Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 289 of 444
Found at i:83525121 original size:27 final size:28
Alignment explanation
Indices: 83525069--83525121 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
83525059 ACTTGTAATA
* *
83525069 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
83525097 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
83525122 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:83529101 original size:17 final size:19
Alignment explanation
Indices: 83529067--83529103 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
83529057 GGATTTATTT
*
83529067 TTTTTTTTTCCTTCTTCTA
1 TTTTTTATTCCTTCTTCTA
83529086 TTTTTTATT-CTT-TTCTA
1 TTTTTTATTCCTTCTTCTA
83529103 T
1 T
83529104 CCTTCTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTATTCCTTCTTCTA
Found at i:83530439 original size:20 final size:20
Alignment explanation
Indices: 83530409--83530453 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
83530399 CTGTTCTGTT
83530409 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
83530428 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
83530448 ATGGGC
1 ATGGGC
83530454 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:83530534 original size:27 final size:28
Alignment explanation
Indices: 83530482--83530534 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
83530472 ACTTGTAATA
* *
83530482 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
83530510 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
83530535 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:83534218 original size:29 final size:29
Alignment explanation
Indices: 83534185--83534244 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
83534175 TTTAATTTAC
*
83534185 AATTTAACCCCTCAATTTACATTTTT-CTA
1 AATTTAACCCCT-AATATACATTTTTACTA
* *
83534214 AATTTAATCCCTAATATGCATTTTTACTA
1 AATTTAACCCCTAATATACATTTTTACTA
83534243 AA
1 AA
83534245 AATCACTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (29 bp):
AATTTAACCCCTAATATACATTTTTACTA
Found at i:83537471 original size:50 final size:51
Alignment explanation
Indices: 83537388--83537503 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 51
83537378 TTAGGTAACG
* * * * *
83537388 TGTGTAGTACTAAGTGCAGGCTCCTACATGTACCAGAT-GGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
** * *
83537438 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
*
83537489 TGTGTGGTACTAAGT
1 TGTGTAGTACTAAGT
83537504 ACGGGCCACT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 33 0.60
51 22 0.40
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATAGCTTAGATCACA
Found at i:83537515 original size:51 final size:51
Alignment explanation
Indices: 83537436--83537564 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 51
83537426 GGTTAGGTCG
* * * ***
83537436 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCA
1 CATGTGTGGTACTAAGTACAGGCCACTATGCGTAAAAGATAGCTTCGATCA
* * * *
83537487 CATGTGTGGTACTAAGTACGGGCCACTATGTGTAAAAGATAGCTTTGGTCA
1 CATGTGTGGTACTAAGTACAGGCCACTATGCGTAAAAGATAGCTTCGATCA
* * *
83537538 CAAGTGTGGTACTATGTAAAGGCCACT
1 CATGTGTGGTACTAAGTACAGGCCACT
83537565 TTGTGAAGAA
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (51 bp):
CATGTGTGGTACTAAGTACAGGCCACTATGCGTAAAAGATAGCTTCGATCA
Found at i:83548731 original size:22 final size:22
Alignment explanation
Indices: 83548705--83548762 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
83548695 CTCGTTAACA
83548705 AATTTATTCATTTTTTATAAAC
1 AATTTATTCATTTTTTATAAAC
83548727 AATTTATTCATTTTTTATAAAC
1 AATTTATTCATTTTTTATAAAC
83548749 AATTTATTCATTTT
1 AATTTATTCATTTT
83548763 ATTTATAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (22 bp):
AATTTATTCATTTTTTATAAAC
Found at i:83560533 original size:21 final size:21
Alignment explanation
Indices: 83560508--83560551 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
83560498 TCATGGAGAA
83560508 ATTCTAAATTTTATGAATTAC
1 ATTCTAAATTTTATGAATTAC
*
83560529 ATTCTGAATTTTATGAATTAC
1 ATTCTAAATTTTATGAATTAC
83560550 AT
1 AT
83560552 GGGCTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (21 bp):
ATTCTAAATTTTATGAATTAC
Found at i:83561213 original size:64 final size:64
Alignment explanation
Indices: 83561109--83561230 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
83561099 ATCCCAATCT
* * * * *
83561109 GTATTGATCCTACATGTGTTGCGGACATATCGCAGCTCTTTGTGAGCGTCTTGTTATATGATTG
1 GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATATGATTG
* * * *
83561173 GTATTGATCCTGCATGTATTGCGGATATACCACAGTTCTTTATGAGTGTCTTGATATA
1 GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATA
83561231 GGCTCCTTGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (64 bp):
GTATTGATCCTACATGTATTGCGGACATACCACAGCTCTTTATGAGCGTCTTGATATATGATTG
Found at i:83562790 original size:49 final size:49
Alignment explanation
Indices: 83562730--83562975 Score: 321
Period size: 49 Copynumber: 5.0 Consensus size: 49
83562720 GTAGTCAAAG
* * * *
83562730 TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
83562779 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* *
83562828 TTATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AA
** * * * *
83562878 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAA
* * * *
83562929 TTTTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
83562976 TCACAATAGA
Statistics
Matches: 174, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
49 91 0.52
50 43 0.25
51 39 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:83562976 original size:101 final size:99
Alignment explanation
Indices: 83562730--83562976 Score: 343
Period size: 101 Copynumber: 2.5 Consensus size: 99
83562720 GTAGTCAAAG
* * ** *
83562730 TTATCTGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGT
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGT
*
83562794 AGTAGCCTGCACTTAGTACTACACATGTGACCAA
66 AGTAGCCTGCACTTAGTACTACACACGTGACCAA
** * * *
83562828 TTATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGT
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGT
*
83562893 AGTAGCCTGCACTTAGTACTACACACGTGATCACAG
66 AGTAGCCTGCACTTAGTACTACACACGTGA-C-CAA
* *
83562929 TTTTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCT
83562977 CACAATAGAT
Statistics
Matches: 128, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 41 0.32
99 42 0.33
100 1 0.01
101 44 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGT
AGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:83567312 original size:3 final size:3
Alignment explanation
Indices: 83567304--83567330 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83567294 GCATCGCATA
83567304 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
83567331 CTCTTGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:83572684 original size:13 final size:13
Alignment explanation
Indices: 83572668--83572746 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 13
83572658 CGTTTTAAAT
83572668 TTTTTATTTAATA
1 TTTTTATTTAATA
*
83572681 TTTTTAATTAATA
1 TTTTTATTTAATA
* *
83572694 TTATT-TTCAA-A
1 TTTTTATTTAATA
83572705 TTTTTATTTTAATTTA
1 TTTTTA-TTTAA--TA
*
83572721 TTTTTTAAATTAATA
1 -TTTTT-ATTTAATA
83572736 TTTTTTATTTA
1 -TTTTTATTTA
83572747 TAAAATTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.10
12 3 0.06
13 20 0.39
14 4 0.08
15 8 0.16
16 1 0.02
17 9 0.18
18 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTTATTTAATA
Found at i:83572737 original size:25 final size:26
Alignment explanation
Indices: 83572666--83572739 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
83572656 ATCGTTTTAA
*
83572666 ATTTTTT-ATTTAATATTTTTAATTAAT
1 ATTTTTTAAATTAATA-TTTTAATT-AT
**
83572693 ATTATTTTCAAATTTTTATTTTAATT-T
1 ATT-TTTT-AAATTAATATTTTAATTAT
83572720 ATTTTTTAAATTAATATTTT
1 ATTTTTTAAATTAATATTTT
83572740 TTATTTATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
25 11 0.28
26 4 0.10
27 7 0.18
28 4 0.10
29 8 0.21
30 5 0.13
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (26 bp):
ATTTTTTAAATTAATATTTTAATTAT
Found at i:83573349 original size:18 final size:18
Alignment explanation
Indices: 83573328--83573362 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83573318 CATCCCTACC
*
83573328 GAAACCATCACTACCACG
1 GAAACCACCACTACCACG
*
83573346 GAAACCACCATTACCAC
1 GAAACCACCACTACCAC
83573363 CATAAGCTCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.40, G:0.09, T:0.11
Consensus pattern (18 bp):
GAAACCACCACTACCACG
Found at i:83577190 original size:15 final size:15
