Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 14 of 133
Found at i:3626253 original size:20 final size:21
Alignment explanation
Indices: 3626228--3626274 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3626218 TGGGGATAAG
3626228 ATCAAA-GACCATGAACCCCC
1 ATCAAAGGACCATGAACCCCC
* *
3626248 ATCAAAGGGCCTTGAACCCCC
1 ATCAAAGGACCATGAACCCCC
3626269 ATCAAA
1 ATCAAA
3626275 AGCGCCTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.38, C:0.36, G:0.13, T:0.13
Consensus pattern (21 bp):
ATCAAAGGACCATGAACCCCC
Found at i:3626276 original size:22 final size:21
Alignment explanation
Indices: 3626239--3626281 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
3626229 TCAAAGACCA
*
3626239 TGAACCCCCATCAAAGGGCCT
1 TGAACCCCCATCAAAGCGCCT
3626260 TGAACCCCCATCAAAAGCGCCT
1 TGAACCCCCATC-AAAGCGCCT
3626282 GTGGCAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.40, G:0.16, T:0.14
Consensus pattern (21 bp):
TGAACCCCCATCAAAGCGCCT
Found at i:3627048 original size:28 final size:28
Alignment explanation
Indices: 3627016--3627071 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
3627006 AATAACAAAT
3627016 TGATTGAGAGACTGGGGATTGGCACATC
1 TGATTGAGAGACTGGGGATTGGCACATC
3627044 TGATTGAGAGACTGGGGATTGGCACATC
1 TGATTGAGAGACTGGGGATTGGCACATC
3627072 ACCAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (28 bp):
TGATTGAGAGACTGGGGATTGGCACATC
Found at i:3630632 original size:27 final size:27
Alignment explanation
Indices: 3630592--3630656 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 27
3630582 TATATATTTT
*
3630592 TTTTATATTTTA-T-TTAAAAACTATA
1 TTTTATATTTTATTATTAAAAAATATA
3630617 TTTTATAATTTATATTATTAAAAAATATA
1 TTTTAT-ATTT-TATTATTAAAAAATATA
**
3630646 TAATATATTTT
1 TTTTATATTTT
3630657 TTTAATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 6 0.18
26 4 0.12
27 3 0.09
28 5 0.15
29 15 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTATATTTTATTATTAAAAAATATA
Found at i:3631139 original size:25 final size:25
Alignment explanation
Indices: 3631107--3631171 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
3631097 AAATAAGCTT
* *
3631107 GATT-TTTATATTCGATAAGAATTC
1 GATTATTTATATTCAATAAGAACTC
*
3631131 GATTATTTATACTT-AATAAGAGCTC
1 GATTATTTATA-TTCAATAAGAACTC
3631156 GATTATTTATATTCAA
1 GATTATTTATATTCAA
3631172 GTTTGAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 6 0.17
25 27 0.77
26 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (25 bp):
GATTATTTATATTCAATAAGAACTC
Found at i:3631217 original size:14 final size:14
Alignment explanation
Indices: 3631195--3631227 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3631185 ATATTTTATT
*
3631195 AATTAAAATATAAA
1 AATTTAAATATAAA
3631209 AATTTAAATATAAA
1 AATTTAAATATAAA
3631223 AATTT
1 AATTT
3631228 GATTAAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTTAAATATAAA
Found at i:3637492 original size:20 final size:20
Alignment explanation
Indices: 3637467--3637508 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
3637457 CCCACCCACC
3637467 ACCACGGAGAGAGTTAGTTG
1 ACCACGGAGAGAGTTAGTTG
3637487 ACCACGGAGAGAGTTAGTTG
1 ACCACGGAGAGAGTTAGTTG
3637507 AC
1 AC
3637509 TAATAACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (20 bp):
ACCACGGAGAGAGTTAGTTG
Found at i:3637585 original size:15 final size:15
Alignment explanation
Indices: 3637565--3637594 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3637555 CGGCTATGGA
3637565 AAAATTGAAATTTGG
1 AAAATTGAAATTTGG
3637580 AAAATTGAAATTTGG
1 AAAATTGAAATTTGG
3637595 TGACTGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
AAAATTGAAATTTGG
Found at i:3638218 original size:48 final size:48
Alignment explanation
Indices: 3638143--3638236 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
3638133 CAACTTAATC
*
3638143 AAATCCATTTTACACCTTAATTGTTTTGGCATC-CATACATATTTGTAT
1 AAATCCATTTTACACCTTAATTGTTTTGGCA-CACATACATAATTGTAT
*
3638191 AAATCCCTTTTACACCTTAA-TGATTTTGGCACACATACATAATTGT
1 AAATCCATTTTACACCTTAATTG-TTTTGGCACACATACATAATTGT
3638237 GTCGTAGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 3 0.07
48 39 0.93
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (48 bp):
AAATCCATTTTACACCTTAATTGTTTTGGCACACATACATAATTGTAT
Found at i:3639417 original size:18 final size:18
Alignment explanation
Indices: 3639396--3639443 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
3639386 ATTTATAAAC
3639396 AATATTATATTAACAAAT
1 AATATTATATTAACAAAT
*
3639414 AATA-TATTATTAATAAAT
1 AATATTA-TATTAACAAAT
3639432 AATATTATATTA
1 AATATTATATTA
3639444 TATCAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 2 0.07
18 23 0.85
19 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTATATTAACAAAT
Found at i:3639430 original size:36 final size:36
Alignment explanation
Indices: 3639375--3639461 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
3639365 AATGATTTTG
* *
3639375 AATATAATTTTATTTATAAACAATATTATATTA-A-C
1 AATA-AATATTATTAATAAACAATATTATATTATATC
*
3639410 AAATAATATATTATTAATAAATAATATTATATTATATC
1 -AATAA-ATATTATTAATAAACAATATTATATTATATC
3639448 AATAAATATTATTA
1 AATAAATATTATTA
3639462 TAGTAATGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
35 1 0.02
36 37 0.82
37 6 0.13
38 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (36 bp):
AATAAATATTATTAATAAACAATATTATATTATATC
Found at i:3639441 original size:23 final size:23
Alignment explanation
Indices: 3639412--3639524 Score: 80
Period size: 22 Copynumber: 5.1 Consensus size: 23
3639402 ATATTAACAA
3639412 ATAATATATTATTAATAAATAAT
1 ATAATATATTATTAATAAATAAT
3639435 AT--TATATTATATCAATAAAT-AT
1 ATAATATATTAT-T-AATAAATAAT
* * * *
3639457 -TATTATAGTAATGAATAAATATT
1 ATAATATA-TTATTAATAAATAAT
*
3639480 ATAATA-ATAACTTAAT-AAT-AT
1 ATAATATATTA-TTAATAAATAAT
*
3639501 ATAATATATTA-AAATAAATAAT
1 ATAATATATTATTAATAAATAAT
3639523 AT
1 AT
3639525 GTTATTAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 23
0.70 0.08 0.23
Matches are distributed among these distances:
20 3 0.04
21 19 0.27
22 23 0.32
23 19 0.27
24 7 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAATATATTATTAATAAATAAT
Found at i:3639460 original size:18 final size:18
Alignment explanation
Indices: 3639410--3639564 Score: 61
Period size: 18 Copynumber: 8.1 Consensus size: 18
3639400 TTATATTAAC
3639410 AAATAATATATTATTA-AT
1 AAATAA-ATATTATTATAT
3639428 AAAT-AATATTATATTATAT
1 AAATAAATA-T-TATTATAT
*
3639447 CAATAAATATTATTATAGT
1 AAATAAATATTATTATA-T
*
3639466 AATGAATAAATATTATAATAAT
1 -A--AATAAATATTATTAT-AT
* *
3639488 AACTTAATAATATATAATATATT
1 AA-AT-A-AATAT-TATTATA-T
*
3639511 AAAATAAATAATATGT-TAT
1 -AAATAAATATTAT-TATAT
*
3639530 TAATATAATA-TATTA-AT
1 AAATA-AATATTATTATAT
*
3639547 AAAT-AATATTATAATAT
1 AAATAAATATTATTATAT
3639564 A
1 A
3639565 GTACTAAATG
Statistics
Matches: 105, Mismatches: 12, Indels: 41
0.66 0.08 0.26
Matches are distributed among these distances:
15 4 0.04
16 7 0.07
17 11 0.10
18 23 0.22
19 13 0.12
20 9 0.09
21 7 0.07
22 22 0.21
23 7 0.07
24 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (18 bp):
AAATAAATATTATTATAT
Found at i:3639559 original size:23 final size:23
Alignment explanation
Indices: 3639421--3639578 Score: 88
Period size: 23 Copynumber: 6.7 Consensus size: 23
3639411 AATAATATAT
*
3639421 TATTAATAAATAATATTATATTA
1 TATTAATAAATAATATTATAATA
* * *
3639444 TATCAATAAATATTATTATAGTA
1 TATTAATAAATAATATTATAATA
* * *
3639467 -ATGAATAAATATTATAATAATA
1 TATTAATAAATAATATTATAATA
* *
3639489 -ACTTAAT-AATATATAATATATTAA
1 TA-TTAATAAATA-ATATTATAAT-A
* * **
3639513 AATAAATAATATGTTATTAATATAATA
1 TATTAATAA-ATAATATT-ATA--ATA
3639540 TATTAATAAATAATATTATAATA
1 TATTAATAAATAATATTATAATA
* * *
3639563 TAGTACTAAATGATAT
1 TATTAATAAATAATAT
3639579 AAAAATAATA
Statistics
Matches: 103, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
22 24 0.23
23 46 0.45
24 5 0.05
25 8 0.08
26 11 0.11
27 8 0.08
28 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (23 bp):
TATTAATAAATAATATTATAATA
Found at i:3639585 original size:23 final size:23
Alignment explanation
Indices: 3639536--3639585 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
3639526 TTATTAATAT
* * *
3639536 AATATATTAATAAATAATATTAT
1 AATATAGTAATAAATAATATAAA
* *
3639559 AATATAGTACTAAATGATATAAA
1 AATATAGTAATAAATAATATAAA
3639582 AATA
1 AATA
3639586 ATAAATATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATAGTAATAAATAATATAAA
Found at i:3639736 original size:18 final size:18
Alignment explanation
Indices: 3639690--3639726 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
3639680 TTTAATATAC
*
3639690 TTTAAT-AATAAATAGTT
1 TTTAATAAATTAATAGTT
3639707 TTTAATAAATTAATAGTT
1 TTTAATAAATTAATAGTT
3639725 TT
1 TT
3639727 ATTAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTAATAAATTAATAGTT
Found at i:3640599 original size:35 final size:34
Alignment explanation
Indices: 3640531--3640642 Score: 115
Period size: 33 Copynumber: 3.3 Consensus size: 34
3640521 TATGCATTTT
*
3640531 TAATAAGTTATATAATTTATCTTAAA-TAT-ATATC
1 TAATAAGTTATATAATTTATC--AAATTTTCATATC
*
3640565 TAATAAAGTTATATAATATATCAAATTTTCATATC
1 TAAT-AAGTTATATAATTTATCAAATTTTCATATC
* * *
3640600 TTATAAGTTA-AAAATTTATCGAATTTTCATA-C
1 TAATAAGTTATATAATTTATCAAATTTTCATATC
3640632 TCAATAAGTTA
1 T-AATAAGTTA
3640643 AAAAAAATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
32 2 0.03
33 29 0.43
34 12 0.18
35 24 0.36
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (34 bp):
TAATAAGTTATATAATTTATCAAATTTTCATATC
Found at i:3641926 original size:30 final size:31
Alignment explanation
Indices: 3641867--3641932 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 31
3641857 TAATAATAAC
3641867 ATAGTTTTGACTATAAATTCACCCCAAGAGAT
1 ATAGTTTTGACTATAAATTCA-CCCAAGAGAT
3641899 ATAGTTTTGAGC-ATAAATTCA-CCAAGAGAT
1 ATAGTTTTGA-CTATAAATTCACCCAAGAGAT
3641929 ATAG
1 ATAG
3641933 ATAGGTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 13 0.39
32 19 0.58
33 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (31 bp):
ATAGTTTTGACTATAAATTCACCCAAGAGAT
Found at i:3650785 original size:24 final size:23
Alignment explanation
Indices: 3650753--3650803 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
3650743 ACCGAAATAT
3650753 CAAACAAAATAAATGAATAAATAAAA
1 CAAA-AAAA-AAATGAATAAA-AAAA
* *
3650779 CAAAAAAAAAATTAATTAAAAAA
1 CAAAAAAAAAATGAATAAAAAAA
3650802 CA
1 CA
3650804 TACCTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 9 0.39
25 4 0.17
26 4 0.17
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.16
Consensus pattern (23 bp):
CAAAAAAAAAATGAATAAAAAAA
Found at i:3656601 original size:22 final size:21
Alignment explanation
