Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 10 of 91
Found at i:1657403 original size:133 final size:133
Alignment explanation
Indices: 1657165--1657405 Score: 419
Period size: 133 Copynumber: 1.8 Consensus size: 133
1657155 TTGAGATGAA
*
1657165 CAGTTTCTTTGAACTAAGAATGCCCAACATCAGTCTATGCCTCCATAGTATCAAGGGGGAGAATC
1 CAGTTTCTTTGAACTAAGAATGCCCAACATCAGTCTATGCCGCCATAGTATCAAGGGGGAGAATC
* * *
1657230 AGAGCGTACACGTGGTCTACCCATTTGCAAATTGAGATGCTGAAGGGAAGAAAGAAGAATGTTGG
66 AGAGCGTACACGTGGCCTACCCAGTTGCAAATGGAGATGCTGAAGGGAAGAAAGAAGAATGTTGG
1657295 AAC
131 AAC
*
1657298 CAGTTTCTTTGAACTAAGAATGCCCAACATCATTCTATGCCGCCATAGTATCAAGGGGGAGAATC
1 CAGTTTCTTTGAACTAAGAATGCCCAACATCAGTCTATGCCGCCATAGTATCAAGGGGGAGAATC
* *
1657363 AGAGCGTACACGTGGCCTACTCAGTTGCAAATGGTGATGCTGA
66 AGAGCGTACACGTGGCCTACCCAGTTGCAAATGGAGATGCTGA
1657406 TGGCCCCAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 101 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (133 bp):
CAGTTTCTTTGAACTAAGAATGCCCAACATCAGTCTATGCCGCCATAGTATCAAGGGGGAGAATC
AGAGCGTACACGTGGCCTACCCAGTTGCAAATGGAGATGCTGAAGGGAAGAAAGAAGAATGTTGG
AAC
Found at i:1662292 original size:24 final size:21
Alignment explanation
Indices: 1662243--1662284 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1662233 TATATAGTTA
1662243 TTTAAAAAATAATATTTATAT
1 TTTAAAAAATAATATTTATAT
1662264 TTTAAAAAATAATATTT-TAT
1 TTTAAAAAATAATATTTATAT
1662284 T
1 T
1662285 AATTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAAAAAATAATATTTATAT
Found at i:1663923 original size:2 final size:2
Alignment explanation
Indices: 1663916--1663975 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
1663906 AATCTCATAA
* * *
1663916 AT AT AT AT -T AA AT AT AT AT AA AT A- AT AT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
1663956 AT AT AT AG AT A- AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT A
1663976 AAATATAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1663929 original size:11 final size:11
Alignment explanation
Indices: 1663913--1663955 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
1663903 CAGAATCTCA
1663913 TAAATATATAT
1 TAAATATATAT
1663924 TAAATATATA-
1 TAAATATATAT
1663934 TAAATA-ATAT
1 TAAATATATAT
*
1663944 ATAGATATATAT
1 -TAAATATATAT
1663956 ATATATAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 3 0.11
10 6 0.21
11 15 0.54
12 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATATATAT
Found at i:1663959 original size:36 final size:36
Alignment explanation
Indices: 1663916--1663986 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
1663906 AATCTCATAA
*
1663916 ATATATAT-TAAATATATATAAATAATATATAGATAT
1 ATATATATATAAATA-ATATAAATAAAATATAGATAT
* **
1663952 ATATATATATAGATAATATCTATAAAATATAGATA
1 ATATATATATAAATAATATAAATAAAATATAGATA
1663987 GAATAAGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 25 0.83
37 5 0.17
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (36 bp):
ATATATATATAAATAATATAAATAAAATATAGATAT
Found at i:1664453 original size:7 final size:8
Alignment explanation
Indices: 1664429--1664454 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1664419 GTATGTTTCC
1664429 AATGGAAA
1 AATGGAAA
1664437 AATGGAAA
1 AATGGAAA
1664445 AATGGAAA
1 AATGGAAA
1664453 AA
1 AA
1664455 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (8 bp):
AATGGAAA
Found at i:1665099 original size:82 final size:82
Alignment explanation
Indices: 1664862--1665100 Score: 320
Period size: 82 Copynumber: 2.9 Consensus size: 82
1664852 ACTTTGACAT
* * * *
1664862 ATATTAAAAGTGGAATCT-TTTTTTTTTTAACTAAACAACAGAAAATAATATGATTAATATATGA
1 ATATTAAAAGTGGAATCTCTTTTTTTTTT-ACTAAACAAGAGAAAGTAACAAGATTAATATATGA
* *
1664926 AATAAATTAATGTGACAA
65 AATAAATTAGTGTCACAA
* ** * *
1664944 ATATTAAAAGTGGAATCTCTCTTTTTTAAATTAAATAAGAGAAAGTAAC-AGAATTAATATATGA
1 ATATTAAAAGTGGAATCTCTTTTTTTTTTACTAAACAAGAGAAAGTAACAAG-ATTAATATATGA
1665008 AATAAATTAGTGTCACAA
65 AATAAATTAGTGTCACAA
* * *
1665026 ATATTAAAAGTGAAATCTCTTTTTTTTTTGCTAAACAAGAGAAAGTAACAAGATTAATATATGCA
1 ATATTAAAAGTGGAATCTCTTTTTTTTTTACTAAACAAGAGAAAGTAACAAGATTAATATATGAA
1665091 ATAAATTAGT
66 ATAAATTAGT
1665101 TACACTTTAG
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
81 1 0.01
82 125 0.93
83 9 0.07
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.35
Consensus pattern (82 bp):
ATATTAAAAGTGGAATCTCTTTTTTTTTTACTAAACAAGAGAAAGTAACAAGATTAATATATGAA
ATAAATTAGTGTCACAA
Found at i:1668005 original size:12 final size:12
Alignment explanation
Indices: 1667988--1668012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1667978 AAAATGAGAA
1667988 AGAATTACAATG
1 AGAATTACAATG
1668000 AGAATTACAATG
1 AGAATTACAATG
1668012 A
1 A
1668013 AAGTTTATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
AGAATTACAATG
Found at i:1670882 original size:51 final size:52
Alignment explanation
Indices: 1670771--1670882 Score: 120
Period size: 51 Copynumber: 2.2 Consensus size: 52
1670761 TATTTAATAT
* * * **
1670771 TTATGAAATTAATAAATAATTAAAATTATTTATCTATCAAATAATGTTTTTA
1 TTATTAAATTAATAAATAACTAAAATTATTTATATATCAAATAATACTTTTA
* * * *
1670823 TTAATAAATTAA-AAATTACTAAAATTATATT-TATATTAAATAATACTTTTC
1 TTATTAAATTAATAAATAACTAAAATTAT-TTATATATCAAATAATACTTTTA
1670874 TTATTAAAT
1 TTATTAAAT
1670883 ATGTAAAATT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
51 37 0.76
52 12 0.24
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (52 bp):
TTATTAAATTAATAAATAACTAAAATTATTTATATATCAAATAATACTTTTA
Found at i:1670975 original size:17 final size:18
Alignment explanation
Indices: 1670955--1671001 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
1670945 AAAATAATAC
1670955 AAATGAAAAAAAACT-T-A
1 AAATGAAAAAAAA-TGTGA
1670972 AAAT-AAAAAAAATGTGA
1 AAATGAAAAAAAATGTGA
1670989 AAATGAAAAAAAA
1 AAATGAAAAAAAA
1671002 AAATTAGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 9 0.33
17 9 0.33
18 8 0.30
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (18 bp):
AAATGAAAAAAAATGTGA
Found at i:1673126 original size:21 final size:22
Alignment explanation
Indices: 1673097--1673140 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
1673087 ATTAATAACC
1673097 AATCAAAAAGATACATTAACAA
1 AATCAAAAAGATACATTAACAA
*
1673119 AATC-AAAAGTTACATTAACAA
1 AATCAAAAAGATACATTAACAA
1673140 A
1 A
1673141 TTTAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.61, C:0.14, G:0.05, T:0.20
Consensus pattern (22 bp):
AATCAAAAAGATACATTAACAA
Found at i:1676537 original size:19 final size:20
Alignment explanation
Indices: 1676515--1676556 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
1676505 TCCCAGCAAA
*
1676515 ATTA-AAATTGTTTGTATAT
1 ATTAGAAATTGTTTGCATAT
*
1676534 ATTAGTATATTGTTTGCATAT
1 ATTAG-AAATTGTTTGCATAT
1676555 AT
1 AT
1676557 CTTAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
21 15 0.79
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTAGAAATTGTTTGCATAT
Found at i:1676982 original size:35 final size:36
Alignment explanation
Indices: 1676915--1676983 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
1676905 ATATAAAAAT
* ** *
1676915 ATTTTAAAATATTTTAGTTTTTTTCAAAATATTAAA
1 ATTTAAAAATATTTTAGTTCCTCTCAAAATATTAAA
*
1676951 ATTTAAAAATATTTTAGTTCCTCT-AATATATTA
1 ATTTAAAAATATTTTAGTTCCTCTCAAAATATTA
1676984 GTTTTTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 8 0.29
36 20 0.71
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.51
Consensus pattern (36 bp):
ATTTAAAAATATTTTAGTTCCTCTCAAAATATTAAA
Found at i:1676996 original size:17 final size:19
Alignment explanation
Indices: 1676976--1677012 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
1676966 AGTTCCTCTA
*
1676976 ATATAT-TAGTTT-TTATT
1 ATATATATAATTTATTATT
1676993 ATATATATAATTTATTATT
1 ATATATATAATTTATTATT
1677012 A
1 A
1677013 AAAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATATATATAATTTATTATT
Found at i:1677064 original size:16 final size:15
Alignment explanation
Indices: 1677028--1677081 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
1677018 ATCATATTAA
1677028 TAATATT-ATTATCATT
1 TAATATTAATTA--ATT
1677044 T-ATATTAATTAATT
1 TAATATTAATTAATT
1677058 ATAATATTAA-TAATT
1 -TAATATTAATTAATT
1677073 TAA-ATTAAT
1 TAATATTAAT
1677082 ATATCAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 11 0.32
16 12 0.35
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTAATTAATT
Found at i:1678128 original size:27 final size:29
Alignment explanation
Indices: 1678098--1678152 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
1678088 TAAAAATTTC
*
1678098 AAATTATTTAAAAT-TTATAA-AATTAAT
1 AAATAATTTAAAATATTATAACAATTAAT
*
1678125 AAATAATTTAAAATATTGTAACAATTAA
