Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 33 of 425
Found at i:8433284 original size:25 final size:26
Alignment explanation
Indices: 8433234--8433301 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
8433224 TCATTAATTG
*
8433234 GGAAGCTCATGAAAGAG-CATTTTATCA
1 GGAAGCTCATG-AAGAGCCA-TATATCA
*
8433261 GGAAGCTC-TGAAGAGCCATATATCG
1 GGAAGCTCATGAAGAGCCATATATCA
*
8433286 GGACGCTCAT-AAGAGC
1 GGAAGCTCATGAAGAGC
8433302 TGCAGTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 23 0.64
26 5 0.14
27 8 0.22
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (26 bp):
GGAAGCTCATGAAGAGCCATATATCA
Found at i:8433572 original size:20 final size:20
Alignment explanation
Indices: 8433547--8433586 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
8433537 GCCATTTACA
8433547 CAATTC-ACATATACAATATT
1 CAATTCAACATATA-AATATT
8433567 CAATTCAAACATATAAATAT
1 CAATTC-AACATATAAATAT
8433587 ACAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (20 bp):
CAATTCAACATATAAATATT
Found at i:8435002 original size:2 final size:2
Alignment explanation
Indices: 8434997--8435029 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8434987 TTCTTTATCA
8434997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8435030 ATAGCATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8435725 original size:13 final size:12
Alignment explanation
Indices: 8435658--8435728 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
8435648 TTCTTGATGC
8435658 TTAATTACAAAT-
1 TTAATTA-AAATA
8435670 TT-ATTAAAATCA
1 TTAATTAAAAT-A
8435682 TTAATTAAAA-A
1 TTAATTAAAATA
8435693 -TAA--AAAATA
1 TTAATTAAAATA
**
8435702 TTTTTTAAAATA
1 TTAATTAAAATA
8435714 TTAATTACAAATA
1 TTAATTA-AAATA
8435727 TT
1 TT
8435729 TAATAGTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
8 4 0.09
9 1 0.02
10 8 0.17
11 5 0.11
12 15 0.32
13 14 0.30
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (12 bp):
TTAATTAAAATA
Found at i:8436040 original size:13 final size:13
Alignment explanation
Indices: 8436020--8436082 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
8436010 TTAAATCAAT
8436020 CTTTTCAAAAGCA
1 CTTTTCAAAAGCA
* **
8436033 CTTCTCAAACTCA
1 CTTTTCAAAAGCA
* *
8436046 CTTTTCCACAGCA
1 CTTTTCAAAAGCA
*
8436059 CTTTTCAAAATCA
1 CTTTTCAAAAGCA
*
8436072 CTTTTTAAAAG
1 CTTTTCAAAAG
8436083 TATTGCCAAA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (13 bp):
CTTTTCAAAAGCA
Found at i:8436058 original size:26 final size:26
Alignment explanation
Indices: 8436020--8436082 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
8436010 TTAAATCAAT
*
8436020 CTTTTCAAAAGCACTTCTCAAACTCA
1 CTTTTCAAAAGCACTTCTCAAAATCA
* * *
8436046 CTTTTCCACAGCACTTTTCAAAATCA
1 CTTTTCAAAAGCACTTCTCAAAATCA
*
8436072 CTTTTTAAAAG
1 CTTTTCAAAAG
8436083 TATTGCCAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (26 bp):
CTTTTCAAAAGCACTTCTCAAAATCA
Found at i:8438069 original size:5 final size:5
Alignment explanation
Indices: 8438061--8438090 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8438051 AAGAAAATAC
8438061 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
8438091 TTAATACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:8438380 original size:2 final size:2
Alignment explanation
Indices: 8438373--8438403 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8438363 CAGCTAAAAT
8438373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8438404 TTGCATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8439057 original size:18 final size:17
Alignment explanation
Indices: 8439034--8439067 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
8439024 GTTCTAAATT
8439034 ACATAATATATAAATATA
1 ACATAATATA-AAATATA
8439052 ACATAATATAAAATAT
1 ACATAATATAAAATAT
8439068 TAAAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ACATAATATAAAATATA
Found at i:8441967 original size:6 final size:6
Alignment explanation
Indices: 8441956--8441981 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8441946 TTTTATTGTA
8441956 GGGAAT GGGAAT GGGAAT GGGAAT GG
1 GGGAAT GGGAAT GGGAAT GGGAAT GG
8441982 AGGTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.15
Consensus pattern (6 bp):
GGGAAT
Found at i:8448103 original size:43 final size:43
Alignment explanation
Indices: 8448022--8448113 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
8448012 GTAATATGGT
* *
8448022 TTCCACTGATACCCTATTACGGGAAACAGTTGAATACCATGAA
1 TTCCACTGATACCCTATTACAGGAAACAATTGAATACCATGAA
* *
8448065 TTCCACTGATACCCTATTA-AGTACAACAATTGATTACCATGAA
1 TTCCACTGATACCCTATTACAGGA-AACAATTGAATACCATGAA
*
8448108 CTCCAC
1 TTCCAC
8448114 AACTCATTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (43 bp):
TTCCACTGATACCCTATTACAGGAAACAATTGAATACCATGAA
Found at i:8449263 original size:6 final size:6
Alignment explanation
Indices: 8449252--8449278 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8449242 ATCTATTATA
8449252 TTAGTT TTAGTT TTAGTT TTAGTT TTA
1 TTAGTT TTAGTT TTAGTT TTAGTT TTA
8449279 CTTAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
TTAGTT
Found at i:8449271 original size:45 final size:46
Alignment explanation
Indices: 8449192--8449287 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 46
8449182 TAGGAGTTTT
*
8449192 ATTTATTTATTATATCAGGTTTTAGTAAGAGTTTTAGTTTTACTTA
1 ATTTATCTATTATATCAGGTTTTAGTAAGAGTTTTAGTTTTACTTA
* ***
8449238 ATTTATCTATTATATTA-GTTTTAGTTTTAGTTTTAGTTTTACTTA
1 ATTTATCTATTATATCAGGTTTTAGTAAGAGTTTTAGTTTTACTTA
8449283 ATTTA
1 ATTTA
8449288 ATTGCAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 30 0.67
46 15 0.33
ACGTcount: A:0.27, C:0.04, G:0.10, T:0.58
Consensus pattern (46 bp):
ATTTATCTATTATATCAGGTTTTAGTAAGAGTTTTAGTTTTACTTA
Found at i:8455157 original size:14 final size:13
Alignment explanation
Indices: 8455140--8455169 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
8455130 ATGAAGACTT
8455140 AATAAATAATAGAA
1 AATAAATAATA-AA
8455154 AATAAATAATAAA
1 AATAAATAATAAA
8455167 AAT
1 AAT
8455170 TTGAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:8455460 original size:27 final size:27
Alignment explanation
Indices: 8455418--8455546 Score: 95
Period size: 27 Copynumber: 4.6 Consensus size: 27
8455408 TATTATTAAG
*
8455418 TAAAACAAAAGGGAAGAAATAAATAATT
1 TAAAA-AAAAGAGAAGAAATAAATAATT
8455446 TAAAAAAAAGAGAAGAAATAAATAATT
1 TAAAAAAAAGAGAAGAAATAAATAATT
* * *
8455473 TGAGAAAAAATTAGA-AAGAGATATTATTAA-G
1 T-A-AAAAAA--AGAGAAGA-A-ATAAATAATT
*
8455504 CAAAACAAAAG-GAAAGAAATAAATAATT
1 TAAAA-AAAAGAG-AAGAAATAAATAATT
*
8455532 T-TAAAAAAGAGAAGA
1 TAAAAAAAAGAGAAGA
8455547 TATTACAAGA
Statistics
Matches: 80, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
26 9 0.11
27 31 0.39
28 9 0.11
29 13 0.16
30 8 0.10
31 4 0.05
32 6 0.08
ACGTcount: A:0.64, C:0.02, G:0.15, T:0.19
Consensus pattern (27 bp):
TAAAAAAAAGAGAAGAAATAAATAATT
Found at i:8455479 original size:86 final size:85
Alignment explanation
Indices: 8455388--8455546 Score: 273
Period size: 86 Copynumber: 1.9 Consensus size: 85
8455378 TAGTGGGACC
* * *
8455388 GAGAAAAAATTAGAAAGGGATATTATTAAGTAAAACAAAAGGGAAGAAATAAATAATTTAAAAAA
1 GAGAAAAAATTAGAAAGAGATATTATTAAGCAAAACAAAAGGAAAGAAATAAATAATTT-AAAAA
8455453 AAGAGAAGAAATAAATAATTT
65 AAGAGAAGAAATAAATAATTT
*
8455474 GAGAAAAAATTAGAAAGAGATATTATTAAGCAAAACAAAAGGAAAGAAATAAATAATTTTAAAAA
1 GAGAAAAAATTAGAAAGAGATATTATTAAGCAAAACAAAAGGAAAGAAATAAATAATTTAAAAAA
8455539 AGAGAAGA
66 AGAGAAGA
8455547 TATTACAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
85 13 0.19
86 56 0.81
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.19
Consensus pattern (85 bp):
GAGAAAAAATTAGAAAGAGATATTATTAAGCAAAACAAAAGGAAAGAAATAAATAATTTAAAAAA
AGAGAAGAAATAAATAATTT
Found at i:8456618 original size:19 final size:18
Alignment explanation
Indices: 8456536--8456658 Score: 65
Period size: 17 Copynumber: 6.3 Consensus size: 18
8456526 CAAACTTATT
*
8456536 ATTTTTAATTTTTTTTAA
1 ATTTTTAATTTTTTATAA
*
8456554 A-TTTTAACTTTCTTTATAT
1 ATTTTTAA-TTT-TTTATAA
8456573 ATTCTTTAGATTTTTTTAAAATATAA
1 ATT-TTTA-A--TTTTT----TATAA
