTTCTAAGT
130 TCTTTTTCTAAGT
*
30863506 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACTCAT
1 AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
30863571 GTG-TGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACAT
66 GTGTTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACAT
30863635 CTTTTTCTAAGT
131 CTTTTTCTAAGT
30863647 GATTTTTTTG
Statistics
Matches: 140, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 73 0.52
143 67 0.48
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (142 bp):
AAGCATGATTTAGCTATTTCTACCCTTTATTTGAACTAGGGTTTATGTTTAAAAAAATTACCCAT
GTGTTGTCATGCATGTATTTTGATGATTAATGGAGGAATATGGAAGTTTGGTGTTAAATGAACAT
CTTTTTCTAAGT
Found at i:30864443 original size:48 final size:48
Alignment explanation
Indices: 30864192--30864468 Score: 237
Period size: 48 Copynumber: 5.8 Consensus size: 48
30864182 GGGTCGATGA
* * * * ** *
30864192 GATCCCGTATAAGACCATATCTGGGATATGGCATCAGCATCGATATAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
30864240 GATCCCATGTAAAACCATGTCTGGGACATGGCATTGGCATC-ATTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA-TATGT
* * *
30864288 GATTCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * * *
30864336 G-TACATCGTGTAAGACCA-GAGCTGGG-CTATCGG-GTTTG-AT--ATGTGT
1 GAT-C-CCATGTAAGACCATG-TCTGGGAC-AT-GGCATTGGCATCGATATGT
30864382 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
** * * * *
30864430 GGCCCCATGTAAGACCATATCCGGGATATGGCATCGGCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30864469 CCCTATTATG
Statistics
Matches: 182, Mismatches: 33, Indels: 28
0.75 0.14 0.12
Matches are distributed among these distances:
44 2 0.01
45 21 0.12
46 10 0.05
47 3 0.02
48 123 0.68
49 21 0.12
50 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:30866674 original size:28 final size:26
Alignment explanation
Indices: 30866612--30866681 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
30866602 ATTGTAGTTA
30866612 AATGTAAATATTACATATTTTTTTGT
1 AATGTAAATATTACATATTTTTTTGT
*
30866638 AATGTAAATATTATATATTTTTTTGT
1 AATGTAAATATTACATATTTTTTTGT
*
30866664 AATGTAAAAATATACATA
1 AATGTAAATAT-TACATA
30866682 AGCTATAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 35 0.88
27 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (26 bp):
AATGTAAATATTACATATTTTTTTGT
Found at i:30869586 original size:24 final size:24
Alignment explanation
Indices: 30869559--30869609 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
30869549 CCCATGACCG
30869559 AAACATCAAAGAAAGAAAAGAAAT
1 AAACATCAAAGAAAGAAAAGAAAT
*
30869583 AAACATCAAAGAAAGAAAATAAAT
1 AAACATCAAAGAAAGAAAAGAAAT
30869607 AAA
1 AAA
30869610 GCTTTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.10
Consensus pattern (24 bp):
AAACATCAAAGAAAGAAAAGAAAT
Found at i:30870492 original size:24 final size:24
Alignment explanation
Indices: 30870465--30870511 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
30870455 TTAATTTGTG
30870465 TAAGACAACGTCTGGGATGTTGGA
1 TAAGACAACGTCTGGGATGTTGGA
*
30870489 TAAGACCACGTCTGGGATGTTGG
1 TAAGACAACGTCTGGGATGTTGG
30870512 CATCGATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.34, T:0.26
Consensus pattern (24 bp):
TAAGACAACGTCTGGGATGTTGGA
Found at i:30870621 original size:43 final size:43
Alignment explanation
Indices: 30870489--30870712 Score: 258
Period size: 43 Copynumber: 5.3 Consensus size: 43
30870479 GGATGTTGGA
* *
30870489 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * * * * * *
30870532 TAAGACCATGTCTAGGACATCGGTATCG-TATTTGATTCA-TG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
*
30870573 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* * * * *
30870616 TAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTCA-TG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
* *
30870657 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
*
30870700 TAAGACCATGTCT
1 TAAGACCACGTCT
30870713 TGGATATTAG
Statistics
Matches: 145, Mismatches: 32, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
41 50 0.34
42 34 0.23
43 61 0.42
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAAGTG
Found at i:30870634 original size:84 final size:84
Alignment explanation
Indices: 30870489--30870737 Score: 408
Period size: 84 Copynumber: 3.0 Consensus size: 84
30870479 GGATGTTGGA
*
30870489 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
*
30870554 GTATCGTATTTGATTCATG
66 GCATCGTATTTGATTCATG
* * *
30870573 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTGTAAGACCATGTCTGGGACATCG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
30870638 GCATCGTATTTGATTCATG
66 GCATCGTATTTGATTCATG
* * * **
30870657 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTTGGATATTA
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
30870722 GCATCGTATTTGATTC
66 GCATCGTATTTGATTC
30870738 GTGATGTGAT
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 153 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (84 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTCTAGGACATCG
GCATCGTATTTGATTCATG
Found at i:30870726 original size:43 final size:41
Alignment explanation
Indices: 30870489--30870740 Score: 252
Period size: 43 Copynumber: 6.0 Consensus size: 41
30870479 GGATGTTGGA
**
30870489 TAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-TATGTGATT-CGTG
* * * * * *
30870532 TAAGACCATGTCTAGGACATCGGTATCGTATTTGATTCATG
1 TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
* * *
30870573 TAAGACCACGTTTGGGACGTTGGCATCGATATGTGATTAAGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-TATGTGATT-CGTG
* * * *
30870616 TAAGACCATGTCTGGGACATCGGCATCGTATTTGATTCATG
1 TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
* *
30870657 TAAGACCACATCTGGGACGTTGGCATCGATATGTGATTACGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-TATGTGATT-CGTG
* * * * *
30870700 TAAGACCATGTCTTGGATATTAGCATCGTATTTGATTCGTG
1 TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
30870741 ATGTGATCCG
Statistics
Matches: 168, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
41 55 0.33
42 40 0.24
43 73 0.43
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (41 bp):
TAAGACCACGTCTGGGACATTGGCATCGTATGTGATTCGTG
Found at i:30874581 original size:50 final size:48
Alignment explanation
Indices: 30874462--30874779 Score: 223
Period size: 46 Copynumber: 6.7 Consensus size: 48
30874452 TGGGGTAAGT
* **
30874462 TGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATCG
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
* * *
30874510 AGGCTGATGCCATGTCCCAGACATGGTCTTACACTAACTCTTGCAT-ATCCG
1 TGTC-GATGCCATGTCCCAGACATGGTCTTACACTAACT-AT-CATCAT-CG
* *
30874561 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-CATC-TCA
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
* * ** *
30874606 TAGCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTC-TCG
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTAT-CATCATCG
* * * * **
30874652 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCATCTTAA
1 -TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTA-TCATCATCG
* ** * *
30874699 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G
1 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
* *
30874746 TGGTCGATG-CATGTCCTAGACAT-ATCTTACACTA
1 T-GTCGATGCCATGTCCCAGACATGGTCTTACACTA
30874780 GCCCACGAGA
Statistics
Matches: 221, Mismatches: 32, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
44 11 0.05
45 16 0.07
46 66 0.30
47 30 0.14
48 25 0.11
49 31 0.14
50 35 0.16
51 7 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
TGTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCG
Found at i:30874660 original size:46 final size:47