1 AAATAATTTAAAATATTATAACAATTAA
1678153 AATATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 5 0.21
29 6 0.25
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (29 bp):
AAATAATTTAAAATATTATAACAATTAAT
Found at i:1678136 original size:18 final size:17
Alignment explanation
Indices: 1678085--1678138 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
1678075 AATATATATG
*
1678085 TAATAAAAATTTCAAAT
1 TAATAAAAATTTAAAAT
* *
1678102 TATTTAAAATTTATAAAAT
1 TA-ATAAAAATT-TAAAAT
1678121 TAATAAATAATTTAAAAT
1 TAATAAA-AATTTAAAAT
1678139 ATTGTAACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.07
18 17 0.59
19 10 0.34
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAAAAATTTAAAAT
Found at i:1680051 original size:8 final size:8
Alignment explanation
Indices: 1680022--1680050 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1680012 TTTTGTACTT
1680022 TTTTTTAA
1 TTTTTTAA
1680030 TTTTTTAA
1 TTTTTTAA
1680038 TTTTTT-A
1 TTTTTTAA
1680045 TTTTTT
1 TTTTTT
1680051 TTCATCTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTAA
Found at i:1681730 original size:138 final size:138
Alignment explanation
Indices: 1681482--1681753 Score: 494
Period size: 138 Copynumber: 2.0 Consensus size: 138
1681472 GAAGAAGAAG
1681482 GATGACGGACCAGTTTCGATGACAAAGAGTCCTTTTATGCGGGCGAAACAAAATGAATATGTTGC
1 GATGACGGACCAGTTTCGATGACAAAGAGTCCTTTTATGCGGGCGAAACAAAATGAATATGTTGC
1681547 AGTGACGTCAGCATGCTGATGAAATTAGCAGAACAGTCGAGTTTTTTCCCATAATAAAATAATTT
66 AGTGACGTCAGCATGCTGATGAAATTAGCAGAACAGTCGAGTTTTTTCCCATAATAAAATAATTT
1681612 AAAATTAT
131 AAAATTAT
*
1681620 GATGACGGACCAGTTTCGATGACAAAGAGTCCTTTTATGGGGGCGAAACAAAATGAGA-ATGTTG
1 GATGACGGACCAGTTTCGATGACAAAGAGTCCTTTTATGCGGGCGAAACAAAATGA-ATATGTTG
* *
1681684 CAGTGACGTCAGCATGGTGATGAAATTAGCAG-ACAGTCGAGTTTTTTCCTATAATAAAATAATT
65 CAGTGACGTCAGCATGCTGATGAAATTAGCAGAACAGTCGAGTTTTTTCCCATAATAAAATAATT
1681748 TAAAAT
130 TAAAAT
1681754 CTTTAATCTT
Statistics
Matches: 130, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
137 37 0.28
138 92 0.71
139 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (138 bp):
GATGACGGACCAGTTTCGATGACAAAGAGTCCTTTTATGCGGGCGAAACAAAATGAATATGTTGC
AGTGACGTCAGCATGCTGATGAAATTAGCAGAACAGTCGAGTTTTTTCCCATAATAAAATAATTT
AAAATTAT
Found at i:1683036 original size:2 final size:2
Alignment explanation
Indices: 1683029--1683067 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1683019 GTGTGGGATC
*
1683029 AT AT AT AT -T AT AT AT AT AT AT AT AT -T AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1683068 ACGACTCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1683051 original size:17 final size:17
Alignment explanation
Indices: 1683029--1683067 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1683019 GTGTGGGATC
*
1683029 ATATATATTATATATAT
1 ATATATATTACATATAT
1683046 ATATATATTACATATAT
1 ATATATATTACATATAT
1683063 ATATA
1 ATATA
1683068 ACGACTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATTACATATAT
Found at i:1683808 original size:24 final size:23
Alignment explanation
Indices: 1683764--1683810 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 23
1683754 TTTCTTTGAC
1683764 TTTCCACTTCTTTAGTTTTTTTTT
1 TTTCCACTTCTTTAG-TTTTTTTT
1683788 TTTCCTACTTCTTTCAGTTTTTT
1 TTTCC-ACTTCTTT-AGTTTTTT
1683811 CCACTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.24
25 14 0.67
26 2 0.10
ACGTcount: A:0.09, C:0.19, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTCCACTTCTTTAGTTTTTTTT
Found at i:1683957 original size:133 final size:132
Alignment explanation
Indices: 1683699--1683970 Score: 490
Period size: 132 Copynumber: 2.1 Consensus size: 132
1683689 GTATTGTGAG
* *
1683699 TTTCTTTTATTAGATTTTTATTAGAATATAGGAGGTTTTTTCTATTTCTTATAAGTTTCTTTGAC
1 TTTCTTTTATTAGAATTTTATTAGAATATAGGAAGTTTTTTCTATTTCTTATAAGTTTCTTTGAC
*
1683764 TTTCCACTTCTTTAGTTTTTTTTTTTTCCTACTTCTTTCAGTTTTTTCCACTTCGCTCTTGCGGG
66 TTTCCACTTCTTTAGTTTTTTTTTTTTCCTACTTCTTTCAGTTTTTTCCACTTCGATCTTGCGGG
1683829 TT
131 TT
1683831 TTTCTTTTATTAGAATTTTATTAGAATATAGGAAGTTTTTTCTATTTCTTATAAGTTTCTTTGAC
1 TTTCTTTTATTAGAATTTTATTAGAATATAGGAAGTTTTTTCTATTTCTTATAAGTTTCTTTGAC
* *
1683896 TTTCCACTTCTTTTAGTTTTTTTTTTTTTCTACTTCTTTCAGTTTTTTCCCCTTCGATCTTGCGG
66 TTTCCACTTC-TTTAGTTTTTTTTTTTTCCTACTTCTTTCAGTTTTTTCCACTTCGATCTTGCGG
1683961 GTT
130 GTT
1683964 TTTCTTT
1 TTTCTTT
1683971 GACGTTCTAC
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
132 73 0.54
133 61 0.46
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.58
Consensus pattern (132 bp):
TTTCTTTTATTAGAATTTTATTAGAATATAGGAAGTTTTTTCTATTTCTTATAAGTTTCTTTGAC
TTTCCACTTCTTTAGTTTTTTTTTTTTCCTACTTCTTTCAGTTTTTTCCACTTCGATCTTGCGGG
TT
Found at i:1686315 original size:25 final size:25
Alignment explanation
Indices: 1686287--1686345 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
1686277 ACTCCCTTGG
* *
1686287 AAAAGACTTTGTTATTTATAAGTTT
1 AAAAGACTCTGTTATATATAAGTTT
*
1686312 AAAAGACTCTGTTATATATAATTTT
1 AAAAGACTCTGTTATATATAAGTTT
1686337 AAAAGACTC
1 AAAAGACTC
1686346 AATAATGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (25 bp):
AAAAGACTCTGTTATATATAAGTTT
Found at i:1687262 original size:34 final size:33
Alignment explanation
Indices: 1687209--1687272 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
1687199 CATGAAGAAA
1687209 GAAATTTATTTGTCTTACAAAATTGAATTATCC
1 GAAATTTATTTGTCTTACAAAATTGAATTATCC
* *
1687242 GAAATTTTTTTTTACTTACAAAATTGAATTA
1 GAAATTTATTTGT-CTTACAAAATTGAATTA
1687273 CCCATGAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (33 bp):
GAAATTTATTTGTCTTACAAAATTGAATTATCC
Found at i:1687541 original size:1 final size:1
Alignment explanation
Indices: 1687535--1687559 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1687525 TAGGCATTGG
1687535 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
1687560 CACTTTGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1688399 original size:3 final size:3
Alignment explanation
Indices: 1688391--1688416 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1688381 AATAAAGTTC
1688391 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1688417 AACAATAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1689446 original size:179 final size:174
Alignment explanation
Indices: 1689013--1689456 Score: 762
Period size: 174 Copynumber: 2.5 Consensus size: 174
1689003 GATGTATATG
* *
1689013 ATAAGATGTTAAGCCATACAGGGCTCCAGCTATCACGATCACACTGTAATGCTCCTTTTCGTTAG
1 ATAAGATGTTAAGCCATACAGGGCCCCAGCTATCACGATCACACTGTAATGCCCCTTTTCGTTAG
*
1689078 AAAAAATTGTTCCTGATTCGTTTTCAGTGTATTGTCTGTAGGCCCAATTTGACTCAAGTTTGGAT
66 AAAAAATTGTTCCTGATTCGTTTACAGTGTATTGTCTGTAGGCCCAATTTGACTCAAGTTTGGAT
*
1689143 TAATTGGTCAGTAGGCCTATTTTATTTTTTAATTTTGTATTTTA
131 TAATTGGTCAGTAGGCCTATTTTATTTTTTAATTTTGAATTTTA
* *
1689187 ATAAGATGTTAAGCCATACAGGGCCCCAGCTATCACGATCACACTGCAATGGCCCTTTTCGTTAG
1 ATAAGATGTTAAGCCATACAGGGCCCCAGCTATCACGATCACACTGTAATGCCCCTTTTCGTTAG
1689252 AAAAAATTGTTCCTGATTCGTTTACAGTGTATTGTCTGTAGGCCCAATTTGACTCAAGTTTGGAT
66 AAAAAATTGTTCCTGATTCGTTTACAGTGTATTGTCTGTAGGCCCAATTTGACTCAAGTTTGGAT
** *
1689317 TAATTGGTCAAATAGGTAGGTTTATTTTATTTTTTTATTTTGAATTTTA
131 TAATTGGTC----A-GTAGGCCTATTTTATTTTTTAATTTTGAATTTTA
1689366 ATAAGATGTTAAGCCATACAGGGCCCCAGCTATCACGATCACACTGTAATGCCCCTTTTCGTTAG
1 ATAAGATGTTAAGCCATACAGGGCCCCAGCTATCACGATCACACTGTAATGCCCCTTTTCGTTAG
1689431 AAAAAATTGTTCCTGATTCGTTTACA
66 AAAAAATTGTTCCTGATTCGTTTACA
1689457 TCTGTAGACT
Statistics
Matches: 254, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
174 134 0.53
178 1 0.00
179 119 0.47
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (174 bp):
ATAAGATGTTAAGCCATACAGGGCCCCAGCTATCACGATCACACTGTAATGCCCCTTTTCGTTAG
AAAAAATTGTTCCTGATTCGTTTACAGTGTATTGTCTGTAGGCCCAATTTGACTCAAGTTTGGAT
TAATTGGTCAGTAGGCCTATTTTATTTTTTAATTTTGAATTTTA
Found at i:1689555 original size:4 final size:4
Alignment explanation
Indices: 1689509--1689699 Score: 62
Period size: 4 Copynumber: 46.8 Consensus size: 4
1689499 AATAGGTAAG
* *
1689509 TTTA TTTTA TTT- TTATA TTTAA TTTT TTTA TCTTA TATA TTTA TTTA
1 TTTA -TTTA TTTA TT-TA TTT-A TTTA TTTA T-TTA TTTA TTTA TTTA
* * *
1689556 -TTA TGATTA TTTA TTAATA TATA TTTT TTTA -TTA TTTA TTTG TTAATA
1 TTTA T--TTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA
* * * *
1689604 TATA TGTA TTTA -TTA -TTA TTTA TCTA CTTATA TGTTA -TTA TTTA TCTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TT-TA T-TTA TTTA TTTA TTTA
* * *
1689652 -TTA -TTA -TTA -TTA TTTA TCTA TTAATA TTT- TTTA TTTA TCTA ATTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA
1689697 TTT
1 TTT
1689700 TCTTTTAATT
Statistics
Matches: 142, Mismatches: 23, Indels: 43
0.68 0.11 0.21