8456599 ATTTTATAATTTTTTATAA
1 ATTTT-TAATTTTTTATAA
8456618 ATATTTTGAA-TTTTTA-AA
1 AT-TTTT-AATTTTTTATAA
* *
8456636 ATTATTAATTTTTT-TTA
1 ATTTTTAATTTTTTATAA
8456653 ATTTTT
1 ATTTTT
8456659 GTTGAGTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 31
0.69 0.06 0.26
Matches are distributed among these distances:
16 2 0.02
17 20 0.24
18 8 0.10
19 20 0.24
20 6 0.07
21 4 0.05
22 3 0.04
23 8 0.10
25 3 0.04
26 9 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAATTTTTTATAA
Found at i:8456631 original size:20 final size:19
Alignment explanation
Indices: 8456594--8456649 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
8456584 TTTTTTAAAA
8456594 TATAAATTTTATAATTTTT
1 TATAAATTTTATAATTTTT
8456613 TATAAATATTT-TGAA-TTTT
1 TATAAAT-TTTAT-AATTTTT
*
8456632 TA-AAATTAT-TAATTTTT
1 TATAAATTTTATAATTTTT
8456649 T
1 T
8456650 TTAATTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 2 0.06
17 8 0.24
18 4 0.12
19 14 0.42
20 5 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATAAATTTTATAATTTTT
Found at i:8457482 original size:24 final size:24
Alignment explanation
Indices: 8457447--8457506 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
8457437 TCTTCTAGTT
* *
8457447 AAACTCTGATTATTTGTCTCATTC
1 AAACTCTGATTATTTGTCCCAGTC
*
8457471 AAACTCTAATTATTTGTCCCAGTC
1 AAACTCTGATTATTTGTCCCAGTC
*
8457495 GAACTCTGATTA
1 AAACTCTGATTA
8457507 GGGTAGATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (24 bp):
AAACTCTGATTATTTGTCCCAGTC
Found at i:8459914 original size:14 final size:13
Alignment explanation
Indices: 8459894--8459925 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
8459884 AATATTTAAC
8459894 TTGTTCTTAATTA
1 TTGTTCTTAATTA
8459907 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
8459921 TTGTT
1 TTGTT
8459926 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:8471361 original size:45 final size:45
Alignment explanation
Indices: 8471296--8471383 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
8471286 CTATGTGATT
* *
8471296 TGAACTCATTGAGTTGTGGTCTAAGTCCATGATATATATGGCATC
1 TGAACTCATTAAGTTATGGTCTAAGTCCATGATATATATGGCATC
* * *
8471341 TGAACTCATTAAGTTATGGTCTCAGTTCATGATGTATATGGCA
1 TGAACTCATTAAGTTATGGTCTAAGTCCATGATATATATGGCA
8471384 CATGTTTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (45 bp):
TGAACTCATTAAGTTATGGTCTAAGTCCATGATATATATGGCATC
Found at i:8482190 original size:15 final size:16
Alignment explanation
Indices: 8482160--8482192 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8482150 TTTATTAATT
8482160 AATTAAATAGAAAACA
1 AATTAAATAGAAAACA
*
8482176 AATTAAA-ATAAAACA
1 AATTAAATAGAAAACA
8482191 AA
1 AA
8482193 AGGATATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (16 bp):
AATTAAATAGAAAACA
Found at i:8489027 original size:45 final size:48
Alignment explanation
Indices: 8488918--8489176 Score: 171
Period size: 46 Copynumber: 5.5 Consensus size: 48
8488908 AGGCTGACGC
*
8488918 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCCATGCCGATGT
1 CATGTCCCAGACATGGTCTTACACTGG--CACACATCTCCATGCCGATGT
*
8488968 CATGTCCCAGACATGGTTTTACACT-G-ACACATCT-CATAGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCACACATCTCCAT-GCCGATGT
* ** * * * *
8489013 CATGTCCCAGACAT-GTCTTACATTGGCTTACATTTCGAGGCTGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCACACATCTCCATGCCGATGT
* * * * * * ** * *
8489059 CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAATATCAATGC
1 CATGTCCCAGACATGGTCTTACACTGGCACACATCTCCATGCCGATGT
* * * * * *
8489106 CATGTCCTAGGCATGGTCTTACACTGGCTCTCATAAT--GTGGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGGCACACAT-CTCCAT-GCCGATGT
8489153 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
8489177 AGTACACAAA
Statistics
Matches: 166, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
44 8 0.05
45 18 0.11
46 68 0.41
47 25 0.15
48 21 0.13
49 2 0.01
50 24 0.14
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCACACATCTCCATGCCGATGT
Found at i:8492039 original size:207 final size:207
Alignment explanation
Indices: 8491684--8492309 Score: 1216
Period size: 207 Copynumber: 3.0 Consensus size: 207
8491674 TAGGTAGGTT
* *
8491684 TTGCTAAAAATAGCATTTGAAATTCCTTCTTTTTCTACCACACATGGCCAGCTACATTGCAACGA
1 TTGCTAAAAATAGCATTTGAAATTCCTTCTTTTTCTACCACACATAGCCAGCCACATTGCAACGA
8491749 GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
66 GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
8491814 CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTG
131 CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTG
8491879 AATACCCAAAGC
196 AATACCCAAAGC
8491891 TTGCTAAAAATAGCATTTGAAATTCCTTCTTTTTCTACCACACATAGCCAGCCACATTGCAACGA
1 TTGCTAAAAATAGCATTTGAAATTCCTTCTTTTTCTACCACACATAGCCAGCCACATTGCAACGA
8491956 GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
66 GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
8492021 CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTG
131 CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTG
8492086 AATACCCAAAGC
196 AATACCCAAAGC
*
8492098 TTGCTAAAAATAGAATTTGAAATTCCTTCTTTTTCTACCACACATAGCCAGCCACATTGCAACGA
1 TTGCTAAAAATAGCATTTGAAATTCCTTCTTTTTCTACCACACATAGCCAGCCACATTGCAACGA
8492163 GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
66 GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
*
8492228 CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTA
131 CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTG
8492293 AATACCCAAAGC
196 AATACCCAAAGC
8492305 TTGCT
1 TTGCT
8492310 TTTGAGCAGC
Statistics
Matches: 415, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 415 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (207 bp):
TTGCTAAAAATAGCATTTGAAATTCCTTCTTTTTCTACCACACATAGCCAGCCACATTGCAACGA
GAAGGGGATGACTTAGTCTCTTCATTTTGAATTCAAACAAAGGCTATTAATAGCCATAGGGTGGA
CGACTTTAAAAAGAAGTTTTTGGGCTGATTTCTGATTATTTTTCAATTGCAAGGACCTTCAATTG
AATACCCAAAGC
Found at i:8495440 original size:17 final size:17
Alignment explanation
Indices: 8495418--8495458 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
8495408 AAGCAATGAA
*
8495418 TTTGCGGCAGCGATTGG
1 TTTGCGGCAGCGATAGG
*
8495435 TTTGCGGCAGTGATAGG
1 TTTGCGGCAGCGATAGG
8495452 TTTGCGG
1 TTTGCGG
8495459 TGATGATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.15, G:0.41, T:0.32
Consensus pattern (17 bp):
TTTGCGGCAGCGATAGG
Found at i:8501014 original size:96 final size:95
Alignment explanation
Indices: 8500839--8501029 Score: 337
Period size: 96 Copynumber: 2.0 Consensus size: 95
8500829 GTTGCTTGTG
* * *
8500839 ATCCTCTTAATGATCTTGTAAGCCTCGTTATAAGACTTAGAAAAATCTCACCATTCGCAGAAGCA
1 ATCCTCTTAATGATCTTGTAAGCCCCGCTATAAGACTTAGAAAAATCTCACCATTCACAGAAGCA
8500904 TCAACCATTAATCTTGAGTACACATTGAGA
66 TCAACCATTAATCTTGAGTACACATTGAGA
*
8500934 ATCCTCTTAATGATCTTGTAAGCCCCGCTATAAGACTTAGACAAAATCTCACCATTCATAGAAGC
1 ATCCTCTTAATGATCTTGTAAGCCCCGCTATAAGACTTAGA-AAAATCTCACCATTCACAGAAGC
8500999 ATCAACCATTAATCTTGAGTACACATTGAGA
65 ATCAACCATTAATCTTGAGTACACATTGAGA
8501030 CCATTATAAA
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 39 0.43
96 52 0.57
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (95 bp):
ATCCTCTTAATGATCTTGTAAGCCCCGCTATAAGACTTAGAAAAATCTCACCATTCACAGAAGCA
TCAACCATTAATCTTGAGTACACATTGAGA
Found at i:8505023 original size:46 final size:44
Alignment explanation
Indices: 8504918--8505025 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
8504908 TGTCTTTGAC
** * * *
8504918 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
8504962 ATGGAATTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
8505008 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8505026 TTTCTGTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 32 0.59
46 22 0.41
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:8506407 original size:48 final size:48
Alignment explanation
Indices: 8506277--8506407 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 48
8506267 ACCTCATATC
* * * ** *
8506277 GATGCCATGTCCCAGACATGATCTTATACGAAATCACTTACTGATGCT