Indices: 3656563--3656613 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
3656553 GATATTTTTA
* *
3656563 AATA-TTTAAATTTAAAAAAT
1 AATATTTTATATTTTAAAAAT
3656583 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
3656604 AATATTTTAT
1 AATATTTTAT
3656614 TAATTTCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:3660166 original size:26 final size:26
Alignment explanation
Indices: 3660137--3660193 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
3660127 TTATTACCTA
* *
3660137 AAATTTTTTAAAAAATTT-ATCATTTG
1 AAATTTTCT-AAAAATTTCAACATTTG
3660163 AAA-TTTCTAAAAATTTCAACATTTG
1 AAATTTTCTAAAAATTTCAACATTTG
3660188 ATAATT
1 A-AATT
3660194 AGTATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 8 0.31
25 12 0.46
26 5 0.19
27 1 0.04
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (26 bp):
AAATTTTCTAAAAATTTCAACATTTG
Found at i:3661903 original size:17 final size:19
Alignment explanation
Indices: 3661868--3661904 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3661858 CCTTAATTAT
3661868 TTTAAATAATATTATTTTTA
1 TTTAAATAATA-TATTTTTA
3661888 TTTAAATAATA-ATTTTT
1 TTTAAATAATATATTTTT
3661905 TGGTCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAAATAATATATTTTTA
Found at i:3662170 original size:24 final size:26
Alignment explanation
Indices: 3662137--3662187 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3662127 TTTTGTTTTT
* *
3662137 ATTATTAA-TTATTAAAAAAAT-AAA
1 ATTATGAATTTATAAAAAAAATGAAA
3662161 ATTATGAATTTATAAAAAAAATGAAA
1 ATTATGAATTTATAAAAAAAATGAAA
3662187 A
1 A
3662188 ATGTATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 12 0.52
26 4 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
ATTATGAATTTATAAAAAAAATGAAA
Found at i:3662188 original size:27 final size:24
Alignment explanation
Indices: 3662137--3662198 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 24
3662127 TTTTGTTTTT
*
3662137 ATTATTAA-TTATTAAAAAAATAAA
1 ATTA-TAATTTATAAAAAAAATAAA
3662161 ATTATGAATTTATAAAAAAAATGAAAA
1 ATTAT-AATTTATAAAAAAAAT--AAA
3662188 ATGTATAATTT
1 AT-TATAATTT
3662199 TAGCCTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
23 1 0.03
24 6 0.19
25 12 0.38
27 10 0.31
28 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (24 bp):
ATTATAATTTATAAAAAAAATAAA
Found at i:3677609 original size:26 final size:29
Alignment explanation
Indices: 3677548--3677614 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
3677538 CTAACAGTGC
3677548 ATAAAATTTATATATTAATAGTATATTAAAT
1 ATAAAATTT-TATATTAATAGTATATT-AAT
*
3677579 ATAAAATTTTA-ATTAATA-TATCATTATT
1 ATAAAATTTTATATTAATAGTAT-ATTAAT
3677607 A-AAAATTT
1 ATAAAATTT
3677615 ATTAGGGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 6 0.18
29 10 0.29
30 2 0.06
31 9 0.26
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
ATAAAATTTTATATTAATAGTATATTAAT
Found at i:3678637 original size:61 final size:61
Alignment explanation
Indices: 3678561--3678683 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
3678551 AAGCCTCGGA
3678561 TCTTTTATAAATAAATTGGGTAATCATTCATGTCCCTCTCTCTTTTTTTTTCAGCCACAAT
1 TCTTTTATAAATAAATTGGGTAATCATTCATGTCCCTCTCTCTTTTTTTTTCAGCCACAAT
3678622 TCTTTTATAAATAAATTGGGTAATCATTCATGTCCCTCTCTCTTTTTTTTTCAGCCACAAT
1 TCTTTTATAAATAAATTGGGTAATCATTCATGTCCCTCTCTCTTTTTTTTTCAGCCACAAT
3678683 T
1 T
3678684 TCAATTTCAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.46
Consensus pattern (61 bp):
TCTTTTATAAATAAATTGGGTAATCATTCATGTCCCTCTCTCTTTTTTTTTCAGCCACAAT
Found at i:3679455 original size:11 final size:12
Alignment explanation
Indices: 3679439--3679490 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
3679429 ATTGTATAAA
3679439 ATATTATA-TTT
1 ATATTATATTTT
3679450 ATATTATATTTT
1 ATATTATATTTT
* * *
3679462 ATATAAAAATTAT
1 ATAT-TATATTTT
*
3679475 ATGTTATATTTT
1 ATATTATATTTT
3679487 ATAT
1 ATAT
3679491 CAATATAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
11 8 0.26
12 15 0.48
13 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:3679465 original size:18 final size:18
Alignment explanation
Indices: 3679442--3679490 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
3679432 GTATAAAATA
*
3679442 TTATATTTATATTATATT
1 TTATATTTATATTATATG
** *
3679460 TTATATAAAAATTATATG
1 TTATATTTATATTATATG
3679478 TTATATTTTATAT
1 TTATA-TTTATAT
3679491 CAATATAAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TTATATTTATATTATATG
Found at i:3679497 original size:31 final size:29
Alignment explanation
Indices: 3679433--3679502 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
3679423 GTTTATATTG
**
3679433 TATAAAATATTATATTTATATTATATTTTA
1 TATAAAA-ATTATATTTATATTATATTCAA
*
3679463 TATAAAAATTATATGTTATATTTTATATCAA
1 TATAAAAATTATAT-TTATATTATAT-TCAA
3679494 TATAAAAAT
1 TATAAAAAT
3679503 ATAAAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 17 0.49
31 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
TATAAAAATTATATTTATATTATATTCAA
Found at i:3688603 original size:11 final size:11
Alignment explanation
Indices: 3688587--3688617 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
3688577 AATCCTATAA
3688587 GAGATTTGTTT
1 GAGATTTGTTT
3688598 GAGATTTGTTT
1 GAGATTTGTTT
3688609 GAGATTTGT
1 GAGATTTGT
3688618 CAGATATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:3689806 original size:18 final size:18
Alignment explanation
Indices: 3689779--3689818 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
3689769 TTTCCCACCT
* *
3689779 AAAAGAAAAATAAAGTAA
1 AAAAGAAAAAAAAAATAA
*
3689797 AAAAGCAAAAAAAAATAA
1 AAAAGAAAAAAAAAATAA
3689815 AAAA
1 AAAA
3689819 ATCCAGCGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAAAAAATAA
Found at i:3692298 original size:18 final size:18
Alignment explanation
Indices: 3692277--3692312 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3692267 GTTCAAAAGA
3692277 AAATACCTATTCATAGCT
1 AAATACCTATTCATAGCT
*
3692295 AAATACCTATTTATAGCT
1 AAATACCTATTCATAGCT
3692313 GATTATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (18 bp):
AAATACCTATTCATAGCT
Found at i:3698058 original size:12 final size:12
Alignment explanation
Indices: 3698043--3698081 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
3698033 CCTTCTCCCT
3698043 TTCCTTTTCACG
1 TTCCTTTTCACG
* * *
3698055 TTCCTTCTCTCT
1 TTCCTTTTCACG
3698067 TTCCTTTTCACG
1 TTCCTTTTCACG
3698079 TTC
1 TTC
3698082 TTTCTCCCTT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.05, C:0.36, G:0.05, T:0.54
Consensus pattern (12 bp):
TTCCTTTTCACG
Found at i:3698061 original size:24 final size:24
Alignment explanation
Indices: 3698033--3698093 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
3698023 TTGCTTTCTG
3698033 CCTTCTCCCTTTCCTTTTCACGTT
1 CCTTCTCCCTTTCCTTTTCACGTT
*
3698057 CCTTCTCTCTTTCCTTTTCACGTT
1 CCTTCTCCCTTTCCTTTTCACGTT
*
3698081 CTTTCTCCCTTTC
1 CCTTCTCCCTTTC
3698094 ATGTCTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.03, C:0.41, G:0.03, T:0.52
Consensus pattern (24 bp):
CCTTCTCCCTTTCCTTTTCACGTT
Found at i:3698160 original size:6 final size:6
Alignment explanation
Indices: 3698149--3698183 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
3698139 CCGGTCAACC
3698149 TCTTTA TCTTTA TCTTTA TCTTTA TCTTTA TCTTT
1 TCTTTA TCTTTA TCTTTA TCTTTA TCTTTA TCTTT
3698184 GTCCTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTTA
Found at i:3698191 original size:18 final size:18
Alignment explanation
Indices: 3698152--3698207 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
3698142 GTCAACCTCT
* *
3698152 TTATCTTTATCTTTATCT
1 TTATCTTTATCTTTGTCC
3698170 TTATCTTTATCTTTGTCC
1 TTATCTTTATCTTTGTCC
* * *
3698188 TTATCATTGTCTCTGTCC
1 TTATCTTTATCTTTGTCC
3698206 TT
1 TT
3698208 TTCGATATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.61
Consensus pattern (18 bp):
TTATCTTTATCTTTGTCC
Found at i:3699000 original size:245 final size:244
Alignment explanation
Indices: 3698571--3699062 Score: 966
Period size: 245 Copynumber: 2.0 Consensus size: 244
3698561 TGAATGTGTA
*
3698571 AAACCTGCAGACATTTGATAAGCAGAAGATAAGATACATCGGACATTATATAAAAGAACACTCAT
1 AAACCTGCAGACATTTGATAAGCAGAAGATAAGATACATCAGACATTATATAAAAGAACACTCAT
3698636 TTGAAGCTTGAAAAGCAATAATGTACAACCAAGGAATCCTCCACCTATTTTTCCCTATATAAGCA
66 TTGAAGCTTGAAAAGCAATAATGTACAACCAAGGAATCCTCCACCTATTTTTCCCTATATAAGCA
3698701 TCATCATGTAAACAAAGAGCAGAACTCAAAATAACCTAAATTGTTTCTTAGTTTTTTTAGATTAG
131 TCATCATGTAAACAAAGAGCAGAACTCAAAATAACCTAAATTGTTTCTTAGTTTTTTTAGATTAG
3698766 ACTATGTAGGAAGGAAAATTGAGGGGCAAGAAATAGAAGGAGAGGGAGG
196 ACTATGTAGGAAGGAAAATTGAGGGGCAAGAAATAGAAGGAGAGGGAGG
3698815 AAACCTGCAGACATTTGATAAGCAGAAGATAAGATACATCAGACATTATATAAAAGAACCACTCA
1 AAACCTGCAGACATTTGATAAGCAGAAGATAAGATACATCAGACATTATATAAAAGAA-CACTCA
3698880 TTTGAAGCTTGAAAAGCAATAATGTACAACCAAGGAATCCTCCACCTATTTTTCCCTATATAAGC
65 TTTGAAGCTTGAAAAGCAATAATGTACAACCAAGGAATCCTCCACCTATTTTTCCCTATATAAGC
3698945 ATCATCATGTAAACAAAGAGCAGAACTCAAAATAACCTAAATTGTTTCTTAGTTTTTTTAGATTA
130 ATCATCATGTAAACAAAGAGCAGAACTCAAAATAACCTAAATTGTTTCTTAGTTTTTTTAGATTA
3699010 GACTATGTAGGAAGGAAAATTGAGGGGCAAGAAATAGAAGGAGAGGGAGG
195 GACTATGTAGGAAGGAAAATTGAGGGGCAAGAAATAGAAGGAGAGGGAGG
3699060 AAA
1 AAA
3699063 GCTGTTTTTC
Statistics
Matches: 246, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
244 57 0.23
245 189 0.77
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.25
Consensus pattern (244 bp):
AAACCTGCAGACATTTGATAAGCAGAAGATAAGATACATCAGACATTATATAAAAGAACACTCAT
TTGAAGCTTGAAAAGCAATAATGTACAACCAAGGAATCCTCCACCTATTTTTCCCTATATAAGCA
TCATCATGTAAACAAAGAGCAGAACTCAAAATAACCTAAATTGTTTCTTAGTTTTTTTAGATTAG
ACTATGTAGGAAGGAAAATTGAGGGGCAAGAAATAGAAGGAGAGGGAGG
Found at i:3706301 original size:11 final size:11
Alignment explanation
Indices: 3706285--3706310 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3706275 ATGATTCTAC
3706285 TTATATATTAA
1 TTATATATTAA
3706296 TTATATATTAA
1 TTATATATTAA
3706307 TTAT
1 TTAT
3706311 TTTTTTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATATATTAA
Found at i:3709033 original size:19 final size:20
Alignment explanation
Indices: 3708991--3709033 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
3708981 ATATATGTTC
* *
3708991 ATTTTATTTTTTACTTTTGT
1 ATTTTATTTTATACTTTTAT
3709011 -TTTTATTTTATA-TTTTAT
1 ATTTTATTTTATACTTTTAT
3709029 ATTTT
1 ATTTT
3709034 TTCCTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (20 bp):
ATTTTATTTTATACTTTTAT
Found at i:3709096 original size:38 final size:40
Alignment explanation
Indices: 3709054--3709155 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 40
3709044 TCTTATGTAT
* *
3709054 TTATTATTTATTTATTTATTTATGTTA-ATATA-TATTTA
1 TTATTATTTATCTATTTATTTATATTATATATAGTATTTA
* * *