Matches are distributed among these distances:
3 31 0.22
4 77 0.54
5 18 0.13
6 16 0.11
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:1689594 original size:29 final size:29
Alignment explanation
Indices: 1689542--1689674 Score: 123
Period size: 29 Copynumber: 4.6 Consensus size: 29
1689532 TTTTTTATCT
1689542 TATATATTTATTTATTATGATTATTTATTAA
1 TATATATTTATTTATTAT--TTATTTATTAA
* *
1689573 TATATATTTTTTTATTATTTATTTGTTAA
1 TATATATTTATTTATTATTTATTTATTAA
* *
1689602 TATATATGTATTTATTA-TTATTTATCTAC
1 TATATATTTATTTATTATTTATTTAT-TAA
* *
1689631 T-TATATGTTA-TTATTTATCTA-TTATTAT
1 TATATAT-TTATTTA-TTATTTATTTATTAA
*
1689659 TAT-TATTTATCTATTA
1 TATATATTTATTTATTA
1689675 ATATTTTTTA
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
27 6 0.07
28 23 0.27
29 38 0.44
30 2 0.02
31 17 0.20
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (29 bp):
TATATATTTATTTATTATTTATTTATTAA
Found at i:1689665 original size:42 final size:42
Alignment explanation
Indices: 1689613--1689730 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
1689603 ATATATGTAT
1689613 TTATTATTATTTATCTACTT-ATATGTTATTATTTATCT-ATTA
1 TTATTATTATTTATCTA-TTAATAT-TTATTATTTATCTAATTA
*
1689655 TTATTATTATTTATCTATTAATATTTTTTATTTATCTAATTA
1 TTATTATTATTTATCTATTAATATTTATTATTTATCTAATTA
* * * *
1689697 TTTTCTTTTAATTATCTATTAATATTTTTTATTT
1 TTAT-TATTATTTATCTATTAATATTTATTATTT
1689731 TATTTTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
41 14 0.20
42 28 0.41
43 27 0.39
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (42 bp):
TTATTATTATTTATCTATTAATATTTATTATTTATCTAATTA
Found at i:1690573 original size:17 final size:18
Alignment explanation
Indices: 1690553--1690640 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 18
1690543 TCTTATTTTG
1690553 TTTTTGTTT-TTCTTTAA
1 TTTTTGTTTATTCTTTAA
1690570 TTTTTAGTTTATT-TTT-A
1 TTTTT-GTTTATTCTTTAA
* * *
1690587 TTTTGTTTTTTTTCTTTTA
1 TTTT-TGTTTATTCTTTAA
1690606 TTTTT-TTTATTC-TT-A
1 TTTTTGTTTATTCTTTAA
*
1690621 TTTTTTTATTATTTCTTTAA
1 TTTTTGT-TTA-TTCTTTAA
1690641 ATAAAATTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
15 6 0.10
16 3 0.05
17 24 0.41
18 15 0.26
19 9 0.16
20 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTGTTTATTCTTTAA
Found at i:1690630 original size:14 final size:14
Alignment explanation
Indices: 1690571--1690627 Score: 69
Period size: 14 Copynumber: 3.9 Consensus size: 14
1690561 TTTCTTTAAT
1690571 TTTTAGTTTATTTTTA
1 TTTTA-TTT-TTTTTA
* *
1690587 TTTTGTTTTTTTTC
1 TTTTATTTTTTTTA
1690601 TTTTATTTTTTTTA
1 TTTTATTTTTTTTA
1690615 TTCTTATTTTTTT
1 TT-TTATTTTTTT
1690628 ATTATTTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
14 19 0.53
15 13 0.36
16 4 0.11
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.82
Consensus pattern (14 bp):
TTTTATTTTTTTTA
Found at i:1690702 original size:58 final size:57
Alignment explanation
Indices: 1690651--1690986 Score: 336
Period size: 58 Copynumber: 5.8 Consensus size: 57
1690641 ATAAAATTCA
* * *
1690651 AAAAAAATATTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTC
1 AAAAAAATATTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTC
* * * * *
1690709 TAAAAAATATTTTTGAGAAAAAATTGAAAGTATCAAATTTCCTTGAAAATAAGCTTTC
1 AAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTC
* * * * *
1690767 TAAAAAATATTTTTTAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGCTTTC
1 AAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTC
* * * * * *
1690825 TAAAAAATATTTTTG-GAAAAAAGTTGAAAATATTAATTTTCCTTAAAAATAAGTTTTC
1 AAAAAAATA-TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTC
* * *
1690883 -AAAAAATGATTTTTCGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAA-AGTTTC
1 AAAAAAAT-A-TTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGA-TTTC
* * *
1690942 TAAAAAAATATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTG
1 -AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1690987 TACAAAAGCA
Statistics
Matches: 238, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
57 7 0.03
58 181 0.76
59 41 0.17
60 2 0.01
61 7 0.03
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (57 bp):
AAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGATTTC
Found at i:1690775 original size:116 final size:115
Alignment explanation
Indices: 1690652--1690986 Score: 428
Period size: 116 Copynumber: 2.9 Consensus size: 115
1690642 TAAAATTCAA
1690652 AAAAAATA-TTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCTAAAAAA
1 AAAAAATATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAG-TTTCTAAAAAA
*
1690716 TATTTTTGAGAAAAAATTGAAAGTATCAAATTTCCTTGAAAATAAGCTTTC
65 TATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
*
1690767 TAAAAAATATTTTTTAA-GAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAGCTTTCTAAAA
1 -AAAAAATATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAG-TTTCTAAAA
* * * *
1690830 AATATTTTTG-GAAAAAAGTTGAAAATATTAATTTTCCTTAAAAATAAGTTTTC
63 AATATTTTTGAGAAAAAA-TTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
** * * * *
1690883 AAAAAATGATTTTTCGAGGAAAAGTTAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAA
1 AAAAAAT-ATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTTTCTAAAAA
* * *
1690948 A-ATATTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTG
64 ATAT-TTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTG
1690987 TACAAAAGCA
Statistics
Matches: 191, Mismatches: 19, Indels: 17
0.84 0.08 0.07
Matches are distributed among these distances:
115 19 0.10
116 96 0.50
117 63 0.33
118 13 0.07
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (115 bp):
AAAAAATATTTTTAAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTCTAAAAAAT
ATTTTTGAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
Found at i:1691067 original size:16 final size:16
Alignment explanation
Indices: 1691043--1691082 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1691033 AACTGAATCA
* *
1691043 TTTTTTTTCTTTTTCG
1 TTTTATTTCTTTTCCG
*
1691059 TTTTATTTCTTTTCCT
1 TTTTATTTCTTTTCCG
1691075 TTTTATTT
1 TTTTATTT
1691083 TCTTGGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.12, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTATTTCTTTTCCG
Found at i:1691083 original size:21 final size:21
Alignment explanation
Indices: 1691042--1691083 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
1691032 AAACTGAATC
* *
1691042 ATTTTTTTTCTTTTTCGTTTT
1 ATTTTTTTCCTTTTTCATTTT
1691063 ATTTCTTTTCCTTTTT-ATTTT
1 ATTT-TTTTCCTTTTTCATTTT
1691084 CTTGGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (21 bp):
ATTTTTTTCCTTTTTCATTTT
Found at i:1701295 original size:17 final size:18
Alignment explanation
Indices: 1701268--1701305 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1701258 AGTAAAAATG
1701268 AAATGAAAAAATGAAAAA
1 AAATGAAAAAATGAAAAA
*
1701286 AAAT-AAAAAATTAAAAA
1 AAATGAAAAAATGAAAAA
1701303 AAA
1 AAA
1701306 AGAATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (18 bp):
AAATGAAAAAATGAAAAA
Found at i:1701306 original size:18 final size:18
Alignment explanation
Indices: 1701268--1701306 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1701258 AGTAAAAATG
*
1701268 AAATGAAAAAATGAAAAA
1 AAATGAAAAAATAAAAAA
1701286 AAAT-AAAAAATTAAAAAA
1 AAATGAAAAAA-TAAAAAA
1701304 AAA
1 AAA
1701307 GAATGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (18 bp):
AAATGAAAAAATAAAAAA
Found at i:1702357 original size:41 final size:40
Alignment explanation
Indices: 1702312--1702446 Score: 137
Period size: 41 Copynumber: 3.2 Consensus size: 40
1702302 GATTGTCAAG
* * *
1702312 GAGCAATTTATTTTTTGAAGTTGTGATGCCTCTGTTTAGAT
1 GAGCAATTTATTTTTAGAAGTTGTGA-GCCTCTGATTAGAA
*
1702353 GAGCAATTTATTTTCAGAAGTTGTTGAGCCTCTGATTAGAA
1 GAGCAATTTATTTTTAGAAGTTG-TGAGCCTCTGATTAGAA
* ** *
1702394 GAGCTTTATTTATTTTTCA-AAGTCATAGAGCCTCTGATTAGAG
1 GAGC--AATTTATTTTT-AGAAGTTGT-GAGCCTCTGATTAGAA
1702437 GAGCAATTTA
1 GAGCAATTTA
1702447 CTTCCTAAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
41 42 0.53
42 4 0.05
43 32 0.41
44 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (40 bp):
GAGCAATTTATTTTTAGAAGTTGTGAGCCTCTGATTAGAA
Found at i:1702442 original size:84 final size:84
Alignment explanation
Indices: 1702339--1702606 Score: 279
Period size: 84 Copynumber: 3.1 Consensus size: 84
1702329 AAGTTGTGAT
* * * * *
1702339 GCCTCTGTTTAGATGAGCAATTTATTTTCAGAAGTTGTTGAGCCTCTGATTAGAAGAGCTTTATT
1 GCCTCTGATTAGAGGAGCAATTTATTTTCA-AAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTT
1702404 TA-TTTTTCAAAGTCATAGA
65 TATTTTTTCAAAGTCATAGA
* * * *
1702423 GCCTCTGATTAGAGGAGCAATTTACTTCCTAAAGTCATTGAGCCTCTGATTAGGGGAGCTTTGTT