Alignment explanation
Indices: 30874465--30874736 Score: 245
Period size: 46 Copynumber: 5.7 Consensus size: 47
30874455 GGTAAGTTGT
* *
30874465 CGATGCCATGTCCTAGACATGGTCTTACACTGGC-TATCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TC-AAGC
* ** * * ** *
30874514 TGATGCCATGTCCCAGACATGGTCTTACACTAACTCTTGCATATCCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT--GGCTTACATCT-CAAGC
*
30874564 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCA-AGC
* * *
30874610 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCTTACGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGC
* * *
30874656 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CATCTTAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCAA-GC
30874702 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
30874737 CTCATAATGT
Statistics
Matches: 182, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 59 0.32
47 16 0.09
48 13 0.07
49 29 0.16
50 32 0.18
51 5 0.03
52 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGC
Found at i:30874720 original size:138 final size:145
Alignment explanation
Indices: 30874465--30874733 Score: 374
Period size: 138 Copynumber: 1.9 Consensus size: 145
30874455 GGTAAGTTGT
* *
30874465 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
* ** *
30874530 ACATGGTCTTACACTAACTCTTGCATATCCGTGTCGATGCCATGTCCCAGACATGGTCTTACACT
66 ACATGGTCTTACACTAACACTTGCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
30874595 GACACATCTCATAGC
131 GACACATCTCATAGC
* *
30874610 CGATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTC-TCGAGGCCGATG-CATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCA
* * *
30874670 GACAT-GTCTTACACTAGCAC-T-CATCTTAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
65 GACATGGTCTTACACTAACACTTGCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
30874732 TG
130 TG
30874734 GCTCTCATAA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 38 0.34
139 1 0.01
140 13 0.12
141 14 0.12
142 12 0.11
143 16 0.14
144 13 0.12
145 5 0.04
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (145 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAACACTTGCATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
GACACATCTCATAGC
Found at i:30874754 original size:94 final size:97
Alignment explanation
Indices: 30874463--30874781 Score: 324
Period size: 94 Copynumber: 3.4 Consensus size: 97
30874453 GGGGTAAGTT
* * ** * *
30874463 GTCGATGCCATGTCCTAGACATGGTCTTACACTGGCTA-TCATCATCGAGGCTGATGCCATGTCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACTCATC-TTAATGCCGATGCCATGTCC
** *
30874527 CAGACATGGTCTTACACTAACTCTTGCATATCCGT-
64 CAGACATGGTCTTACACTGGCTC-TACATAT-CGTG
* *
30874562 GTCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TCATAGCCGATG-CATGTCCC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAAT-GCCGATGCCATGTCCC
* * * *
30874623 AGACAT-GTCTTACATTGGCT-TACGTCTCGAG
65 AGACATGGTCTTACACTGGCTCTACATATCGTG
*
30874654 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCA
30874717 GACATGGTCTTACACTGGCTCT-CATAAT-GTG
66 GACATGGTCTTACACTGGCTCTACAT-ATCGTG
* *
30874748 GTCGATG-CATGTCCTAGACAT-ATCTTACACTAGC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGC
30874782 CCACGAGAAC
Statistics
Matches: 187, Mismatches: 23, Indels: 25
0.80 0.10 0.11
Matches are distributed among these distances:
90 10 0.05
91 17 0.09
92 23 0.12
93 17 0.09
94 59 0.32
95 17 0.09
96 7 0.04
97 4 0.02
98 1 0.01
99 32 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (97 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCATCTTAATGCCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTACATATCGTG
Found at i:30898562 original size:20 final size:20
Alignment explanation
Indices: 30898520--30898564 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30898510 AAGCTGGCCT
* *
30898520 AGCTCAATTCCAGCTCGTTG
1 AGCTCAATTCCAGCTCATCG
*
30898540 AGCTCAATTCTAGCTCATCG
1 AGCTCAATTCCAGCTCATCG
30898560 AGCTC
1 AGCTC
30898565 GTTTTCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (20 bp):
AGCTCAATTCCAGCTCATCG
Found at i:30902227 original size:30 final size:30
Alignment explanation
Indices: 30902152--30902238 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
30902142 GGAATGTACC
* *
30902152 TTTAGCTCGTGAGCTAAAGTTGAGCTGAGG
1 TTTAGCTCGTGAGCTGAAGTTGAGCTAAGG
* * * * *
30902182 CTAAACTCCTAAGCTGAAGTTGAGCTAAGG
1 TTTAGCTCGTGAGCTGAAGTTGAGCTAAGG
30902212 TTTAGCTCGTGAGCTGAA-TATGAGCTA
1 TTTAGCTCGTGAGCTGAAGT-TGAGCTA
30902239 GGAGTGAGCT
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 43 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TTTAGCTCGTGAGCTGAAGTTGAGCTAAGG
Found at i:30904388 original size:30 final size:30
Alignment explanation
Indices: 30904318--30904399 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
30904308 TTTTGTTTCA
* *
30904318 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCTTC-TCTTTTTCAATCTCAG
30904349 ATTTC-TTTTCGTTCTCTTTTTCAATCTCA-
1 ATTTCTTTTTC-TTCTCTTTTTCAATCTCAG
* *
30904378 TTTTCTTTTTCATTTTCTTTTT
1 ATTTCTTTTTC-TTCTCTTTTT
30904400 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.09
30 33 0.75
31 7 0.16
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTCTTTTTCTTCTCTTTTTCAATCTCAG
Found at i:30904399 original size:18 final size:18
Alignment explanation
Indices: 30904350--30904405 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
30904340 CACTCTCAGA
* *
30904350 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
30904367 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
30904385 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
30904404 TT
1 TT
30904406 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:30904406 original size:12 final size:12
Alignment explanation
Indices: 30904375--30904399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30904365 TTTTTCAATC
30904375 TCATTTTCTTTT
1 TCATTTTCTTTT
30904387 TCATTTTCTTTT
1 TCATTTTCTTTT
30904399 T
1 T
30904400 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:30904491 original size:16 final size:15
Alignment explanation
Indices: 30904470--30904530 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
30904460 CTTGCCTCTC
30904470 TTTTCTTTTTATTTCA
1 TTTTCTTTTT-TTTCA
*
30904486 TTTTCTTTTTCTTC-
1 TTTTCTTTTTTTTCA
*
30904500 TTTTACTTTTTCTTTTA
1 TTTT-CTTTTT-TTTCA
*
30904517 TTTTCTTTATTTTC
1 TTTTCTTTTTTTTC
30904531 TCTTTACAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 17 0.46
17 4 0.11
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTTTTCA
Found at i:30904508 original size:15 final size:14
Alignment explanation
Indices: 30904468--30904513 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
30904458 CTCTTGCCTC
*
30904468 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
30904483 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
30904498 TCTTTTACTTTTTCT
1 TCTTTT-CTTTTTCT
30904513 T
1 T
30904514 TTATTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:30904510 original size:31 final size:31
Alignment explanation
Indices: 30904468--30904537 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
30904458 CTCTTGCCTC
30904468 TCTTTT-CTTTTTATTTCATTTTCTTT-TTCT
1 TCTTTTACTTTTTATTTCATTTTCTTTATT-T
* *
30904498 TCTTTTACTTTTTCTTTTATTTTCTTTATTT
1 TCTTTTACTTTTTATTTCATTTTCTTTATTT
30904529 TCTCTTTAC
1 TCT-TTTAC
30904538 AAGAATGTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 6 0.17
31 22 0.63
32 7 0.20
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (31 bp):
TCTTTTACTTTTTATTTCATTTTCTTTATTT
Found at i:30904512 original size:12 final size:10
Alignment explanation
Indices: 30904485--30904536 Score: 54