Alignment explanation
Indices: 83577170--83577202 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
83577160 TTTAAAATAC
83577170 TTTTTTTATTTTACT
1 TTTTTTTATTTTACT
83577185 TTTTTTTATTTTACT
1 TTTTTTTATTTTACT
83577200 TTT
1 TTT
83577203 ACTTTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTATTTTACT
Found at i:83579750 original size:19 final size:21
Alignment explanation
Indices: 83579711--83579752 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
83579701 AAATTTTTTA
83579711 TATTTTTATATTAACTACTTT
1 TATTTTTATATTAACTACTTT
*
83579732 TATTTTT-TA-TAATTACTTT
1 TATTTTTATATTAACTACTTT
83579751 TA
1 TA
83579753 GAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTTTTATATTAACTACTTT
Found at i:83580362 original size:88 final size:88
Alignment explanation
Indices: 83580255--83580441 Score: 245
Period size: 88 Copynumber: 2.1 Consensus size: 88
83580245 TTTTAAAAAA
* *
83580255 AATTAAGCTCC-TACCTTTTTTTACACTTAATTAGGC-ACTTAAACTTTTAAAATGCATCAAAAA
1 AATTAAGC-CCTTACCTTTTTTTACACTTAATT-GACAACTTAAACTTTCAAAATGCAT-AAAAA
* *
83580318 -GGCCCTTAAACTTCTTCAAAAAAGT
63 CGACCCTTAAACTTCTTCAAAAAAGC
* * *
83580343 AATTAAGCCCTTACTTTTTTTTCCACTTAATTGACAACTTAAACTTTCAAAATGCATAAAAACTA
1 AATTAAGCCCTTACCTTTTTTTACACTTAATTGACAACTTAAACTTTCAAAATGCATAAAAACGA
* *
83580408 CCCTTAAATTTTTTCAAAAAAGC
66 CCCTTAAACTTCTTCAAAAAAGC
83580431 AATTAAGCCCT
1 AATTAAGCCCT
83580442 ACTCTTATTA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 9 0.10
88 78 0.90
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (88 bp):
AATTAAGCCCTTACCTTTTTTTACACTTAATTGACAACTTAAACTTTCAAAATGCATAAAAACGA
CCCTTAAACTTCTTCAAAAAAGC
Found at i:83580517 original size:19 final size:20
Alignment explanation
Indices: 83580482--83580526 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
83580472 AATAAACAAC
83580482 AAATTTTATAAAAAAATATT
1 AAATTTTATAAAAAAATATT
*
83580502 AAATTTTA-ATAAAAATATT
1 AAATTTTATAAAAAAATATT
83580521 AAATTT
1 AAATTT
83580527 ATTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTTTATAAAAAAATATT
Found at i:83580531 original size:21 final size:20
Alignment explanation
Indices: 83580486--83580533 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
83580476 AACAACAAAT
83580486 TTTA-TAAAAAAATATTAAA
1 TTTATTAAAAAAATATTAAA
83580505 -TT-TTAATAAAAATATTAAA
1 TTTATTAA-AAAAATATTAAA
83580524 TTTATTAAAA
1 TTTATTAAAA
83580534 TTTTTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.20
19 12 0.48
20 4 0.16
21 4 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTATTAAAAAAATATTAAA
Found at i:83581567 original size:24 final size:26
Alignment explanation
Indices: 83581522--83581570 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
83581512 AATAAAAAAT
*
83581522 TTTAAAAATATAAAAAATCAAATATA
1 TTTAAAAACATAAAAAATCAAATATA
83581548 TTTAAAAACAT-AAAAA-CAAATAT
1 TTTAAAAACATAAAAAATCAAATAT
83581571 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (26 bp):
TTTAAAAACATAAAAAATCAAATATA
Found at i:83582299 original size:16 final size:16
Alignment explanation
Indices: 83582278--83582325 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
83582268 TTTTAAAGAA
83582278 AATATATACATAAAAT
1 AATATATACATAAAAT
*
83582294 AATATA-ACAT-CAAT
1 AATATATACATAAAAT
*
83582308 AATATATACATAGAAT
1 AATATATACATAAAAT
83582324 AA
1 AA
83582326 GAAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 8 0.29
16 11 0.39
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:83582308 original size:14 final size:15
Alignment explanation
Indices: 83582278--83582318 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
83582268 TTTTAAAGAA
*
83582278 AATATATACATAAAAT
1 AATATATACAT-CAAT
83582294 AATATA-ACATCAAT
1 AATATATACATCAAT
83582308 AATATATACAT
1 AATATATACAT
83582319 AGAATAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATATACATCAAT
Found at i:83584022 original size:10 final size:10
Alignment explanation
Indices: 83584007--83584108 Score: 77
Period size: 10 Copynumber: 10.5 Consensus size: 10
83583997 TTTATAAAAA
83584007 TTTTATAATT
1 TTTTATAATT
*
83584017 TTTTAT-ATA
1 TTTTATAATT
*
83584026 TTTTATGA-T
1 TTTTATAATT
**
83584035 TTTTATAAAA
1 TTTTATAATT
*
83584045 TTTTACAATT
1 TTTTATAATT
83584055 TTTTAT-A-T
1 TTTTATAATT
83584063 TTTTATGAATT
1 TTTTAT-AATT
* *
83584074 TTATATATTT
1 TTTTATAATT
*
83584084 TTTTAGAATT
1 TTTTATAATT
* *
83584094 TTTAATAAAT
1 TTTTATAATT
83584104 TTTTA
1 TTTTA
83584109 ATGTTTAATT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
8 7 0.10
9 16 0.23
10 41 0.59
11 6 0.09
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:83584030 original size:19 final size:19
Alignment explanation
Indices: 83584006--83584110 Score: 90
Period size: 19 Copynumber: 5.5 Consensus size: 19
83583996 CTTTATAAAA
83584006 ATTTTATAATTTTTTATAT
1 ATTTTATAATTTTTTATAT
* *
83584025 ATTTTATGA-TTTTTATAAA
1 ATTTTATAATTTTTTAT-AT
*
83584044 ATTTTACAATTTTTTATAT
1 ATTTTATAATTTTTTATAT
*
83584063 -TTTTATGAATTTTATATATT
1 ATTTTAT-AATTTTTTATA-T
* * * *
83584083 TTTTTAGAATTTTTAATAA
1 ATTTTATAATTTTTTATAT
83584102 ATTTT-TAAT
1 ATTTTATAAT
83584111 GTTTAATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
18 15 0.22
19 31 0.46
20 17 0.25
21 5 0.07
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (19 bp):
ATTTTATAATTTTTTATAT
Found at i:83584047 original size:11 final size:10
Alignment explanation
Indices: 83583997--83584108 Score: 72
Period size: 9 Copynumber: 11.4 Consensus size: 10
83583987 TTCTTACGAC
*
83583997 TTTATAAAAAT
1 TTTAT-AAATT
*
83584008 TTTATAATTT
1 TTTATAAATT
*
83584018 TTTATATA-T
1 TTTATAAATT
*
83584027 TTTAT-GATT
1 TTTATAAATT
*
83584036 TTTATAAAAT
1 TTTATAAATT
*
83584046 TTTA-CAATT
1 TTTATAAATT
*
83584055 TTT-TATATT
1 TTTATAAATT
*
83584064 TTTATGAA-T
1 TTTATAAATT
*
83584073 TTTATATATT
1 TTTATAAATT
*
83584083 TTTTTAGAATT
1 TTTATA-AATT
83584094 TTTAATAAATT
1 TTT-ATAAATT
83584105 TTTA
1 TTTA
83584109 ATGTTTAATT
Statistics
Matches: 76, Mismatches: 18, Indels: 15
0.70 0.17 0.14
Matches are distributed among these distances:
8 1 0.01
9 31 0.41
10 24 0.32
11 18 0.24
12 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTATAAATT
Found at i:83584049 original size:38 final size:37
Alignment explanation
Indices: 83583997--83584078 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 37
83583987 TTCTTACGAC
* *
83583997 TTTATAAAAATTTTATAATTTTTTATATATTTTATGATT
1 TTTAT-AAAATTTTACAATTTTTTATAT-TTTTATGAAT
83584036 TTTATAAAATTTTACAATTTTTTATATTTTTATGAAT
1 TTTATAAAATTTTACAATTTTTTATATTTTTATGAAT
83584073 TTTATA
1 TTTATA
83584079 TATTTTTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 15 0.37
38 21 0.51
39 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (37 bp):
TTTATAAAATTTTACAATTTTTTATATTTTTATGAAT
Found at i:83584085 original size:28 final size:28
Alignment explanation
Indices: 83584007--83584086 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
83583997 TTTATAAAAA
* *
83584007 TTTTATAATTTTTTATATATTTTATGAT
1 TTTTATAATTTTATATATTTTTTATGAT
*
83584035 TTTTATAAAATTTTACA-ATTTTTTAT-AT
1 TTTTAT--AATTTTATATATTTTTTATGAT
83584063 TTTTATGAATTTTATATATTTTTT
1 TTTTAT-AATTTTATATATTTTTT
83584087 TAGAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 8 0.18
28 21 0.48
29 8 0.18
30 7 0.16
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTATAATTTTATATATTTTTTATGAT
Found at i:83584324 original size:93 final size:86
Alignment explanation
Indices: 83584198--83584419 Score: 232
Period size: 91 Copynumber: 2.5 Consensus size: 86
83584188 TAATAAAAGC
* * * * * ** *
83584198 AAGGGCTTAACTGCTTTTTTTT-AAATAAATTTGAGGATCTTTTTTTATGCATTTTGAAGGTTCA
1 AAGGGCTTAATTGCTTTTTTTTGAAA-AAGTTTGAGG-GC-CTTTTGATGCATTTTGAAAATCCA
* *
83584262 AGTACCCAATTGTGTGCAAAAAAAAAA
63 AGTACCCAAATGAGTG---AAAAAAAA
* *
83584289 ATAGAGGCTTAATTGCTTTTTTTTGAAAATGTTTGAGGGCCTTTTGATGTATTTTGAAAATCCAA
1 A-AG-GGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTGATGCATTTTGAAAATCCAA
*
83584354 GTACCCAAATGAGTGAAAAAAAT
64 GTACCCAAATGAGTGAAAAAAAA
*
83584377 AAGGGCTTAATTGC-TTTTTTTGAAAAAGTTTGAGGGCTTTTTG
1 AAGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTG
83584420 CACCCTTAAG
Statistics
Matches: 113, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
85 27 0.24
86 11 0.10
87 2 0.02
88 8 0.07
91 33 0.29
92 3 0.03
93 26 0.23
94 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (86 bp):
AAGGGCTTAATTGCTTTTTTTTGAAAAAGTTTGAGGGCCTTTTGATGCATTTTGAAAATCCAAGT
ACCCAAATGAGTGAAAAAAAA
Found at i:83587231 original size:75 final size:75
Alignment explanation