1 GCCTCTGATTAGAGGAGCAATTTATTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTT
* * *
1702488 TATTTATTTTCAAAGACGTTGA
65 TA-TT-TTTTCAAAGTCATAGA
* *
1702510 GCATCTGATTAGAGGAGCTTTGTTTATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCT
1 GCCTCTGATTAGAGGAGC------AATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCT
*
1702575 TTGTTTATGTTTTTTAAAGTCATTA-A
60 TTGTTTAT-TTTTTCAAAGTCA-TAGA
1702601 GCCTCT
1 GCCTCT
1702607 ACTTATGTGA
Statistics
Matches: 149, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
84 56 0.38
85 1 0.01
86 1 0.01
87 30 0.20
91 16 0.11
92 37 0.25
93 8 0.05
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (84 bp):
GCCTCTGATTAGAGGAGCAATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
ATTTTTTCAAAGTCATAGA
Found at i:1702517 original size:46 final size:46
Alignment explanation
Indices: 1702358--1702582 Score: 234
Period size: 46 Copynumber: 5.0 Consensus size: 46
1702348 TAGATGAGCA
** * *
1702358 ATTTATTTTCAGAAGTTGTTGAGCCTCTGATTAGAAGAGCTTTATTT
1 ATTTATTTTCA-AAGACGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
* * * *
1702405 A--T-TTTTCAAAGTCATAGAGCCTCTGATTAGAGGAGC------A
1 ATTTATTTTCAAAGACGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
* * * * *
1702442 ATTTACTTCCTAAAGTCATTGAGCCTCTGATTAGGGGAGCTTTGTTT
1 ATTTATTTTC-AAAGACGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
*
1702489 ATTTATTTTCAAAGACGTTGAGCATCTGATTAGAGGAGCTTTGTTT
1 ATTTATTTTCAAAGACGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
*
1702535 ATTTATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
1 ATTTATTTTCAAAGACGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
1702581 AT
1 AT
1702583 GTTTTTTAAA
Statistics
Matches: 150, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
39 1 0.01
40 3 0.02
41 27 0.18
43 24 0.16
44 6 0.04
45 1 0.01
46 78 0.52
47 9 0.06
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (46 bp):
ATTTATTTTCAAAGACGTTGAGCCTCTGATTAGAGGAGCTTTGTTT
Found at i:1702833 original size:4 final size:4
Alignment explanation
Indices: 1702796--1703015 Score: 74
Period size: 4 Copynumber: 55.8 Consensus size: 4
1702786 GTAGGCCCAT
* *
1702796 TTTA TTTT TTTA TTT- TGTA TTTTA TATT- TTTA TTTA TTTA TTT- TTGT-
1 TTTA TTTA TTTA TTTA TTTA -TTTA T-TTA TTTA TTTA TTTA TTTA TT-TA
*
1702843 TTGTA TCTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA TTTA
1 TT-TA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA
* * * * * *
1702889 TTAATA TATA TTTT TTTA -TTA TTTA TCTG TTAATA TATA TGTA TTTA
1 TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA
* * * *
1702936 -TTA TTTA TCTA CTTA TATA -TTA -TTA TTTA TCTA -TTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
1702978 -TTA TTTA TCTA TTAA TATT- TTTA TTTA TCTA ATTA TTT
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTT
1703016 TCTTTTAATT
Statistics
Matches: 162, Mismatches: 33, Indels: 42
0.68 0.14 0.18
Matches are distributed among these distances:
3 36 0.22
4 106 0.65
5 10 0.06
6 10 0.06
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:1702839 original size:36 final size:38
Alignment explanation
Indices: 1702796--1702874 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 38
1702786 GTAGGCCCAT
*
1702796 TTTATTTTTTTATTTTGTAT-TT-TATATTT-TTATTTA
1 TTTATTTTTTT-GTTTGTATCTTATATATTTATTATTTA
*
1702832 TTTA--TTTTTGTTTGTATCTTATGTATTTATTATTTA
1 TTTATTTTTTTGTTTGTATCTTATATATTTATTATTTA
1702868 TTTATTT
1 TTTATTT
1702875 ATTATTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
33 7 0.19
34 7 0.19
35 6 0.17
36 15 0.42
38 1 0.03
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (38 bp):
TTTATTTTTTTGTTTGTATCTTATATATTTATTATTTA
Found at i:1702879 original size:3 final size:3
Alignment explanation
Indices: 1702858--1703002 Score: 58
Period size: 3 Copynumber: 42.7 Consensus size: 3
1702848 TCTTATGTAT
* * *
1702858 TTA TTA TTTA TTTA TTTA TTA TTA CTA TTTA TTA ATA TATA TT- TTT
1 TTA TTA -TTA -TTA -TTA TTA TTA TTA -TTA TTA TTA T-TA TTA TTA
* *
1702904 TTA TTA TTTA TCTG TTA ATA TATA TGTA TTTA TTA TTTA TCTA CTTA TATA
1 TTA TTA -TTA T-TA TTA TTA T-TA T-TA -TTA TTA -TTA T-TA -TTA T-TA
* *
1702955 TTA TTA TTTA TCTA TTA TTA TTA TTA TTTA TCTA TTA ATA TTT TTA TT
1 TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TT
1703003 TATCTAATTA
Statistics
Matches: 112, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
2 2 0.02
3 58 0.52
4 50 0.45
5 2 0.02
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1702935 original size:29 final size:28
Alignment explanation
Indices: 1702869--1702977 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 28
1702859 TATTATTTAT
*
1702869 TTATTTATTATTACTATTTATTAATATATA
1 TTATTTATTATT--TATCTATTAATATATA
* *
1702899 TTTTTTTATTATTTATCTGTTAATATATA
1 -TTATTTATTATTTATCTATTAATATATA
1702928 TGTATTTATTATTTATCTACTT-ATATATTA
1 T-TATTTATTATTTATCTA-TTAATATA-TA
1702958 TTATTTATCTA-TTAT-TATTA
1 TTATTTAT-TATTTATCTATTA
1702978 TTATTTATCT
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 45 0.66
30 7 0.10
31 11 0.16
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATTTATTATTTATCTATTAATATATA
Found at i:1702978 original size:20 final size:20
Alignment explanation
Indices: 1702933--1703033 Score: 121
Period size: 20 Copynumber: 4.8 Consensus size: 20
1702923 ATATATGTAT
1702933 TTATTATTTATCTACTTATATA
1 TTATTATTTATCTA-TTAT-TA
1702955 TTATTATTTATCTATTATTA
1 TTATTATTTATCTATTATTA
*
1702975 TTATTATTTATCTATTAATA
1 TTATTATTTATCTATTATTA
* *
1702995 TTTTTATTTATCTAATTATTT
1 TTATTATTTATCT-ATTATTA
* *
1703016 TCTTTTAATTATCTATTA
1 T-TATTATTTATCTATTA
1703034 ACATTCTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
20 33 0.46
21 14 0.19
22 25 0.35
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (20 bp):
TTATTATTTATCTATTATTA
Found at i:1703040 original size:22 final size:22
Alignment explanation
Indices: 1702982--1703044 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1702972 TTATTATTAT
*
1702982 TTATCTATTAATA-T-TTTTAT
1 TTATCTATTAATATTCTTTTAA
*
1703002 TTATCTAATT-ATTTTCTTTTAA
1 TTATCT-ATTAATATTCTTTTAA
*
1703024 TTATCTATTAACATTCTTTTA
1 TTATCTATTAATATTCTTTTA
1703045 TTTTATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.23
21 7 0.20
22 20 0.57
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATCTATTAATATTCTTTTAA
Found at i:1703422 original size:31 final size:32
Alignment explanation
Indices: 1703376--1703443 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
1703366 AATTTTCAGA
*
1703376 TTTCGGTTGAATTTTTT-AGCGAAGTTTGAATT
1 TTTCGGTTGAATTTTTTGA-CCAAGTTTGAATT
* *
1703408 TTTCGG-TGACTTTTTTGACCAAGTTTGGATT
1 TTTCGGTTGAATTTTTTGACCAAGTTTGAATT
1703439 TTTCG
1 TTTCG
1703444 ATCAGTTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.18, C:0.10, G:0.22, T:0.50
Consensus pattern (32 bp):
TTTCGGTTGAATTTTTTGACCAAGTTTGAATT
Found at i:1703813 original size:4 final size:4
Alignment explanation
Indices: 1703804--1703844 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
1703794 CGTTCCCATG
1703804 TTAT TTAT TTAT TTAT TTAT TTA- TTA- TTA- TTA- TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1703845 AGATTAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 12 0.33
4 24 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:1703825 original size:16 final size:15
Alignment explanation
Indices: 1703804--1703845 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
1703794 CGTTCCCATG
1703804 TTATTTATTTATTTAT
1 TTATTTATTTA-TTAT
1703820 TTATTTA-TTATTA-
1 TTATTTATTTATTAT
1703833 TTA-TTATTTATTA
1 TTATTTATTTATTA
1703846 GATTAGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.12
13 9 0.36
14 3 0.12
15 3 0.12
16 7 0.28
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTATTTATTAT
Found at i:1703889 original size:11 final size:11
Alignment explanation
Indices: 1703864--1703920 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
1703854 TTGTTTATAC
*
1703864 TTTTTATCTTA
1 TTTTTATTTTA
*
1703875 -TTTTATTTTG
1 TTTTTATTTTA
* *
1703885 TTTTTCTTTAA
1 TTTTTATTTTA
1703896 TTTTTATTTTA
1 TTTTTATTTTA
1703907 TTTTT-TTATTA
1 TTTTTATT-TTA
1703918 TTT
1 TTT
1703921 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 10 0.27
11 27 0.73
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:1703893 original size:27 final size:27
Alignment explanation
Indices: 1703854--1703915 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
1703844 TAGATTAGAA
1703854 TTGTTTATACTTT-TTATCTTATTTTATT
1 TTGTTTATACTTTATT-T-TTATTTTATT
*
1703882 TTGTTT-TTCTTTAATTTTTATTTTATT
1 TTGTTTATACTTT-ATTTTTATTTTATT
1703909 TT-TTTAT
1 TTGTTTAT