Period size: 9 Copynumber: 5.1 Consensus size: 10
30904475 TTTTTATTTC
30904485 ATTTTCTTTT
1 ATTTTCTTTT
*
30904495 -TCTTCTTTT
1 ATTTTCTTTT
30904504 ACTTTTTCTTTT
1 A--TTTTCTTTT
30904516 ATTTTC-TTT
1 ATTTTCTTTT
30904525 ATTTTCTCTTT
1 ATTTTCT-TTT
30904536 A
1 A
30904537 CAAGAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 17 0.49
10 5 0.14
11 4 0.11
12 9 0.26
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (10 bp):
ATTTTCTTTT
Found at i:30904525 original size:21 final size:20
Alignment explanation
Indices: 30904486--30904535 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
30904476 TTTTATTTCA
30904486 TTTTCTTTTTCTTCTTTTACT
1 TTTTCTTTTTCTTCTTTTA-T
*
30904507 TTTTCTTTTATTTTC-TTTAT
1 TTTTCTTTT-TCTTCTTTTAT
30904527 TTTCTCTTT
1 TTT-TCTTT
30904536 ACAAGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 4 0.15
21 18 0.69
22 4 0.15
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTTCTTTTAT
Found at i:30905476 original size:12 final size:12
Alignment explanation
Indices: 30905456--30905503 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 12
30905446 TTCATATTTT
30905456 TTTTCTTTTCGAAA
1 TTTT-TTTT-GAAA
*
30905470 TTTTTTTTTGAAT
1 -TTTTTTTTGAAA
30905483 TTTTTTTTG-AA
1 TTTTTTTTGAAA
30905494 TTTTTTTTGA
1 TTTTTTTTGA
30905504 CTTGTATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 9 0.30
13 3 0.10
14 4 0.13
15 4 0.13
ACGTcount: A:0.17, C:0.04, G:0.08, T:0.71
Consensus pattern (12 bp):
TTTTTTTTGAAA
Found at i:30905503 original size:11 final size:12
Alignment explanation
Indices: 30905468--30905501 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
30905458 TTCTTTTCGA
30905468 AATTTTTTTTTG
1 AATTTTTTTTTG
30905480 AATTTTTTTTTG
1 AATTTTTTTTTG
30905492 AATTTTTTTT
1 AATTTTTTTT
30905502 GACTTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:30908494 original size:10 final size:11
Alignment explanation
Indices: 30908474--30908506 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
30908464 TTTAAAACAA
30908474 ACATATTAAAC
1 ACATATTAAAC
30908485 ACAT-TTAAAC
1 ACATATTAAAC
*
30908495 ACTTATTAAAC
1 ACATATTAAAC
30908506 A
1 A
30908507 AAAAACACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (11 bp):
ACATATTAAAC
Found at i:30908887 original size:16 final size:16
Alignment explanation
Indices: 30908857--30908886 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30908847 TGTAAAGTTA
30908857 TTAATTTAAATAAAAC
1 TTAATTTAAATAAAAC
30908873 TTAA-TTAAATAAAA
1 TTAATTTAAATAAAA
30908887 AAGTCCTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAATTTAAATAAAAC
Found at i:30909629 original size:24 final size:24
Alignment explanation
Indices: 30909602--30909650 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30909592 CATAGTTTTG
30909602 GTCACTCATTCCATAATGTAGCAA
1 GTCACTCATTCCATAATGTAGCAA
30909626 GTCACTCATTCCATAATGTAGCAA
1 GTCACTCATTCCATAATGTAGCAA
30909650 G
1 G
30909651 AATTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (24 bp):
GTCACTCATTCCATAATGTAGCAA
Found at i:30910540 original size:15 final size:15
Alignment explanation
Indices: 30910517--30910550 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30910507 TTCTTTTTTG
*
30910517 ATTTCTTTTTCTCTC
1 ATTTATTTTTCTCTC
*
30910532 ATTTATTTTTCTCTT
1 ATTTATTTTTCTCTC
30910547 ATTT
1 ATTT
30910551 CAATTTCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATTTTTCTCTC
Found at i:30911481 original size:22 final size:22
Alignment explanation
Indices: 30911432--30911485 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
30911422 TTCTTTCTCT
30911432 TTTTCTTTTTACTTTCGAACATC
1 TTTT-TTTTTACTTTCGAACATC
* * **
30911455 CTTTTTTTTACTTTTGAATTTC
1 TTTTTTTTTACTTTCGAACATC
30911477 TTTTTTTTT
1 TTTTTTTTT
30911486 TCTACTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.13, C:0.15, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTTTTTTACTTTCGAACATC
Found at i:30911562 original size:17 final size:17
Alignment explanation
Indices: 30911540--30911574 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30911530 TTTTCATGAA
30911540 TTTTTTTCAATTTTTTT
1 TTTTTTTCAATTTTTTT
**
30911557 TTTTTTTTTATTTTTTT
1 TTTTTTTCAATTTTTTT
30911574 T
1 T
30911575 CAAAACTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.89
Consensus pattern (17 bp):
TTTTTTTCAATTTTTTT
Found at i:30912318 original size:24 final size:21
Alignment explanation
Indices: 30912271--30912320 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
30912261 CTACTAATGT
*
30912271 GTTCACACAACAATTAAAAAG
1 GTTCACACAAAAATTAAAAAG
*
30912292 GTTCACACTAAAACATTAAAGATG
1 GTTCACAC-AAAA-ATTAAA-AAG
30912316 GTTCA
1 GTTCA
30912321 TGAATTCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 6 0.25
24 7 0.29
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.24
Consensus pattern (21 bp):
GTTCACACAAAAATTAAAAAG
Found at i:30917790 original size:20 final size:20
Alignment explanation
Indices: 30917748--30917792 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30917738 AAGCTGACCT
* *
30917748 AGCTCAATTCCAGCTCGTTG
1 AGCTCAATTCCAGCTCATCG
*
30917768 AGCTCAATTCTAGCTCATCG
1 AGCTCAATTCCAGCTCATCG
30917788 AGCTC
1 AGCTC
30917793 GTTTTCATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (20 bp):
AGCTCAATTCCAGCTCATCG
Found at i:30920325 original size:56 final size:56
Alignment explanation
Indices: 30920206--30920340 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
30920196 CCATGGCATT
* * *
30920206 GATATATATGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTGACTCC
1 GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATCTGACTCC
*
30920262 GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGACTCC
1 GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATCTGACTCC
*
30920318 GATATATGCGCT-CGAGTAAGACC
1 GATATATG-TCTGCGAGTAAGACC
30920341 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 71 0.97
57 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (56 bp):
GATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATCTGACTCC
Found at i:30920358 original size:56 final size:56
Alignment explanation
Indices: 30920209--30920369 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 56
30920199 TGGCATTGAT
* * *
30920209 ATATAT-G-TGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATCTGACTCCG
1 ATATATGGCTGCGAGTAAGACCACGTTGAATACGTTGGCATCAATATGTGACTCCG
* *
30920263 ATATATGTCTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGACTCCG
1 ATATATGGCTGCGAGTAAGACCACGTTGAATACGTTGGCATCAATATGTGACTCCG
*
30920319 ATATATGCGCT-CGAGTAAGACC-CTGTCTGGGATA-G-TGGCATCAATATGTGA
1 ATATATG-GCTGCGAGTAAGACCAC-GT-T-GAATACGTTGGCATCAATATGTGA
30920370 TTACATGTAA
Statistics
Matches: 95, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
54 6 0.06
55 1 0.01
56 81 0.85
57 4 0.04
58 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (56 bp):
ATATATGGCTGCGAGTAAGACCACGTTGAATACGTTGGCATCAATATGTGACTCCG
Found at i:30925579 original size:39 final size:39
Alignment explanation
Indices: 30925522--30925602 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
30925512 GAACATATAT
* * *
30925522 TAATGATGTTCAAACTATGACATAATTAAAGACTCATAC
1 TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
30925561 TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
1 TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
30925600 TAA
1 TAA
30925603 AATAACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.28
Consensus pattern (39 bp):
TAATAATGTTCAAACTATGACATAATTAAAGACACAAAC
Found at i:30926202 original size:34 final size:34
Alignment explanation
Indices: 30926134--30926204 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 34