3709092 TTATTACTTAGCTATTTATATATTATTATATATATGTATTTA
1 TTATTATTTATCTATTTATTTA-TATTATATATA-GTATTTA
3709134 TTATTATTTATCTA-TTATTTAT
1 TTATTATTTATCTATTTATTTAT
3709156 TTTTATTTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
38 18 0.35
39 4 0.08
40 6 0.12
41 6 0.12
42 18 0.35
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (40 bp):
TTATTATTTATCTATTTATTTATATTATATATAGTATTTA
Found at i:3709109 original size:42 final size:43
Alignment explanation
Indices: 3709062--3709161 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
3709052 ATTTATTATT
3709062 TATTTATTTATTTATGT-TA-ATATATATTTATTATTACTTAGC
1 TATTTATTTATTTAT-TATATATATATATTTATTATTACTTAGC
* * * *
3709104 TATTTATATA-TTATTATATATATGTATTTATTATTATTTATC
1 TATTTATTTATTTATTATATATATATATTTATTATTACTTAGC
3709146 TA-TTATTTATTT-TTAT
1 TATTTATTTATTTATTAT
3709162 TTATCTGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 1 0.02
41 16 0.32
42 33 0.66
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (43 bp):
TATTTATTTATTTATTATATATATATATTTATTATTACTTAGC
Found at i:3709122 original size:10 final size:10
Alignment explanation
Indices: 3709046--3709165 Score: 89
Period size: 10 Copynumber: 11.1 Consensus size: 10
3709036 CCTTTGTATC
3709046 TTATGTATTTA
1 TTAT-TATTTA
3709057 TTATTTATTTA
1 TTA-TTATTTA
3709068 TTTATTTATGTTA
1 -TTA-TTAT-TTA
*
3709081 ATATATATTTA
1 TTAT-TATTTA
*
3709092 TTATTACTTA
1 TTATTATTTA
* *
3709102 GCTATTTATATA
1 -TTA-TTATTTA
*
3709114 TTATTATATA
1 TTATTATTTA
3709124 -TATGTATTTA
1 TTAT-TATTTA
3709134 TTATTATTTA
1 TTATTATTTA
3709144 TCTATTATTTA
1 T-TATTATTTA
*
3709155 TTTTTATTTA
1 TTATTATTTA
3709165 T
1 T
3709166 CTGTTAATAT
Statistics
Matches: 91, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
9 3 0.03
10 33 0.36
11 33 0.36
12 19 0.21
13 3 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (10 bp):
TTATTATTTA
Found at i:3709178 original size:20 final size:20
Alignment explanation
Indices: 3709132--3709224 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
3709122 TATATGTATT
* *
3709132 TATTATTATTTATCTATTATT
1 TATTTTTATTTATCTATTA-A
*
3709153 TATTTTTATTTATCTGTTAA
1 TATTTTTATTTATCTATTAA
3709173 TATTTTTATTTATCTGATT-A
1 TATTTTTATTTATCT-ATTAA
* *
3709193 TTTTTTTAATTATCTATTAA
1 TATTTTTATTTATCTATTAA
3709213 TATTTTT-TTTAT
1 TATTTTTATTTAT
3709225 TTTATTTTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
19 7 0.11
20 36 0.58
21 19 0.31
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
TATTTTTATTTATCTATTAA
Found at i:3709184 original size:4 final size:4
Alignment explanation
Indices: 3709046--3709165 Score: 62
Period size: 4 Copynumber: 32.0 Consensus size: 4
3709036 CCTTTGTATC
* * *
3709046 TTAT GTAT TTA- TTAT TTAT TTAT TTAT TTAT GTTA- ATAT ATAT TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT
* * * * * *
3709092 TTA- TTAC TTAG CTAT TTAT ATA- TTAT TATAT ATAT GTAT TTA- TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT
*
3709137 TTAT TTAT CTA- TTAT TTA- TT-T TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
3709166 CTGTTAATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
3 25 0.27
4 60 0.66
5 6 0.07
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:3709206 original size:40 final size:41
Alignment explanation
Indices: 3709132--3709231 Score: 129
Period size: 40 Copynumber: 2.5 Consensus size: 41
3709122 TATATGTATT
* * *
3709132 TATTATTATTTATCTATTATTTATTTTTATTTATCTGTTAA
1 TATTTTTATTTATCTATTATTTATTTTTAATTATCTATTAA
3709173 TATTTTTATTTATCTGATTA-TT-TTTTTAATTATCTATTAA
1 TATTTTTATTTATCT-ATTATTTATTTTTAATTATCTATTAA
3709213 TATTTTT-TTTAT-T-TTATTT
1 TATTTTTATTTATCTATTATTT
3709232 TCTTTTTCGA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
36 3 0.06
37 2 0.04
38 1 0.02
39 5 0.09
40 23 0.43
41 16 0.30
42 4 0.07
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (41 bp):
TATTTTTATTTATCTATTATTTATTTTTAATTATCTATTAA
Found at i:3710065 original size:3 final size:3
Alignment explanation
Indices: 3710057--3710124 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
3710047 CTCAAGTTTT
*
3710057 TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3710105 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
3710125 TATTCATTAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3710164 original size:5 final size:5
Alignment explanation
Indices: 3710154--3710186 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
3710144 GTTTAATACT
3710154 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
3710187 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:3710179 original size:9 final size:9
Alignment explanation
Indices: 3710155--3710185 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
3710145 TTTAATACTT
3710155 TTTATTTTA
1 TTTATTTTA
3710164 TTTTATTTTA
1 -TTTATTTTA
3710174 TTTATTTTA
1 TTTATTTTA
3710183 TTT
1 TTT
3710186 TCTTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3710179 original size:14 final size:14
Alignment explanation
Indices: 3710154--3710191 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
3710144 GTTTAATACT
3710154 TTTTATTTTATTTTA
1 TTTTA-TTTATTTTA
3710169 TTTTATTTATTTTA
1 TTTTATTTATTTTA
*
3710183 TTTTCTTTA
1 TTTTATTTA
3710192 AATAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:3710266 original size:58 final size:58
Alignment explanation
Indices: 3710203--3710419 Score: 269
Period size: 58 Copynumber: 3.7 Consensus size: 58
3710193 ATAAAATTCA
* *
3710203 AAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAGTCTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTC-TTGAAAATAAG-CTTTC
* * *
3710262 AAAAAAAACAATTTTTGAGAAAAAGTTAAAAGTATTAATTTTTCTTGAAAATAAGCTTTC
1 -AAAAAAA-TATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
* * *
3710322 TAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTCGAAATTAA-CGTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGC-TTTC
* * *
3710380 TAAAAAATATTTTGGA-GAAAAGTTGAAAGTATCAATTTTT
1 AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTT
3710420 TCTGCACAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
57 24 0.17
58 59 0.42
59 6 0.04
60 12 0.09
61 35 0.25
62 5 0.04
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
Found at i:3710385 original size:119 final size:115
Alignment explanation
Indices: 3710204--3710419 Score: 276
Period size: 119 Copynumber: 1.8 Consensus size: 115
3710194 TAAAATTCAA
* *
3710204 AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTCTTTCAAAAAAA
1 AAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTCGAAAATAAGTCTTTC--AAAAA
* *
3710269 ACAATTTTTGAGAAAAAGTTAAAAGTATTAATTTTTCTTGAAAATAAGCTTTCT
64 A-AATTTTGGAG-AAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
* *
3710323 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTT-TCTCGAAATTAA--CGTTTCTAAAA
1 AAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCT-TCGAAAATAAGTC-TTTC-AAAA
* *
3710385 AATATTTTGGAGAAAAGTTGAAAGTATCAATTTTT
63 AAAATTTTGGAGAAAAGTTAAAAGTATCAATTTTT
3710420 TCTGCACAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 21 0.24
116 8 0.09
117 7 0.08
118 5 0.06
119 45 0.52
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.37
Consensus pattern (115 bp):
AAAAAATATTTTTAAGGAAAAGTTAAAAGTATCAATTTTCTTCGAAAATAAGTCTTTCAAAAAAA
ATTTTGGAGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
Found at i:3710899 original size:19 final size:19
Alignment explanation
Indices: 3710862--3710899 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3710852 TTTTTTTTAT
*
3710862 TTATTTATTATTATTATTA
1 TTATTTATTATTATGATTA
3710881 TTATTTATTGATTA-GATTA
1 TTATTTATT-ATTATGATTA
3710900 GAATTGTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATTTATTATTATGATTA
Found at i:3710930 original size:6 final size:6
Alignment explanation
Indices: 3710914--3710952 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
3710904 TGTTTAATAC
3710914 TTTTTA TTTTTTA TTTTTA -TTTTA TTTTTA -TTTTA TTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
3710953 CTTCAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.33
6 14 0.47
7 6 0.20
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:3710938 original size:11 final size:11
Alignment explanation
Indices: 3710922--3710952 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
3710912 ACTTTTTATT
3710922 TTTTATTTTTA
1 TTTTATTTTTA
3710933 TTTTATTTTTA
1 TTTTATTTTTA
3710944 TTTTATTTT
1 TTTTATTTT
3710953 CTTCAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:3711121 original size:58 final size:58
Alignment explanation
Indices: 3710970--3711186 Score: 296
Period size: 58 Copynumber: 3.7 Consensus size: 58
3710960 TAAAATTTAA
* * *
3710970 AAAATAATATTTTTAAGGAAAAATTGAAAGTATCAATTTTCCTTGAAAATAAGTCTTTCAA
1 AAAA-AATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAG-CTTTC-T
*
3711031 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
1 AAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
* * *
3711089 AAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTT-TTCGAAATTAATG-TTTCT
1 AAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTT-GAAAATAA-GCTTTCT
*
3711147 AAAAAATA-TTTTGAGAAAAAATTGAAAGTATCAATTTTTC
1 AAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTC
3711187 ATGCACAAAA
Statistics
Matches: 144, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
57 30 0.21
58 59 0.41
59 6 0.04
60 45 0.31
61 4 0.03
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAATTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTCT
Found at i:3711585 original size:765 final size:762
Alignment explanation
Indices: 3710105--3711610 Score: 2351
Period size: 765 Copynumber: 2.0 Consensus size: 762
3710095 ATTATTATTA
3710105 TTATTATTATTATTATTATTTATTCATTAGATTAGAATTGTTTAATACTTTTTATTTTATTTTAT
1 TTATTATTATTATTATTATTTATTCATTAGATTAGAATTGTTTAATACTTTTTATTTTATTTTAT
* *
3710170 TTTATTTATTTTATTTTCTTTAAATAAAATTCAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTA
66 TTTATTTATTTTATTTTCTTCAAATAAAATTCAAAAAAAATATTTTTAAGGAAAAATTGAAAGTA
* *
3710235 TCAATTTTCTTTGAAAATAAGTCTTTCAAAAAAAACAATTTTTGAGAAAAAGTTAAAAGTATTAA
131 TCAATTTTCCTTGAAAATAAGTCTTTCAAAAAAAACAATTTTTGAGAAAAAGTTAAAAGTATCAA
3710300 TTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCT
196 TTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCT
*
3710365 CGAAATTAACGTTTCTAAAAAATATTTTGGAGAAAAGTTGAAAGTATCAATTTTTTCTGCACAAA
261 CGAAATTAACGTTTCTAAAAAATATTTTGGAGAAAAATTGAAAGTATCAATTTTTTCTGCACAAA
* **
3710430 AACAATTATTTTTTTTCCTTTTTACTTTCTTGAATTTTTGTTTAAATGTTAAATAATTTGACGAT
326 AACAATCATTTTTTTTCCTTTTTACTTTCTTGAATTTTTGTTTAAATGTTAAATAATCCGACGAT
* * * * *
3710495 AGAGCATTTGCAAGCGAAACAGTAATTTTCTTACAAACTCTTGAGGTGAGGGAATTTTTTTAATT