1 GATGCCATGTCCCAGAAATGGTCTTACACGGGATCACGTACTGATGCT
* * * * * *
8506325 GAAGCCATATCCCTGATATGGTCTTACACAGGATCACGTA-TCGATGTT
1 GATGCCATGTCCCAGAAATGGTCTTACACGGGATCACGTACT-GATGCT
*
8506373 GATGCCATGTCCCAGAAATGGTCTTACATGGGATC
1 GATGCCATGTCCCAGAAATGGTCTTACACGGGATC
8506408 TCGTTAATCA
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
47 1 0.02
48 64 0.98
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGAAATGGTCTTACACGGGATCACGTACTGATGCT
Found at i:8507947 original size:27 final size:26
Alignment explanation
Indices: 8507910--8508024 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
8507900 AGCATGGCTG
* * *
8507910 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
8507936 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
8507964 CCAGAACAGATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
8507991 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
8508018 CCAGAAC
1 CCAGAAC
8508025 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.73
28 16 0.21
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:8507974 original size:54 final size:54
Alignment explanation
Indices: 8507910--8508024 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
8507900 AGCATGGCTG
* *
8507910 CCAGAACAGATA-ATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATATGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
8507964 CCAGAACAGATATATATGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATATGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
8508018 CCAGAAC
1 CCAGAAC
8508025 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATATGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:8508189 original size:28 final size:26
Alignment explanation
Indices: 8508127--8508200 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
8508117 AAATTAACCC
** * *
8508127 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
8508153 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
8508181 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
8508201 AACTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:8508728 original size:26 final size:26
Alignment explanation
Indices: 8508692--8508800 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
8508682 CATGAAATTC
8508692 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
8508718 TTATCATGAAACATTTACCTAACCC-
1 TTATCATGAAACATTTACCTAACCCA
* *
8508743 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
8508769 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
8508795 TTATCA
1 TTATCA
8508801 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 23 0.29
26 54 0.68
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8508772 original size:51 final size:51
Alignment explanation
Indices: 8508691--8508792 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 51
8508681 ACATGAAATT
8508691 CTTATCATGAAACATTTACCTAACCCATTATCA-TGAAACATTTACCTAACC
1 CTTATCATGAAACATTTACCTAACCCATTATCATTG-AACATTTACCTAACC
* *
8508742 CTTATCATGGAACATTTACCTAACCTATTATCATTGAACATTTACCTAACC
1 CTTATCATGAAACATTTACCTAACCCATTATCATTGAACATTTACCTAACC
8508793 TATTATCAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (51 bp):
CTTATCATGAAACATTTACCTAACCCATTATCATTGAACATTTACCTAACC
Found at i:8511075 original size:29 final size:28
Alignment explanation
Indices: 8511043--8511145 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
8511033 GGGACGAGAT
* *
8511043 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
8511072 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
8511101 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
8511130 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
8511146 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:8519084 original size:29 final size:28
Alignment explanation
Indices: 8519052--8519154 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
8519042 GGGACGAGAT
* *
8519052 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
8519081 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
8519110 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
8519139 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
8519155 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:8521823 original size:18 final size:18
Alignment explanation
Indices: 8521800--8521841 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
8521790 CACAGGCGCC
8521800 ATTCCAGGCAACAAGTCT
1 ATTCCAGGCAACAAGTCT
8521818 ATTCCAGGCAACAAGTCT
1 ATTCCAGGCAACAAGTCT
8521836 ATTCCA
1 ATTCCA
8521842 AACTCAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (18 bp):
ATTCCAGGCAACAAGTCT
Found at i:8524459 original size:40 final size:39
Alignment explanation
Indices: 8524414--8524543 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
8524404 CGGAATATAA
8524414 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
8524454 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
8524494 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
8524534 CCGGATATAA
1 CCGGATATAA
8524544 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:8524558 original size:40 final size:40
Alignment explanation
Indices: 8524430--8524581 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
8524420 ATAACCATGT
* * *
8524430 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
8524470 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
8524510 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
8524550 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
8524582 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:8524564 original size:80 final size:80
Alignment explanation
Indices: 8524430--8524579 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
8524420 ATAACCATGT
*
8524430 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
8524494 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
8524510 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
8524573 CCCGGAT
64 CCCGGAT
8524580 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:8527221 original size:27 final size:26
Alignment explanation
Indices: 8527181--8527295 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
8527171 AGCATGGCTG
* * *
8527181 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
8527207 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
8527235 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
8527262 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
8527289 CCAGAAC
1 CCAGAAC
8527296 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:8527240 original size:54 final size:54
Alignment explanation
Indices: 8527181--8527295 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
8527171 AGCATGGCTG
*
8527181 CCAGAACAAATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAAATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
8527235 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAAATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
8527289 CCAGAAC
1 CCAGAAC
8527296 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAAATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:8527984 original size:26 final size:26
Alignment explanation
Indices: 8527948--8528057 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
8527938 CATGAAATTC
8527948 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8527974 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
8528000 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
8528026 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
8528052 TTATCA
1 TTATCA
8528058 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8532310 original size:12 final size:12
Alignment explanation
Indices: 8532293--8532320 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8532283 TGTGAAAAAT
8532293 AAAATAAAATAA
1 AAAATAAAATAA
8532305 AAAATAAAATAA
1 AAAATAAAATAA
8532317 AAAA
1 AAAA
8532321 CACACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:8534732 original size:14 final size:13
Alignment explanation