Indices: 83587112--83587282 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
83587102 CATGGCAAAG
** *
83587112 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
83587171 CCATACTGAGC
65 CCATACCGAGC
83587182 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
83587247 CATACCGAGT
66 CATACCGAGC
***
83587257 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
83587283 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:83587250 original size:35 final size:35
Alignment explanation
Indices: 83587115--83587280 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
83587105 GGCAAAGTGT
* **
83587115 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
83587150 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
83587185 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
83587225 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
83587260 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
83587281 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:83594725 original size:75 final size:75
Alignment explanation
Indices: 83594606--83594776 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
83594596 CATGGCAAAG
** *
83594606 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
83594665 CCATACTGAGC
65 CCATACCGAGC
83594676 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
83594741 CATACCGAGT
66 CATACCGAGC
***
83594751 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
83594777 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:83594744 original size:35 final size:35
Alignment explanation
Indices: 83594609--83594774 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
83594599 GGCAAAGTGT
* **
83594609 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
83594644 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
83594679 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
83594719 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
83594754 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
83594775 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:83597756 original size:35 final size:35
Alignment explanation
Indices: 83597729--83597894 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
83597719 CATGGCAAAG
*
83597729 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
83597764 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
83597799 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
83597839 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
83597874 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
83597895 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:83597848 original size:75 final size:75
Alignment explanation
Indices: 83597729--83597899 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
83597719 CATGGCAAAG
** *
83597729 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
83597788 CCATACTGAGC
65 CCATACCGAGC
83597799 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
83597864 CATACCGAGT
66 CATACCGAGC
**
83597874 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
83597900 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:83605347 original size:75 final size:75
Alignment explanation
Indices: 83605228--83605398 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
83605218 CATGGCAAAG
** *
83605228 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
83605287 CCATACTGAGC
65 CCATACCGAGC
83605298 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
83605363 CATACCGAGT
66 CATACCGAGC
***
83605373 TAAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
83605399 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 60 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:83605366 original size:35 final size:35
Alignment explanation
Indices: 83605231--83605396 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
83605221 GGCAAAGTGT
* **
83605231 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
83605266 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
83605301 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
83605341 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
*
83605376 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
83605397 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
35 85 0.73
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:83611275 original size:46 final size:45
Alignment explanation
Indices: 83611137--83611301 Score: 134
Period size: 46 Copynumber: 3.6 Consensus size: 45
83611127 GGGTTATTGT
* * * * * * *
83611137 GAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCTCA-GACGA
* * * * *
83611183 GAGCCAGTGTAAGACTATGTCTGGTATATAGCATCGACATTAAGACGA
1 GAGCCAGTGTAAGAC-ATGTCTGGGACATA-CATCGGC-CTCAGACGA
* *
83611231 GTGCTAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCTC-AGACG-A
*
83611278 -AGCCAATGTAAGACATGTCTGGGA
1 GAGCCAGTGTAAGACATGTCTGGGA
83611302 TATGGCATCG
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 46 0.50
47 23 0.25
48 21 0.23
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCTCAGACGA
Found at i:83612804 original size:41 final size:40
Alignment explanation
Indices: 83612749--83612888 Score: 151
Period size: 41 Copynumber: 3.5 Consensus size: 40
83612739 CCTATTATAA
* * *
83612749 TCTCACACATTAAGTGCCTTTCATAGCTGAAGCTATCACAG
1 TCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATC-CAG
*
83612790 TCTCGCACACTAAGTGCCATTCATAGCCGAAGCTATCTCAG
1 TCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATC-CAG
* * *
83612831 TCTAGCACACTAAGTGTCATAT-ATAGCCGAAGCTATTCC-G
1 TCTCGCACACTAAGTG-CCTTTCATAGCCGAAGCTA-TCCAG
83612871 AT-TCGCACACTAAGTGCC
1 -TCTCGCACACTAAGTGCC
83612889 AAACATAGTC
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 14 0.16
41 66 0.78
42 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (40 bp):
TCTCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCCAG
Found at i:83616932 original size:24 final size:24
Alignment explanation
Indices: 83616905--83616951 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
83616895 TGTATGTGTG
83616905 TGAACATAATGGGTGGTTTAATTA
1 TGAACATAATGGGTGGTTTAATTA
83616929 TGAACATAATGGGTGGTTTAATT
1 TGAACATAATGGGTGGTTTAATT
83616952 GTTATGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (24 bp):
TGAACATAATGGGTGGTTTAATTA
Found at i:83618535 original size:32 final size:32
Alignment explanation
Indices: 83618499--83618563 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
83618489 TGTATGCATT
83618499 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
83618531 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
83618563 T
1 T
83618564 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:83620072 original size:26 final size:26
Alignment explanation
Indices: 83620043--83620095 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
83620033 TTTACAGTTT
83620043 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
83620069 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
83620095 T
1 T
83620096 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:83621582 original size:10 final size:10
Alignment explanation
Indices: 83621542--83621587 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
83621532 AAAAAGGAAT
*
83621542 GAGCTGAAAC
1 GAGCTAAAAC
83621552 GAGCTAAAATC
1 GAGCTAAAA-C
* *
83621563 AAGCTCAAAC
1 GAGCTAAAAC
83621573 GAGCTAAAAC
1 GAGCTAAAAC
83621583 GAGCT
1 GAGCT
83621588 CAAGTGAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (10 bp):
GAGCTAAAAC
Found at i:83621597 original size:20 final size:21
Alignment explanation
Indices: 83621543--83621590 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
83621533 AAAAGGAATG
*
83621543 AGCTGAAACGAGCTAAAATCA
1 AGCTCAAACGAGCTAAAATCA
*
83621564 AGCTCAAACGAGCTAAAA-CG
1 AGCTCAAACGAGCTAAAATCA
83621584 AGCTCAA
1 AGCTCAA
83621591 GTGAGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAAATCA
Found at i:83622613 original size:20 final size:20
Alignment explanation
Indices: 83622569--83622606 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
83622559 CCATGAATTG
*
83622569 TTTTATTGATAAGATTATAA
1 TTTTATTGATAAAATTATAA
*
83622589 TTTTATTTATAAAATTAT
1 TTTTATTGATAAAATTAT
83622607 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTATTGATAAAATTATAA
Found at i:83622733 original size:18 final size:18
Alignment explanation
Indices: 83622698--83622735 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83622688 TTTTTACCAA
**
83622698 AAATATTTTTTATTTTTT
1 AAATATTTTTTAACTTTT