30926124 TCTCACTCTC
* *
30926134 TTTTTCTTTTTCAATTTCTTTTTTTATCATTTCCT
1 TTTTTCTTTCTCAATTTCTTTTTTTAGCA-TTCCT
30926169 TTTTTCTTCTCTCAATTTCTTTTTCTT-GC-TTCCT
1 TTTTTCTT-TCTCAATTTCTTTTT-TTAGCATTCCT
30926203 TT
1 TT
30926205 CATTACAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 7 0.22
35 8 0.25
36 15 0.47
37 2 0.06
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.69
Consensus pattern (34 bp):
TTTTTCTTTCTCAATTTCTTTTTTTAGCATTCCT
Found at i:30926821 original size:63 final size:63
Alignment explanation
Indices: 30926710--30926833 Score: 146
Period size: 63 Copynumber: 2.0 Consensus size: 63
30926700 ACATCTTAAG
* * *
30926710 TTGATGCAAACCCAGTCGCATCATGTTATGACACAACTCGATGCCATCGATATTGGCCTAAAC
1 TTGATACAAACCCAGTCGCATCATGTTATGACACAACTCGATGCCATCGAGAATGGCCTAAAC
* * *
30926773 TTGATACAAACCTAGTCGTATCATGTTTTGACACAGAC-C-AT-CAACATCGAGAATGGCCTAA
1 TTGATACAAACCCAGTCGCATCATGTTATGACACA-ACTCGATGC--CATCGAGAATGGCCTAA
30926834 GCTCGAAGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
61 1 0.02
62 2 0.04
63 47 0.90
64 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (63 bp):
TTGATACAAACCCAGTCGCATCATGTTATGACACAACTCGATGCCATCGAGAATGGCCTAAAC
Found at i:30927440 original size:29 final size:29
Alignment explanation
Indices: 30927407--30927465 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
30927397 CATATTAATT
*
30927407 GAGCTGCTGGTG-TATGGAACAGCATTAAA
1 GAGCTGCTGGTGCT-TAGAACAGCATTAAA
*
30927436 GAGCTGCTGGTGCTTAGAACGGCATTAAA
1 GAGCTGCTGGTGCTTAGAACAGCATTAAA
30927465 G
1 G
30927466 GAGTTGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
GAGCTGCTGGTGCTTAGAACAGCATTAAA
Found at i:30930824 original size:34 final size:35
Alignment explanation
Indices: 30930773--30930844 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
30930763 ATTCTGTAGT
*
30930773 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
30930807 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
30930842 TAG
1 TAG
30930845 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:30934759 original size:24 final size:25
Alignment explanation
Indices: 30934732--30934824 Score: 75
Period size: 25 Copynumber: 3.7 Consensus size: 25
30934722 GAGGAAGTGC
*
30934732 AAAAGGGCTATGCCCTA-ATTACAG
1 AAAAGGGCTATGCCCCAGATTACAG
* * *
30934756 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGATTACAG
* *
30934781 AAAAGGGCTTTTGCCCCAGTTTATC--
1 AAAAGGGC-TATGCCCCAGATTA-CAG
*
30934806 AAAAGGGCTTTTGCCCCAG
1 AAAAGGGC-TATGCCCCAG
30934825 TTATTAAAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
24 15 0.24
25 32 0.52
26 14 0.23
27 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGATTACAG
Found at i:30934800 original size:26 final size:26
Alignment explanation
Indices: 30934750--30934826 Score: 122
Period size: 25 Copynumber: 3.0 Consensus size: 26
30934740 TATGCCCTAA
*
30934750 TTACAGAAAAGGGC-TTTGCCCCAGT
1 TTACCGAAAAGGGCTTTTGCCCCAGT
30934775 TTACCGAAAAGGGCTTTTGCCCCAGT
1 TTACCGAAAAGGGCTTTTGCCCCAGT
*
30934801 TTATC-AAAAGGGCTTTTGCCCCAGT
1 TTACCGAAAAGGGCTTTTGCCCCAGT
30934826 T
1 T
30934827 ATTAAAAGAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 34 0.69
26 15 0.31
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (26 bp):
TTACCGAAAAGGGCTTTTGCCCCAGT
Found at i:30934839 original size:25 final size:25
Alignment explanation
Indices: 30934756--30934839 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
30934746 CTAATTACAG
*
30934756 AAAAGGGC-TTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
30934780 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
30934806 AAAAGGGCTTTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
30934830 AAAAGAGGCT
1 AAAAG-GGCT
30934840 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
24 9 0.16
25 31 0.56
26 15 0.27
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:30942630 original size:24 final size:24
Alignment explanation
Indices: 30942603--30942648 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30942593 TATAGTATGG
* * *
30942603 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
30942627 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
30942649 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:30942711 original size:11 final size:10
Alignment explanation
Indices: 30942679--30942724 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
30942669 CATGAGATTT
30942679 TGATAT-ACA
1 TGATATGACA
*
30942688 TGATTTGACA
1 TGATATGACA
30942698 TGATATGCACA
1 TGATATG-ACA
*
30942709 TGATATG-TA
1 TGATATGACA
30942718 TGATATG
1 TGATATG
30942725 CACGTGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:30942806 original size:24 final size:25
Alignment explanation
Indices: 30942779--30942862 Score: 75
Period size: 25 Copynumber: 3.4 Consensus size: 25
30942769 GAGGAAGTGC
30942779 AAAAGGGCTATG-CCCTAG-TTACAG
1 AAAAGGGCTATGTCCC-AGTTTACAG
* *
30942803 AAAAGGGCTTTGTCCCAGTTTACCG
1 AAAAGGGCTATGTCCCAGTTTACAG
* * *
30942828 AAAAGGGCTTTTTCCCCTGTTTATCA-
1 AAAAGGGCTATGT-CCCAGTTTA-CAG
30942854 AAAAGGGCT
1 AAAAGGGCT
30942863 TTTGCCCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 13 0.25
25 20 0.39
26 17 0.33
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTATGTCCCAGTTTACAG
Found at i:30942881 original size:25 final size:26
Alignment explanation
Indices: 30942779--30942874 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 26
30942769 GAGGAAGTGC
* *
30942779 AAAAGGGC-TATGCCCTAG-TTA-CA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
* * *
30942802 GAAAAGGGC-TTTGTCCCAGTTTACCG
1 -AAAAGGGCTTTTGCCCCAGTTTATCA
* *
30942828 AAAAGGGCTTTTTCCCCTGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
30942854 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
30942875 ATTAAAAGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
24 15 0.26
25 11 0.19
26 32 0.55
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:30942887 original size:25 final size:26
Alignment explanation
Indices: 30942803--30942887 Score: 72
Period size: 26 Copynumber: 3.4 Consensus size: 26
30942793 CTAGTTACAG
* *
30942803 AAAAG-GGC-TTTGTCCCAGTTTACC
1 AAAAGAGGCTTTTGCCCCAGTTTATC
* *
30942827 GAAAAG-GGCTTTTTCCCCTGTTTATC
1 -AAAAGAGGCTTTTGCCCCAGTTTATC
*
30942853 AAAA-AGGGCTTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTTGCCCCAGTTTATC
30942878 AAAAGAGGCT
1 AAAAGAGGCT
30942888 AGGCCTTCTG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
25 24 0.49
26 25 0.51
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (26 bp):
AAAAGAGGCTTTTGCCCCAGTTTATC
Found at i:30943136 original size:31 final size:31
Alignment explanation
Indices: 30943098--30943161 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
30943088 CGTTTACAGT
30943098 AAAGGCTTCAGCCCAGTAACATGAAATATGA
1 AAAGGCTTCAGCCCAGTAACATGAAATATGA
* ***
30943129 AAAGGCTTCAGCGCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAACATGAAATATGA
30943160 AA
1 AA
30943162 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAACATGAAATATGA
Found at i:30944728 original size:60 final size:59
Alignment explanation
Indices: 30944657--30944791 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 59
30944647 CTGTGTTAAT
* *
30944657 ATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTGAC
1 ATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGAC
* * * * *
30944717 ATGGGCTAGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGAT
1 ATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGAC
30944777 ATGGGCTAAGGCCCA
1 ATGGGCT-AGGCCCA
30944792 GTTAACTCTG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 1 0.02
60 48 0.75
61 15 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (59 bp):
ATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGAC
Found at i:30946557 original size:50 final size:51
Alignment explanation
Indices: 30946501--30946605 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 51
30946491 TGTTCTGCAT
**
30946501 TTAATAAAGTA-ATGCATTATGTAACTTTCATGTTAG-TTAAGTATGCATCA
1 TTAATAAAG-ACATGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCA
* * * *
30946551 TTAATAATGACTTGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATTA
1 TTAATAAAGACATGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCA
30946602 TTAA
1 TTAA
30946606 ATTAAGTCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.02
50 30 0.64
51 16 0.34
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (51 bp):
TTAATAAAGACATGCATTATGTAACTCCCATGTTAGTTTAAGTATGCATCA
Found at i:30957870 original size:24 final size:24
Alignment explanation
Indices: 30957792--30957927 Score: 87
Period size: 24 Copynumber: 5.6 Consensus size: 24
30957782 TTTAAAGGTC
* *
30957792 CGCACACATAGTGCTCTTACTCAT-T
1 CGCACACATAGTGC-CATA-TAATCT
* * *
30957817 CGCACACATAGTGCCGTGT-TTCCT
1 CGCACACATAGTGCCATATAAT-CT
* *
30957841 CACACACATAGTGCTATATAATCT
1 CGCACACATAGTGCCATATAATCT
* * *
30957865 CGCACACATAGTGCCATGTAGTTTT
1 CGCACACATAGTGCCATATA-ATCT
* ** * *
30957890 TGCACACATAGTGCCGCATAACCA
1 CGCACACATAGTGCCATATAATCT
30957914 CGCACACATAGTGC
1 CGCACACATAGTGC
30957928 TGAAATTTAT
Statistics
Matches: 85, Mismatches: 22, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 50 0.59
25 33 0.39
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (24 bp):
CGCACACATAGTGCCATATAATCT
Found at i:30957896 original size:49 final size:47
Alignment explanation
Indices: 30957792--30957927 Score: 123
Period size: 49 Copynumber: 2.8 Consensus size: 47
30957782 TTTAAAGGTC
* *
30957792 CGCACACATAGTGCTCT-TACTCATTCGCACACATAGTGCCGTGTTTCCT
1 CGCACACATAGTGCTATATAATC--TCGCACACATAGTGCCGTGTTT-CT
*
30957841 CACACACATAGTGCTATATAATCTCGCACACATAGTGCCATGTAGTTT-T
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGCC--GT-GTTTCT
* *** * *
30957890 TGCACACATAGTGCCGCATAACCACGCACACATAGTGC
1 CGCACACATAGTGCTATATAATCTCGCACACATAGTGC
30957928 TGAAATTTAT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 16 0.22
49 47 0.64
50 6 0.08
51 4 0.05
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (47 bp):
CGCACACATAGTGCTATATAATCTCGCACACATAGTGCCGTGTTTCT
Found at i:30958769 original size:27 final size:27
Alignment explanation
Indices: 30958745--30959176 Score: 602
Period size: 27 Copynumber: 16.1 Consensus size: 27
30958735 ATCCATTTTA
* * **
30958745 GTAATTCTACCATATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
30958772 GTAATTCTACCGTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
30958799 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
30958826 GTAATTCTATCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
30958853 ATAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
30958880 GTAATTCTACCATATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
30958907 GTAATTCTACCCTACATGAGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
30958934 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
30958961 GTAATTCTACCCTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
30958987 GTAATTCTACCGTACA-GGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
30959013 GTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
30959040 ATAATTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
30959067 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
30959094 GTAATTCTA-CCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
30959120 GTAATTCTACCTTACA-AGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
30959146 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
30959173 GTAA
1 GTAA
30959177 CTTTTTTGAT
Statistics
Matches: 359, Mismatches: 43, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
26 96 0.27
27 263 0.73
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:30959063 original size:133 final size:133
Alignment explanation
Indices: 30958745--30959170 Score: 640
Period size: 133 Copynumber: 3.2 Consensus size: 133
30958735 ATCCATTTTA
* * * *
30958745 GTAATTCTACCATATAGGGGTATTTTAGTAATTCTACCGTACAGGGGTATTTCGGTAATTCTATC
1 GTAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
30958810 CTACAGGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTA
66 CTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGTA
30958875 TTTCG
129 TTTCG
* * * *
30958880 GTAATTCTACCATATAGGGGTATTTTAGTAATTCTACCCTACATGAGTATTTTGGTAATTCTACC
1 GTAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
*
30958945 CTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCGTACAGGGTAT
66 CTACAGGGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTAT
30959009 TTCG
130 TTCG
* *
30959013 GTAATTCTACCCTACAGGGGTATTTT-GATAATTTTACCCTACAAGGGTATTTCGGTAATTCTAC
1 GTAATTCTACCATACAGGGGTATTTTAG-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTAC
* * * *
30959077 CCTACAGGGGTATTTCGGTAATTCTACCTATAGGGGTATTTCAGTAATTCTACCTTACAAGGTAT
65 CCTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTAT
30959142 TTCG
130 TTCG
* *
30959146 ATAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCATACAGGGGTATTT
30959171 CGGTAACTTT
Statistics
Matches: 270, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
132 6 0.02
133 150 0.56
134 23 0.09
135 91 0.34
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (133 bp):
GTAATTCTACCATACAGGGGTATTTTAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
CTACAGGGGTATTTCGGTAATTCTACCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGTATT
TCG
Found at i:30961264 original size:31 final size:31
Alignment explanation
Indices: 30961226--30961297 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
30961216 ATCAAAATGT
* * *
30961226 GAATCAGAATCAGAATTAGGTGACAGAATTA
1 GAATCAGAATCAGAATCAGGTAACAGAATCA
* *
30961257 GAATCAGAATTAGTATCAGGTAACAGAATCA
1 GAATCAGAATCAGAATCAGGTAACAGAATCA
*
30961288 AAATCAGAAT
1 GAATCAGAAT
30961298 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (31 bp):
GAATCAGAATCAGAATCAGGTAACAGAATCA
Found at i:30961831 original size:27 final size:27
Alignment explanation
Indices: 30961792--30961901 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
30961782 TCGATCAGTC
*
30961792 AACAGATA-TTGTGGCAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
30961818 ATACAGATA-TTGTGGCAGAGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
* *
30961845 AACAGATATTTGTGGCATA-ACACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
* *
30961871 AAACAGATATTTGTGACATAGCCACCAG
1 -AACAGATATTTGTGGCAGAGCCACCAG
30961899 AAC
1 AAC
30961902 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.19
27 55 0.73
28 6 0.08
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:30961877 original size:53 final size:54
Alignment explanation
Indices: 30961792--30961901 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
30961782 TCGATCAGTC
* * *
30961792 AACAGATATTGTGGCAGAGTCACCAGATACAGATA-TTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGACACCAGAAACAGATATTTGTGACAGAGCCACCAG
* *
30961845 AACAGATATTTGTGGCATA-ACACCAGAAACAGATATTTGTGACATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGACACCAGAAACAGATATTTGTGACAGAGCCACCAG
30961899 AAC
1 AAC
30961902 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 22 0.44
54 28 0.56
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
AACAGATATTGTGGCAGAGACACCAGAAACAGATATTTGTGACAGAGCCACCAG
Found at i:30962154 original size:27 final size:27
Alignment explanation
Indices: 30962125--30962719 Score: 831
Period size: 27 Copynumber: 22.2 Consensus size: 27