391 AGAGCATCTACAAGAGAAACAGTAATTTTCTTACAAACTCTTGAGCTGAGGGAATTTTTTCAATT
* *
3710560 TTCTGTTAAAAGTATTAAAGTTAATTGAGAATAATTTTTAATAATTAATTACTTGATAAAATTTT
456 TTCTGCTAAAAGTATTAAAGTCAATTGAGAATAATTTTTAATAATTAATTACTTGATAAAATTTT
* *
3710625 AAGGCTTATTGAAAGATCGGTCTGCTGAAAAAACAGAAGGAATAACCTTTATACCCGCTGAAAAT
521 AAGGCTTATTGAAAGATCGGTCTGCTGAAAAAACAAAAGGAATAACCTTTATACCCACTGAAAAT
* * * ** *
3710690 GACGTTGTTTTGGCGTTGCTGTGCCCAGAGGATCCGCGCATTTTGAAATCGAACGACCTGACTCG
586 GACGTTGTTTTGGCGTTACTGTACCCAGAGGATCCGCGCATTTTGAAATCGAACAACCCAACCCG
* * * *
3710755 AGCGTCAACCCGCTTTTGACCCGCGTTCAACCCGAGTGCGAGCCGTTTTCGAAGTCGAGCCGATC
651 AGCGTCAACCCGCTTTTGACCCGCGTTCAACCCGAGTGCGAGCCGTTTCCGAAGCCAAACCGATC
* *
3710820 CGAGTCGAGCCG-GACTTCGAGCCGTTCTCAGTTTTTTTTTATTTAT
716 CGAGCCGAGCAGCGACTTCGAGCCGTTCTCAGTTTTTTTTTATTTAT
*
3710866 TTATTATTATTATTATTATTTATTGATTAGATTAGAATTGTTTAATACTTTTTATTTTTTATTTT
1 TTATTATTATTATTATTATTTATTCATTAGATTAGAATTGTTTAATACTTTTTA--TTTTA-TTT
*
3710931 TATTTTATTTTTATTTTATTTTCTTCAAATAAAATTTAAAAAATAATATTTTTAAGGAAAAATTG
63 TATTTTA--TTTATTTTATTTTCTTCAAATAAAATTCAAAAAA-AATATTTTTAAGGAAAAATTG
* * *
3710996 AAAGTATCAATTTTCCTTGAAAATAAGTCTTTCAAAAAAAA-TATTTTTGAGGAAAAGTTGAAAG
125 AAAGTATCAATTTTCCTTGAAAATAAGTCTTTCAAAAAAAACAATTTTTGAGAAAAAGTTAAAAG
3711060 TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
190 TATCAATTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAAT
* *
3711125 TTTTTTCGAAATTAATGTTTCTAAAAAATATTTT-GAGAAAAAATTGAAAGTATCAA-TTTTTCA
255 TTTTCTCGAAATTAACGTTTCTAAAAAATATTTTGGAG-AAAAATTGAAAGTATCAATTTTTTC-
*
3711188 TGCACAAAAGCAATCATTTTTTTTCCTTTTTACTTTCTTGAATTTTTGTTT-AATGTTAAATAAT
318 TGCACAAAAACAATCATTTTTTTTCCTTTTTACTTTCTTGAATTTTTGTTTAAATGTTAAATAAT
* * * * * *
3711252 CCGACGATGGAGCCTCTACAAGAGAAATAGTAGTTTTCTTGCATACTCTTGAGCTGAGGGAATTT
383 CCGACGATAGAGCATCTACAAGAGAAACAGTAATTTTCTTACAAACTCTTGAGCTGAGGGAATTT
* * *
3711317 TTTCAATTTTTTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTTAATAATTAATTATTTGAT
448 TTTCAATTTTCTGCTAAAAGTATTAAAGTCAATTGAGAATAATTTTTAATAATTAATTACTTGAT
* * * *
3711382 AAATTTTTAAGGCTTATT-AGAGGATCGGTCTGTTG-AAAAACAAAAGGAATAGCCTTTTATACC
513 AAAATTTTAAGGCTTATTGA-AAGATCGGTCTGCTGAAAAAACAAAAGGAATAACC-TTTATACC
* * * **
3711445 CATTGAAAATGATGTTGTTTTGGCGTTACTGTACCCAGAGGATCCGCGTATTTTGAAATCGGGCA
576 CACTGAAAATGACGTTGTTTTGGCGTTACTGTACCCAGAGGATCCGCGCATTTTGAAATCGAACA
* *
3711510 ACCCAACCCGAGCGTCAACCCGCTTTTGACCCTCGTTCAACCTGAGTGCGAGCCGTTTCCGAAGC
641 ACCCAACCCGAGCGTCAACCCGCTTTTGACCCGCGTTCAACCCGAGTGCGAGCCGTTTCCGAAGC
*
3711575 CAAACCGATCCGAGCCGAGCAGCGTCTTCGAGCCGT
706 CAAACCGATCCGAGCCGAGCAGCGACTTCGAGCCGT
3711611 CTTTTCTTCC
Statistics
Matches: 676, Mismatches: 58, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
761 53 0.08
763 5 0.01
764 28 0.04
765 304 0.45
766 226 0.33
767 60 0.09
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (762 bp):
TTATTATTATTATTATTATTTATTCATTAGATTAGAATTGTTTAATACTTTTTATTTTATTTTAT
TTTATTTATTTTATTTTCTTCAAATAAAATTCAAAAAAAATATTTTTAAGGAAAAATTGAAAGTA
TCAATTTTCCTTGAAAATAAGTCTTTCAAAAAAAACAATTTTTGAGAAAAAGTTAAAAGTATCAA
TTTTTCTTGAAAATAAGCTTTCTAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCT
CGAAATTAACGTTTCTAAAAAATATTTTGGAGAAAAATTGAAAGTATCAATTTTTTCTGCACAAA
AACAATCATTTTTTTTCCTTTTTACTTTCTTGAATTTTTGTTTAAATGTTAAATAATCCGACGAT
AGAGCATCTACAAGAGAAACAGTAATTTTCTTACAAACTCTTGAGCTGAGGGAATTTTTTCAATT
TTCTGCTAAAAGTATTAAAGTCAATTGAGAATAATTTTTAATAATTAATTACTTGATAAAATTTT
AAGGCTTATTGAAAGATCGGTCTGCTGAAAAAACAAAAGGAATAACCTTTATACCCACTGAAAAT
GACGTTGTTTTGGCGTTACTGTACCCAGAGGATCCGCGCATTTTGAAATCGAACAACCCAACCCG
AGCGTCAACCCGCTTTTGACCCGCGTTCAACCCGAGTGCGAGCCGTTTCCGAAGCCAAACCGATC
CGAGCCGAGCAGCGACTTCGAGCCGTTCTCAGTTTTTTTTTATTTAT
Found at i:3711825 original size:61 final size:61
Alignment explanation
Indices: 3711759--3711923 Score: 207
Period size: 61 Copynumber: 2.8 Consensus size: 61
3711749 TTAAATAAAA
*
3711759 TTCAAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAA-GTCT
1 TTCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTTGAAAATAACG--T
** * *
3711820 TTCAAAAAAAAATATTTTTGCGAAAAAATTGAAAGTATCAA-TTTTCTTTGAAATTAACGT
1 TTCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTTGAAAATAACGT
* *
3711880 TTC--TAAAAAATATTTTGAA-AAAAAGTTGAAAGTATCAATTTTTC
1 TTCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTC
3711924 CTACACAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
57 18 0.20
58 17 0.19
60 9 0.10
61 46 0.51
62 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.37
Consensus pattern (61 bp):
TTCAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTTGAAAATAACGT
Found at i:3715107 original size:15 final size:15
Alignment explanation
Indices: 3715087--3715118 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3715077 TGCATATATG
*
3715087 CATTCTCATTCATTA
1 CATTCTCACTCATTA
3715102 CATTCTCACTCATTA
1 CATTCTCACTCATTA
3715117 CA
1 CA
3715119 CTTAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (15 bp):
CATTCTCACTCATTA
Found at i:3722341 original size:16 final size:16
Alignment explanation
Indices: 3722320--3722354 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3722310 ACTATGCTTG
3722320 AAATGAAAAAAAATGA
1 AAATGAAAAAAAATGA
3722336 AAATGAAAAAAAATGA
1 AAATGAAAAAAAATGA
3722352 AAA
1 AAA
3722355 AAAAAAGTGA
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:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAATGAAAAAAAATGA
Found at i:3722359 original size:11 final size:10
Alignment explanation
Indices: 3722320--3722358 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
3722310 ACTATGCTTG
3722320 AAATGAAAAA
1 AAATGAAAAA
3722330 AAATG----A
1 AAATGAAAAA
3722336 AAATGAAAAA
1 AAATGAAAAA
3722346 AAATGAAAAA
1 AAATGAAAAA
3722356 AAA
1 AAA
3722359 AAGTGAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.24
10 19 0.76
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAATGAAAAA
Found at i:3722360 original size:16 final size:16
Alignment explanation
Indices: 3722325--3722360 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3722315 GCTTGAAATG
**
3722325 AAAAAAAATGAAAATG
1 AAAAAAAATGAAAAAA
3722341 AAAAAAAATGAAAAAA
1 AAAAAAAATGAAAAAA
3722357 AAAA
1 AAAA
3722361 GTGAATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
AAAAAAAATGAAAAAA
Found at i:3723575 original size:45 final size:43
Alignment explanation
Indices: 3723371--3723749 Score: 350
Period size: 42 Copynumber: 8.8 Consensus size: 43
3723361 GATTGTCAAT
* * * *
3723371 GAGCTTTATTTATTTTT-AAAGTCGTAGAGCCTCTAATTAAAT
1 GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAAAG
** * * * *
3723413 GAGC--AATCTATTCTTCAAAGTTG-TGATGCCTCT-ATTTAGAG
1 GAGCTTTGTTTATTTTTCAAAGTCGTTGA-GCCTCTGA-TTAAAG
* * * *
3723454 GAGC--CGTTTATTTTTAAAAAGTCGTTGAGCCTATGATTAGAG
1 GAGCTTTGTTTATTTTT-CAAAGTCGTTGAGCCTCTGATTAAAG
*
3723496 GAGCTTTGTTTATGTTTTTCAAAAGTTGTTGAGCCTCTGATTAAAG
1 GAGCTTTGTTTA--TTTTTC-AAAGTCGTTGAGCCTCTGATTAAAG
*
3723542 AAGCTTTGTTTATCTTTTCAAAAGTCGTTGAGCCTCTGATTAGAA-
1 GAGCTTTGTTTAT-TTTTC-AAAGTCGTTGAGCCTCTGATTA-AAG
** *
3723587 GAGCTTTAATTA-TTTTCAAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAAAG
* *
3723629 GAGCTTTAG-TTA-TTTTCAAAGTCGTTGAACCTCTGATTAGAG
1 GAGCTTT-GTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAAAG
* *
3723671 GAGCTTTATTTA-TTTTCAAAGTCGTTGAGCCTCTGATTAAAT
1 GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAAAG
*
3723713 GAGCATTGTTTATGTTTTTCAAAGTCGTTGAGCCTCT
1 GAGCTTTGTTTA--TTTTTCAAAGTCGTTGAGCCTCT
3723750 ACTTAGAGGA
Statistics
Matches: 285, Mismatches: 33, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
40 11 0.04
41 28 0.10
42 133 0.47
43 9 0.03
44 6 0.02
45 58 0.20
46 40 0.14
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (43 bp):
GAGCTTTGTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAAAG
Found at i:3723951 original size:7 final size:7
Alignment explanation
Indices: 3723939--3724050 Score: 57
Period size: 7 Copynumber: 15.6 Consensus size: 7
3723929 GGTAGGCCTA
3723939 TTTTATT
1 TTTTATT
3723946 TTTTATT
1 TTTTATT
*
3723953 TTGTATT
1 TTTTATT
* *
3723960 ATATATT
1 TTTTATT
3723967 TTATTA-T
1 TT-TTATT
*
3723974 TTTT-GT
1 TTTTATT
3723980 TTTTATT
1 TTTTATT
*
3723987 TTATATT
1 TTTTATT
*
3723994 TTATATT
1 TTTTATT
**
3724001 TTTTCCT
1 TTTTATT
*
3724008 TTGTATCT
1 TTTTAT-T
*
3724016 TATGTATT
1 T-TTTATT
* *
3724024 TATTGTT
1 TTTTATT
3724031 TATTTATT
1 T-TTTATT
3724039 TATTTATT
1 T-TTTATT
3724047 TTTT
1 TTTT
3724051 TATGTTAATA
Statistics
Matches: 81, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
6 7 0.09
7 50 0.62
8 19 0.23
9 5 0.06
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (7 bp):
TTTTATT
Found at i:3723983 original size:29 final size:27
Alignment explanation
Indices: 3723937--3724003 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
3723927 TGGGTAGGCC
3723937 TATTTTA-T-TTTTTATTTTGTATTATA
1 TATTTTATTATTTTTATTTT-TATTATA
* *
3723963 TATTTTATTATTTTTGTTTTTATTTTA
1 TATTTTATTATTTTTATTTTTATTATA
3723990 TATTTTA-TATTTTT
1 TATTTTATTATTTTT
3724004 TCCTTTGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 14 0.38
27 14 0.38
28 9 0.24
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (27 bp):
TATTTTATTATTTTTATTTTTATTATA
Found at i:3723983 original size:34 final size:34
Alignment explanation
Indices: 3723937--3724002 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
3723927 TGGGTAGGCC
*
3723937 TATTTTATTTTTTATTTTGTATTATATATTTTAT
1 TATTTTATTTTTTATTTTATATTATATATTTTAT
*
3723971 TATTTT-TGTTTTTATTTTATATTTTATATTTT
1 TATTTTAT-TTTTTATTTTATATTATATATTTT
3724003 TTCCTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (34 bp):
TATTTTATTTTTTATTTTATATTATATATTTTAT
Found at i:3724004 original size:27 final size:28
Alignment explanation
Indices: 3723942--3724013 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
3723932 AGGCCTATTT
3723942 TATTTTTTATTTTGTATTATATATTTTA
1 TATTTTTTATTTTGTATTATATATTTTA
* *
3723970 T-TATTTTTGTTTT-TATTTTATATTTTA
1 TAT-TTTTTATTTTGTATTATATATTTTA
**
3723997 TATTTTTTCCTTTGTAT
1 TATTTTTTATTTTGTAT
3724014 CTTATGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.74
Consensus pattern (28 bp):
TATTTTTTATTTTGTATTATATATTTTA
Found at i:3724036 original size:4 final size:4
Alignment explanation
Indices: 3724015--3724162 Score: 57
Period size: 4 Copynumber: 39.0 Consensus size: 4
3724005 CCTTTGTATC
* * * *
3724015 TTAT GTAT TTA- TTGT TTAT TTAT TTAT TTAT TTTT TTAT GTTA- ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT
* * * * * * *
3724062 ATAT TTA- TTA- TTAC TTAG CTAT TTAT ATA- TTA- TTAT ATAT GTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