1703916 TATTTCTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 3 0.10
27 18 0.60
28 7 0.23
29 2 0.07
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (27 bp):
TTGTTTATACTTTATTTTTATTTTATT
Found at i:1704001 original size:59 final size:59
Alignment explanation
Indices: 1703938--1704157 Score: 288
Period size: 58 Copynumber: 3.8 Consensus size: 59
1703928 TAAAATTCAA
1703938 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * *
1703997 AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAATAAGTTTTCA
1 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTTTTCT
* * *
1704055 AAAAATA-ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTCT
1 AAAAATATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTTTTCT
* * * *
1704114 AAAAAAAGA-TTTTGGGGAAAAGTTAAAAGTATCAATTTTTCTTG
1 AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1704158 TACAAAAGTA
Statistics
Matches: 141, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
57 5 0.04
58 81 0.57
59 47 0.33
60 8 0.06
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (59 bp):
AAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:1704078 original size:117 final size:117
Alignment explanation
Indices: 1703937--1704152 Score: 321
Period size: 117 Copynumber: 1.8 Consensus size: 117
1703927 ATAAAATTCA
* *
1703937 AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTTTTCTAAAA
1 AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAG-TTTCTAAAA
* *
1704001 AATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAGTTTTC
65 AA-AGATTTTGAGAAAAAGTTAAAAGTATCAATTTTCTTTAAAAATAAGTTTTC
*
1704054 AAAAAATA-ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAA
1 AAAAAATATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTCTAAAA
* *
1704118 AAAGATTTTGGGGAAAAGTTAAAAGTATCAATTTT
65 AAAGATTTTGAGAAAAAGTTAAAAGTATCAATTTT
1704153 TCTTGTACAA
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
116 2 0.02
117 84 0.94
118 3 0.03
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (117 bp):
AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAGTTTCTAAAAA
AAGATTTTGAGAAAAAGTTAAAAGTATCAATTTTCTTTAAAAATAAGTTTTC
Found at i:1705353 original size:22 final size:23
Alignment explanation
Indices: 1705303--1705354 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1705293 TTCCTGTTTG
* *
1705303 GTATTTTTTATTTTTTTTTCTTA
1 GTATTTTTTATTTTATTTTCATA
*
1705326 AT-TTTTTTA-TTTATTTTCATA
1 GTATTTTTTATTTTATTTTCATA
1705347 GTATTTTT
1 GTATTTTT
1705355 GCATGATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (23 bp):
GTATTTTTTATTTTATTTTCATA
Found at i:1707851 original size:42 final size:43
Alignment explanation
Indices: 1707765--1707852 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 43
1707755 TTATTCTACC
* *
1707765 ATCCTAGGTGAAAATTAGAATGAGGAAAATAAGAAAATATTTA
1 ATCCTAGGTGAAAATTAGAATGAAGAAAATAAGAAAATAATTA
1707808 ATCCTAGGTGAAAATTAGAAT-AAGAAAATAAGAAAATAATTA
1 ATCCTAGGTGAAAATTAGAATGAAGAAAATAAGAAAATAATTA
1707850 ATC
1 ATC
1707853 ACTCAACTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 22 0.51
43 21 0.49
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.25
Consensus pattern (43 bp):
ATCCTAGGTGAAAATTAGAATGAAGAAAATAAGAAAATAATTA
Found at i:1708478 original size:22 final size:22
Alignment explanation
Indices: 1708453--1708494 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1708443 AAGATTTATT
*
1708453 ATAACATTTTTTAAAAATAAAA
1 ATAACAGTTTTTAAAAATAAAA
* *
1708475 ATAATAGTTTTTATAAATAA
1 ATAACAGTTTTTAAAAATAA
1708495 TAATTATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAACAGTTTTTAAAAATAAAA
Found at i:1710828 original size:2 final size:2
Alignment explanation
Indices: 1710821--1710848 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1710811 ACACAACTCC
1710821 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1710849 GTGTCTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1720656 original size:2 final size:2
Alignment explanation
Indices: 1720649--1720678 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1720639 CAGATAACAA
*
1720649 CT CT CT CT CT CT CT CT CT CT CG CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1720679 TTTAAGACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:1721428 original size:97 final size:96
Alignment explanation
Indices: 1721289--1721487 Score: 258
Period size: 97 Copynumber: 2.1 Consensus size: 96
1721279 AAAAAATTTA
*
1721289 TTTTTTAGTAAAATTTTTTAATAATTTGATAGGATTAATTTTAAAACTT-ATTTTTGAAATT-TA
1 TTTTTTAGTAAAATTTTTTAATAATTTGATAAGATTAATTTTAAAACTTAATTTTTGAAATTCTA
** * **
1721352 TAAAGTTTTTAATAATTTGGTAAGATTTTATT
66 -AAACCTTCTAATAATTTAATAAGATTTTATT
* **
1721384 TTTTTTAAGTAAATTTTTTTTAATAATTTGATAAGATTAATTTTAAATTTTAATTTTTGAAATTC
1 TTTTTT-AGTAAA-ATTTTTTAATAATTTGATAAGATTAATTTTAAAACTTAATTTTTGAAATTC
*
1721449 GTAAAACCTTCTAATATTTTAATAAGATTTTATT
64 -TAAAACCTTCTAATAATTTAATAAGATTTTATT
1721483 TTTTT
1 TTTTT
1721488 CAAAATTATT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
95 6 0.07
96 6 0.07
97 33 0.37
98 12 0.13
99 30 0.34
100 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.55
Consensus pattern (96 bp):
TTTTTTAGTAAAATTTTTTAATAATTTGATAAGATTAATTTTAAAACTTAATTTTTGAAATTCTA
AAACCTTCTAATAATTTAATAAGATTTTATT
Found at i:1738682 original size:16 final size:16
Alignment explanation
Indices: 1738661--1738692 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1738651 AAAATCATCG
1738661 TAAATCATCATTATCA
1 TAAATCATCATTATCA
1738677 TAAATCATCATTATCA
1 TAAATCATCATTATCA
1738693 ATCAAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:1738707 original size:15 final size:15
Alignment explanation
Indices: 1738687--1738719 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1738677 TAAATCATCA
1738687 TTATCAATCAAATCG
1 TTATCAATCAAATCG
*
1738702 TTATCATTCAAATCG
1 TTATCAATCAAATCG
1738717 TTA
1 TTA
1738720 GCTACGGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (15 bp):
TTATCAATCAAATCG
Found at i:1741310 original size:65 final size:65
Alignment explanation
Indices: 1741229--1741358 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
1741219 AGTTTTTAAA
*
1741229 GATTTTTCTCATTCTAAAAATTTTATAGTTGTAAAGATTTATTTGTTAA-TGAATTAGATTTGGA
1 GATTTTTCTCATTCTAAAAATCTTATAGTTGTAAAGATTTATTTGTTAATTG-ATTAGATTTGGA
1741293 G
65 G
1741294 GATTTTTCTCATTCTAAAAATCTTATAGTTGTAAAGATTTATTTGTTAATTGATTAGATTTGGAG
1 GATTTTTCTCATTCTAAAAATCTTATAGTTGTAAAGATTTATTTGTTAATTGATTAGATTTGGAG
1741359 TAAGCCATTT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 61 0.97
66 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (65 bp):
GATTTTTCTCATTCTAAAAATCTTATAGTTGTAAAGATTTATTTGTTAATTGATTAGATTTGGAG
Found at i:1742751 original size:2 final size:2
Alignment explanation
Indices: 1742744--1742781 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1742734 TAGATCACAA
1742744 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1742782 TAAGTCTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1743385 original size:10 final size:10
Alignment explanation
Indices: 1743372--1743415 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
1743362 ACGAATTAAA
1743372 TTATATATTT
1 TTATATATTT
1743382 TTAT-TAGTTT
1 TTATATA-TTT
1743392 TTATATATTT
1 TTATATATTT
*
1743402 TTA-AAATTT
1 TTATATATTT
1743411 TTATA
1 TTATA
1743416 AAATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 10 0.33
10 18 0.60
11 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTATATATTT
Found at i:1743412 original size:20 final size:20
Alignment explanation
Indices: 1743372--1743415 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1743362 ACGAATTAAA
**
1743372 TTATATATTTTTATTAGTTT
1 TTATATATTTTTAAAAGTTT
1743392 TTATATATTTTTAAAA-TTT
1 TTATATATTTTTAAAAGTTT
1743411 TTATA
1 TTATA
1743416 AAATAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTAAAAGTTT
Found at i:1743473 original size:27 final size:27
Alignment explanation
Indices: 1743443--1743494 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1743433 TATATATAAA
1743443 TTTATTTAAATATATTAAAAATCTTAT
1 TTTATTTAAATATATTAAAAATCTTAT
*
1743470 TTTATTTAAATATATTAAAATTCTT
1 TTTATTTAAATATATTAAAAATCTT
1743495 GTTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTATTTAAATATATTAAAAATCTTAT
Found at i:1748889 original size:27 final size:27
Alignment explanation
Indices: 1748859--1748915 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1748849 TTGATACGTT
1748859 TGTTAATCTTTATCTCTTATTTGTAGG
1 TGTTAATCTTTATCTCTTATTTGTAGG
1748886 TGTTAATCTTTATCTCTTATTTGTAGG
1 TGTTAATCTTTATCTCTTATTTGTAGG
1748913 TGT
1 TGT
1748916 GGTTGTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.56
Consensus pattern (27 bp):