83622716 AAATATTTTTTAACTTTT
1 AAATATTTTTTAACTTTT
83622734 AA
1 AA
83622736 CTTTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
AAATATTTTTTAACTTTT
Found at i:83626726 original size:23 final size:23
Alignment explanation
Indices: 83626696--83626740 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
83626686 CAAAATTAAG
83626696 TAAAACATTAAAACATTCCAATA
1 TAAAACATTAAAACATTCCAATA
* *
83626719 TAAAACATTAAGACATTGCAAT
1 TAAAACATTAAAACATTCCAAT
83626741 CCGAAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (23 bp):
TAAAACATTAAAACATTCCAATA
Found at i:83628500 original size:26 final size:26
Alignment explanation
Indices: 83628471--83628521 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
83628461 ATATACCCAT
* *
83628471 GAACTGCTTA-ATACCCCAATGAACAG
1 GAACTG-TTATATAACCCAACGAACAG
83628497 GAACTGTTATATAACCCAACGAACA
1 GAACTGTTATATAACCCAACGAACA
83628522 TTGCTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (26 bp):
GAACTGTTATATAACCCAACGAACAG
Found at i:83634436 original size:21 final size:21
Alignment explanation
Indices: 83634410--83634451 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
83634400 AAAAAGATAT
*
83634410 TTTTTTTGGTAAATTACAATA
1 TTTTTTTAGTAAATTACAATA
83634431 TTTTTTTAGTAAATTACAATA
1 TTTTTTTAGTAAATTACAATA
83634452 ATAAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTTTTTAGTAAATTACAATA
Found at i:83636730 original size:37 final size:38
Alignment explanation
Indices: 83636650--83636730 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 38
83636640 TTTATTTTAA
83636650 TATAA-TATATATTTCATATATTTTTATCAATTACTTT
1 TATAACTATATATTTCATATATTTTTATCAATTACTTT
* *
83636687 CA-AACTATATATTTTAT-TATTTATTAT-ATATTA-TTT
1 TATAACTATATATTTCATATATTT-TTATCA-ATTACTTT
83636723 TATAACTA
1 TATAACTA
83636731 ACATTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
36 12 0.32
37 25 0.68
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (38 bp):
TATAACTATATATTTCATATATTTTTATCAATTACTTT
Found at i:83639049 original size:15 final size:16
Alignment explanation
Indices: 83639023--83639052 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
83639013 ATTTTTTCTA
83639023 AAATTATAAAAAAATT
1 AAATTATAAAAAAATT
83639039 AAATT-TAAAAAAAT
1 AAATTATAAAAAAAT
83639053 AATTCTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATTATAAAAAAATT
Found at i:83647609 original size:15 final size:14
Alignment explanation
Indices: 83647586--83647616 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
83647576 ATTAAAAAGG
83647586 AAAAAGAAAATGAA
1 AAAAAGAAAATGAA
83647600 AAAAATGAAAATGAA
1 AAAAA-GAAAATGAA
83647615 AA
1 AA
83647617 GAAACTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (14 bp):
AAAAAGAAAATGAA
Found at i:83647609 original size:21 final size:20
Alignment explanation
Indices: 83647579--83647620 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
83647569 GTGGCAAATT
83647579 AAAAAGGAAAAAGAAAATGAA
1 AAAAAGGAAAAAGAAAA-GAA
* *
83647600 AAAAATGAAAATGAAAAGAA
1 AAAAAGGAAAAAGAAAAGAA
83647620 A
1 A
83647621 CTTTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAAGGAAAAAGAAAAGAA
Found at i:83648463 original size:95 final size:95
Alignment explanation
Indices: 83648295--83648471 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 95
83648285 TATTGTCGGC
* * **
83648295 TATATCGACTAGTGATGGGCACACATATTTGTCCGTTTTACCGACTAGCGTAAGGCACATTTATT
1 TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACTAGCACAAGGCACATTTATT
**
83648360 GTTGGTTATACCGACCAGTACAGGATGCAT
66 GTCAGTTATACCGACCAGTACAGGATGCAT
* * * **
83648390 TATACCGACTAGTGCTGGGCACACATATTTGTCGGTTCTACCGA-TCAGCACATGGTGCATTTAT
1 TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACT-AGCACAAGGCACATTTAT
*
83648454 TGTCAGTTATACTGACCA
65 TGTCAGTTATACCGACCA
83648472 ATTTTAGTCA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
94 1 0.01
95 68 0.99
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (95 bp):
TATACCGACTAGTGATGGGCACACATATTTGTCCGTTCTACCGACTAGCACAAGGCACATTTATT
GTCAGTTATACCGACCAGTACAGGATGCAT
Found at i:83652740 original size:28 final size:27
Alignment explanation
Indices: 83652674--83652743 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
83652664 ATAGTGAGTC
*
83652674 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
83652701 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
83652729 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83652744 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:83654128 original size:11 final size:11
Alignment explanation
Indices: 83654112--83654142 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
83654102 ACCACTAGCA
83654112 AAACATGTTGG
1 AAACATGTTGG
83654123 AAACATGTTGG
1 AAACATGTTGG
83654134 AAACATGTT
1 AAACATGTT
83654143 TCCTTGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (11 bp):
AAACATGTTGG
Found at i:83660728 original size:28 final size:27
Alignment explanation
Indices: 83660662--83660731 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
83660652 ATAGTGAGTC
*
83660662 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTATATAATCAACT
* *
83660689 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATC-AACT
83660717 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83660732 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:83663063 original size:18 final size:18
Alignment explanation
Indices: 83663035--83663078 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
83663025 AGTGAAATTT
83663035 ATATGAAAATCCCT-GAAGG
1 ATAT-AAAAT-CCTAGAAGG
*
83663054 ATTTAAAATCCTAGAAGG
1 ATATAAAATCCTAGAAGG
83663072 ATATAAA
1 ATATAAA
83663079 GTTTCTCGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATAAAATCCTAGAAGG
Found at i:83667562 original size:40 final size:39
Alignment explanation
Indices: 83667517--83667646 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
83667507 CGGAATATAA
83667517 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
83667557 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
83667597 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
83667637 CCGGATATAA
1 CCGGATATAA
83667647 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:83667661 original size:40 final size:40
Alignment explanation
Indices: 83667533--83667684 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
83667523 ATAACCATGT
* * *
83667533 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
83667573 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
83667613 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
83667653 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
83667685 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:83667667 original size:80 final size:80
Alignment explanation
Indices: 83667533--83667682 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
83667523 ATAACCATGT
*
83667533 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
83667597 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
83667613 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
83667676 CCCGGAT
64 CCCGGAT
83667683 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:83673582 original size:40 final size:39
Alignment explanation
Indices: 83673537--83673666 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
83673527 CGGAATATAA
83673537 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
83673577 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
83673617 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
83673657 CCGGATATAA
1 CCGGATATAA
83673667 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:83673681 original size:40 final size:40
Alignment explanation
Indices: 83673553--83673704 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
83673543 ATAACCATGT
* * *
83673553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
83673593 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
83673633 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
83673673 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
83673705 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:83673687 original size:80 final size:80
Alignment explanation
Indices: 83673553--83673702 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
83673543 ATAACCATGT
*
83673553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
83673617 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
83673633 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
83673696 CCCGGAT
64 CCCGGAT