3724106 TTA- TTA- TTAT TTAT CTAC TTAT ATAT TATAAT TTAT CTA- TTAT TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T-T-AT TTAT TTAT TTAT TTAT
3724152 TT-T TTAT TTAT
1 TTAT TTAT TTAT
3724163 CTGTTAATAT
Statistics
Matches: 108, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
3 27 0.25
4 73 0.68
5 5 0.05
6 3 0.03
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:3724094 original size:22 final size:21
Alignment explanation
Indices: 3724081--3724159 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
3724071 ATTACTTAGC
3724081 TATTTATATATTATTATATATG
1 TATTTAT-TATTATTATATATG
*
3724103 TATTTATTATTATTTATCTACT-
1 TATTTATTATTA-TTATATA-TG
* * *
3724125 TATATATTATAATTTATCTAT-
1 TATTTATTATTA-TTATATATG
*
3724146 TATTTATTTTTATT
1 TATTTATTATTATT
3724160 TATCTGTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.04
21 15 0.31
22 31 0.63
23 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (21 bp):
TATTTATTATTATTATATATG
Found at i:3724113 original size:40 final size:40
Alignment explanation
Indices: 3724058--3724134 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
3724048 TTTTATGTTA
*
3724058 ATATATATTTATTATTACTTAGCTATTTATATATTATTAT
1 ATATATATTTATTATTACTTAGCTACTTATATATTATTAT
* * *
3724098 ATATGTATTTATTATTATTTATCTACTTATATATTAT
1 ATATATATTTATTATTACTTAGCTACTTATATATTAT
3724135 AATTTATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (40 bp):
ATATATATTTATTATTACTTAGCTACTTATATATTATTAT
Found at i:3724153 original size:40 final size:40
Alignment explanation
Indices: 3724058--3724158 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
3724048 TTTTATGTTA
* * * * *
3724058 ATATATATTTATTATTACTTAGCTATTTATATATTATTAT
1 ATATCTATTTATTATTATTTATCTACTTATATATTATAAT
*
3724098 ATATGTATTTATTATTATTTATCTACTTATATATTATAAT
1 ATATCTATTTATTATTATTTATCTACTTATATATTATAAT
*
3724138 TTATCTA-TTATTTATT-TTTAT
1 ATATCTATTTA-TTATTATTTAT
3724159 TTATCTGTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 8 0.15
40 45 0.85
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (40 bp):
ATATCTATTTATTATTATTTATCTACTTATATATTATAAT
Found at i:3724199 original size:43 final size:41
Alignment explanation
Indices: 3724080--3724238 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
3724070 TATTACTTAG
* * * *
3724080 CTATTTATATATTA-TTATATATGTA-TTTATTATTATTTAT
1 CTATTAATATTTTATTTATATAT-TATTTTCTTTTTATTTAT
* * *
3724120 CTACTTATATATTATAATTTATCTATTA-TTTATTTTTATTTAT
1 CTA-TTA-ATATT-TTATTTATATATTATTTTCTTTTTATTTAT
* *
3724163 CTGTTAATATTTTCATTTATATGATTATTTTCTTTTTAATTAT
1 CTATTAATATTTT-ATTTATAT-ATTATTTTCTTTTTATTTAT
*
3724206 CTATTAATATTTTATTT-TATTTTATTTTCTTTT
1 CTATTAATATTTTATTTATATATTATTTTCTTTT
3724239 GAGTCTGAGA
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
40 16 0.16
41 17 0.17
42 15 0.15
43 45 0.45
44 7 0.07
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (41 bp):
CTATTAATATTTTATTTATATATTATTTTCTTTTTATTTAT
Found at i:3725057 original size:20 final size:20
Alignment explanation
Indices: 3725032--3725071 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3725022 CAGGCTTTTT
3725032 TTATTATTTATTTATT-ATTA
1 TTATTA-TTATTTATTGATTA
3725052 TTATTATTATTTATTGATTA
1 TTATTATTATTTATTGATTA
3725072 GATTAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTATTATTATTTATTGATTA
Found at i:3725076 original size:19 final size:20
Alignment explanation
Indices: 3725034--3725076 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
3725024 GGCTTTTTTT
*
3725034 ATTATTTATTTATTATTATT
1 ATTATTTATTTATTATTATG
3725054 ATTA-TTATTTATTGATTA-G
1 ATTATTTATTTATT-ATTATG
3725073 ATTA
1 ATTA
3725077 GAATTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTATTTATTTATTATTATG
Found at i:3725210 original size:61 final size:61
Alignment explanation
Indices: 3725118--3725298 Score: 225
Period size: 61 Copynumber: 3.1 Consensus size: 61
3725108 TTAAAATTTT
* *
3725118 ATTTTCTTT--AAATAAA-ATTC-AAAAATATATATTTTTAAGGAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAACTTTCTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCA
* * * * *
3725175 ATTTTCTTTGAGAATAAGTCTTT-TAAAAAAATATATTTTTGAGAAAAAATTGAAAGTATCA
1 ATTTTCTTTGAAAATAA-ACTTTCTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCA
*
3725236 ATTTTCTTTGAAAATAAACTTTCT-AAAAAATAT-TTTTGAA-GAAAAGTTGAAAGTATCA
1 ATTTTCTTTGAAAATAAACTTTCTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCA
3725294 ATTTT
1 ATTTT
3725299 TCCTACACAA
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
57 9 0.09
58 21 0.20
59 10 0.10
60 13 0.12
61 52 0.50
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (61 bp):
ATTTTCTTTGAAAATAAACTTTCTAAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCA
Found at i:3738519 original size:3 final size:3
Alignment explanation
Indices: 3738511--3738543 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3738501 ATTTCTCTTC
*
3738511 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3738544 GATGATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3739065 original size:17 final size:16
Alignment explanation
Indices: 3739031--3739077 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
3739021 AGAAAACAGT
*
3739031 AAACAAAAAATGAATAA
1 AAACAAAAAA-AAATAA
3739048 AAACAAAAAAAAAGTAA
1 AAACAAAAAAAAA-TAA
3739065 AAA-AGAAAAAAAA
1 AAACA-AAAAAAAA
3739078 AAGCTAATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.06
Consensus pattern (16 bp):
AAACAAAAAAAAATAA
Found at i:3739843 original size:17 final size:17
Alignment explanation
Indices: 3739810--3739843 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3739800 TTTATCTAAT
*
3739810 TAAAAAATATAAAAAAA
1 TAAAAAATAAAAAAAAA
*
3739827 TAAAAAGTAAAAAAAAA
1 TAAAAAATAAAAAAAAA
3739844 ATTGGGTGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
TAAAAAATAAAAAAAAA
Found at i:3739939 original size:22 final size:21
Alignment explanation
Indices: 3739914--3739960 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
3739904 AATTCTTAAA
*
3739914 AAAAAAGCAAAAAAAATGAAAG
1 AAAAAAGCAAAAAAAAAG-AAG
**
3739936 AAAAAATTAAAAAAAAAGAAG
1 AAAAAAGCAAAAAAAAAGAAG
3739957 AAAA
1 AAAA
3739961 GAAAACAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.81, C:0.02, G:0.11, T:0.06
Consensus pattern (21 bp):
AAAAAAGCAAAAAAAAAGAAG
Found at i:3740155 original size:19 final size:18
Alignment explanation
Indices: 3740133--3740168 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3740123 TTTATCTAAA
*
3740133 TTAAAAAATTCAAAAAAAT
1 TTAAAAAA-GCAAAAAAAT
3740152 TTAAAAAAGCAAAAAAA
1 TTAAAAAAGCAAAAAAA
3740169 AAAAATGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (18 bp):
TTAAAAAAGCAAAAAAAT
Found at i:3741442 original size:17 final size:17
Alignment explanation
Indices: 3741390--3741442 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
3741380 TTTATTAAAT
3741390 ATGTAAAAAAAGAAAAAA
1 ATGTAAAAAAA-AAAAAA
* **
3741408 AT-TAGAAAAAGAGCAAA
1 ATGTA-AAAAAAAAAAAA
3741425 ATGTAAAAAAAAAAAAA
1 ATGTAAAAAAAAAAAAA
3741442 A
1 A
3741443 CCACGTGTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (17 bp):
ATGTAAAAAAAAAAAAA
Found at i:3742403 original size:6 final size:6
Alignment explanation
Indices: 3742392--3742420 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3742382 AGAATCCAAT
3742392 CAAAAA CAAAAA CAAAAA CAAAAA -AAAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA
3742421 TTTTAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:3744602 original size:6 final size:6
Alignment explanation
Indices: 3744593--3744663 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
3744583 TTTATTTTTC
* * *
3744593 AAAATAA AAAATA AACATA ATAATA AAAATTA AAAATTA AAAAT- AGAATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAA-TA AAAA-TA AAAATA AAAATA
*
3744643 AAAATA AAAAT- GAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
3744664 CAAGAATGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
5 8 0.15
6 27 0.51
7 18 0.34
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:3744627 original size:25 final size:24
Alignment explanation
Indices: 3744593--3744653 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
3744583 TTTATTTTTC
* * *
3744593 AAAATAAAAAATAAACATAATAATA
1 AAAATTAAAAATAAAAAT-AGAATA
3744618 AAAATTAAAAATTAAAAATAGAATA
1 AAAATTAAAAA-TAAAAATAGAATA
3744643 AAAA-TAAAAAT
1 AAAATTAAAAAT
3744654 GAAATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.03
24 6 0.19
25 19 0.59
26 6 0.19
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (24 bp):
AAAATTAAAAATAAAAATAGAATA
Found at i:3744650 original size:17 final size:18
Alignment explanation
Indices: 3744623--3744663 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
3744613 TAATAAAAAT
3744623 TAAAAATTAAAAAT-AGAA
1 TAAAAATTAAAAATGA-AA
3744641 TAAAAA-TAAAAATGAAA
1 TAAAAATTAAAAATGAAA
3744658 TAAAAA
1 TAAAAA
3744664 CAAGAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
TAAAAATTAAAAATGAAA
Found at i:3744972 original size:20 final size:19
Alignment explanation
Indices: 3744930--3744974 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
3744920 AATATGTTTT
3744930 TAAAATATATGAATAAAATA
1 TAAAATATAT-AATAAAATA
3744950 TAAAATATAT-ATAATAATAA
1 TAAAATATATAATAA-AAT-A
3744970 TAAAA
1 TAAAA
3744975 ATTTTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.17
19 3 0.13
20 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAATATATAATAAAATA
Found at i:3745980 original size:63 final size:62
Alignment explanation
Indices: 3745853--3745985 Score: 135
Period size: 63 Copynumber: 2.1 Consensus size: 62
3745843 TTTGAGTGAA
* *
3745853 TACTAAAAGAGTTTTTGGCAGAAAACGACTTGAATAATCCCATTAAAAAAATTGATAGGGAAT
1 TACTGAAAGAGTTTTTGGCAGAAAACGACTTGAATAATCCCATTAAAAAAATT-ATAGGCAAT
* * * * * *
3745916 TACTGAAAGCGTTTTTGGTAGACAAC-ACCTTTAATAATCCCCTCATAAAAAAATT-TATGCAAT
1 TACTGAAAGAGTTTTTGGCAGAAAACGA-CTTGAATAATCCCAT--TAAAAAAATTATAGGCAAT
*
3745979 TATTGAA
1 TACTGAA
3745986 TGTATTTTCT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
62 1 0.02
63 47 0.81
65 10 0.17
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (62 bp):
TACTGAAAGAGTTTTTGGCAGAAAACGACTTGAATAATCCCATTAAAAAAATTATAGGCAAT
Found at i:3746930 original size:304 final size:303
Alignment explanation
Indices: 3746271--3747191 Score: 741
Period size: 304 Copynumber: 3.0 Consensus size: 303
3746261 TTTGGCAGAG
* ** ** * * ** *
3746271 AAATGCCCTTAATAATCCATAAAAAAAATATGAAACCGATTCTTGAAAGTATTTTTGA-TCGAAT
1 AAATGCCTTTAATAATCCATAGGAAAAATATGAAAGAGATTATTGAAGGCGTTTTTGAGT-GAAA
* * **** **
3746335 TCACCTTCAATAATCCAATCAATAAATTTTTAGTTTAGGTTATTAAAGGCAGTTTTTGTCAAAAA
65 ACA-CTTCAATAATCCAAGCAATAAATTTTTAACAAAAATTATTAAAGGCAGTTTTTGTCAAAAA
* *** * * *