30962115 GGGGTAAAAT
* * * *
30962125 GGTAATTTTACCCCATAAGGGTATCTT-
1 GGTAATTCTACCCTACAGGGGTAT-TTC
*
30962152 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962179 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962206 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30962233 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
30962260 ACTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962287 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962314 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
30962341 GGTAATTCTACCATATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30962368 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30962395 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30962422 TGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962449 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
30962476 GGTAATTCTACCATATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30962503 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30962530 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962557 TGTAATTCTA-CCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30962582 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30962609 GGTAATTCTACCCTACAGGTGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962636 GGTAATTCTA-CCTACAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
30962662 AGTAATTCTACCTTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
30962688 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
30962715 GGTAA
1 GGTAA
30962720 CTTTCTTGAT
Statistics
Matches: 508, Mismatches: 55, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
25 18 0.04
26 59 0.12
27 431 0.85
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:30963313 original size:20 final size:20
Alignment explanation
Indices: 30963285--30963327 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
30963275 CATATAAATA
* *
30963285 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
30963305 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
30963325 AAA
1 AAA
30963328 GTTAGAATAG
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:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:30964271 original size:46 final size:46
Alignment explanation
Indices: 30964196--30964362 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
30964186 AACCCGCCCC
* *
30964196 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
*
30964242 TAAGAGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACATCCA
* * * * *
30964290 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
*
30964335 TAGGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
30964363 TTCAGATGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 54 0.53
47 27 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
Found at i:30964311 original size:93 final size:93
Alignment explanation
Indices: 30964201--30964371 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
30964191 GCCCCTAAGT
* * * *
30964201 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGAGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGAGAACTCGGACTCAACTCAA
*
30964266 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* * *
30964294 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGAGAACTCGGACTCAACTCAA
*
30964359 CGAGTTCAGATGC
66 CGAGCTCAGATGC
30964372 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGAGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:30964828 original size:30 final size:30
Alignment explanation
Indices: 30964794--30964853 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
30964784 ATTTAATATG
30964794 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
30964824 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
30964854 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:30971837 original size:39 final size:40
Alignment explanation
Indices: 30971682--30971940 Score: 280
Period size: 40 Copynumber: 6.5 Consensus size: 40
30971672 CCGGATATAG
* * * *
30971682 GCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACCAAT
* * *
30971722 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACCAAT
* * *
30971762 GCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
*
30971802 GCCTTCGGG-CTTAGCCCGAAATTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
30971841 GCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
* * * * *
30971880 GCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA-CAAA
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACCAAT
30971920 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
30971941 CATCATTCGA
Statistics
Matches: 196, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 73 0.37
40 112 0.57
41 9 0.05
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
Found at i:30971883 original size:78 final size:80
Alignment explanation
Indices: 30971705--30971940 Score: 275
Period size: 79 Copynumber: 3.0 Consensus size: 80
30971695 AGCCCGGTTA
* ** *
30971705 TAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGG
1 TAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGG
*
30971770 GACTTAACCCGGATT
66 GACTTAACCCGGAAT
* *
30971785 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACCAATGCCTTCG
1 TAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCG
*
30971848 GG-CTTAGCCCGGAAT
65 GGACTTAACCCGGAAT
* * * * * *
30971863 TAGTAACTCGCACCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTC
1 TAGTAACTCGCACCAATGCCTTCGGGA-CATAGCCCGAATATAGTAAC-TCGCACAAATGCCTTC
*
30971926 GGGACTTAGCCCGGA
64 GGGACTTAACCCGGA
30971941 CATCATTCGA
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
77 2 0.01
78 35 0.26
79 55 0.40
80 44 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACCAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGG
GACTTAACCCGGAAT
Found at i:30971924 original size:118 final size:120
Alignment explanation
Indices: 30971705--30971938 Score: 298
Period size: 118 Copynumber: 2.0 Consensus size: 120
30971695 AGCCCGGTTA
* *
30971705 TAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGG
1 TAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTTCG
* * *
30971770 GACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAAT
66 GACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGAAAT
* * *
30971824 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACCAATGCC-TTC
1 TAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTTC
** * *
30971886 GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
65 GGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCG
30971939 GACATCATTC
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
117 6 0.06
118 55 0.56
119 38 0.38
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
TAGTAACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTTCG
GACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGAAAT
Found at i:30974226 original size:20 final size:20
Alignment explanation
Indices: 30974198--30974240 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
30974188 CATATAAATA
* *
30974198 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
30974218 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
30974238 AAA
1 AAA
30974241 GTCAGAACAG
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:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:30975221 original size:93 final size:93
Alignment explanation
Indices: 30975114--30975284 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
30975104 GCCCCTAAGT
* *
30975114 GAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30975178 ATGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