83673703 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:83674753 original size:64 final size:64
Alignment explanation
Indices: 83674680--83674890 Score: 142
Period size: 64 Copynumber: 3.2 Consensus size: 64
83674670 CTGGACCAGA
*
83674680 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACTGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACTGTATGGCCCATAG
* * * *** * ** *
83674744 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAAC--T-GT
* *
83674806 ACTGGGCCAGA-
54 A-TGGCCCATAG
* *
83674817 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACTGTATGGCCCATAG
83674881 GCCCATTTCA
1 GCCCATTTCA
83674891 AAATACATGC
Statistics
Matches: 102, Mismatches: 28, Indels: 34
0.62 0.17 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.25
65 5 0.05
66 1 0.01
67 10 0.10
68 5 0.05
69 5 0.05
70 10 0.10
71 1 0.01
72 6 0.06
73 16 0.16
74 9 0.09
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACTGTATGGCCCATAG
Found at i:83674892 original size:137 final size:137
Alignment explanation
Indices: 83674646--83674932 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
83674636 TATTGGGCCT
**
83674646 AAGCCCATTCAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
83674711 AGCCCCTTATTCAGATAACTGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
83674776 CATATGC
131 CATATGC
*
83674783 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
83674848 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
83674913 CATATGC
131 CATATGC
83674920 AAGCCCATTTGGG
1 AAGCCCATTTGGG
83674933 GAGACTACTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:83675209 original size:26 final size:26
Alignment explanation
Indices: 83675180--83675232 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
83675170 TCAAACATGC
83675180 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
83675206 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
83675232 A
1 A
83675233 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:83677341 original size:29 final size:28
Alignment explanation
Indices: 83677298--83677399 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
83677288 GAGACAAGAT
*
83677298 TGGCACTAAGCGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCAAGCTT-AAATA-TA
*
83677327 TGGCACTAAGTGTGCGAA-TTTAAATTATA
1 TGGCACTAAGTGTGC-AAGCTTAAA-TATA
* * *
83677356 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAAT-ATA
83677385 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
83677400 GTGATCGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
28 5 0.08
29 53 0.87
30 3 0.05
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAATATA
Found at i:83677400 original size:29 final size:29
Alignment explanation
Indices: 83677326--83677400 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
83677316 CTTGAAAAGT
* * *
83677326 ATGGCACTAAGTGTGCGAATTTAAATTAT
1 ATGGCACTAAGTGTGCGAACTTAAATCAC
* *
83677355 ATGGCACTATGTGTGCGAGCTTAAATCAC
1 ATGGCACTAAGTGTGCGAACTTAAATCAC
83677384 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
83677401 TGATCGATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAACTTAAATCAC
Found at i:83681375 original size:29 final size:28
Alignment explanation
Indices: 83681273--83681375 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 28
83681263 GAGACAAGAT
*
83681273 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATA-TA
**
83681302 TGGCACTAAGTGTGCGAATTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
83681331 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
83681360 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
83681376 TGATCGATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
28 4 0.06
29 58 0.92
30 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:83683915 original size:26 final size:26
Alignment explanation
Indices: 83683877--83683934 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
83683867 CATGAAATTC
*
83683877 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACACA
* *
83683903 TTATCATGGAACATTTACCTAACATA
1 TTATCATGAAACATTTACCTAACACA
83683929 TTATCA
1 TTATCA
83683935 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACACA
Found at i:83692770 original size:40 final size:40
Alignment explanation
Indices: 83692711--83692879 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
83692701 CGGGACTTTA
* * *
83692711 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
83692751 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
83692791 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
83692831 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
83692871 CCCGGATAT
1 CCCGGATAT
83692880 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:83696756 original size:17 final size:18
Alignment explanation
Indices: 83696736--83696775 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
83696726 AAATGAAACT
* *
83696736 AAAATA-AACTTTTTTAA
1 AAAATATAACTTCTTAAA
83696753 AAAATATAACTTCTTAAA
1 AAAATATAACTTCTTAAA
83696771 AAAAT
1 AAAAT
83696776 TGAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATATAACTTCTTAAA
Found at i:83696861 original size:18 final size:18
Alignment explanation
Indices: 83696827--83696861 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83696817 CTCAAAACAA
*
83696827 TAAAAATAAATTCTAATT
1 TAAAAATAAATACTAATT
*
83696845 TAAAAATAAATAGTAAT
1 TAAAAATAAATACTAAT
83696862 AATATTGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAAATAAATACTAATT
Found at i:83699790 original size:3 final size:3
Alignment explanation
Indices: 83699782--83699846 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
83699772 CCTTTCTTGA
83699782 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
83699830 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
83699847 GTACATGTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:83714481 original size:48 final size:48
Alignment explanation
Indices: 83714372--83714579 Score: 200
Period size: 48 Copynumber: 4.4 Consensus size: 48
83714362 TGTGTCAGTA
* *
83714372 TAAGATATGTCTGGGACATGCATCAG-C-C-ATAT-TACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAC-A-AGCTAGTG
* * * * * * *
83714418 TGAGACATGCCTGGGATATGCATCGGCCTCGGGATATACCAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTG
* **
83714466 TAAGACATGTATGGGACATGCATCAG-CT-TTGA-A-ACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAC-A-AGCTAGTG
83714512 TAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTG
83714560 TAAGATC-TGTCTGGGACATG
1 TAAGA-CATGTCTGGGACATG
83714580 GCGTCAGCTT
Statistics
Matches: 130, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 55 0.42
47 5 0.04
48 57 0.44
49 5 0.04
50 5 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
TAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCTAGTG
Found at i:83714533 original size:94 final size:94
Alignment explanation
Indices: 83714367--83714589 Score: 279
Period size: 94 Copynumber: 2.4 Consensus size: 94
83714357 ATACGTGTGT
* * ** * *
83714367 CAGTATAAGATATGTCTGGGACATGCATCAGCCATATTACGAGAGCTAGTGTGAGACATGCCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCTTTATAACGAGAGCTAGTGTAAGACATGCCTGG
* * * *
83714432 GATATGCATCGGCCTCGGGATATACCAGC
66 GACATGCATCAGCCTCGAGATATACAAGC
* *
83714461 CAGTGTAAGACATGTATGGGACATGCATCAGCTTTGA-AACGAGAGCTAGTGTAAGACATGTCTG
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCTTT-ATAACGAGAGCTAGTGTAAGACATGCCTG
83714525 GGACATGCATCAGCCTCGAGATATACAAGC
65 GGACATGCATCAGCCTCGAGATATACAAGC
* *
83714555 TAGTGTAAGATC-TGTCTGGGACATGGCGTCAGCTT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTT
83714590 GTTGTGTGTC
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 100 0.90
95 11 0.10
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAGCTTTATAACGAGAGCTAGTGTAAGACATGCCTGG
GACATGCATCAGCCTCGAGATATACAAGC
Found at i:83714707 original size:49 final size:49
Alignment explanation
Indices: 83714605--83714707 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
83714595 GTGTCATTGT
* * * *
83714605 AAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGT
1 AAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAAGCCAATGC
* * * **
83714654 AAGACCTGTCTGGGACACGGCATCGGCATCGATATATGAAAGTTAATGC
1 AAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAAGCCAATGC
83714703 AAGAC
1 AAGAC
83714708 TTATTTAGGA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.19
Consensus pattern (49 bp):
AAGACCTGTCTGGGACACGGCATCGACACCGATAGATGAAAGCCAATGC
Found at i:83724615 original size:30 final size:30
Alignment explanation