3746400 -ATGTCTTCAATAATCCATATGCAAAAGTT-AGAATAGATTCTTGAAGGCGTTTTTG-GCTCAAA
129 CA--CCTTCAATAATCCATACAAAAAAGTTGA-AACAGATTCTTGAAGACATTTTTGTGC-CAAA
* * ** * * * ** *
3746462 ATGCCTTTAATATTTCACATGATAAATTTGAATGGTCA-GATTATTGAAGGTGATTTTTTTCAAA
190 ATACCTTTAATATTCCACACAATAAATTT-TA-GGT-AGGATTATTAAAGGTAATTTTAGTAAAA
* * * * * * * **
3746526 AATACCTTTAATAACATTTTGTTAGATATTATTCAAGGTG-TTT-TTGGAAGGA
252 AATGCCTTCAATAATATTTTGTTAAAGATGATTCAAGGAGTTTTCTTGCTA--A
** * * * *
3746578 AAACACCCTTAATAATCCATATGAAAAATATGAAATAGATTATTGAAGGCGTTTTTGATTGAAAG
1 AAATGCCTTTAATAATCCATAGGAAAAATATGAAAGAGATTATTGAAGGCGTTTTTGAGTGAAA-
* ** * * ****** * ** **
3746643 TGCA-TTCAATAATCCATTCATTTAATTTTTAGTTGGTATTATTGAAGGTGGTTTTT-TTTAAAA
65 -ACACTTCAATAATCCAAGCAATAAATTTTTAACAAAAATTATTAAAGGCAGTTTTTGTCAAAAA
* * * *
3746706 CACCTTCAATAATCTATACAAAAAAGTTGAAATAGATTCTTGAAGATATTTTT-TGCCTAAAATG
129 CACCTTCAATAATCCATACAAAAAAGTTGAAACAGATTCTTGAAGACATTTTTGTGCC-AAAATA
* * *
3746770 CCTTTAATATTTCATACAATAAATTTTTAGG-AGGGATTATTAGAGGTAATTTTAGTAAAAAATG
193 CCTTTAATATTCCACACAATAAA-TTTTAGGTA-GGATTATTAAAGGTAATTTTAGTAAAAAATG
* *
3746834 CCTTCAATAATATTTTGTTAAAGATTATTCAAGGTGTTTTCTTGCTAA
256 CCTTCAATAATATTTTGTTAAAGATGATTCAAGGAGTTTTCTTGCTAA
* * * *
3746882 ATATGCCTTTAATAATCCATAGGAAAAATATAGAACGA-ATTCTTGAAGGCGTTTTTGGGTGAAA
1 AAATGCCTTTAATAATCCATAGGAAAAATAT-GAAAGAGATTATTGAAGGCGTTTTTGAGTGAAA
3746946 ACATCTTCAATAATCCAAGCAATAAATTTTTAACAAAAATTATTAAAGGCAGTTTTTGTCAAAAA
65 ACA-CTTCAATAATCCAAGCAATAAATTTTTAACAAAAATTATTAAAGGCAGTTTTTGTCAAAAA
* * * * * * * * *
3747011 TACCTTTAATAATCCATACACAATATTTGAAACGGATTTTTGAAGGCATTTTTGTGCCAAAATAT
129 CACCTTCAATAATCCATACAAAAAAGTTGAAACAGATTCTTGAAGACATTTTTGTGCCAAAATAC
* * * * * *
3747076 CTTTAATATTCCACATAATATATTTTAGGTAGTATTATTAAAGGTGATTTTTGTTAAAAATGCCT
194 CTTTAATATTCCACACAATAAATTTTAGGTAGGATTATTAAAGGTAATTTTAGTAAAAAATGCCT
*
3747141 TCAATAATATTTTGTTAATGATGATTCAAGGAGTTTTCTTGCTAA
259 TCAATAATATTTTGTTAAAGATGATTCAAGGAGTTTTCTTGCTAA
3747186 AAATGC
1 AAATGC
3747192 TTTCATTAAT
Statistics
Matches: 495, Mismatches: 101, Indels: 39
0.78 0.16 0.06
Matches are distributed among these distances:
302 3 0.01
304 230 0.46
305 148 0.30
306 17 0.03
307 94 0.19
308 1 0.00
309 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (303 bp):
AAATGCCTTTAATAATCCATAGGAAAAATATGAAAGAGATTATTGAAGGCGTTTTTGAGTGAAAA
CACTTCAATAATCCAAGCAATAAATTTTTAACAAAAATTATTAAAGGCAGTTTTTGTCAAAAACA
CCTTCAATAATCCATACAAAAAAGTTGAAACAGATTCTTGAAGACATTTTTGTGCCAAAATACCT
TTAATATTCCACACAATAAATTTTAGGTAGGATTATTAAAGGTAATTTTAGTAAAAAATGCCTTC
AATAATATTTTGTTAAAGATGATTCAAGGAGTTTTCTTGCTAA
Found at i:3751540 original size:185 final size:186
Alignment explanation
Indices: 3751204--3751654 Score: 547
Period size: 185 Copynumber: 2.4 Consensus size: 186
3751194 TTTGTACTAA
* * *
3751204 AAGACGCCTTTAATAATC-CTAAAAATTTTTAAAAGGAAATTATTAAAAGG-GTTTGTTTTCAAA
1 AAGACGCCTTTAATAATCTC-AAAAATTTTTAAAA-AAAATTATTAAAAGGCATTTGTTCTCAAA
* * *
3751267 AAATGCCTTTAATAATTATGTGCAAAAATTAAAATGAATTAGTGAAGGCATTTTCCTAGAATAAA
64 AAATGCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTCCTAGAATAAA
* ** *
3751332 TGCCTTCACTAATCGTATTAAAATTTGAGTAGTAGAATATTAAAAGTGTTTTTCACTGG
129 TGCCTTCACTAATCGTATTAAAATTTGAATAGTAGAATATTAAAAGCATTTTGCA-TGG
* *
3751391 AAGACACCTTTAATAATCTCAAAAA-TTTTAAAAAAAATTATT-AAAGGCATTTGTTCTCAAAAC
1 AAGACGCCTTTAATAATCTCAAAAATTTTTAAAAAAAATTATTAAAAGGCATTTGTTCTCAAAAA
* ** *
3751454 ATGCCTTCAATATTTATGTACGTAAATTAAAAAGAATTAGTGAAGGCATTTTGCTAGAATAAATG
66 ATGCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTCCTAGAATAAATG
* * * *
3751519 CCTTTACTAA-C-TATCTTAAAATTTGAATAGTAGAATATTGAAGGCATTTTGCATTG
131 CCTTCACTAATCGTA--TTAAAATTTGAATAGTAGAATATTAAAAGCATTTTGCATGG
* * * * *
3751575 ACAGATGCCTTTAATAATCTTAAAAATTTTTGAAAGAAAATTATTGAAA-GCATTTGTTCTTAAA
1 A-AGACGCCTTTAATAATCTCAAAAATTTTT-AAAAAAAATTATTAAAAGGCATTTGTTCTCAAA
* *
3751639 AAATACCTTCACTAAT
64 AAATGCCTTCAATAAT
3751655 CATCTTAGAC
Statistics
Matches: 227, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
183 2 0.01
184 9 0.04
185 140 0.62
186 12 0.05
187 60 0.26
188 4 0.02
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (186 bp):
AAGACGCCTTTAATAATCTCAAAAATTTTTAAAAAAAATTATTAAAAGGCATTTGTTCTCAAAAA
ATGCCTTCAATAATTATGTACAAAAATTAAAAAGAATTAGTGAAGGCATTTTCCTAGAATAAATG
CCTTCACTAATCGTATTAAAATTTGAATAGTAGAATATTAAAAGCATTTTGCATGG
Found at i:3758169 original size:18 final size:20
Alignment explanation
Indices: 3758128--3758169 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
3758118 TACTCAAATT
* *
3758128 AATAGTTATTGTTATGTTTT
1 AATAGTTATTGATATGTTTC
3758148 AATAGTT-TTGATA-GTTTC
1 AATAGTTATTGATATGTTTC
3758166 AATA
1 AATA
3758170 CAAGATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (20 bp):
AATAGTTATTGATATGTTTC
Found at i:3759906 original size:34 final size:34
Alignment explanation
Indices: 3759851--3760015 Score: 129
Period size: 34 Copynumber: 4.9 Consensus size: 34
3759841 TGTCTTAAAT
* * * * *
3759851 ATACAAACGTCGTTAAAATAGCGATATTTTTTAT
1 ATACAAACGCCGTTAATATAGCGACATTTTTCAC
* * *
3759885 ATACAAATGCCGCTAATATAGC-AGCA-TTTTCTAA
1 ATACAAACGCCGTTAATATAGCGA-CATTTTTC-AC
* *
3759919 ATACAAA-GCCGTTAATATAGCAACGTTTTTCAC
1 ATACAAACGCCGTTAATATAGCGACATTTTTCAC
* * **
3759952 ATACAAACACTGTTAATATAGCGATGTTTTTCAC
1 ATACAAACGCCGTTAATATAGCGACATTTTTCAC
* ** *
3759986 ATACAAATGCCACTAATATAGCAACATTTT
1 ATACAAACGCCGTTAATATAGCGACATTTT
3760016 ATAGAAAACA
Statistics
Matches: 104, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
33 27 0.26
34 77 0.74
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (34 bp):
ATACAAACGCCGTTAATATAGCGACATTTTTCAC
Found at i:3760698 original size:12 final size:12
Alignment explanation
Indices: 3760666--3760708 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
3760656 ATTTTTTTTT
*
3760666 ATAATAATAACA
1 ATAATAACAACA
* *
3760678 ACAACAACAACA
1 ATAATAACAACA
3760690 ATAATAACAACA
1 ATAATAACAACA
3760702 ATAATAA
1 ATAATAA
3760709 TAAAAGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (12 bp):
ATAATAACAACA
Found at i:3760700 original size:15 final size:15
Alignment explanation
Indices: 3760680--3760711 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3760670 TAATAACAAC
3760680 AACAACAACAATAAT
1 AACAACAACAATAAT
*
3760695 AACAACAATAATAAT
1 AACAACAACAATAAT
3760710 AA
1 AA
3760712 AAGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.16
Consensus pattern (15 bp):
AACAACAACAATAAT
Found at i:3763248 original size:14 final size:13
Alignment explanation
Indices: 3763225--3763258 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3763215 TTTATCAAAT
*
3763225 TAATTTAATATTAA
1 TAATTAAATA-TAA
3763239 TAATTAAATATAA
1 TAATTAAATATAA
3763252 TAATTAA
1 TAATTAA
3763259 TAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTAAATATAA
Found at i:3764798 original size:15 final size:15
Alignment explanation
Indices: 3764780--3764834 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
3764770 GTTAAAATCC
3764780 AAACCCTAAATTTCA
1 AAACCCTAAATTTCA
* *
3764795 AAACCCTAAAATT-G
1 AAACCCTAAATTTCA
*
3764809 AAACCCTAAATTTCT
1 AAACCCTAAATTTCA
*
3764824 AAACCTTAAAT
1 AAACCCTAAAT
3764835 CCTCCAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (15 bp):
AAACCCTAAATTTCA
Found at i:3764804 original size:29 final size:29
Alignment explanation
Indices: 3764772--3764858 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
3764762 CCAAAACTGT
3764772 TAAAATCCAAACCCTAAATTTCAAAACCC
1 TAAAATCCAAACCCTAAATTTCAAAACCC
** * *
3764801 TAAAATTGAAACCCTAAATTTCTAAACCT
1 TAAAATCCAAACCCTAAATTTCAAAACCC
* *
3764830 TAAATCCTCCAAA-CCTAAA-ATCAAAACCC
1 TAAA--ATCCAAACCCTAAATTTCAAAACCC
3764859 CAAACACCTA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
29 36 0.78
30 6 0.13
31 4 0.09
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (29 bp):
TAAAATCCAAACCCTAAATTTCAAAACCC
Found at i:3766360 original size:35 final size:35
Alignment explanation
Indices: 3766310--3766379 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
3766300 TTCATAATAC
* *
3766310 CAAATATTTTCTGGGCATAAATATACAACTGACTT
1 CAAATATTTTATGGGCATAAACATACAACTGACTT
*
3766345 CAAATATTTTATGGGCATAAACCTACAACTGACTT
1 CAAATATTTTATGGGCATAAACATACAACTGACTT
3766380 GACATATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (35 bp):
CAAATATTTTATGGGCATAAACATACAACTGACTT
Found at i:3768624 original size:13 final size:13
Alignment explanation
Indices: 3768606--3768631 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3768596 TTTGAAATTT
3768606 TATTTTTAAAAAA
1 TATTTTTAAAAAA
3768619 TATTTTTAAAAAA
1 TATTTTTAAAAAA
3768632 AATAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTTTAAAAAA
Found at i:3769223 original size:2 final size:2
Alignment explanation
Indices: 3769216--3769242 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3769206 TATTATTAAA
3769216 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
3769243 AATACTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3770282 original size:49 final size:46
Alignment explanation
Indices: 3770191--3770283 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 46
3770181 AATGAGAGTA
* * **
3770191 TTTTCCTAAAAAGTAAAAAATTATTAAAAATAACAACTAATGAAAT
1 TTTTCCTAAAAAATAAAAAATTATAAAAAATAACAAAGAATGAAAT
3770237 TTTTCTCTAAAAAAATAGAAAAATTATAAAAAATAACAAAGAATGAA
1 TTTTC-CT-AAAAAATA-AAAAATTATAAAAAATAACAAAGAATGAA
3770284 GTTATTCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 5 0.12
47 2 0.05
48 7 0.17
49 26 0.65
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (46 bp):
TTTTCCTAAAAAATAAAAAATTATAAAAAATAACAAAGAATGAAAT
Found at i:3770483 original size:20 final size:21
Alignment explanation
Indices: 3770454--3770492 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3770444 TTTTTTATTA
*
3770454 AAAATGAGTAAA-TAAAAACT
1 AAAATCAGTAAATTAAAAACT
3770474 AAAATCAGTAAATTAAAAA
1 AAAATCAGTAAATTAAAAA
3770493 ATCTCATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (21 bp):
AAAATCAGTAAATTAAAAACT
Found at i:3775093 original size:66 final size:65
Alignment explanation
Indices: 3774855--3775942 Score: 511
Period size: 66 Copynumber: 16.5 Consensus size: 65
3774845 TCAAACCCTC
** * * * *
3774855 GGAGGCATTAATAACTCTGGTTCAAGCCCTGTTG-AGGGACAA-AAGTTAACTGACAGCTTGACT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTA-GGA-AACAAGTTAACTGATAGCTTCACT
3774918 CTT
64 -TT
** * * * * * * * * * * *
3774921 GGAGTTATAAAGAACTCCGGCCCGAGTCCTGATGTAGGAAACAAGTTTACCGACAGTTTCACTAT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCACT-T
*
3774986 A
65 T
* * * * ** * * * * *
3774987 GGTGGCGTTAAGGATTCCGGTCCAAATCCTGCTGTGGGAAATAAGTTAAGC-AATAGCCTCACTT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAA-CTGATAGCTTCACTT