TGTTAATCTTTATCTCTTATTTGTAGG
Found at i:1757278 original size:45 final size:46
Alignment explanation
Indices: 1757233--1757318 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 46
1757223 TATACGTAAT
*
1757233 TTTTTA-ATAAAATAAAATATAAATATATAAATT-ATAATATATAA
1 TTTTTATATAAAATAAAATATAAATATAAAAATTAATAATATATAA
**
1757277 TTTTTATATAAAATATGATATAAATATAAAAATTAATAATAT
1 TTTTTATATAAAATAAAATATAAATATAAAAATTAATAATAT
1757319 TTTATAGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 6 0.16
45 24 0.65
46 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (46 bp):
TTTTTATATAAAATAAAATATAAATATAAAAATTAATAATATATAA
Found at i:1757340 original size:25 final size:26
Alignment explanation
Indices: 1757295--1757354 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
1757285 TAAAATATGA
1757295 TATAAATATAAAAATTAATAATATT-T
1 TATAAATATAAAAATTAATAA-ATTAT
*
1757321 TATAGAATATAAATA-T-ATAAATTAT
1 TATA-AATATAAAAATTAATAAATTAT
*
1757346 TATATATAT
1 TATAAATAT
1757355 CATCAATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
24 7 0.23
25 9 0.30
26 5 0.17
27 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
TATAAATATAAAAATTAATAAATTAT
Found at i:1757555 original size:22 final size:24
Alignment explanation
Indices: 1757519--1757564 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
1757509 ATTTATTTGT
*
1757519 TTTTTATATATTATTTTAATATAA
1 TTTTTATATATTATTTAAATATAA
1757543 TTTTTA-ATA-TATTTAAATATAA
1 TTTTTATATATTATTTAAATATAA
1757565 AATAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATATAA
Found at i:1760499 original size:14 final size:14
Alignment explanation
Indices: 1760480--1760508 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1760470 AAATGAAAAA
1760480 ATATATATATATAC
1 ATATATATATATAC
1760494 ATATATATATATAC
1 ATATATATATATAC
1760508 A
1 A
1760509 CGTGTGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:1764447 original size:1 final size:1
Alignment explanation
Indices: 1764443--1764468 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1764433 CCAAAAAGGG
1764443 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
1764469 CCTTGTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1765219 original size:30 final size:29
Alignment explanation
Indices: 1765185--1765280 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
1765175 TTCAATCGTT
*
1765185 AATAATGCATAAGGATTAAATTTTTTTAAA
1 AATAATACATAAGGATTAAA-TTTTTTAAA
** *
1765215 AATAATACTATAAAAATTAAATTTCTTAAA
1 AATAATAC-ATAAGGATTAAATTTTTTAAA
* * *
1765245 GATAATATTATAAGGATTACATTTTTT-AA
1 AATAATA-CATAAGGATTAAATTTTTTAAA
1765274 AATAATA
1 AATAATA
1765281 TTATAATAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
29 8 0.15
30 35 0.66
31 10 0.19
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (29 bp):
AATAATACATAAGGATTAAATTTTTTAAA
Found at i:1765292 original size:29 final size:29
Alignment explanation
Indices: 1765199--1765305 Score: 115
Period size: 29 Copynumber: 3.6 Consensus size: 29
1765189 ATGCATAAGG
*
1765199 ATTAAATTTTTTTAAAAATAATACTATAAAA
1 ATTAAA-TTTTTT-AAAATAATATTATAAAA
* **
1765230 ATTAAATTTCTTAAAGATAATATTATAAGG
1 ATTAAATTTTTTAAA-ATAATATTATAAAA
* *
1765260 ATTACATTTTTTAAAATAATATTATAATA
1 ATTAAATTTTTTAAAATAATATTATAAAA
* *
1765289 ATTAAATTCTTAAAAAT
1 ATTAAATTTTTTAAAAT
1765306 CAAAGAATAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 29 0.45
30 29 0.45
31 6 0.09
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTAAATTTTTTAAAATAATATTATAAAA
Found at i:1765446 original size:23 final size:23
Alignment explanation
Indices: 1765416--1765461 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1765406 ATGAAATGAA
1765416 AAAGTCATTGAAACTTAAGGTTT
1 AAAGTCATTGAAACTTAAGGTTT
1765439 AAAGTCATTGAAACTTAAGGTTT
1 AAAGTCATTGAAACTTAAGGTTT
1765462 TTATGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
AAAGTCATTGAAACTTAAGGTTT
Found at i:1768217 original size:29 final size:28
Alignment explanation
Indices: 1768176--1768231 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
1768166 AATATTAAAA
**
1768176 TATTAACATAATTTTTATTATTAAATAAG
1 TATTAACATAATTTGAATTA-TAAATAAG
1768205 TATTAATCA-AATTTGAATTATAAATAA
1 TATTAA-CATAATTTGAATTATAAATAA
1768232 TTTTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 15 0.62
30 2 0.08
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (28 bp):
TATTAACATAATTTGAATTATAAATAAG
Found at i:1769281 original size:21 final size:22
Alignment explanation
Indices: 1769243--1769283 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1769233 AAATTTAAAT
**
1769243 ATTAAATATTTATTAAATTTGA
1 ATTAAATATTTAAAAAATTTGA
1769265 ATTAAAT-TTTAAAAAATTT
1 ATTAAATATTTAAAAAATTT
1769284 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTAAATATTTAAAAAATTTGA
Found at i:1769337 original size:28 final size:25
Alignment explanation
Indices: 1769285--1769356 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 25
1769275 AAAAAATTTA
* *
1769285 TAAAATAA-AGATAATAATTTTATAT
1 TAAAATAATATATAA-AAATTTATAT
*
1769310 TAAATTTTAATATATTAAAAATTTATAT
1 TAAA--ATAATATA-TAAAAATTTATAT
1769338 TAAAATAATATATAAAAAT
1 TAAAATAATATATAAAAAT
1769357 AAAAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 11 0.28
26 7 0.18
27 3 0.08
28 15 0.38
29 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (25 bp):
TAAAATAATATATAAAAATTTATAT
Found at i:1769349 original size:13 final size:13
Alignment explanation
Indices: 1769317--1769358 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1769307 TATTAAATTT
1769317 TAATATATTAAAA
1 TAATATATTAAAA
*
1769330 -ATTTATATTAAAA
1 TA-ATATATTAAAA
*
1769343 TAATATATAAAAA
1 TAATATATTAAAA
1769356 TAA
1 TAA
1769359 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATATATTAAAA
Found at i:1769386 original size:22 final size:22
Alignment explanation
Indices: 1769350--1769391 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1769340 AAATAATATA
*
1769350 TAAAAATAAAAAAATTAAATTT
1 TAAAAATAAAAAAATCAAATTT
* *
1769372 TAAAAATTAATAAATCAAAT
1 TAAAAATAAAAAAATCAAAT
1769392 CAAATCAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAATAAAAAAATCAAATTT
Found at i:1777588 original size:25 final size:26
Alignment explanation
Indices: 1777549--1777598 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1777539 GTTCATTAAT
* *
1777549 TTTTAAATTTTATTTTTTATATATTA
1 TTTTAAATTTAATTTTTAATATATTA
1777575 TTTT-AATTTAATTTTTAATATATT
1 TTTTAAATTTAATTTTTAATATATT
1777599 TAAATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTAAATTTAATTTTTAATATATTA
Found at i:1777608 original size:26 final size:25
Alignment explanation
Indices: 1777552--1777610 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
1777542 CATTAATTTT
* * **
1777552 TAAATTTTATTTTTTATATATTATT
1 TAAATTTAATTTTTAATATATTAAA
*
1777577 TTAATTTAATTTTTAATATATTTAAA
1 TAAATTTAATTTTTAATATA-TTAAA
1777603 TAAATTTA
1 TAAATTTA
1777611 GATATAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TAAATTTAATTTTTAATATATTAAA
Found at i:1777669 original size:18 final size:18
Alignment explanation
Indices: 1777646--1777680 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1777636 ATAAAAATTT
1777646 AAAATATATAAATTAATA
1 AAAATATATAAATTAATA
*
1777664 AAAATATATAATTTAAT
1 AAAATATATAAATTAAT
1777681 TTGATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATATATAAATTAATA
Found at i:1777738 original size:13 final size:13
Alignment explanation
Indices: 1777701--1777744 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
1777691 TTTTTAATTT
*
1777701 TTTAATTTA-AAA
1 TTTAATATATAAA
1777713 TTTAAT-T-TAAA
1 TTTAATATATAAA
1777724 TTTAATATATAAA
1 TTTAATATATAAA
1777737 TTTAATAT
1 TTTAATAT
1777745 TTGAATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.34
12 7 0.24
13 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATATATAAA
Found at i:1779604 original size:3 final size:3
Alignment explanation
Indices: 1779591--1779627 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
1779581 TAATTTTTAT
*
1779591 TAA TAAA TAA TAA TAA TAA TAA TCA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1779628 AAGACAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1780954 original size:3 final size:3
Alignment explanation
Indices: 1780919--1780985 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
1780909 AATAAACATT
* *
1780919 ATA A-A ATA ATA A-A ATA AAA ATA ACTA GATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA -ATA ATA ATA ATA ATA ATA
*
1780964 ATA AAA ATGA A-A ATA A-A ATA AT
1 ATA ATA AT-A ATA ATA ATA ATA AT
1780986 TTCATAACTT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
2 8 0.16
3 36 0.71
4 6 0.12