Indices: 83724581--83724638 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
83724571 ATTTTTGAGC
* * * *
83724581 CTAGGGGTAAAATGGTCATTTTGTAAAAGT
1 CTAGGGGAAAAATAGACATTTTGCAAAAGT
83724611 CTAGGGGAAAAATAGACATTTTGCAAAA
1 CTAGGGGAAAAATAGACATTTTGCAAAA
83724639 AAATGTGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (30 bp):
CTAGGGGAAAAATAGACATTTTGCAAAAGT
Found at i:83725079 original size:21 final size:21
Alignment explanation
Indices: 83725055--83725102 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
83725045 GGCCACACAA
83725055 GCGTGTTGCCCTTTCACACGG
1 GCGTGTTGCCCTTTCACACGG
*
83725076 GCGTGTTGCTCTTTCACACGG
1 GCGTGTTGCCCTTTCACACGG
83725097 GCGTGT
1 GCGTGT
83725103 ACCCTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.29, G:0.31, T:0.31
Consensus pattern (21 bp):
GCGTGTTGCCCTTTCACACGG
Found at i:83726141 original size:28 final size:28
Alignment explanation
Indices: 83726107--83726165 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
83726097 TTTAAATATC
83726107 ACTTAGTTCAAGTACTATCATATACAGA
1 ACTTAGTTCAAGTACTATCATATACAGA
83726135 ACTTAGTTCAAGTACTATCATATACAGA
1 ACTTAGTTCAAGTACTATCATATACAGA
83726163 ACT
1 ACT
83726166 CAAATTGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (28 bp):
ACTTAGTTCAAGTACTATCATATACAGA
Found at i:83726596 original size:45 final size:44
Alignment explanation
Indices: 83726468--83726598 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 44
83726458 CTTAATATTT
* * *
83726468 CGTATTCTCCAGTCCGCAATATATGCAAGAGTTGGGAACCTAAATT
1 CGTATTCTCAAGTCCGCAACATATGCAAGA--TGGGAACCTAAATC
** * * *
83726514 TTTATTCTCAAATCCGCAACAAATACAGAGGAT-GGAACCTAAATC
1 CGTATTCTCAAGTCCGCAACATATGCA-A-GATGGGAACCTAAATC
**
83726559 CGTATTCTTTAGTCCGCAACATATGCAAGACTGGGAACCT
1 CGTATTCTCAAGTCCGCAACATATGCAAGA-TGGGAACCT
83726599 GGGCAAAAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
43 2 0.03
44 2 0.03
45 38 0.58
46 21 0.32
47 1 0.02
48 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (44 bp):
CGTATTCTCAAGTCCGCAACATATGCAAGATGGGAACCTAAATC
Found at i:83728096 original size:14 final size:15
Alignment explanation
Indices: 83728068--83728114 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
83728058 TATATATATT
*
83728068 TATTAGTAATAAATTA
1 TATTA-TAATTAATTA
83728084 TATTA-AATTAATT-
1 TATTATAATTAATTA
83728097 TATTATAATTATATTA
1 TATTATAATTA-ATTA
83728113 TA
1 TA
83728115 AGATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 3 0.11
16 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTATAATTAATTA
Found at i:83728299 original size:149 final size:149
Alignment explanation
Indices: 83728116--83728388 Score: 318
Period size: 149 Copynumber: 1.8 Consensus size: 149
83728106 TATATTATAA
*** * * **
83728116 GATATTTATATGATAAATAAATTAAATTGTGACAAGTGTGTGATAAA-AAGAAAATACATGTGTA
1 GATATTTATATGATAAATAAATTAAATAAAGACAAATGTATGATAAATAA-AAAATACAAATGTA
* *
83728180 ATAAATATTATACATACATTTGTAATATA-TGTATGTATTTACTTATTATTTAAGTAAATATTAA
65 ATAAATA-TATACATACAATTGTAATATATTGTATGTAGTTACTTATTATTTAAGTAAATATTAA
83728244 TGTTATTGTTATTATTAAATT
129 TGTTATTGTTATTATTAAATT
* * *
83728265 GATA-TTATATTATGAAATAAATTAAATAAAGACAAATGTATGGTAAATAAAACATACAAATGTA
1 GATATTTATATGAT-AAATAAATTAAATAAAGACAAATGTATGATAAATAAAAAATACAAATGTA
* * * * * * * *
83728329 ATACATATATTCGTACAATTGTAGTATATTTTATTTAGTTGCTTTTTATTTAAGTAAATA
65 ATAAATATATACATACAATTGTAATATATTGTATGTAGTTACTTATTATTTAAGTAAATA
83728389 GATTTTTATA
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
148 25 0.25
149 74 0.73
150 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (149 bp):
GATATTTATATGATAAATAAATTAAATAAAGACAAATGTATGATAAATAAAAAATACAAATGTAA
TAAATATATACATACAATTGTAATATATTGTATGTAGTTACTTATTATTTAAGTAAATATTAATG
TTATTGTTATTATTAAATT
Found at i:83728594 original size:13 final size:12
Alignment explanation
Indices: 83728566--83728604 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
83728556 TATAGTAAAT
*
83728566 AAAGAAAGAAAA
1 AAAGAAAGAAAC
83728578 AAAGAAATGAAAC
1 AAAGAAA-GAAAC
83728591 AAAGAAAAGAAAC
1 AAAG-AAAGAAAC
83728604 A
1 A
83728605 GAATAGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 7 0.29
13 14 0.58
14 3 0.12
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAGAAAGAAAC
Found at i:83729837 original size:60 final size:59
Alignment explanation
Indices: 83729767--83729902 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 59
83729757 AAGTGTCGTC
* * *
83729767 TTACTGTTACTGTTACTGTTCTAG-ATTTGTT-CTGATGAGGTATTCTGTGTACCGCTATTG
1 TTACTGTTACTGTTACTGTTC-AGAATTTGTTCCAG-TGAGGTATTCTGTATACCG-TACTG
* *
83729827 TTACTGTTACTGTTACTGTTCCGAATTTGTTCCAGTGAGGTATTCTGTATATCGTACTG
1 TTACTGTTACTGTTACTGTTCAGAATTTGTTCCAGTGAGGTATTCTGTATACCGTACTG
*
83729886 CTACTGTTACTGTTACT
1 TTACTGTTACTGTTACT
83729903 ATTACCGTTA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
59 21 0.31
60 45 0.66
61 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.46
Consensus pattern (59 bp):
TTACTGTTACTGTTACTGTTCAGAATTTGTTCCAGTGAGGTATTCTGTATACCGTACTG
Found at i:83730084 original size:18 final size:18
Alignment explanation
Indices: 83730061--83730102 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
83730051 TAATTAACTG
83730061 TTACTGACTAAATGATTA
1 TTACTGACTAAATGATTA
* *
83730079 TTACTGATTAACTGATTA
1 TTACTGACTAAATGATTA
83730097 TTACTG
1 TTACTG
83730103 TTGACTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (18 bp):
TTACTGACTAAATGATTA
Found at i:83730166 original size:18 final size:17
Alignment explanation
Indices: 83730143--83730191 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
83730133 AACTGATTGT
83730143 TACTGAATATTGGACT-A
1 TACTGAATATTGGA-TGA
*
83730160 CTACTGAATGTCTGGATGA
1 -TACTGAATAT-TGGATGA
83730179 TACTGAATATTGG
1 TACTGAATATTGG
83730192 TTATTACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 19 0.70
19 5 0.19
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (17 bp):
TACTGAATATTGGATGA
Found at i:83731491 original size:27 final size:28
Alignment explanation
Indices: 83731454--83731592 Score: 157
Period size: 27 Copynumber: 5.2 Consensus size: 28
83731444 AGCATGGCTG
* *
83731454 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
83731480 CCAGATACAGATA-ATCGT-GCAAAACCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
83731507 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
83731534 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
83731561 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83731588 CCAGA
1 CCAGA
83731593 ACTCTTCCTC
Statistics
Matches: 100, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
26 14 0.14
27 84 0.84
28 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:83731538 original size:54 final size:54
Alignment explanation
Indices: 83731454--83731592 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
83731444 AGCATGGCTG
* *
83731454 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGT-GCAAAACCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAAAACCA
* * * *
83731507 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAAAACCA
* * *
83731561 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
83731593 ACTCTTCCTC
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 21 0.28
54 54 0.72
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAAAACCA
Found at i:83733244 original size:26 final size:26
Alignment explanation
Indices: 83733208--83733314 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
83733198 CATGAAATTC
83733208 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
83733234 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
83733260 TTATCATG-AA-ATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
83733283 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
83733309 TTATCA
1 TTATCA
83733315 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.13
24 12 0.16
25 12 0.16
26 41 0.55
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:83733296 original size:49 final size:52
Alignment explanation
Indices: 83733208--83733314 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 52
83733198 CATGAAATTC
83733208 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
*
83733260 TTATCATG-AA-ATTTACCTAA-CCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
83733309 TTATCA
1 TTATCA
83733315 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 34 0.63
50 10 0.19
51 2 0.04
52 8 0.15
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
Found at i:83737275 original size:27 final size:28
Alignment explanation