Indices: 8534708--8534737 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
8534698 GGTTGTTTAT
8534708 TAAACTAATTAAC
1 TAAACTAATTAAC
8534721 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
8534735 TAA
1 TAA
8534738 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:8535801 original size:10 final size:11
Alignment explanation
Indices: 8535773--8535800 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
8535763 CCGTTTTGTC
8535773 CCTTTTTGGCT
1 CCTTTTTGGCT
8535784 CCTTTTTGGCT
1 CCTTTTTGGCT
8535795 CCTTTT
1 CCTTTT
8535801 GACTCTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.29, G:0.14, T:0.57
Consensus pattern (11 bp):
CCTTTTTGGCT
Found at i:8542478 original size:21 final size:19
Alignment explanation
Indices: 8542427--8542479 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
8542417 ATCTGCCAAG
*
8542427 AGAAAAAAAAGATTAAATTA
1 AGAAAAATAA-ATTAAATTA
* *
8542447 ATAAAATTAAATTAAATTGCA
1 AGAAAAATAAATTAAATT--A
8542468 AGAAAAATAAAT
1 AGAAAAATAAAT
8542480 GGCTAAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 11 0.42
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.25
Consensus pattern (19 bp):
AGAAAAATAAATTAAATTA
Found at i:8552473 original size:20 final size:20
Alignment explanation
Indices: 8552433--8552474 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8552423 TAAACTATAT
* **
8552433 TTTTTAATTATTTTTGTAAA
1 TTTTTAATGATTTTTCAAAA
8552453 TTTTTAATGATTTTTCAAAA
1 TTTTTAATGATTTTTCAAAA
8552473 TT
1 TT
8552475 AGAACAAGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTTTAATGATTTTTCAAAA
Found at i:8562598 original size:47 final size:48
Alignment explanation
Indices: 8562524--8562642 Score: 156
Period size: 47 Copynumber: 2.5 Consensus size: 48
8562514 TAAGTTGCCG
* *
8562524 ATGCTATGTCCCAGACATGGTCTTACACTGACTCAT-ATCTC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGAAGCCA
* *
8562571 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGCCA
*
8562619 ATG-CATGTACCAGACAT-GTCTTAC
1 ATGCCATGTCCCAGACATGGTCTTAC
8562643 GCTGGCTTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
46 9 0.14
47 50 0.77
48 6 0.09
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGAAGCCA
Found at i:8562784 original size:47 final size:47
Alignment explanation
Indices: 8562663--8562791 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 47
8562653 GTCTCGAGGA
* * * *
8562663 CGATGCATATCCCATACAT-GTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCATGTCCCATACATGGTTTTACACTAGCTCTCATATCAATGT
* * * **
8562709 CGATGCCATGTCCTATTCATGGTTTTACACTGGCTCTCATAAT-GTTGT
1 CGATG-CATGTCCCATACATGGTTTTACACTAGCTCTCAT-ATCAATGT
8562757 CGATGCATGTCCCATACATGGTTTTACACTAGCTC
1 CGATGCATGTCCCATACATGGTTTTACACTAGCTC
8562792 ACACACAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 5 0.07
47 38 0.56
48 24 0.35
49 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (47 bp):
CGATGCATGTCCCATACATGGTTTTACACTAGCTCTCATATCAATGT
Found at i:8563167 original size:30 final size:30
Alignment explanation
Indices: 8563132--8563189 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
8563122 AATTTTACAT
* *
8563132 CTTTGGTAAAATGACCATTTTGTCCCTAGA
1 CTTTGGCAAAATGACCATTTTATCCCTAGA
8563162 CTTTGGCAAAATGACCATTTTATCCCTA
1 CTTTGGCAAAATGACCATTTTATCCCTA
8563190 TGCAGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTATCCCTAGA
Found at i:8564945 original size:13 final size:13
Alignment explanation
Indices: 8564927--8564963 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
8564917 CTCGGCAGGG
8564927 ACACGCCCGTGGC
1 ACACGCCCGTGGC
8564940 ACACGCCCGTGGC
1 ACACGCCCGTGGC
*
8564953 ACACACCCGTG
1 ACACGCCCGTG
8564964 TTCGATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.19, C:0.46, G:0.27, T:0.08
Consensus pattern (13 bp):
ACACGCCCGTGGC
Found at i:8566436 original size:59 final size:59
Alignment explanation
Indices: 8566361--8566478 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
8566351 TCAATGCATA
8566361 AATGCCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATCAATTAAAATTTAT
1 AATGCCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATCAATTAAAATTTAT
8566420 AATGCCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATCAATTAAAATTTAT
1 AATGCCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATCAATTAAAATTTAT
8566479 CCTAAATATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (59 bp):
AATGCCTATGTTTTAATTCAAGATATATCAATCAAAATCATAAATCAATTAAAATTTAT
Found at i:8570403 original size:40 final size:40
Alignment explanation
Indices: 8570337--8570480 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
8570327 AAATTGAATG
* * *
8570337 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
8570376 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
8570416 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
8570456 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
8570481 TTCGTGCACG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.19
40 69 0.81
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:8570501 original size:40 final size:40
Alignment explanation
Indices: 8570374--8570503 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
8570364 ATGCTGGAAA
* *
8570374 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
8570414 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
8570454 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
8570494 TTATATCCGG
1 TTATATCCGG
8570504 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:8578478 original size:40 final size:40
Alignment explanation
Indices: 8578351--8578480 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
8578341 ATGCTGGAAA
* *
8578351 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
8578391 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
8578431 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
8578471 TTATATCCGG
1 TTATATCCGG
8578481 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:8591696 original size:47 final size:47
Alignment explanation
Indices: 8591625--8591891 Score: 278
Period size: 47 Copynumber: 5.7 Consensus size: 47
8591615 TGGGTAAGGT
* *
8591625 GCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
* * *
8591672 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACT-ATCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-AA
* * *
8591720 GCCGATGCATGTCCCAGAAAT-GTCTTACACTAGCTC-TCGTCCCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
* * * * *
8591765 TGTCGATGCCATGTCCAAGATATGGTCTTACACTAACT-ATCATCTCGTA
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-AA
* *
8591814 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGCTC-CCGTCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
*
8591859 TGCCGATGCATGTCCTAGACATGGTCTTACACT
1 -GCCGATGCATGTCCCAGACATGGTCTTACACT
8591892 GGATCTCATA
Statistics
Matches: 182, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 64 0.35
47 84 0.46
48 31 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCAA
Found at i:8591798 original size:94 final size:94
Alignment explanation
Indices: 8591625--8591891 Score: 396
Period size: 94 Copynumber: 2.8 Consensus size: 94
8591615 TGGGTAAGGT
* * * *
8591625 GCCGATGTCATATCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAA-GTCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATGTCGATGCCATGTCCA
8591688 AGACATGGTCTTACACTAACTATCATCTCGTA
63 AGACATGGTCTTACACTAACTATCATCTCGTA
* *
8591720 GCCGATGCATGTCCCAGAAATGTCTTACACTAGCTCTCGTCCCAATGTCGATGCCATGTCCAAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCAAGA
*
8591785 TATGGTCTTACACTAACTATCATCTCGTA
66 CATGGTCTTACACTAACTATCATCTCGTA
* * *
8591814 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCCCGTCTCAATGCCGATG-CATGTCCTAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCAAGA
8591878 CATGGTCTTACACT
66 CATGGTCTTACACT
8591892 GGATCTCATA
Statistics
Matches: 157, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
92 1 0.01
93 42 0.27
94 107 0.68
95 7 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (94 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCAAGA
CATGGTCTTACACTAACTATCATCTCGTA
Found at i:8593876 original size:41 final size:38
Alignment explanation
Indices: 8593829--8593933 Score: 102
Period size: 39 Copynumber: 2.6 Consensus size: 38
8593819 AAACAGGTTT
**
8593829 TTAGCGGCGTTTGAATGAAAAACGCTGCTAAAGAACGAGTA
1 TTAGCGGCGTTT---TGAAAAACGCCACTAAAGAACGAGTA
* *
8593870 TTAGCGGCGGTTTTTAAAAACGCCACTAAAGATCGAGTA
1 TTAGCGGC-GTTTTGAAAAACGCCACTAAAGAACGAGTA
* *
8593909 TTAGTGGCGCTTTTTTAAAAACGCC
1 TTAGCGGCG--TTTTGAAAAACGCC
8593934 GCTATATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
38 1 0.02
39 29 0.52
40 14 0.25
41 8 0.14
42 4 0.07
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (38 bp):
TTAGCGGCGTTTTGAAAAACGCCACTAAAGAACGAGTA
Found at i:8593899 original size:39 final size:40
Alignment explanation
Indices: 8593846--8593933 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 40
8593836 CGTTTGAATG
**
8593846 AAAAACGCTGCTAAAGAACGAGTATTAGCGGCG-GTTTTT
1 AAAAACGCCACTAAAGAACGAGTATTAGCGGCGCGTTTTT
* * *
8593885 AAAAACGCCACTAAAGATCGAGTATTAGTGGCGCTTTTTT
1 AAAAACGCCACTAAAGAACGAGTATTAGCGGCGCGTTTTT
8593925 AAAAACGCC
1 AAAAACGCC
8593934 GCTATATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 29 0.67
40 14 0.33
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGTATTAGCGGCGCGTTTTT
Found at i:8594164 original size:155 final size:155
Alignment explanation
Indices: 8593994--8594301 Score: 546
Period size: 155 Copynumber: 2.0 Consensus size: 155
8593984 TGATCGCTGC
*
8593994 AAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCTTTAGTGGCTTTAACGGCGCTTTTTAA
1 AAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCTTTAGTGGCTTTAACAGCGCTTTTTAA
*
8594059 AAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACGCCACTATATGTACACCTTTA
66 AAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACACCACTATATGTACACCTTTA
* *
8594124 GC-AGTGCTTTTTAGAAAATGCCGCA
131 GCGA-CGCTTTTTAGAAAACGCCGCA
*
8594149 AAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCTTTAGTGGCTTTAGCAGCGCTTTTTAA
1 AAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCTTTAGTGGCTTTAACAGCGCTTTTTAA
*
8594214 AAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACACCGCTATATGTACACCTTTA
66 AAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACACCACTATATGTACACCTTTA
8594279 GCGACGCTTTTTAGAAAACGCCG
131 GCGACGCTTTTTAGAAAACGCCG
8594302 TCGTTTTGTA
Statistics
Matches: 146, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
155 145 0.99
156 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (155 bp):
AAAAAAATTAACACAACGCCGTCGTTTTGTATTGAGCCTTTAGTGGCTTTAACAGCGCTTTTTAA
AAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACACCACTATATGTACACCTTTA
GCGACGCTTTTTAGAAAACGCCGCA
Found at i:8594615 original size:22 final size:22
Alignment explanation
Indices: 8594590--8594634 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8594580 GAGTTACTAT
* *
8594590 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
8594612 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
8594634 T
1 T
8594635 GGTTTAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:8594633 original size:15 final size:15
Alignment explanation
Indices: 8594595--8594629 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8594585 ACTATTTTAA
*
8594595 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
8594610 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
8594624 GGTTTA
1 GGTTTA
8594630 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:8594659 original size:21 final size:21
Alignment explanation
Indices: 8594635--8594690 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
8594625 GTTTAAGGGT
8594635 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
8594656 GGTTT-AGGTGTTAGGGGTTAA
1 GGTTTAAGG-GTTAGGGGTTAA
*
8594677 GGGTTAAGGGTTAG
1 GGTTTAAGGGTTAG
8594691 AGGTCATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 3 0.10
21 21 0.68
22 7 0.23
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.36
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:8594742 original size:22 final size:22
Alignment explanation
Indices: 8594712--8594753 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8594702 CAAGGTTTAT
*
8594712 GTTTTAGGATTTATG-GTTTAGG
1 GTTTAAGGA-TTATGAGTTTAGG
8594734 GTTTAAGGATTATGAGTTTA
1 GTTTAAGGATTATGAGTTTA
8594754 AATTATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
GTTTAAGGATTATGAGTTTAGG
Found at i:8594892 original size:21 final size:21
Alignment explanation
Indices: 8594852--8594892 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8594842 AATAATTTAT
* *
8594852 TTTAGGGTTTAAGGTTTATGA
1 TTTAAGGTTTAAGGTCTATGA
*
8594873 TTTAAGGTTTAATGTCTATG
1 TTTAAGGTTTAAGGTCTATG
8594893 GCTTGGGGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTCTATGA
Found at i:8595220 original size:21 final size:20
Alignment explanation
Indices: 8595173--8595221 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
8595163 GTTTAGGGTG
8595173 TAGGTTTATGGTCTAAGATT
1 TAGGTTTATGGTCTAAGATT
8595193 TAGGGTTTATGGTCTAAGATT
1 TA-GGTTTATGGTCTAAGATT
8595214 TGAGGTTT
1 T-AGGTTT
8595222 GGGGTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.22, C:0.04, G:0.29, T:0.45
Consensus pattern (20 bp):
TAGGTTTATGGTCTAAGATT
Found at i:8595694 original size:15 final size:14
Alignment explanation
Indices: 8595669--8595711 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
8595659 AATCTTCAAA
8595669 AAAAATT-AAAATT
1 AAAAATTAAAAATT
8595682 CAAAAATTAAAAATT
1 -AAAAATTAAAAATT
8595697 AAAAACTTAAAAATT
1 AAAAA-TTAAAAATT
8595712 TAATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATTAAAAATT
Found at i:8595714 original size:8 final size:7
Alignment explanation
Indices: 8595669--8595711 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
8595659 AATCTTCAAA
8595669 AAAAATT
1 AAAAATT
8595676 -AAAATT
1 AAAAATT
8595682 CAAAAATT
1 -AAAAATT
8595690 AAAAATT
1 AAAAATT
8595697 AAAAACTT
1 AAAAA-TT
8595705 AAAAATT
1 AAAAATT
8595712 TAATATTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.18
7 14 0.42
8 13 0.39
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:8597088 original size:27 final size:27
Alignment explanation
Indices: 8597058--8597112 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8597048 AGACATGCAA
8597058 GTAAAAATGCAACTTTGGTTTTGGTAT
1 GTAAAAATGCAACTTTGGTTTTGGTAT
8597085 GTAAAAATGCAACTTTGGTTTTGGTAT
1 GTAAAAATGCAACTTTGGTTTTGGTAT
8597112 G
1 G
8597113 ATGGGCTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (27 bp):
GTAAAAATGCAACTTTGGTTTTGGTAT
Found at i:8599769 original size:15 final size:16
Alignment explanation
Indices: 8599749--8599787 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
8599739 GTTGAATGAG
8599749 CCATTTTTGGATGT-T
1 CCATTTTTGGATGTAT
8599764 CCATTTTTGGATGTAT
1 CCATTTTTGGATGTAT
8599780 -CATTTTTG
1 CCATTTTTG
8599788 TTCATCCGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 22 0.96
16 1 0.04
ACGTcount: A:0.15, C:0.13, G:0.18, T:0.54
Consensus pattern (16 bp):
CCATTTTTGGATGTAT
Found at i:8600796 original size:18 final size:19
Alignment explanation
Indices: 8600775--8600813 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8600765 TATTGATATC
8600775 TTTA-TATTTAATTTAATT
1 TTTATTATTTAATTTAATT
* *
8600793 TTTATTATTTATTTTAGTT
1 TTTATTATTTAATTTAATT
8600812 TT
1 TT
8600814 GATTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTATTATTTAATTTAATT
Found at i:8607003 original size:26 final size:25
Alignment explanation
Indices: 8606959--8607013 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 25
8606949 TCTCATCCCA
*
8606959 ATTTTACTTCAGTAAAATTTTGATG
1 ATTTTACTTCAGTAAAATTTTGACG
*
8606984 ATTTTACTCTCGGTAAAATTTTGACG
1 ATTTTACT-TCAGTAAAATTTTGACG
8607010 ATTT
1 ATTT
8607014 CACCCCCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (25 bp):
ATTTTACTTCAGTAAAATTTTGACG
Found at i:8621341 original size:25 final size:25
Alignment explanation
Indices: 8621310--8621367 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
8621300 GTTGTAAACT