5 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:1781228 original size:16 final size:16
Alignment explanation
Indices: 1781176--1781230 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
1781166 GAAAATTATA
*
1781176 AAATAATAATAATAAA
1 AAATAATAATAATAAT
*
1781192 AAATAATTAATTTATTAAT
1 AAATAA-TAA--TAATAAT
*
1781211 AAATAATAATAGTAAT
1 AAATAATAATAATAAT
1781227 AAAT
1 AAAT
1781231 TTTTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 16 0.48
17 3 0.09
18 3 0.09
19 11 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:1786118 original size:24 final size:24
Alignment explanation
Indices: 1786091--1786137 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1786081 AAAAAGAGAT
* *
1786091 AATGACAATTATTTTTGTTGTACC
1 AATGACAATTACTTTTGCTGTACC
*
1786115 AATGATAATTACTTTTGCTGTAC
1 AATGACAATTACTTTTGCTGTAC
1786138 TGATACATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (24 bp):
AATGACAATTACTTTTGCTGTACC
Found at i:1793030 original size:23 final size:23
Alignment explanation
Indices: 1793004--1793062 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
1792994 CCAAAATTTT
* *
1793004 AAACCCTAAAATCGGAAATCTTA
1 AAACCCTAAAATCGAAAACCTTA
* *
1793027 AAACTCT-AAATCCTAAAACCTTA
1 AAACCCTAAAAT-CGAAAACCTTA
*
1793050 AAATCCTAAAATC
1 AAACCCTAAAATC
1793063 CTGAAACCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 4 0.14
23 20 0.71
24 4 0.14
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (23 bp):
AAACCCTAAAATCGAAAACCTTA
Found at i:1793051 original size:15 final size:16
Alignment explanation
Indices: 1793019--1793060 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1793009 CTAAAATCGG
*
1793019 AAATCTTAAAACTCT-
1 AAATCCTAAAACTCTA
1793034 AAATCCTAAAAC-CTTA
1 AAATCCTAAAACTC-TA
1793050 AAATCCTAAAA
1 AAATCCTAAAA
1793061 TCCTGAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 12 0.50
16 11 0.46
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATCCTAAAACTCTA
Found at i:1799425 original size:14 final size:15
Alignment explanation
Indices: 1799408--1799436 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1799398 TTAAAAAATA
1799408 TTAAAAT-ATAATTT
1 TTAAAATAATAATTT
1799422 TTAAAATAATAATTT
1 TTAAAATAATAATTT
1799437 AATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATAATAATTT
Found at i:1799452 original size:21 final size:21
Alignment explanation
Indices: 1799418--1799457 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1799408 TTAAAATATA
1799418 ATTTTTAAAATAATAATTTAAT
1 ATTTTTAAAATAAT-ATTTAAT
*
1799440 ATTTTT-AATTAATATTTA
1 ATTTTTAAAATAATATTTA
1799458 TAAACATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAAAATAATATTTAAT
Found at i:1801339 original size:332 final size:333
Alignment explanation
Indices: 1800774--1801453 Score: 1185
Period size: 332 Copynumber: 2.0 Consensus size: 333
1800764 AAACAAAAAG
1800774 ATAAATAAAAATAAATAATGAGTGATAAAGTTTAAAATTTTTTTGATAGTTTTATTAAAAATTAA
1 ATAAATAAAAATAAATAATGAGTGATAAAGTTTAAAATTTTTTTGATAGTTTTATTAAAAATTAA
* *
1800839 AATAAACTTTATAAAATAATAAAATAAAAAATAACTAGATAATAATAATAATAACAATGAAAATG
66 AATAAACTTTATAAAATAATAAAATAAAAAATAACTAGATAATAACAATAATAAAAATGAAAATG
* *
1800904 ATTTCAAAACTTTTGATTTTTTTTTAAATTTGAAAAATAAAAAAGAATAATAACCAAAAAATATA
131 ATTTCAAAACTTTTGAATTTTTTTTAAATTTGAAAAATAAAAAAGAATAATAACCAAAAAATAAA
*
1800969 TAAAAGAATAAAAAATATATAAAAGTGGTAATGAAAATAGAATAATAAAAAGATTTTTCTCCTTG
196 TAAAAGAATAAAAAATATATAAAAGTGGTAATGAAAATAGAATAATAAAAAGATTTTTCTCCCTG
1801034 CCTAGGGAATAAAATCATTTTTT-AAAAAATAATAATAATAAATAATTTCATTTAGATATTAAAA
261 CCTAGGGAATAAAATCATTTTTTAAAAAAATAATAATAATAAATAATTTCATTTAGATATTAAAA
1801098 AATTATTA
326 AATTATTA
1801106 ATAAATAAAAATAAATAATGAGTGATAAAGTTTAAAATTTTTTTGATAGTTTTATTAAAAATTAA
1 ATAAATAAAAATAAATAATGAGTGATAAAGTTTAAAATTTTTTTGATAGTTTTATTAAAAATTAA
*
1801171 AATAAATTTTATAAAATAA-AAAATAACTAGATAATAA-TA-ATAATAACAATAATAAAAATG-A
66 AATAAACTTTATAAAATAATAAAATAA--A-A-AATAACTAGATAATAACAATAATAAAAATGAA
1801232 AATGATTTCAAAACTTTTGAATTTTTTTTAAATTTGAAAAATAAAAAAGAATAATAACCAAAAAA
127 AATGATTTCAAAACTTTTGAATTTTTTTTAAATTTGAAAAATAAAAAAGAATAATAACCAAAAAA
1801297 TAAATAAAAGAAT-AAAAATATATAAAAAGTGGTAATGAAAATAGAATAATAAAAAGATTTTTCT
192 TAAATAAAAGAATAAAAAATATAT-AAAAGTGGTAATGAAAATAGAATAATAAAAAGATTTTTCT
*
1801361 CCCTGCCTAGGGAATAAAATCATTTTTTAAAAAAATAATAATAATAAATAATTTCATTTAGATGT
256 CCCTGCCTAGGGAATAAAATCATTTTTTAAAAAAATAATAATAATAAATAATTTCATTTAGATAT
1801426 TAAAAAATTATTA
321 TAAAAAATTATTA
*
1801439 A-ATAATAAGAATAAA
1 ATA-AATAAAAATAAA
1801454 AATAAATAAT
Statistics
Matches: 333, Mismatches: 8, Indels: 13
0.94 0.02 0.04
Matches are distributed among these distances:
331 17 0.05
332 228 0.68
333 80 0.24
334 3 0.01
335 5 0.02
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.33
Consensus pattern (333 bp):
ATAAATAAAAATAAATAATGAGTGATAAAGTTTAAAATTTTTTTGATAGTTTTATTAAAAATTAA
AATAAACTTTATAAAATAATAAAATAAAAAATAACTAGATAATAACAATAATAAAAATGAAAATG
ATTTCAAAACTTTTGAATTTTTTTTAAATTTGAAAAATAAAAAAGAATAATAACCAAAAAATAAA
TAAAAGAATAAAAAATATATAAAAGTGGTAATGAAAATAGAATAATAAAAAGATTTTTCTCCCTG
CCTAGGGAATAAAATCATTTTTTAAAAAAATAATAATAATAAATAATTTCATTTAGATATTAAAA
AATTATTA
Found at i:1801461 original size:19 final size:20
Alignment explanation
Indices: 1801437--1801488 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
1801427 AAAAAATTAT
1801437 TAAATAATAA-GA-ATAAAAA
1 TAAATAATAATGATA-AAAAA
1801456 TAAATAATTAATGATAAAAAA
1 TAAATAA-TAATGATAAAAAA
1801477 TATAATAATAAT
1 TA-AATAATAAT
1801489 TTTTTATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 13 0.45
22 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
TAAATAATAATGATAAAAAA
Found at i:1801481 original size:23 final size:22
Alignment explanation
Indices: 1801426--1801485 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
1801416 ATTTAGATGT
1801426 TAAAAAATTATTAAATAA-TAAGA
1 TAAAAAA-TA-TAAATAATTAAGA
*
1801449 -ATAAAA-ATAAATAATTAATGA
1 TAAAAAATATAAATAATTAA-GA
1801470 TAAAAAATAT-AATAAT
1 TAAAAAATATAAATAAT
1801486 AATTTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 7 0.23
20 4 0.13
21 2 0.06
22 16 0.52
23 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
TAAAAAATATAAATAATTAAGA
Found at i:1801703 original size:16 final size:16
Alignment explanation
Indices: 1801682--1801716 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1801672 TCAAAATTTC
1801682 AAATCTTAAAACCTCA
1 AAATCTTAAAACCTCA
*
1801698 AAATCTTAAAATCTCA
1 AAATCTTAAAACCTCA
1801714 AAA
1 AAA
1801717 CCTTCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATCTTAAAACCTCA
Found at i:1801716 original size:24 final size:23
Alignment explanation
Indices: 1801667--1801724 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
1801657 CTTAAATCTG
* *
1801667 AAACCTCAAAATTTCAAATCTTA
1 AAACCTCAAAATTTAAAATCTCA
1801690 AAACCTCAAAATCTTAAAATCTCA
1 AAACCTCAAAAT-TTAAAATCTCA
1801714 AAACCTTCAAA
1 AAACC-TCAAA
1801725 TGAGACTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 12 0.39
24 14 0.45
25 5 0.16
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (23 bp):
AAACCTCAAAATTTAAAATCTCA
Found at i:1801725 original size:16 final size:16
Alignment explanation
Indices: 1801667--1801725 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
1801657 CTTAAATCTG
* *
1801667 AAACCTCAAAATTTC-
1 AAACCTTAAAATCTCA
* *
1801682 AAATCTTAAAACCTCA
1 AAACCTTAAAATCTCA
*
1801698 AAATCTTAAAATCTCA
1 AAACCTTAAAATCTCA
*
1801714 AAACCTTCAAAT
1 AAACCTTAAAAT
1801726 GAGACTCTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 11 0.31
16 25 0.69
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (16 bp):
AAACCTTAAAATCTCA
Found at i:1810122 original size:27 final size:26
Alignment explanation
Indices: 1810070--1810125 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
1810060 TGTTTAAAAT
**
1810070 ATTTTAATATTTGATAATCATTTTAA
1 ATTTTAATATTTGATAATCAAATTAA
1810096 ATTTTAATTAATTT-ATAATCAAATTAA
1 ATTTTAA-T-ATTTGATAATCAAATTAA
1810123 ATT
1 ATT
1810126 AAATTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 15 0.58
28 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTTTAATATTTGATAATCAAATTAA
Found at i:1810621 original size:28 final size:27
Alignment explanation
Indices: 1810580--1810642 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1810570 CAATGATACC
1810580 TATTAAA-ATAATATTTTAATAAAAATA
1 TATTAAATATAATATTTTAA-AAAAATA
*
1810607 TATTAAATATAATATTTTAAAATAATA
1 TATTAAATATAATATTTTAAAAAAATA
*
1810634 -ATTTAATAT
1 TATTAAATAT
1810643 TTTTAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 8 0.24
27 13 0.39
28 12 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAAATATAATATTTTAAAAAAATA
Found at i:1810637 original size:14 final size:13