Indices: 83737238--83737376 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
83737228 AGCATGGCTG
* *
83737238 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83737264 CCAGATACAGATA-ATCGTGGCA-AGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
83737291 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
83737318 CCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
83737345 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
83737372 CCAGA
1 CCAGA
83737377 ACGCTTCCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
26 18 0.18
27 79 0.77
28 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:83737322 original size:54 final size:54
Alignment explanation
Indices: 83737238--83737376 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
83737228 AGCATGGCTG
* *
83737238 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCA-AGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
83737291 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGTAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * *
83737345 CCAGATCAGATATTTGTGGCATAGCCACCAGA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGA
83737377 ACGCTTCCTC
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
53 24 0.32
54 52 0.68
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:83739025 original size:26 final size:26
Alignment explanation
Indices: 83738989--83739097 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
83738979 CATGAAATTC
*
83738989 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
83739015 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
83739041 TTATCATGAAA-TTTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
83739066 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
83739092 TTATCA
1 TTATCA
83739098 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.29
26 55 0.71
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:83739069 original size:51 final size:52
Alignment explanation
Indices: 83738989--83739097 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
83738979 CATGAAATTC
83738989 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
* * *
83739041 TTATCATGAAA-TTTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
83739092 TTATCA
1 TTATCA
83739098 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 43 0.80
52 11 0.20
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
Found at i:83747497 original size:30 final size:30
Alignment explanation
Indices: 83747461--83747518 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
83747451 GATTAGCATG
*
83747461 AAATTTCTCTAAAAATAGGCACTTGAGATA
1 AAATTTCTCTAAAAATAGGAACTTGAGATA
83747491 AAATTTCTCTAAAAATAGGAACTTGAGA
1 AAATTTCTCTAAAAATAGGAACTTGAGA
83747519 GTTGTTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (30 bp):
AAATTTCTCTAAAAATAGGAACTTGAGATA
Found at i:83748522 original size:38 final size:38
Alignment explanation
Indices: 83748480--83748570 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 38
83748470 GTCCAACCCA
83748480 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
1 ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
* * * *
83748518 ACACACCAAGTATGGGGATAAAATTGACCTATCCAGCCCT
1 ACACACC-A-TGTGGGGATAAAATCGACCCACCCAGCCCT
*
83748558 ACACACCAAGTGG
1 ACACACCATGTGG
83748571 TACTGTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 10 0.22
39 2 0.04
40 33 0.73
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.15
Consensus pattern (38 bp):
ACACACCATGTGGGGATAAAATCGACCCACCCAGCCCT
Found at i:83748537 original size:40 final size:40
Alignment explanation
Indices: 83748490--83748568 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
83748480 ACACACCATG
83748490 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
* * *
83748530 TGGGGATAAAATTGACCTATCCAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGT
83748569 GGTACTGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACACACCAAGTA
Found at i:83759156 original size:48 final size:48
Alignment explanation
Indices: 83759076--83759351 Score: 374
Period size: 48 Copynumber: 5.8 Consensus size: 48
83759066 ACTGTGCTAA
* *
83759076 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
83759124 ATGTGTCTGTGTAAGACCATGTTTGGGGCATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
83759172 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
*
83759220 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
83759268 GTGTGCCAGTGTAAGGCCATGTCTGGGACATGGCATCCGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** * * *
83759316 GTG-GATTCATATAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
83759352 TGGTACTTTA
Statistics
Matches: 202, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 1 0.00
48 201 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:83759344 original size:144 final size:144
Alignment explanation
Indices: 83759076--83759351 Score: 419
Period size: 144 Copynumber: 1.9 Consensus size: 144
83759066 ACTGTGCTAA
* *
83759076 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGTCTGTGTAAGAC
1 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCAGTGTAAGAC
* * * * * * *
83759141 CATGTTTGGGGCATGGCATCGGCGATGATATATGTGCTTGTGTAAGACCATGTCTGGGACATGGC
66 CATGTCTGGGACATGGCATCCGCGATGATATATGTGATTATATAAGACCATGTCGGGGACATGGC
83759206 ATCGACGATGATAT
131 ATCGACGATGATAT
* * *
83759220 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATGTGTGCCAGTGTAAGGC
1 ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCAGTGTAAGAC
*
83759285 CATGTCTGGGACATGGCATCCGCGATGATATGTG-GATTCATATAAGACCATGTCGGGGACATGG
66 CATGTCTGGGACATGGCATCCGCGATGATATATGTGATT-ATATAAGACCATGTCGGGGACATGG
83759349 CAT
130 CAT
83759352 TGGTACTTTA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
143 3 0.03
144 115 0.97
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (144 bp):
ATGTACCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCAGTGTAAGAC
CATGTCTGGGACATGGCATCCGCGATGATATATGTGATTATATAAGACCATGTCGGGGACATGGC
ATCGACGATGATAT
Found at i:83759497 original size:34 final size:34
Alignment explanation
Indices: 83759454--83759522 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
83759444 TGATATGAGT
83759454 AAGAATGTACGGTACAGGTATGTACGTAAACCTC
1 AAGAATGTACGGTACAGGTATGTACGTAAACCTC
83759488 AAGAATGTACGGTACAGGTATGTACGTAAACCTC
1 AAGAATGTACGGTACAGGTATGTACGTAAACCTC
83759522 A
1 A
83759523 TGAGTATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (34 bp):
AAGAATGTACGGTACAGGTATGTACGTAAACCTC
Found at i:83762756 original size:19 final size:19
Alignment explanation
Indices: 83762732--83762771 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
83762722 ATTAATTTTG
83762732 ATCAAATGAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
83762751 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
83762770 AT
1 AT
83762772 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:83763306 original size:72 final size:68
Alignment explanation
Indices: 83763174--83763311 Score: 179
Period size: 72 Copynumber: 2.0 Consensus size: 68
83763164 TTTAATAGAT
*
83763174 TTAATATTAAATTTAATTTATTACTTACCTTAATAATAGTTTATTAATTCAATATTAAAGTGATT
1 TTAATATTAAATTTAATTTAATACTTACCTTAATAATAGTTTATTAATTCAATATTAAAGTGATT
83763239 ATC
66 ATC
* * * *
83763242 TTAATATTGAATTTAATTTAATATTTATCTTGTAGATAAATA-TTATATTAATTTAATATTAAAG
1 TTAATATTAAATTTAATTTAATACTTA-CCT-TA-AT-AATAGTT-TATTAATTCAATATTAAAG
83763306 TGATTA
61 TGATTA
83763312 AGTTTAATTA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
68 24 0.40
69 2 0.03
70 2 0.03
71 4 0.07
72 28 0.47
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATACTTACCTTAATAATAGTTTATTAATTCAATATTAAAGTGATT
ATC
Found at i:83764036 original size:19 final size:19
Alignment explanation
Indices: 83764012--83764051 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
83764002 ATTAATTTTG
83764012 ATCAAATTAAATT-AAATTA
1 ATCAAATT-AATTAAAATTA
83764031 ATCAAATTAATTAAAATTA
1 ATCAAATTAATTAAAATTA
83764050 AT
1 AT
83764052 ATGATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATCAAATTAATTAAAATTA
Found at i:83765205 original size:41 final size:41
Alignment explanation
Indices: 83765142--83765279 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 41
83765132 GCAAATCGGA
* * *
83765142 ATAGCTTTGGCTAT-ATATGGCACTTAGTGTGTGAGACTGA-G
1 ATAGCTTCGGCTATGA-AAGGCACTTAGTGTGCGAGACT-ATG
*
83765183 ATAGCTTCGGCTATGAAAGGCACTTAGTGTCCGAGACTATG
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTATG
** * *
83765224 ATAGCTTCTACTATGAAAGGCACTTAGTGTGCGAGATTATA