* *
8621310 GTAAGCTCC-TCTGAGTTGAATAATG
1 GTAAGCTCCTTC-GAGCTGAATAACG
*
8621335 GTAAGCTCCTTCGAGCTGAGTAACG
1 GTAAGCTCCTTCGAGCTGAATAACG
8621360 GTAAGCTC
1 GTAAGCTC
8621368 ATGCAAGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (25 bp):
GTAAGCTCCTTCGAGCTGAATAACG
Found at i:8621376 original size:25 final size:25
Alignment explanation
Indices: 8621334--8621399 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
8621324 GTTGAATAAT
* * *
8621334 GGTAAGCTCCTTCGAGCTGAGTAAC
1 GGTAAGCTCATACAAGCTGAGTAAC
* *
8621359 GGTAAGCTCATGCAAGCTGAGTATC
1 GGTAAGCTCATACAAGCTGAGTAAC
*
8621384 GATAAGCTCATACAAG
1 GGTAAGCTCATACAAG
8621400 TTGAAATCGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (25 bp):
GGTAAGCTCATACAAGCTGAGTAAC
Found at i:8627861 original size:41 final size:41
Alignment explanation
Indices: 8627787--8627902 Score: 151
Period size: 41 Copynumber: 2.8 Consensus size: 41
8627777 CTATAGAGCC
* * *
8627787 ACATGCTCGTGTGAGATAGGGGACACGCCCGTGTGCTCTCA
1 ACATGCCCGTGTGAGATAAGGAACACGCCCGTGTGCTCTCA
* * * *
8627828 ACATGCCCGTGTGAAATATGGAACAAGCTCGTGTGCTCTCA
1 ACATGCCCGTGTGAGATAAGGAACACGCCCGTGTGCTCTCA
* *
8627869 ACACGACCGTGTGAGATAAGGAACACGCCCGTGT
1 ACATGCCCGTGTGAGATAAGGAACACGCCCGTGT
8627903 CTTTCGGCCG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.21
Consensus pattern (41 bp):
ACATGCCCGTGTGAGATAAGGAACACGCCCGTGTGCTCTCA
Found at i:8629428 original size:52 final size:52
Alignment explanation
Indices: 8629348--8629455 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
8629338 AAACCCAGTT
* ***
8629348 ACATGTATGGCATCCATTATGAACTCAGACCAACTCATTGAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACAAGCTCGGATGCC
*
8629400 ACATGTATCGCATCCATTATGAATTCAGACCAACTCAACAAGCTCGGATGCC
1 ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACAAGCTCGGATGCC
8629452 ACAT
1 ACAT
8629456 ACATATCACA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (52 bp):
ACATGTATCGCATCCATTATGAACTCAGACCAACTCAACAAGCTCGGATGCC
Found at i:8633423 original size:27 final size:28
Alignment explanation
Indices: 8633366--8633427 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
8633356 TTTAATATAT
**
8633366 TTTTAAAAAATTCTTATGATTTTTACAA
1 TTTTAAAAAATTCTTAACATTTTTACAA
* *
8633394 TTTTAATAAATT-TTAACATTTTTACTA
1 TTTTAAAAAATTCTTAACATTTTTACAA
8633421 TTTTAAA
1 TTTTAAA
8633428 TATCTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (28 bp):
TTTTAAAAAATTCTTAACATTTTTACAA
Found at i:8633560 original size:27 final size:26
Alignment explanation
Indices: 8633530--8633580 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
8633520 ATTTTTGCAT
* *
8633530 TTTTTTAATTTTTAAATATTCTTTTTC
1 TTTTATAATTTTTAAAGATT-TTTTTC
8633557 TTTTATAATTTTTAAAGATTTTTT
1 TTTTATAATTTTTAAAGATTTTTT
8633581 GATCAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTATAATTTTTAAAGATTTTTTTC
Found at i:8634207 original size:11 final size:11
Alignment explanation
Indices: 8634193--8634233 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
8634183 TGTTTTCTCC
8634193 CTATTTTGCTA
1 CTATTTTGCTA
*
8634204 CTATTTTACTA
1 CTATTTTGCTA
* *
8634215 TTATGTTGCTA
1 CTATTTTGCTA
8634226 CTATTTTG
1 CTATTTTG
8634234 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:8634737 original size:31 final size:31
Alignment explanation
Indices: 8634702--8634828 Score: 111
Period size: 31 Copynumber: 4.2 Consensus size: 31
8634692 TTGGCATCTG
* *
8634702 AACTTGACACGTTTTCCTAATTTGGTGCCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
**
8634733 AACTT-----TTTTTTTTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
* *
8634759 AACTTGTCATTTTTTTTTCCTAATTTGGTACCTA
1 AACTTGACA---CTTTTTCCTAATTTGGTACCTA
* * *
8634793 AACTTGACACTTTTTCTTAAGTTGGTACTTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
8634824 AACTT
1 AACTT
8634829 TTTTGGGGTC
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
26 22 0.29
31 28 0.36
34 27 0.35
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (31 bp):
AACTTGACACTTTTTCCTAATTTGGTACCTA
Found at i:8634771 original size:26 final size:26
Alignment explanation
Indices: 8634719--8634771 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
8634709 CACGTTTTCC
* * **
8634719 TAATTTGGTGCCTAAACTTTTTTTTT
1 TAATTTGGTACCTAAACTTGTCATTT
8634745 TAATTTGGTACCTAAACTTGTCATTT
1 TAATTTGGTACCTAAACTTGTCATTT
8634771 T
1 T
8634772 TTTTTCCTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (26 bp):
TAATTTGGTACCTAAACTTGTCATTT
Found at i:8634783 original size:34 final size:32
Alignment explanation
Indices: 8634736--8634828 Score: 116
Period size: 34 Copynumber: 2.9 Consensus size: 32
8634726 GTGCCTAAAC
*
8634736 TTTTTTTTTTAATTTGGTACCTAAACTTGTCA
1 TTTTTTTTTTAATTTGGTACCTAAACTTGACA
8634768 TTTTTTTTTCCTAATTTGGTACCTAAACTTGACA
1 TTTTTTTTT--TAATTTGGTACCTAAACTTGACA
* * * *
8634802 -CTTTTTCTTAAGTTGGTACTTAAACTT
1 TTTTTTTTTTAATTTGGTACCTAAACTT
8634829 TTTTGGGGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 17 0.31
32 9 0.17
33 6 0.11
34 22 0.41
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (32 bp):
TTTTTTTTTTAATTTGGTACCTAAACTTGACA
Found at i:8636460 original size:45 final size:45
Alignment explanation
Indices: 8636409--8636502 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
8636399 AAAGAGAAGC
8636409 GCAAGTTTTAAAGTCAATTTTGAGGGATTATGAGAGATGTTTTGG
1 GCAAGTTTTAAAGTCAATTTTGAGGGATTATGAGAGATGTTTTGG
8636454 GCAAGTTTTAAAGTCAATTTTGAGGGATTATGAGAGATGTTTTGG
1 GCAAGTTTTAAAGTCAATTTTGAGGGATTATGAGAGATGTTTTGG
8636499 GCAA
1 GCAA
8636503 TGTGTAAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (45 bp):
GCAAGTTTTAAAGTCAATTTTGAGGGATTATGAGAGATGTTTTGG
Found at i:8636567 original size:26 final size:26
Alignment explanation
Indices: 8636538--8636589 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
8636528 TGTTCTATAG
*
8636538 TACCAACACTCTTGTAGACTCTAGGC
1 TACCAACACTCTTGAAGACTCTAGGC
*
8636564 TACCAACACTCTTGAAGATTCTAGGC
1 TACCAACACTCTTGAAGACTCTAGGC
8636590 AGCTTGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
TACCAACACTCTTGAAGACTCTAGGC
Found at i:8638837 original size:23 final size:25
Alignment explanation
Indices: 8638811--8638914 Score: 68
Period size: 26 Copynumber: 4.1 Consensus size: 25
8638801 ATAGATAATT
*
8638811 ATTATTTTTAAAT-T-TTTAATAAA
1 ATTATTATTAAATATATTTAATAAA
8638834 ATTATTATTAAATATAATTTAATAAA
1 ATTATTATTAAATAT-ATTTAATAAA
** * ** * *
8638860 AAAATAATTTGATCATATTTTAACATA
1 ATTATTATTAAAT-ATA-TTTAATAAA
* *
8638887 AGTATTATTAAATAAAATTTAATAAA
1 ATTATTATTAAAT-ATATTTAATAAA
8638913 AT
1 AT
8638915 AATATATAAT
Statistics
Matches: 58, Mismatches: 18, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
23 12 0.21
24 1 0.02
26 26 0.45
27 19 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTATTATTAAATATATTTAATAAA
Found at i:8638854 original size:26 final size:26
Alignment explanation
Indices: 8638825--8638914 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
8638815 TTTTTAAATT
8638825 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
** * ** *
8638851 TTTAATAAAAAAATAATTTGATCATAT
1 TTTAATAAAATTATTATTAAAT-ATAA
* * * *
8638878 TTTAACATAAGTATTATTAAATAAAA
1 TTTAATAAAATTATTATTAAATATAA
8638904 TTTAATAAAAT
1 TTTAATAAAAT
8638915 AATATATAAT
Statistics
Matches: 45, Mismatches: 18, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
26 27 0.60
27 18 0.40
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:8638981 original size:24 final size:23
Alignment explanation
Indices: 8638954--8639003 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
8638944 TATTATTAAA
*
8638954 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
8638978 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
8639001 ATA
1 ATA
8639004 ACTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:8640499 original size:2 final size:2
Alignment explanation
Indices: 8640492--8640523 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8640482 TGCTAATTTA
8640492 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8640524 TAAGCATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8644563 original size:17 final size:17