Alignment explanation
Indices: 1810582--1810639 Score: 71
Period size: 14 Copynumber: 4.3 Consensus size: 13
1810572 ATGATACCTA
1810582 TTAAAATAATATT
1 TTAAAATAATATT
* *
1810595 TTAATAAAAATATA
1 TTAA-AATAATATT
1810609 TTAAATATAATATT
1 TTAAA-ATAATATT
*
1810623 TTAAAATAATAAT
1 TTAAAATAATATT
1810636 TTAA
1 TTAA
1810640 TATTTTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
13 16 0.42
14 22 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAAATAATATT
Found at i:1811326 original size:24 final size:25
Alignment explanation
Indices: 1811272--1811327 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
1811262 TCTCGAAACT
* * *
1811272 TATAATATTAAATACATCAAAAATT
1 TATAATATCAAATACAACAAAAATA
*
1811297 TA-AATATCAAATA-AACACAAATA
1 TATAATATCAAATACAACAAAAATA
1811320 TATAATAT
1 TATAATAT
1811328 TATCATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 15 0.58
25 2 0.08
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (25 bp):
TATAATATCAAATACAACAAAAATA
Found at i:1819218 original size:31 final size:30
Alignment explanation
Indices: 1819183--1819251 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
1819173 ATATATTATC
* * * *
1819183 AATAAATTAAATGATGATAATTTGTTAATAA
1 AATAAATTAAATAATAAGAATTTATTAAT-A
*
1819214 AATAAATTAAATAATAAGATTTTATTAATA
1 AATAAATTAAATAATAAGAATTTATTAATA
1819244 AATAAATT
1 AATAAATT
1819252 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (30 bp):
AATAAATTAAATAATAAGAATTTATTAATA
Found at i:1824064 original size:23 final size:21
Alignment explanation
Indices: 1824011--1824079 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 21
1824001 AATATAAAAA
*
1824011 TATAAAATATATATTTTTAATTT
1 TATAAAAT-T-TATATTTAATTT
*
1824034 TATTAAATTTATATTTAATTAT
1 TATAAAATTTATATTTAATT-T
*
1824056 TACTAAAATTTATATATAGATTT
1 TA-TAAAATTTATATTTA-ATTT
1824079 T
1 T
1824080 TAATTGGGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 10 0.26
22 4 0.10
23 22 0.56
24 3 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
TATAAAATTTATATTTAATTT
Found at i:1834225 original size:16 final size:16
Alignment explanation
Indices: 1834204--1834235 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1834194 TTCACTTTAC
1834204 CGCTAATTGAATCTAA
1 CGCTAATTGAATCTAA
1834220 CGCTAATTGAATCTAA
1 CGCTAATTGAATCTAA
1834236 ATGTCAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
CGCTAATTGAATCTAA
Found at i:1835680 original size:30 final size:30
Alignment explanation
Indices: 1835646--1835702 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1835636 TAATTGAATA
* *
1835646 AAAATAGATGTATAAAAGTTTAATTAAGTG
1 AAAATAAATGTATAAAAGTTCAATTAAGTG
* *
1835676 AAAATAAATGTTTAAGAGTTCAATTAA
1 AAAATAAATGTATAAAAGTTCAATTAA
1835703 TTTGAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.14, T:0.33
Consensus pattern (30 bp):
AAAATAAATGTATAAAAGTTCAATTAAGTG
Found at i:1835764 original size:29 final size:29
Alignment explanation
Indices: 1835708--1835765 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1835698 ATTAATTTGA
* * *
1835708 AATAAAAGATTCAAGATTTAATTAATTAT
1 AATAAAAGATTAAAAATTTAAATAATTAT
* *
1835737 AATAAAATATTAAAAATTTAAATGATTAT
1 AATAAAAGATTAAAAATTTAAATAATTAT
1835766 TAAATTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (29 bp):
AATAAAAGATTAAAAATTTAAATAATTAT
Found at i:1837422 original size:26 final size:26
Alignment explanation
Indices: 1837367--1837424 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
1837357 TTTTTTATTA
* *
1837367 AAATTTTTTTCAATTGTAATTATAAT
1 AAATTTTTTTCAATTGTAACTACAAT
* *
1837393 -AATTTTTTTTAATTGTAGCTACAAT
1 AAATTTTTTTCAATTGTAACTACAAT
1837418 AAATTTT
1 AAATTTT
1837425 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (26 bp):
AAATTTTTTTCAATTGTAACTACAAT
Found at i:1838073 original size:17 final size:18
Alignment explanation
Indices: 1838041--1838076 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1838031 GATTATGATA
*
1838041 AAATTTAAAAATTTATTG
1 AAATTGAAAAATTTATTG
1838059 AAATTGAAAAA-TTATTG
1 AAATTGAAAAATTTATTG
1838076 A
1 A
1838077 GCGGTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
AAATTGAAAAATTTATTG
Found at i:1838480 original size:26 final size:26
Alignment explanation
Indices: 1838451--1838525 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 26
1838441 CATAAAAATT
1838451 TAATTTTATTAAAAATAATATTTTAA
1 TAATTTTATTAAAAATAATATTTTAA
* * *
1838477 TAATAAATATATTAAAATTAATTTTTTAA
1 TAAT---TTTATTAAAAATAATATTTTAA
*
1838506 AAATTTTA-TAAAAATTAATA
1 TAATTTTATTAAAAA-TAATA
1838526 CATAATAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
25 5 0.13
26 11 0.29
29 22 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATTTTATTAAAAATAATATTTTAA
Found at i:1838508 original size:15 final size:15
Alignment explanation
Indices: 1838443--1838510 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
1838433 CAAAAAATCA
*
1838443 TAAAAATTTAATTTTAT
1 TAAAAA-TTAATATT-T
1838460 TAAAAA-TAATATTT
1 TAAAAATTAATATTT
* * *
1838474 TAATAATAAATATAT
1 TAAAAATTAATATTT
*
1838489 T-AAAATTAATTTTT
1 TAAAAATTAATATTT
1838503 TAAAAATT
1 TAAAAATT
1838511 TTATAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
14 16 0.39
15 19 0.46
17 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAAATTAATATTT
Found at i:1845981 original size:22 final size:22
Alignment explanation
Indices: 1845956--1846007 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1845946 GAGTTCCTCC
* *
1845956 GGTTCATTTTCTGTCTTCCGCG
1 GGTTCATTCTCTCTCTTCCGCG
*
1845978 GGTTCATTCTCTCTCTTCCGCT
1 GGTTCATTCTCTCTCTTCCGCG
1846000 GGTTCATT
1 GGTTCATT
1846008 GATTTGCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.06, C:0.29, G:0.19, T:0.46
Consensus pattern (22 bp):
GGTTCATTCTCTCTCTTCCGCG
Found at i:1846693 original size:12 final size:12
Alignment explanation
Indices: 1846676--1846700 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1846666 TTTGCTTTGG
1846676 TCCCACCAACCT
1 TCCCACCAACCT
1846688 TCCCACCAACCT
1 TCCCACCAACCT
1846700 T
1 T
1846701 TTATTTGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.56, G:0.00, T:0.20
Consensus pattern (12 bp):
TCCCACCAACCT
Found at i:1848610 original size:12 final size:12
Alignment explanation
Indices: 1848593--1848661 Score: 54
Period size: 12 Copynumber: 5.7 Consensus size: 12
1848583 AAAAATTTTT
1848593 TTTAATTATTTA
1 TTTAATTATTTA
1848605 TTTAATT-TTATA
1 TTTAATTATT-TA
*
1848617 TTTAATTTTTTA
1 TTTAATTATTTA
* *
1848629 TATT-TTTATATA
1 T-TTAATTATTTA
1848641 TTTAATT-TTATA
1 TTTAATTATT-TA
1848653 TTTATATTA
1 TTTA-ATTA
1848662 AAAATAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 5 0.11
12 33 0.73
13 7 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATTATTTA
Found at i:1848622 original size:24 final size:23
Alignment explanation
Indices: 1848586--1848656 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 23
1848576 TATAAAAAAA
1848586 AATTTT-T-TTTAATTATTTATTT
1 AATTTTATATTTAATT-TTTATTT
1848608 AATTTTATATTTAATTTTTTATATT
1 AATTTTATATTTAA-TTTTTAT-TT
1848633 --TTTATATATTTAATTTTATATTT
1 AATTT-TATATTTAATTTT-TATTT
1848656 A
1 A
1848657 TATTAAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
22 6 0.14
23 10 0.24
24 22 0.52
25 4 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
AATTTTATATTTAATTTTTATTT
Found at i:1852101 original size:15 final size:16
Alignment explanation
Indices: 1852081--1852115 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
1852071 CTTTACGTGT
1852081 AAAAAAAACAAAAAA-
1 AAAAAAAACAAAAAAC
1852096 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
1852112 AAAA
1 AAAA
1852116 GGTGTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:1853823 original size:18 final size:17
Alignment explanation
Indices: 1853802--1853853 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
1853792 ATTTTTTTTA
1853802 TTTATATTCAAATAAATT
1 TTTATATTCAAA-AAATT
*
1853820 TTTAT-TTCAAAAAAATAA
1 TTTATATTC-AAAAAAT-T
1853838 TTTATATT-AAAAAATT
1 TTTATATTCAAAAAATT
1853854 ATTCAAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 14 0.48
18 13 0.45
19 2 0.07
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTATATTCAAAAAATT
Found at i:1853830 original size:17 final size:18
Alignment explanation
Indices: 1853802--1853851 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
1853792 ATTTTTTTTA
*
1853802 TTTATATTCAAATAAATT
1 TTTATATTCAAAAAAATT
*
1853820 TTTAT-TTCAAAAAAATAA
1 TTTATATTCAAAAAAAT-T
1853838 TTTATATT-AAAAAA
1 TTTATATTCAAAAAA
1853852 TTATTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 10 0.36
18 16 0.57
19 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATATTCAAAAAAATT
Done.