* *
30975207 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
30975272 CGAGTTCGGATGC
66 CGAGCTCGGATGC
30975285 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:30975275 original size:46 final size:45
Alignment explanation
Indices: 30975111--30975281 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
30975101 CCCGCCCCTA
* *
30975111 AGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTCGCATCCAT
* * *
30975156 AAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
30975204 CA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
30975249 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
30975282 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 56 0.55
47 26 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:30975740 original size:30 final size:30
Alignment explanation
Indices: 30975706--30975765 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30975696 ATTTAATACG
*
30975706 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
* * *
30975736 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTTACCCCTA
30975766 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTACCCCTA
Found at i:30983559 original size:24 final size:24
Alignment explanation
Indices: 30983532--30983616 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
30983522 TTTTTCCTCA
*
30983532 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCCATATAATCTCG
* * * *
30983556 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCCATATA-ATCTCG
* *
30983581 CACACATAGTGCCACATAA-CAACG
1 CACACATAGTGCCATATAATC-TCG
30983605 CACACATAGTGC
1 CACACATAGTGC
30983617 TGAAATTTCT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
24 29 0.60
25 19 0.40
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (24 bp):
CACACATAGTGCCATATAATCTCG
Found at i:30986093 original size:18 final size:18
Alignment explanation
Indices: 30986070--30986191 Score: 84
Period size: 18 Copynumber: 6.6 Consensus size: 18
30986060 GAGAAAAATG
30986070 AAAGAAAAAGAAATTGAA
1 AAAGAAAAAGAAATTGAA
** **
30986088 AAAGAACGAGAAAGCGAA
1 AAAGAAAAAGAAATTGAA
* *
30986106 AAAGAAAAAGAGAGTGAAA
1 AAAGAAAAAGAAATTG-AA
*
30986125 GAAAGGAAAAATAAATTGAA
1 -AAA-GAAAAAGAAATTGAA
* ** *
30986145 AAAGGAAAAGATTTTGAG
1 AAAGAAAAAGAAATTGAA
*
30986163 CAAG-AAAAGACAATTGAA
1 AAAGAAAAAGA-AATTGAA
*
30986181 AAAGAGAAAGA
1 AAAGAAAAAGA
30986192 GACTGATGAA
Statistics
Matches: 77, Mismatches: 22, Indels: 9
0.71 0.20 0.08
Matches are distributed among these distances:
17 6 0.08
18 46 0.60
19 10 0.13
20 5 0.06
21 10 0.13
ACGTcount: A:0.64, C:0.03, G:0.23, T:0.10
Consensus pattern (18 bp):
AAAGAAAAAGAAATTGAA
Found at i:30986215 original size:15 final size:17
Alignment explanation
Indices: 30986185--30986216 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
30986175 ATTGAAAAAG
30986185 AGAAAGAGACTGATGAA
1 AGAAAGAGACTGATGAA
30986202 AGAAA-AGA-TGATGAA
1 AGAAAGAGACTGATGAA
30986217 CAAGAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.56, C:0.03, G:0.28, T:0.12
Consensus pattern (17 bp):
AGAAAGAGACTGATGAA
Found at i:30987050 original size:35 final size:35
Alignment explanation
Indices: 30987004--30987075 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
30986994 CGATCCTAAG
30987004 TTATTGCTAAGTAAAGGTGGGTACTATAATTATGC
1 TTATTGCTAAGTAAAGGTGGGTACTATAATTATGC
30987039 TTATTGCTAAGTAAAGGTGGGTACTATAATTATGC
1 TTATTGCTAAGTAAAGGTGGGTACTATAATTATGC
30987074 TT
1 TT
30987076 GGAAGAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (35 bp):
TTATTGCTAAGTAAAGGTGGGTACTATAATTATGC
Found at i:30991033 original size:15 final size:15
Alignment explanation
Indices: 30990991--30991024 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
30990981 CTATTTAAAA
*
30990991 AATGATAGTAATAGT
1 AATGATAATAATAGT
*
30991006 AATGATAATAATATT
1 AATGATAATAATAGT
30991021 AATG
1 AATG
30991025 GTATTAATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (15 bp):
AATGATAATAATAGT
Found at i:30991158 original size:3 final size:3
Alignment explanation
Indices: 30991150--30991219 Score: 74
Period size: 3 Copynumber: 24.3 Consensus size: 3
30991140 ATAGGTAAAA
* * * *
30991150 AAT AAT AAT -AT AAT AAT AAT -AT AAT AGT AGT AAT AGT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
30991196 AAT AGT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
30991220 GGAATAGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 6 0.11
3 50 0.89
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30991226 original size:41 final size:41
Alignment explanation
Indices: 30991139--30991231 Score: 118
Period size: 41 Copynumber: 2.2 Consensus size: 41
30991129 TTTAAAGAGT
* *
30991139 AATAGGTAAAAAATAATAATATAATAATAATATAATAGTAGT
1 AATA-GTAAAAAATAATAATATAATAATAATATAATAATAGG
*
30991181 AATAGTAATAAA-AATAATAGTAATAATAATAATAA-AATAGG
1 AATAGTAAAAAATAATAATA-TAATAATAAT-ATAATAATAGG
30991222 AATAGTAAAA
1 AATAGTAAAA
30991232 TGATGATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
40 7 0.16
41 30 0.67
42 8 0.18
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (41 bp):
AATAGTAAAAAATAATAATATAATAATAATATAATAATAGG
Found at i:30991313 original size:17 final size:17
Alignment explanation
Indices: 30991291--30991323 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30991281 AATAATAACA
30991291 AAATATGAAC-AGATAAG
1 AAATAT-AACTAGATAAG
30991308 AAATATAACTAGATAA
1 AAATATAACTAGATAA
30991324 ATAAAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAATATAACTAGATAAG
Found at i:30991334 original size:15 final size:15
Alignment explanation
Indices: 30991314--30991342 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30991304 TAAGAAATAT
30991314 AACTAGATAAATAAA
1 AACTAGATAAATAAA
30991329 AACTAGATAAATAA
1 AACTAGATAAATAA
30991343 TAAGAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
AACTAGATAAATAAA
Found at i:30991353 original size:15 final size:17
Alignment explanation
Indices: 30991335--30991377 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
30991325 TAAAAACTAG
30991335 ATAAATAATA-A-GAAA
1 ATAAATAATAGACGAAA
30991350 ATAAAT-ATAGACGAAA
1 ATAAATAATAGACGAAA
30991366 ATATAATAATAG
1 ATA-AATAATAG
30991378 TAATAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 7 0.29
16 7 0.29
17 3 0.12
18 4 0.17
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (17 bp):
ATAAATAATAGACGAAA
Found at i:30991376 original size:3 final size:3
Alignment explanation
Indices: 30991368--30991641 Score: 136
Period size: 3 Copynumber: 90.7 Consensus size: 3
30991358 AGACGAAAAT
* * * *
30991368 ATA ATA ATA GTA ATA AT- ACA ATA GTA ATA ATA ATA ATA ATA A-A GGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * *
30991415 ATA ATA AT- ATA TTA GATA GTAA ATA ATA ATA ATA ATA GTA ACA ATA
1 ATA ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
30991461 ATA A-A A-A AAA GATA ATA GTG ATA ATA ATA ATA ATA ATA ACA ACA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
30991505 AT- ATA ATA ATA ATA ATA ATA GTA TATA TTA ATA ATG ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
30991550 GAAA ATA ACA GA-A ATAA ATA TATT ATG TTA GTA GTA A-A AGTA ATA
1 -ATA ATA ATA -ATA AT-A ATA -ATA ATA ATA ATA ATA ATA A-TA ATA
* *
30991595 A-A ACA ATA ATA ATA A-A TATA ATA ATA GAAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA
30991640 AT
1 AT
30991642 TAATTTGAAA
Statistics
Matches: 207, Mismatches: 43, Indels: 42
0.71 0.15 0.14
Matches are distributed among these distances:
2 16 0.08
3 169 0.82
4 22 0.11
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:30991390 original size:14 final size:14
Alignment explanation