3775051 T
65 T
* * * * * * * *
3775052 AGGAGGCATTAAAGATTCTGGTCCGAGCCCTGGTGTAGGAAATAAGCTAACTAACAACTTTGCA-
1 -GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGC-TT-CAC
3775116 TTT
63 TTT
* * * * * * *** *
3775119 GGAAGCATTAAGGATTCGGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCA-CTT
3775184 T
65 T
* * * * * * * * *** *
3775185 GGAGGAATCAAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCA-CTT
3775250 T
65 T
* * * * * * * ** *
3775251 GGAGGAATCAAGGACTCAGGCCCGAGCCCCGGTGTAGGAAACAAGTTTACCAACAGCTTCACTTT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCACTTT
* * * * * * *
3775316 AGGTGGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTC
1 -GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCACT-
*
3775381 TA
64 TT
* * * * * ** * * *
3775383 GGAGGTATTAAAGACGCTGGTCCGAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTTAACCT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGC-TTCACTT
3775448 T
65 T
* * * * * * *** *
3775449 GGAAGCACTAAGGATTCTGGTCCAAGGCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCA-CTT
*
3775514 C
65 T
* * * * * *
3775515 GGAGGCATCAAGGACTCAGG-CCTGAG-CCTAGGTGTAGGAAACAAGTTTACCGACAGCTTCACT
1 GGAGGCATTAAGGACTCTGGTCC-AAGCCCT-GGTGTAGGAAACAAGTTAACTGATAGCTTCACT
*
3775578 CTA
64 -TT
* * * * * * *
3775581 GGTGGCATTATGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCTTCACTCT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCACT-T
*
3775646 A
65 T
* * * * * * * *
3775647 GGAGGAAATAAAGACGCTGGTCCAAGCCCTGGTGTAGGAAACAAGCTCACTGATAGCTTGAATAT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCACT-T
3775712 T
65 T
* * * * ** * * *
3775713 GGAGGCATCAAGGATTGTGGTCCTAGCCCTGGTGTAGGAAACAAACTAATTGACAACTTTGCA-T
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGC-TT-CACT
3775777 TT
64 TT
* * * * ** **
3775779 GGCA-GCATTAAGGATTCTGGTCCAAGCCCCGGTGTGGGAAATAAGTTAACTGACGGGC-AAACC
1 GG-AGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGA-TAGCTTCA-C
*
3775842 CTT
63 TTT
* * * * * * *** *
3775845 GGAGGCATTAAGGATTCCGGCCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCT
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCA-CTT
3775910 T
65 T
* *
3775911 GGAGGCATCAAGGACTCCGGTCCAAGCCCTGG
1 GGAGGCATTAAGGACTCTGGTCCAAGCCCTGG
3775943 AGCAGGACAC
Statistics
Matches: 782, Mismatches: 214, Indels: 52
0.75 0.20 0.05
Matches are distributed among these distances:
64 2 0.00
65 19 0.02
66 738 0.94
67 20 0.03
68 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (65 bp):
GGAGGCATTAAGGACTCTGGTCCAAGCCCTGGTGTAGGAAACAAGTTAACTGATAGCTTCACTTT
Found at i:3775253 original size:132 final size:131
Alignment explanation
Indices: 3774673--3775939 Score: 574
Period size: 132 Copynumber: 9.6 Consensus size: 131
3774663 CAAAGAGTCA
* * * * * * * * *
3774673 GGTCCAAGTCCTGGTGAGGGACACAAGTTCATTGATAGTCAAACACTCGGAGGCATTAAGAACTC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* * * * * * * * *
3774738 CGG-CCCAGGCCCGGTG-AGGGACATAAGTTAA-TAGACAGCTTGACTATTGGAGGTATAAAGGA
66 TGGTCCAAGCCCCGGTGTA-GGAAACAAGTTAACT-GACAGCTTAAC-CTTGGAGGCATCAAGGA
*
3774800 CTCA
128 CTCC
* * * * * * * **
3774804 GGCCCGAGCCATGGTGGTGAGAGACACAAGTTCACTGATAGTCAAACCCTCGGAGGCATTAATAA
1 GGTCCAAGCCCTGGT-GTG-G-GAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGA
* * * * ** *
3774869 CTCTGGTTCAAGCCCTGTTG-AGGGACAA-AAGTTAACTGACAGCTTGACTCTTGGAGTTATAAA
63 CTCTGGTCCAAGCCCCGGTGTA-GGA-AACAAGTTAACTGACAGCTTAAC-CTTGGAGGCATCAA
*
3774932 GAACTCC
125 GGACTCC
* * * * * * * * **** ** * * * *
3774939 GGCCCGAGTCCTGATGTAGGAAACAAGTTTACCGACAGTTTCACTATAGGTGGCGTTAAGGATTC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* ** * * * * * * * * * * * *
3775004 CGGTCCAAATCCTGCTGTGGGAAATAAGTTAAGC-AATAGCCTCACTTTAGGAGGCATTAAAGAT
66 TGGTCCAAGCCCCGGTGTAGGAAACAAGTTAA-CTGACAGCTTAACCTT-GGAGGCATCAAGGAC
*
3775068 TCT
129 TCC
* * * * * * * **** ** * *
3775071 GGTCCGAGCCCTGGTGTAGGAAATAAGCTAACTAACAACTTTGCATTTGGAAGCATTAAGGATTC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* * ** ** *
3775136 GGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGAATCAAGGACT
66 TGGTCCAAGCCCCGGTGTAGGAAACAAGTTAACTGACAGCTTAA-CCTTGGAGGCATCAAGGACT
*
3775201 CA
130 CC
* * * * * *
3775203 GGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGAATCAAGGACTC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* * * * ** * * * *
3775268 AGGCCCGAGCCCCGGTGTAGGAAACAAGTTTACCAACAGCTTCACTTTAGGTGGCATTAAGGACT
66 TGGTCCAAGCCCCGGTGTAGGAAACAAGTTAACTGACAGCTTAACCTT-GGAGGCATCAAGGACT
3775333 CC
130 CC
* * * ** * * * * *
3775335 GGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGAGGTATTAAAGACGC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* * ** * * * *
3775400 TGGTCCGAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTTAACCTTGGAAGCA-CTAAGGAT
66 TGGTCCAAGCCCCGGTGTAGGAAACAAGTTAACTGACAGC-TTAACCTTGGAGGCATC-AAGGAC
*
3775464 TCT
129 TCC
* * * *
3775467 GGTCCAAGGCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAGGCATCAAGGACTC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* * ** * * * * * * *
3775532 AGG-CCTGAGCCTAGGTGTAGGAAACAAGTTTACCGACAGCTTCACTCTAGGTGGCATTATGGAC
66 TGGTCC-AAGCCCCGGTGTAGGAAACAAGTTAACTGACAGCTTAAC-CTTGGAGGCATCAAGGAC
3775596 TCC
129 TCC
* * * *** * * * * * *
3775599 GGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCTTCACTCTAGGAGGAAATAAAGACGC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
* * * * ** *
3775664 TGGTCCAAGCCCTGGTGTAGGAAACAAGCTCACTGATAGCTTGAATATTGGAGGCATCAAGGATT
66 TGGTCCAAGCCCCGGTGTAGGAAACAAGTTAACTGACAGCTT-AACCTTGGAGGCATCAAGGACT
**
3775729 GT
130 CC
* * ** * * * **** ** *
3775731 GGTCCTAGCCCTGGTGTAGGAAACAAACTAATTGACAACTTTGCATTTGGCA-GCATTAAGGATT
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGG-AGGCATTAAGGACT
* * * * *
3775795 CTGGTCCAAGCCCCGGTGTGGGAAATAAGTTAACTGACGGGC-AAACCCTTGGAGGCATTAAGGA
65 CTGGTCCAAGCCCCGGTGTAGGAAACAAGTTAACTGAC-AGCTTAA-CCTTGGAGGCATCAAGGA
*
3775859 TTCC
128 CTCC
* * * *
3775863 GGCCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCATCAAGGACTC
1 GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
*
3775928 CGGTCCAAGCCC
66 TGGTCCAAGCCC
3775940 TGGAGCAGGA
Statistics
Matches: 845, Mismatches: 267, Indels: 47
0.73 0.23 0.04
Matches are distributed among these distances:
131 28 0.03
132 689 0.82
133 18 0.02
134 47 0.06
135 61 0.07
136 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (131 bp):
GGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATAGCCAAACCCTTGGAGGCATTAAGGACTC
TGGTCCAAGCCCCGGTGTAGGAAACAAGTTAACTGACAGCTTAACCTTGGAGGCATCAAGGACTC
C
Found at i:3775359 original size:264 final size:264
Alignment explanation
Indices: 3775045--3775704 Score: 725
Period size: 264 Copynumber: 2.5 Consensus size: 264
3775035 AGCAATAGCC
* * * * * * *
3775045 TCACTTTAGGAGGCATTAAAGATTCTGGTCCGAGCCCTGGTGTAGGAAATAAGCTAACTAACAAC
1 TCACTTTAGGTGGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGCTAACTAACAAC
* * * ** * * ** *
3775110 TTTGCA-T-TTGGAAGCATTAAGGATTCGGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGAT
66 -CT-CACTCTAGGAAGCATTAAAGACGCGGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGAT
* * *
3775173 GGC-CAAACCCTTGGAGGAA-TCAAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACT
129 AGCTCAAA-CCTTGGAAGAACT-AAGGACTCAGGCCCAAGCCCCGGTGTGGGAAACAAGTTAACT
* *
3775236 GATGGCCAAACCCTTGGAGGAATCAAGGACTCAGGCCCGAGCCCCGGTGTAGGAAACAAGTTTAC
192 GATGGCCAAACCCTCGGAGGAATCAAGGACTCAGGCCCGAGCCCAGGTGTAGGAAACAAGTTTAC
3775301 CAACAGCT
257 CAACAGCT
* * * * *
3775309 TCACTTTAGGTGGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGC
1 TCACTTTAGGTGGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGCTAACTAACAAC
* * * *
3775374 CTCACTCTAGGAGGTATTAAAGACGCTGGTCCGAGCCCAGGTGTAGGAAACAAACTAACGGATAG
66 CTCACTCTAGGAAGCATTAAAGACGCGGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGATAG
** * * * * * *
3775439 CTTTAACCTTGGAAGCACTAAGGATTCTGGTCCAAGGCCTGGTGTGGGAAACAAGTTAACTGATG
131 CTCAAACCTTGGAAGAACTAAGGACTCAGGCCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATG
* * * *
3775504 GCCAAACCCTCGGAGGCATCAAGGACTCAGGCCTGAGCCTAGGTGTAGGAAACAAGTTTACCGAC
196 GCCAAACCCTCGGAGGAATCAAGGACTCAGGCCCGAGCCCAGGTGTAGGAAACAAGTTTACCAAC
3775569 AGCT
261 AGCT
* * * * * * *
3775573 TCACTCTAGGTGGCATTATGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGC
1 TCACTTTAGGTGGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGCTAACTAACAAC
* * * * * * * * *
3775638 TTCACTCTAGGAGGAAATAAAGACGCTGGTCCAAGCCCTGGTGTAGGAAACAAGCTCACTGATAG
66 CTCACTCTAGGAAGCATTAAAGACGCGGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGATAG
3775703 CT
131 CT
3775705 TGAATATTGG
Statistics
Matches: 339, Mismatches: 53, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
262 2 0.01
263 2 0.01
264 332 0.98
265 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (264 bp):
TCACTTTAGGTGGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGCTAACTAACAAC
CTCACTCTAGGAAGCATTAAAGACGCGGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGATAG
CTCAAACCTTGGAAGAACTAAGGACTCAGGCCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATG
GCCAAACCCTCGGAGGAATCAAGGACTCAGGCCCGAGCCCAGGTGTAGGAAACAAGTTTACCAAC
AGCT
Found at i:3775453 original size:330 final size:330
Alignment explanation
Indices: 3774934--3775930 Score: 1179
Period size: 330 Copynumber: 3.0 Consensus size: 330
3774924 GTTATAAAGA
* * *
3774934 ACTCCGGCCCGAGTCCTGATGTAGGAAACAAGTTTACCGACAGTTTCACTATAGGTGGCGTTAAG
1 ACTCCGGCCCGAGTCCTGGTGTAGGAAACAAGTTTACCGACAGCTTCACTATAGGTGGCATTAAG
* * * ** *
3774999 GATTCCGGTCCAAATCCTGCTGTGGGAAATAAGTTAAGCAATAGCCTCACTTTAGGAGGCATTAA
66 GACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTATAGGAGGCATTAA
* * * *
3775064 AGATTCTGGTCCGAGCCCTGGTGTAGGAAATAAGCTAACTAACAACTTTGCATTTGGAAGCATTA
131 AGATGCTGGTCCGAGCCCTGGTGTAGGAAACAAACTAACTGACAACTTTGCATTTGGAAGCATTA
* *
3775129 AGGATTCGGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGAATC
196 AGGATTCTGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCATC
*
3775194 AAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGAAT
261 AAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCAT
3775259 CAAGG
326 CAAGG
* * * * *
3775264 ACTCAGGCCCGAGCCCCGGTGTAGGAAACAAGTTTACCAACAGCTTCACTTTAGGTGGCATTAAG
1 ACTCCGGCCCGAGTCCTGGTGTAGGAAACAAGTTTACCGACAGCTTCACTATAGGTGGCATTAAG
* *
3775329 GACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGAGGTATTAA
66 GACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTATAGGAGGCATTAA
* * * * * * * *
3775394 AGACGCTGGTCCGAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTT-AACCTTGGAAGCACT