1 ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTATG
*
83765265 ATAGATTCGGCTATG
1 ATAGCTTCGGCTATG
83765280 CTTTGGCACT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.01
41 81 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (41 bp):
ATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGAGACTATG
Found at i:83765459 original size:2 final size:2
Alignment explanation
Indices: 83765454--83765479 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83765444 GGTCACCATG
83765454 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
83765480 TAATTAGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83767469 original size:49 final size:48
Alignment explanation
Indices: 83767322--83767481 Score: 128
Period size: 49 Copynumber: 3.3 Consensus size: 48
83767312 AAAACCATAG
* * * *
83767322 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAGTAGTCATCG
1 TTGTCGAGCAACCC-AGGTGGTAGAATGTACATATTCTAATAGCCATCA
* * * * * *
83767371 TTGTCGGGCAACCCAGGATGAT-GGA-GTAAATAGATTGTGAA-AGCTATCA
1 TTGTCGAGCAACCCAGG-TGGTAGAATGTACAT--ATTCT-AATAGCCATCA
* *
83767420 TTGTCGGGCAACCCGAGGTGGTAGTATGTACATATTCTAATAGCCATCA
1 TTGTCGAGCAACCC-AGGTGGTAGAATGTACATATTCTAATAGCCATCA
*
83767469 TTTTCGAGCAACC
1 TTGTCGAGCAACC
83767482 TAGGACTACA
Statistics
Matches: 86, Mismatches: 17, Indels: 16
0.72 0.14 0.13
Matches are distributed among these distances:
47 5 0.06
48 7 0.08
49 63 0.73
50 6 0.07
51 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
TTGTCGAGCAACCCAGGTGGTAGAATGTACATATTCTAATAGCCATCA
Found at i:83767497 original size:98 final size:97
Alignment explanation
Indices: 83767322--83767502 Score: 220
Period size: 98 Copynumber: 1.9 Consensus size: 97
83767312 AAAACCATAG
* * * *
83767322 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAGTAGTCATCGTTGTCGGGCAACCCAG
1 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGCCATCATTGTCGAGCAACCCAG
***
83767387 GATGATGGAGTAAATAGATTGTGAAAGCTATCA
66 GATGACAAAGT-AATAGATTGTGAAAGCTATCA
* * * * * *
83767420 TTGTCGGGCAACCCGAGGTGGTAGTATGTACATATTCTAATAGCCATCATTTTCGAGCAACCTAG
1 TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGCCATCATTGTCGAGCAACCCAG
83767485 GACT-ACAAAGTAATAGAT
66 GA-TGACAAAGTAATAGAT
83767503 CCGTGCATTC
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
97 7 0.10
98 61 0.88
99 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (97 bp):
TTGTCGAGCAACCCAAGGTGGTAGAATGTACATATGCTAATAGCCATCATTGTCGAGCAACCCAG
GATGACAAAGTAATAGATTGTGAAAGCTATCA
Found at i:83776152 original size:42 final size:42
Alignment explanation
Indices: 83776072--83776156 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
83776062 AAGACCTCCT
* * *
83776072 CCTTTGCCTATAGCTGATTGGTGATCTTGACATGGACCTTGA
1 CCTTCGCCTATAACTGATTGGTGATCTAGACATGGACCTTGA
* *
83776114 CCTTCGCCTATAACTGATTGGTGATCTAGACTTTGACCTTGA
1 CCTTCGCCTATAACTGATTGGTGATCTAGACATGGACCTTGA
83776156 C
1 C
83776157 TGTCTTCGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (42 bp):
CCTTCGCCTATAACTGATTGGTGATCTAGACATGGACCTTGA
Found at i:83779376 original size:11 final size:11
Alignment explanation
Indices: 83779370--83779419 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
83779360 ATAATAACAA
83779370 CAAAATAATAG
1 CAAAATAATAG
**
83779381 CAGTATAATAG
1 CAAAATAATAG
*
83779392 CAAAATAACAG
1 CAAAATAATAG
*
83779403 CAAAATAATAA
1 CAAAATAATAG
83779414 CAAAAT
1 CAAAAT
83779420 GACAGTAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.18
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:83779388 original size:22 final size:22
Alignment explanation
Indices: 83779362--83779429 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
83779352 ATATCTAAAT
* * *
83779362 AATAACAACAAAATAATAGCAG
1 AATAATAACAAAATAACAGCAA
* *
83779384 TATAATAGCAAAATAACAGCAA
1 AATAATAACAAAATAACAGCAA
* *
83779406 AATAATAACAAAATGACAGTAA
1 AATAATAACAAAATAACAGCAA
83779428 AA
1 AA
83779430 CAAAAGTAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.63, C:0.12, G:0.09, T:0.16
Consensus pattern (22 bp):
AATAATAACAAAATAACAGCAA
Found at i:83783638 original size:27 final size:28
Alignment explanation
Indices: 83783607--83783677 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 28
83783597 ATATTTTAAC
**
83783607 ATTAATACATTAAAATATAAATGT-TTG
1 ATTAATACATTAAAATATAAATGTGTAA
* *
83783634 ATTAAATA-ATAAAAATATAATTGTGTAA
1 ATT-AATACATTAAAATATAAATGTGTAA
83783662 ATTTAATACATTAAAA
1 A-TTAATACATTAAAA
83783678 CCATAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
27 17 0.49
28 10 0.29
29 8 0.23
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (28 bp):
ATTAATACATTAAAATATAAATGTGTAA
Found at i:83807059 original size:26 final size:26
Alignment explanation
Indices: 83807026--83807076 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
83807016 AAGCATACAC
83807026 GACCTAATGAATGAATGCTTTTAAGT
1 GACCTAATGAATGAATGCTTTTAAGT
83807052 GACCTAATGAATGAATGCTTTTAAG
1 GACCTAATGAATGAATGCTTTTAAG
83807077 CTAACTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (26 bp):
GACCTAATGAATGAATGCTTTTAAGT
Found at i:83812803 original size:38 final size:38
Alignment explanation
Indices: 83812750--83812827 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
83812740 TAATTGACTT
*
83812750 ATGATATTAATTTAATAAATAACTTAAACATGATTTTG
1 ATGATATTAACTTAATAAATAACTTAAACATGATTTTG
83812788 ATGATATTAACTTAATAAATAACTTAAACATGATTTTG
1 ATGATATTAACTTAATAAATAACTTAAACATGATTTTG
83812826 AT
1 AT
83812828 TATGTCACTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (38 bp):
ATGATATTAACTTAATAAATAACTTAAACATGATTTTG
Found at i:83812844 original size:38 final size:37
Alignment explanation
Indices: 83812753--83812845 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 37
83812743 TTGACTTATG
* *
83812753 ATATTAATTTAATAAATAACTTAAACATGATTTTGAT
1 ATATTAACTCAATAAATAACTTAAACATGATTTTGAT
*
83812790 GATATTAACTTAATAAATAACTTAAACATGATTTTGAT
1 -ATATTAACTCAATAAATAACTTAAACATGATTTTGAT
*
83812828 -TATGTCACTCACATAAAT
1 ATAT-TAACTCA-ATAAAT
83812846 GAATAATAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 3 0.06
37 5 0.10
38 42 0.84
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (37 bp):
ATATTAACTCAATAAATAACTTAAACATGATTTTGAT
Found at i:83813191 original size:10 final size:9
Alignment explanation
Indices: 83813166--83813379 Score: 60
Period size: 9 Copynumber: 22.3 Consensus size: 9
83813156 AAAAATAAAA
*
83813166 ATAAAAATCA
1 ATAAAAAT-T
*
83813176 ATAAAAGTT
1 ATAAAAATT
83813185 ATAAAAATT
1 ATAAAAATT
*
83813194 AT-TAAATT
1 ATAAAAATT
*
83813202 TTAAAATATAT
1 ATAAAA-AT-T
*
83813213 AAAAAACATT
1 ATAAAA-ATT
*
83813223 -TAAAATTT
1 ATAAAAATT
83813231 ATTAAAAATT
1 A-TAAAAATT
* *
83813241 AGAAAAAAGT
1 A-TAAAAATT
*
83813251 ATAAAAATC
1 ATAAAAATT
*
83813260 ATAAAAA-A
1 ATAAAAATT
83813268 ATCATAAAATAT
1 AT-A-AAAAT-T
*
83813280 ATAGAAATAT
1 ATAAAAAT-T
*
83813290 AGAAAAAATT
1 A-TAAAAATT
83813300 AT-AAAATT
1 ATAAAAATT
* *
83813308 TTATAAAGTCGT
1 ATA-AAAAT--T
83813320 A-AGAAAATT
1 ATA-AAAATT
* *
83813329 ACAAAAAAT
1 ATAAAAATT
*
83813338 ATAAAGAAAT
1 ATAAA-AATT
*
83813348 ATAAAATTT
1 ATAAAAATT
83813357 ATAAAAAAATT
1 AT--AAAAATT
*
83813368 ATAAAGATT
1 ATAAAAATT
83813377 ATA
1 ATA
83813380 GTACCAAAAG
Statistics
Matches: 151, Mismatches: 35, Indels: 37
0.68 0.16 0.17
Matches are distributed among these distances:
8 17 0.11
9 53 0.35
10 52 0.34
11 26 0.17
12 3 0.02
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (9 bp):
ATAAAAATT
Found at i:83813264 original size:49 final size:49
Alignment explanation
Indices: 83813203--83813306 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 49
83813193 TATTAAATTT
* *
83813203 TAAAATATATAAAAAACAT-TTAAAATTTATTAAAAAT-TAGAAAAAAGTA
1 TAAAATATATAAAAAA-ATCATAAAATATA-TAAAAATATAGAAAAAAGTA
* *
83813252 TAAAA-ATCATAAAAAAATCATAAAATATATAGAAATATAGAAAAAATTA
1 TAAAATAT-ATAAAAAAATCATAAAATATATAAAAATATAGAAAAAAGTA
83813301 TAAAAT
1 TAAAAT
83813307 TTTATAAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
48 10 0.21
49 37 0.79
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (49 bp):
TAAAATATATAAAAAAATCATAAAATATATAAAAATATAGAAAAAAGTA
Found at i:83813276 original size:29 final size:29
Alignment explanation
Indices: 83813250--83813306 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
83813240 TAGAAAAAAG
83813250 TATAAAAATCATA-AAAAAATCATAAAATA
1 TATAAAAAT-ATAGAAAAAATCATAAAATA
* *
83813279 TATAGAAATATAGAAAAAATTATAAAAT
1 TATAAAAATATAGAAAAAATCATAAAAT
83813307 TTTATAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (29 bp):
TATAAAAATATAGAAAAAATCATAAAATA
Done.