Indices: 30991373--30991399 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30991363 AAAATATAAT
30991373 AATAGTAATAATAC
1 AATAGTAATAATAC
30991387 AATAGTAATAATA
1 AATAGTAATAATA
30991400 ATAATAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
AATAGTAATAATAC
Found at i:30991441 original size:19 final size:19
Alignment explanation
Indices: 30991368--30991539 Score: 105
Period size: 17 Copynumber: 9.3 Consensus size: 19
30991358 AGACGAAAAT
30991368 ATAATAATAGT-AATAAT-
1 ATAATAATAGTAAATAATA
* * *
30991385 ACAATAGTAAT-AATAATA
1 ATAATAATAGTAAATAATA
30991403 ATAATAA-AGGT-AATAATA
1 ATAATAATA-GTAAATAATA
30991421 ATATATTAGATAGTAAATAATA
1 ATA-A-TA-ATAGTAAATAATA
30991443 ATAATAATAGTAACAATAATA
1 ATAATAATAGT-A-AATAATA
* * *
30991464 A-AA-AAAAG-ATAATAGTG
1 ATAATAATAGTA-AATAATA
*
30991481 ATAATAATAAT-AATAATA
1 ATAATAATAGTAAATAATA
* *
30991499 ACAACAATA-T-AATAATA
1 ATAATAATAGTAAATAATA
* *
30991516 ATAATAATAGTATATATTA
1 ATAATAATAGTAAATAATA
30991535 ATAAT
1 ATAAT
30991540 GACAATAATA
Statistics
Matches: 121, Mismatches: 20, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
17 37 0.31
18 31 0.26
19 23 0.19
20 7 0.06
21 12 0.10
22 11 0.09
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (19 bp):
ATAATAATAGTAAATAATA
Found at i:30991546 original size:22 final size:22
Alignment explanation
Indices: 30991487--30991546 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
30991477 AGTGATAATA
*
30991487 ATAATAATAATAACAACA--AT
1 ATAATAATAATAACAATAGTAT
*
30991507 ATAATAATAATAATAATAGTAT
1 ATAATAATAATAACAATAGTAT
* *
30991529 ATATTAATAATGACAATA
1 ATAATAATAATAACAATA
30991547 ATAGAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 16 0.48
22 17 0.52
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (22 bp):
ATAATAATAATAACAATAGTAT
Found at i:30993299 original size:92 final size:92
Alignment explanation
Indices: 30993196--30993501 Score: 479
Period size: 92 Copynumber: 3.3 Consensus size: 92
30993186 TTCAACCTTC
* *
30993196 TCCACTGCAACTTCAAGGAGATAAGGTTTGTTTTGATCTGCTCTGCTGCAACTTCAGAGGGATAA
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGGGATAA
30993261 GATCTGTGATTTATAGCTTCAATCTGT
66 GATCTGTGATTTATAGCTTCAATCTGT
* * * * *
30993288 TCCACTGCAACTTTAGGGAAATAAGATTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGGGATAA
30993353 GATCTGTGATTTATAGCTTCAATCTGT
66 GATCTGTGATTTATAGCTTCAATCTGT
* * **
30993380 TCCACTGCAACTTCAGGGAAAT-AGGATTTGTTTTGATCTACTCTACTGCAACTTCAGAGAAATA
1 TCCACTGCAACTTCAGGGAGATAAGG-TTTGTTTTGATCTGCTCTACTGCAACTTCAGAGGGATA
*
30993444 AGATCTGTGATTTATAGCTTCAATATGT
65 AGATCTGTGATTTATAGCTTCAATCTGT
*
30993472 TCCACTGCAACTTCAGGGAGATAAGATTTG
1 TCCACTGCAACTTCAGGGAGATAAGGTTTG
30993502 CTATCTTCAG
Statistics
Matches: 197, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
91 2 0.01
92 193 0.98
93 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (92 bp):
TCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGGGATAA
GATCTGTGATTTATAGCTTCAATCTGT
Found at i:30993312 original size:51 final size:51
Alignment explanation
Indices: 30993241--30993498 Score: 234
Period size: 51 Copynumber: 5.5 Consensus size: 51
30993231 ATCTGCTCTG
*
30993241 CTGCAACTTCAGAGG-GATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
1 CTGCAACTTCAG-GGAAATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
* * *
30993292 CTGCAACTTTAGGGAAATAAGAT-T-TG-TTT-T-G-----ATCTGCTCTA
1 CTGCAACTTCAGGGAAATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
* * *
30993333 CTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
1 CTGCAACTTCAGGGAAATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
* ** *
30993384 CTGCAACTTCAGGGAAATAGGAT-T-TG-TTT-T-G-----ATCTACTCTA
1 CTGCAACTTCAGGGAAATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
* *
30993425 CTGCAACTTCAGAGAAATAAGATCTGTGATTTATAGCTTCAATATGTTCCA
1 CTGCAACTTCAGGGAAATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
*
30993476 CTGCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCAGGGAAATAAGAT
30993499 TTGCTATCTT
Statistics
Matches: 161, Mismatches: 25, Indels: 42
0.71 0.11 0.18
Matches are distributed among these distances:
41 55 0.34
42 2 0.01
43 4 0.02
44 6 0.04
45 2 0.01
46 4 0.02
47 2 0.01
48 6 0.04
49 4 0.02
50 4 0.02
51 72 0.45
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
CTGCAACTTCAGGGAAATAAGATCTGTGATTTATAGCTTCAATCTGTTCCA
Found at i:30993340 original size:41 final size:41
Alignment explanation
Indices: 30993282--30993447 Score: 143
Period size: 41 Copynumber: 3.8 Consensus size: 41
30993272 TATAGCTTCA
* * * *
30993282 ATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGTTTTG
1 ATCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGTTTTG
* *
30993323 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAG
1 ATCTGCTCTACTGCAACTTCAGAGAAATAAGAT-T-TG-TTT-T-G
* * * *
30993369 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAGGATTTGTTTTG
1 -----ATCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGTTTTG
*
30993415 ATCTACTCTACTGCAACTTCAGAGAAATAAGAT
1 ATCTGCTCTACTGCAACTTCAGAGAAATAAGAT
30993448 CTGTGATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 20
0.73 0.13 0.15
Matches are distributed among these distances:
41 55 0.56
42 1 0.01
43 2 0.02
44 3 0.03
45 1 0.01
46 2 0.02
47 1 0.01
48 3 0.03
49 2 0.02
50 1 0.01
51 27 0.28
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (41 bp):
ATCTGCTCTACTGCAACTTCAGAGAAATAAGATTTGTTTTG
Found at i:30993434 original size:184 final size:181
Alignment explanation
Indices: 30993021--30993593 Score: 703
Period size: 184 Copynumber: 3.1 Consensus size: 181
30993011 TGCTGTACTA
* *
30993021 CAACTTCAGAGAGATAAGGTTTGTTTTGATCTACTCTGCTGCAACTTCAGAAAGATAAGATCTGT
1 CAACTTCAGGGAGATAAGGTTTGTTTTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTG-
* * ** *
30993086 TTATTAATAGCTTCAATCTGTTCCACTGCAACTTCAGATAAATAAGATTCGCTATCTTCAGTCTG
65 TGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTG
*
30993151 CTCCACTATAACTTCAAGGAGATAAGACTAGTGACTTCAACCTTCTCCACTG
130 CTCCACTACAACTTCAAGGAGATAAGACTAGTGACTTCAACCTTCTCCACTG
* * *
30993203 CAACTTCAAGGAGATAAGGTTTGTTTTGATCTGCTCTGCTGCAACTTCAGAGGGATAAGATCTGT
1 CAACTTCAGGGAGATAAGGTTTGTTTTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTGT
* *
30993268 GATTTATAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTG-T-T-TTGA-TCTGC
66 GATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
* *
30993329 TCTACTACAACTTC-AGAGAGATAAGATCT-GTGATTTATAGCTTCAATCTGT-TCCACTG
131 TCCACTACAACTTCAAG-GAGATAAGA-CTAGTG------A-CTTCAACCT-TCTCCACTG
* * *
30993387 CAACTTCAGGGAAAT-AGGATTTGTTTTGATCTACTCTACTGCAACTTCAGAGAAATAAGATCTG
1 CAACTTCAGGGAGATAAGG-TTTGTTTTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTG
* * *
30993451 TGATTTATAGCTTCAATATGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTA
65 TGATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTG
* * * * * * * * *
30993516 CTCCGCTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTACTTCACTA
130 CTCCACTACAACTTCAAGGAGATAAGACTAGTGACTTCAACCTTCTCCACTG
*
30993568 CAACTTCAAGGAGATAAGGTTTGTTT
1 CAACTTCAGGGAGATAAGGTTTGTTT
30993594 CTTCAATCTG
Statistics
Matches: 334, Mismatches: 38, Indels: 39
0.81 0.09 0.09
Matches are distributed among these distances:
176 2 0.01
177 29 0.09
178 5 0.01
179 1 0.00
180 1 0.00
181 77 0.23
182 63 0.19
183 4 0.01
184 117 0.35
185 2 0.01
186 1 0.00
187 5 0.01
188 26 0.08
189 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (181 bp):
CAACTTCAGGGAGATAAGGTTTGTTTTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTGT
GATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGC
TCCACTACAACTTCAAGGAGATAAGACTAGTGACTTCAACCTTCTCCACTG
Done.