Alignment explanation
Indices: 8644543--8644577 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8644533 CAAAAAAGTG
8644543 ATAAAAAAGTA-AAAAAA
1 ATAAAAAA-TACAAAAAA
8644560 ATAAAAAATACAAAAAA
1 ATAAAAAATACAAAAAA
8644577 A
1 A
8644578 ATTGTGTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (17 bp):
ATAAAAAATACAAAAAA
Found at i:8645576 original size:20 final size:20
Alignment explanation
Indices: 8645551--8645595 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8645541 AGGAACTAAA
* *
8645551 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
8645571 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
8645591 ATGAA
1 ATGAA
8645596 TACATGTGCT
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:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:8655594 original size:40 final size:39
Alignment explanation
Indices: 8655429--8655612 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
8655419 AAATTGAATG
* * *
8655429 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
8655469 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
8655509 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
8655549 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
8655588 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
8655613 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:8655637 original size:80 final size:81
Alignment explanation
Indices: 8655469--8655657 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
8655459 GCTGGAAATT
* * * *
8655469 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
8655534 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
8655550 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
8655613 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
8655629 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
8655658 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:8663707 original size:40 final size:39
Alignment explanation
Indices: 8663543--8663715 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 39
8663533 AAATTGAATG
* *
8663543 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
8663582 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
8663622 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
8663662 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
*
8663701 GATATCCGGGTTAAG
1 -ATATCCGGGCTAAG
8663716 TCCGTAGGCT
Statistics
Matches: 105, Mismatches: 23, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.14
40 84 0.80
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:8694829 original size:29 final size:28
Alignment explanation
Indices: 8694796--8694873 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
8694786 AAAACCTGCC
*
8694796 AATAAAGAAAAAGTATATTAATAAATAAT
1 AATAAA-AAAAAGTAAATTAATAAATAAT
*
8694825 AATAATAATAAAGTAAATTAATAAATAAT
1 AATAA-AAAAAAGTAAATTAATAAATAAT
** *
8694854 AATAAATTAAATTAAATTAA
1 AATAAAAAAAAGTAAATTAA
8694874 ATTAAATTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 13 0.30
29 30 0.68
30 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (28 bp):
AATAAAAAAAAGTAAATTAATAAATAAT
Found at i:8694853 original size:23 final size:22
Alignment explanation
Indices: 8694817--8694868 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
8694807 AGTATATTAA
8694817 TAAA-TAATAATAATAATAAAG
1 TAAATTAATAATAATAATAAAG
*
8694838 TAAATTAATAAATAATAATAAAT
1 TAAATTAAT-AATAATAATAAAG
8694861 TAAATTAA
1 TAAATTAA
8694869 ATTAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
23 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAATTAATAATAATAATAAAG
Found at i:8694866 original size:5 final size:5
Alignment explanation
Indices: 8694856--8694881 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8694846 TAAATAATAA
8694856 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
8694882 GCAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:8699757 original size:20 final size:20
Alignment explanation
Indices: 8699732--8699771 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8699722 TCGAGATTCA
8699732 AGGTTT-GAGTTTGAGGTTGG
1 AGGTTTGGAGTTTGA-GTTGG
8699752 AGGTTTGGAGTTTGAGTTGG
1 AGGTTTGGAGTTTGAGTTGG
8699772 GGGATTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (20 bp):
AGGTTTGGAGTTTGAGTTGG
Found at i:8700446 original size:2 final size:2
Alignment explanation
Indices: 8700439--8700474 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8700429 GCTTTAAAAT
8700439 TA TA TA TA TA TA TA TA TA TA TA -A TA TA T- TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8700475 TAACAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8701325 original size:110 final size:112
Alignment explanation
Indices: 8701139--8701361 Score: 326
Period size: 110 Copynumber: 2.0 Consensus size: 112
8701129 TAAAAATAAG
*
8701139 GATAAATTACATCCATGATCACTCTAAATTAAATAAGATCTGTCCTATTTTGGCCACTCCATTTT
1 GATAAATTACACCCATGATCACTCT-AA-TAAATAAGATCTGTCCTATTTTGGCCACTCCATTTT
* ** *
8701204 TTTCTTCATTTAGTTGCTCTAAATAAGATAATTGTGCGAATTAGTCACA
64 TTTCTTAATTTAGTCACTCTAAATAAGATAATTGTGCAAATTAGTCACA
* *
8701253 GATAAATTACACCCATGATCACTCT-A-AAAT-AGAGTCTGTCCTATTTTGGTCACTCTATTTTT
1 GATAAATTACACCCATGATCACTCTAATAAATAAGA-TCTGTCCTATTTTGGCCACTCCATTTTT
*
8701315 TTTTTAATTTAGTCACTCTAAATAAGATAATTGTGCAAATTAGTCAC
65 TTCTTAATTTAGTCACTCTAAATAAGATAATTGTGCAAATTAGTCAC
8701362 TATTGTTTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
109 3 0.03
110 72 0.72
112 1 0.01
114 24 0.24
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (112 bp):
GATAAATTACACCCATGATCACTCTAATAAATAAGATCTGTCCTATTTTGGCCACTCCATTTTTT
TCTTAATTTAGTCACTCTAAATAAGATAATTGTGCAAATTAGTCACA
Found at i:8703944 original size:5 final size:5
Alignment explanation
Indices: 8703934--8703964 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
8703924 AACATGTTTC
8703934 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG T
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG T
8703965 GTAATGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:8719599 original size:14 final size:14
Alignment explanation
Indices: 8719580--8719606 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8719570 TTTGTCCAAC
8719580 GATGAAATATTAAA
1 GATGAAATATTAAA
8719594 GATGAAATATTAA
1 GATGAAATATTAA
8719607 TGGAGTGTCC
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:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (14 bp):
GATGAAATATTAAA
Found at i:8719829 original size:16 final size:16
Alignment explanation
Indices: 8719808--8719842 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
8719798 TAAGGTAAAT
8719808 ATTTTGGAACAAATAA
1 ATTTTGGAACAAATAA
8719824 ATTTTGGAACAAATAA
1 ATTTTGGAACAAATAA
8719840 ATT
1 ATT
8719843 CAAATTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (16 bp):
ATTTTGGAACAAATAA
Found at i:8725460 original size:46 final size:46
Alignment explanation
Indices: 8725400--8725569 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 46
8725390 CGAGGCCGAT
* *
8725400 GCATGTCCTAGACATGTCTTACTCTGGCACTCATAATATGGCTGAA
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTGAA
* * ** * * *
8725446 GCATGTCCCAGACATGTCTTACACTAGCCCTTGT-CTGGAT-GCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAAT--ATGGCTGAA
* * * * * *
8725492 GCCATATCCCAGACATGGTCTTATACTGGCTCTCATAGTGTGGCTAAA
1 G-CATGTCCCAGACAT-GTCTTACACTGGCACTCATAATATGGCTGAA
*
8725540 GCATGTCCCAGACATTTCTTACACTGGCAC
1 GCATGTCCCAGACATGTCTTACACTGGCAC
8725570 ACAAATCACC
Statistics
Matches: 94, Mismatches: 24, Indels: 12
0.72 0.18 0.09
Matches are distributed among these distances:
45 1 0.01
46 45 0.48
47 29 0.31
48 18 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCACTCATAATATGGCTGAA
Found at i:8725543 original size:94 final size:92
Alignment explanation
Indices: 8725394--8725564 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 92
8725384 ATCTGTCGAG
* * *
8725394 GCCGATGCATGTCCTAGACATGTCTTACTCTGGCACTCATAATATGGCTGAAGCATGTCCCAGAC
1 GCCGATGCATATCCCAGACATGTCTTACTCTGGCACTCATAATATGGCTAAAGCATGTCCCAGAC
8725459 ATGTCTTACACTAGCCCTTGTCTGGAT
66 ATGTCTTACACTAGCCCTTGTCTGGAT
* * *
8725486 GCCGATGCCATATCCCAGACATGGTCTTA-TACTGGCTCTCATAGTGTGGCTAAAGCATGTCCCA
1 GCCGATG-CATATCCCAGACAT-GTCTTACT-CTGGCACTCATAATATGGCTAAAGCATGTCCCA
*
8725550 GACATTTCTTACACT
63 GACATGTCTTACACT
8725565 GGCACACAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 7 0.10
93 13 0.19
94 49 0.71
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (92 bp):
GCCGATGCATATCCCAGACATGTCTTACTCTGGCACTCATAATATGGCTAAAGCATGTCCCAGAC
ATGTCTTACACTAGCCCTTGTCTGGAT
Found at i:8730293 original size:93 final size:93
Alignment explanation
Indices: 8730181--8730352 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
8730171 CGCCCATAAG
* *
8730181 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8730246 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
8730274 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8730339 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
8730353 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:8730349 original size:46 final size:46
Alignment explanation
Indices: 8730174--8730349 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
8730164 TGTAACCCGC
* * *
8730174 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
8730220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
8730270 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
8730313 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
8730350 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:8737864 original size:93 final size:93
Alignment explanation
Indices: 8737752--8737923 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
8737742 CGCCCATAAG
* *
8737752 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8737817 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
8737845 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8737910 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
8737924 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:8737920 original size:46 final size:46
Alignment explanation
Indices: 8737745--8737920 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
8737735 TGTAACCCGC
* * *
8737745 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
8737791 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
8737841 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
8737884 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
8737921 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:8760781 original size:53 final size:52
Alignment explanation
Indices: 8760711--8760865 Score: 186
Period size: 52 Copynumber: 3.0 Consensus size: 52
8760701 CACATATAAT
* *
8760711 ACCGATGCAATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACATCAC
1 ACCGATGCCATATCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACATCAC
* * * * * **
8760764 ACCGACGCCATATCCCAGCTCTGGTCTTATACGGGAACACGTATTACGTTGC
1 ACCGATGCCATATCCCAGCTATGGTCTTATACGGGAACACATATCACATCAC
* *
8760816 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGCACACATATCACATC
1 ACCGATGCCATATCCCAGCTATGGTCTTATACGGGAACACATATCACATC
8760866 TTTTCCGTCA
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 49 0.58
53 31 0.37
54 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (52 bp):
ACCGATGCCATATCCCAGCTATGGTCTTATACGGGAACACATATCACATCAC
Found at i:8762495 original size:33 final size:33
Alignment explanation
Indices: 8762458--8762520 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
8762448 AACCAATAAG
8762458 ATAGACAATACCCAGGAAAGAATCCACCTACAC
1 ATAGACAATACCCAGGAAAGAATCCACCTACAC
8762491 ATAGACAATACCCAGGAAAGAATCCACCTA
1 ATAGACAATACCCAGGAAAGAATCCACCTA
8762521 TACTTCACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.46, C:0.29, G:0.13, T:0.13
Consensus pattern (33 bp):
ATAGACAATACCCAGGAAAGAATCCACCTACAC
Found at i:8767567 original size:6 final size:6
Alignment explanation
Indices: 8767545--8767596 Score: 59
Period size: 6 Copynumber: 8.2 Consensus size: 6
8767535 TGAAGGATAG
* *
8767545 AGAAAA GAGATAAA ATGAAAA TGAAAA TGAAAA AGAAAA AGAAAA AGAAAA
1 AGAAAA -AGA-AAA A-GAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
8767596 A
1 A
8767597 ATTGTGTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
6 29 0.71
7 7 0.17
8 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (6 bp):
AGAAAA
Found at i:8769308 original size:6 final size:7
Alignment explanation
Indices: 8769291--8769317 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
8769281 TGAAGGTGAG
8769291 TTTTTTA
1 TTTTTTA
8769298 TTTTTTA
1 TTTTTTA
8769305 TTTTTTA
1 TTTTTTA
8769312 TTTTTT
1 TTTTTT
8769318 TGCATGCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:8769749 original size:2 final size:2
Alignment explanation
Indices: 8769742--8769767 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8769732 TTGTGTATTG
8769742 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
8769768 TTACCTACAT
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:8771675 original size:17 final size:17
Alignment explanation
Indices: 8771653--8771685 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8771643 CCCACTTTAA
8771653 CCAAACTAATAACTTAG
1 CCAAACTAATAACTTAG
8771670 CCAAACTAATAACTTA
1 CCAAACTAATAACTTA
8771686 ACCACTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.24
Consensus pattern (17 bp):
CCAAACTAATAACTTAG
Found at i:8777958 original size:22 final size:22
Alignment explanation
Indices: 8777916--8777959 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
8777906 TTCTCATTTT
*
8777916 TTATAAATTTATAAATCTTTAA
1 TTATAAATTTATAAATATTTAA
*
8777938 TTATAAAATTT-TGAATATTTAA
1 TTAT-AAATTTATAAATATTTAA
8777960 AATATGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATAAATTTATAAATATTTAA
Found at i:8778550 original size:24 final size:24
Alignment explanation
Indices: 8778533--8778584 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
8778523 TTATTATTCT
8778533 AAATATTCAAAAATTTATAATTATA
1 AAATATT-AAAAATTTATAATTATA
* * *
8778558 AAATATTAAAAATATAAAATTAGA
1 AAATATTAAAAATTTATAATTATA
8778582 AAA
1 AAA
8778585 ACAAAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATTAAAAATTTATAATTATA
Found at i:8778771 original size:16 final size:17
Alignment explanation
Indices: 8778733--8778771 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8778723 ACAAATATTA
8778733 AAAAT-ATTATGAAACT
1 AAAATAATTATGAAACT
*
8778749 AAAATAATTATTAAA-T
1 AAAATAATTATGAAACT
8778765 AAAATAA
1 AAAATAA
8778772 AATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAATAATTATGAAACT
Found at i:8778790 original size:22 final size:21
Alignment explanation
Indices: 8778763--8778818 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
8778753 TAATTATTAA
8778763 ATAAAATA-AAATTATAAAAACT
1 ATAAAATATAAA-TAT-AAAACT
8778785 ATAAAATATAAATATAAAACT
1 ATAAAATATAAATATAAAACT
*
8778806 AAAAACATATAAA
1 ATAAA-ATATAAA
8778819 ATTTGTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 10 0.32
22 18 0.58
23 3 0.10
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAAATATAAATATAAAACT
Found at i:8778795 original size:29 final size:29
Alignment explanation
Indices: 8778763--8778820 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
8778753 TAATTATTAA
8778763 ATAAA-ATAAAATTATAAAAAC-TATAAAAT
1 ATAAATATAAAA--ATAAAAACATATAAAAT
*
8778792 ATAAATATAAAACTAAAAACATATAAAAT
1 ATAAATATAAAAATAAAAACATATAAAAT
8778821 TTGTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 7 0.27
29 13 0.50
30 6 0.23
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (29 bp):
ATAAATATAAAAATAAAAACATATAAAAT
Found at i:8783592 original size:11 final size:11
Alignment explanation
Indices: 8783576--8783607 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8783566 ACATAAGGTT
8783576 ATAAAATAAAA
1 ATAAAATAAAA
8783587 ATAAAATAAAA
1 ATAAAATAAAA
*
8783598 ACAAAATAAA
1 ATAAAATAAA
8783608 TAAAAGATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (11 bp):
ATAAAATAAAA
Done.