131 AGATGCTGGTCCGAGCCCTGGTGTAGGAAACAAACTAACTGACAACTTTGCA-TTTGGAAGCATT
* * *
3775458 AAGGATTCTGGTCCAAGGCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAGGCAT
195 AAGGATTCTGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCAT
* ** * * * ** *** * * *
3775523 CAAGGACTCAGGCCTGAGCCTAGGTGTAGGAAACAAGTTTACCGACAGCTTCACTCTAGGTGGCA
260 CAAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCA
* *
3775588 TTATGG
325 TCAAGG
* * * * * ** * * * * * *
3775594 ACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCTTCACTCTAGGAGGAAATAAA
1 ACTCCGGCCCGAGTCCTGGTGTAGGAAACAAGTTTACCGACAGCTTCACTATAGGTGGCATTAAG
* * * * * * * * * * * * *
3775659 GACGCTGGTCCAAGCCCTGGTGTAGGAAACAAGCTCACTGATAGCTTGAATATTGGAGGCATCAA
66 GACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTATAGGAGGCATTAA
* * * *
3775724 GGATTG-TGGTCCTAGCCCTGGTGTAGGAAACAAACTAATTGACAACTTTGCATTTGGCAGCATT
131 AGA-TGCTGGTCCGAGCCCTGGTGTAGGAAACAAACTAACTGACAACTTTGCATTTGGAAGCATT
* * *
3775788 AAGGATTCTGGTCCAAGCCCCGGTGTGGGAAATAAGTTAACTGACGGGCAAACCCTTGGAGGCAT
195 AAGGATTCTGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCAT
* * * *
3775853 TAAGGATTCCGGCCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCA
260 CAAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCA
3775918 TCAAGG
325 TCAAGG
3775924 ACTCCGG
1 ACTCCGG
3775931 TCCAAGCCCT
Statistics
Matches: 545, Mismatches: 119, Indels: 6
0.81 0.18 0.01
Matches are distributed among these distances:
329 1 0.00
330 542 0.99
331 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (330 bp):
ACTCCGGCCCGAGTCCTGGTGTAGGAAACAAGTTTACCGACAGCTTCACTATAGGTGGCATTAAG
GACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTATAGGAGGCATTAA
AGATGCTGGTCCGAGCCCTGGTGTAGGAAACAAACTAACTGACAACTTTGCATTTGGAAGCATTA
AGGATTCTGGTCCAAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCATC
AAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGCAT
CAAGG
Found at i:3775705 original size:264 final size:264
Alignment explanation
Indices: 3775191--3775756 Score: 855
Period size: 264 Copynumber: 2.1 Consensus size: 264
3775181 CCTTGGAGGA
* * * * * *
3775191 ATCAAGGACTCAGGCCCGAGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGG
1 ATCAAGGATTCTGGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAGG
* *
3775256 AATCAAGGACTCAGGCCCGAGCCCCGGTGTAGGAAACAAGTTTACCAACAGCTTCACTTTAGGTG
66 AATCAAGGACTCAGGCCCGAGCCCAGGTGTAGGAAACAAGTTTACCAACAGCTTCACTCTAGGTG
3775321 GCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGA
131 GCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGA
* * * * *
3775386 GGTATTAAAGACGCTGGTCCGAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTTAACCTTGG
196 GGAAATAAAGACGCTGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTGAACATTGG
3775451 AAGC
261 AAGC
*
3775455 A-CTAAGGATTCTGGTCCAAGGCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAG
1 ATC-AAGGATTCTGGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAG
* * * *
3775519 GCATCAAGGACTCAGGCCTGAGCCTAGGTGTAGGAAACAAGTTTACCGACAGCTTCACTCTAGGT
65 GAATCAAGGACTCAGGCCCGAGCCCAGGTGTAGGAAACAAGTTTACCAACAGCTTCACTCTAGGT
* *
3775584 GGCATTATGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCTTCACTCTAGG
130 GGCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGG
* * * * *
3775649 AGGAAATAAAGACGCTGGTCCAAGCCCTGGTGTAGGAAACAAGCTCACTGATAGCTTGAATATTG
195 AGGAAATAAAGACGCTGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTGAACATTG
*
3775714 GAGGC
260 GAAGC
* * *
3775719 ATCAAGGATTGTGGTCCTAGCCCTGGTGTAGGAAACAA
1 ATCAAGGATTCTGGTCCAAGCCCTGGTGTGGGAAACAA
3775757 ACTAATTGAC
Statistics
Matches: 270, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
263 1 0.00
264 268 0.99
265 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (264 bp):
ATCAAGGATTCTGGTCCAAGCCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAGG
AATCAAGGACTCAGGCCCGAGCCCAGGTGTAGGAAACAAGTTTACCAACAGCTTCACTCTAGGTG
GCATTAAGGACTCCGGTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGA
GGAAATAAAGACGCTGGTCCAAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTGAACATTGG
AAGC
Found at i:3775854 original size:264 final size:264
Alignment explanation
Indices: 3775209--3775898 Score: 668
Period size: 264 Copynumber: 2.6 Consensus size: 264
3775199 CTCAGGCCCG
* * ** *** * * * *
3775209 AGCCCCGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTTGGAGGAATCAAGGACTCAGGCCC
1 AGCCCTGGTGTAGGAAACAAACTAACTGACAACCAAACACTCGGAGGCATCAAGGACTCAGGCCT
* * * * ** ** *
3775274 GAGCCCCGGTGTAGGAAACAAGTTTACCAACAGCTTCACTTTAGGTGGCATTAAGGACTCCGGTC
66 AAGCCCAGGTGTAGGAAACAAGTTAACCGACAGCTAAACCCTAGGAGGCATTAAGGACTCCGGTC
* *
3775339 CAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGAGGTATTAAAGACGCTGGT
131 CAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGAGGAAATAAAGACGCTGGT
* * *
3775404 CCGAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTTAACCTTGGAAGCACTAAGGATTCTGG
196 CCAAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTGAACATTGGAAGCACTAAGGATTCTGG
3775469 TCCA
261 TCCA
* * ** *** *
3775473 AGGCCTGGTGTGGGAAACAAGTTAACTGATGGCCAAACCCTCGGAGGCATCAAGGACTCAGGCCT
1 AGCCCTGGTGTAGGAAACAAACTAACTGACAACCAAACACTCGGAGGCATCAAGGACTCAGGCCT
* * * ** * * *
3775538 GAGCCTAGGTGTAGGAAACAAGTTTACCGACAGCTTCACTCTAGGTGGCATTATGGACTCCGGTC
66 AAGCCCAGGTGTAGGAAACAAGTTAACCGACAGCTAAACCCTAGGAGGCATTAAGGACTCCGGTC
*
3775603 CAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCTTCACTCTAGGAGGAAATAAAGACGCTGGT
131 CAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGAGGAAATAAAGACGCTGGT
* * * * * * *
3775668 CCAAGCCCTGGTGTAGGAAACAAGCTCACTGATAGCTTGAATATTGGAGGCA-TCAAGGATTGTG
196 CCAAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTGAACATTGGAAGCACT-AAGGATTCTG
*
3775732 GTCCT
260 GTCCA
* **** * * * * *
3775737 AGCCCTGGTGTAGGAAACAAACTAATTGACAACTTTGCATTTGGCA-GCATTAAGGATTCTGGTC
1 AGCCCTGGTGTAGGAAACAAACTAACTGACAACCAAACACTCGG-AGGCATCAAGGACTCAGG-C
* * * * * * *
3775801 C-AAGCCCCGGTGTGGGAAATAAGTTAACTGACGGGC-AAACCCTTGGAGGCATTAAGGATTCCG
64 CTAAGCCCAGGTGTAGGAAACAAGTTAACCGAC-AGCTAAACCCTAGGAGGCATTAAGGACTCCG
* * * * *
3775864 GCCCAAGCCCCGGTGTGGGAAACAAGTTAACTGAT
128 GTCCAAGTCCTGGTGTGGGAAATAAGTTAAGTGAT
3775899 GGCCAAACCC
Statistics
Matches: 360, Mismatches: 62, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
263 1 0.00
264 354 0.98
265 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (264 bp):
AGCCCTGGTGTAGGAAACAAACTAACTGACAACCAAACACTCGGAGGCATCAAGGACTCAGGCCT
AAGCCCAGGTGTAGGAAACAAGTTAACCGACAGCTAAACCCTAGGAGGCATTAAGGACTCCGGTC
CAAGTCCTGGTGTGGGAAATAAGTTAAGTGATAGCCTCACTCTAGGAGGAAATAAAGACGCTGGT
CCAAGCCCAGGTGTAGGAAACAAACTAACGGATAGCTTGAACATTGGAAGCACTAAGGATTCTGG
TCCA
Found at i:3789016 original size:26 final size:23
Alignment explanation
Indices: 3788964--3789017 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
3788954 TGTCCTTGAT
*
3788964 AAAGAAGGATATGAAAGTTGACA
1 AAAGAAGGATATGAAAGTTCACA
*
3788987 AAAGAATGGATAGTGAAAGCTTCTCA
1 AAAGAA-GGATA-TGAAAG-TTCACA
3789013 AAAGA
1 AAAGA
3789018 TCTATGGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 5 0.19
25 6 0.23
26 9 0.35
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.19
Consensus pattern (23 bp):
AAAGAAGGATATGAAAGTTCACA
Found at i:3799834 original size:104 final size:104
Alignment explanation
Indices: 3799654--3799854 Score: 341
Period size: 104 Copynumber: 1.9 Consensus size: 104
3799644 AGGGGGAGTT
* * * *
3799654 ACCTTTGACATCAGATGGTGTAGAGTTTCAGCCTAAGAAATTTACTAAAGAGCACAGGCTATCTA
1 ACCTTTGACATCAGATGGTGTAAAGTTTCAGCCTAAGAAATCTACTAAAGAGCACAGGCCATATA
3799719 TCATGTATCCAAGTTCATATTTTATTTTATTTACCAGTA
66 TCATGTATCCAAGTTCATATTTTATTTTATTTACCAGTA
*
3799758 ACCTTTGACATCAGGTGGTGTAAAGTTTCAGCCTAAGAAATCTACTAGAA-AGCACAGGCCATAT
1 ACCTTTGACATCAGATGGTGTAAAGTTTCAGCCTAAGAAATCTACTA-AAGAGCACAGGCCATAT
3799822 ATCATGTATCCAAGTTCATATTTTATTTTATTT
65 ATCATGTATCCAAGTTCATATTTTATTTTATTT
3799855 TATTTACCAG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 89 0.98
105 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (104 bp):
ACCTTTGACATCAGATGGTGTAAAGTTTCAGCCTAAGAAATCTACTAAAGAGCACAGGCCATATA
TCATGTATCCAAGTTCATATTTTATTTTATTTACCAGTA
Found at i:3802052 original size:401 final size:401
Alignment explanation
Indices: 3801309--3802098 Score: 1409
Period size: 401 Copynumber: 2.0 Consensus size: 401
3801299 GAGGAATAGC
** * *
3801309 AGATGCTATTAAAGAAAGTTCATACTAATGAGAATGTAGCAAATATGTTGACTAAGATACTTTTT
1 AGATGCTATTAAAGAAAGCCCATACTAATGAGAATGTAACAAATATGTTGACTAAGATACTTTCT
* *
3801374 AGGGAGAAGCTTGAGCTCTGCACTAACTTAACCGAAATGAGTTTCTTGATCAAGGTAAATTTTAA
66 AGGGAGAAGCTTGAGCTCTGCACTAACTTAACCAAAATGAGTTTCTTGATCAAGGTAAATTCTAA
* *
3801439 ATGAAACTGCTATGGTGATGAATCTCCTCCTAATGGGGTTAGAATGAGAGATTGTTAGAGGAAAG
131 ATGAAACTGCTATAGTGATGAATCTCCTCCTAATGGGGTTAGAATAAGAGATTGTTAGAGGAAAG
*
3801504 TGGGGTCCAGCCCCATGAGTTTTTTTACTGTTCAAAGGCCATGGGCCTTGTATTTTTAAGCTTTC
196 TGGGGTCCAGCCCCATGAGTTTTTTTACAGTTCAAAGGCCATGGGCCTTGTATTTTTAAGCTTTC
3801569 TTAAAAGCGCCCTAACTACTTAATAAAAAGATGTGGGATTGTTTTATGGTGAAAAAGAAAAAGGT
261 TTAAAAGCGCCCTAACTACTTAATAAAAAGATGTGGGATTGTTTTATGGTGAAAAAGAAAAAGGT
*
3801634 GGCACCACAAACCTAGAAAAAAAAAAGAGAAAAAAGAAACCAAAAAAATAGAGAGAAAAAAAGAT
326 GGCACCACAAACCTAGAAAAAAAAAAGAGAAAAAAGAAACCAAAAAAATAGAGAAAAAAAAAGAT
3801699 ACTTTCTAGGG
391 ACTTTCTAGGG
*
3801710 AGATGCTATTAAAGAAAGCCCATACTAATGAGAATTTAACAAATATGTTGACTAAGATACTTTCT
1 AGATGCTATTAAAGAAAGCCCATACTAATGAGAATGTAACAAATATGTTGACTAAGATACTTTCT
* *
3801775 AGGGAGAAGCTTGAGCTTTGCACTAACTTAGCCAAAATGAGTTTCTTGATCAAGGTAAATTCTAA
66 AGGGAGAAGCTTGAGCTCTGCACTAACTTAACCAAAATGAGTTTCTTGATCAAGGTAAATTCTAA
* *
3801840 ATGAAATTGTTATAGTGATGAATCTCCTCCTAATGGGGTTAGAATAAGAGATTGTTAGAGGAAAG
131 ATGAAACTGCTATAGTGATGAATCTCCTCCTAATGGGGTTAGAATAAGAGATTGTTAGAGGAAAG
3801905 TGGGGTCCAGCCCCATGAGTTTTTTTACAGTTCAAAGGCCATGGGCCTTGTATTTTTAAGCTTTC
196 TGGGGTCCAGCCCCATGAGTTTTTTTACAGTTCAAAGGCCATGGGCCTTGTATTTTTAAGCTTTC
*
3801970 TTAAAAGCGCCCTAACTACTTAGTAAAAAGATGTGGGATTGTTTTATGGTGAAAAAGAAAAAGGT
261 TTAAAAGCGCCCTAACTACTTAATAAAAAGATGTGGGATTGTTTTATGGTGAAAAAGAAAAAGGT
** *
3802035 GGTGCCACAAACCTAGAAAAAAAAAAGAGAAAAAAGAAGCCAAAAAAATAGAGAAAAAAAAAGA
326 GGCACCACAAACCTAGAAAAAAAAAAGAGAAAAAAGAAACCAAAAAAATAGAGAAAAAAAAAGA
3802099 AGGGAAAGTT
Statistics
Matches: 370, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
401 370 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (401 bp):
AGATGCTATTAAAGAAAGCCCATACTAATGAGAATGTAACAAATATGTTGACTAAGATACTTTCT
AGGGAGAAGCTTGAGCTCTGCACTAACTTAACCAAAATGAGTTTCTTGATCAAGGTAAATTCTAA
ATGAAACTGCTATAGTGATGAATCTCCTCCTAATGGGGTTAGAATAAGAGATTGTTAGAGGAAAG
TGGGGTCCAGCCCCATGAGTTTTTTTACAGTTCAAAGGCCATGGGCCTTGTATTTTTAAGCTTTC
TTAAAAGCGCCCTAACTACTTAATAAAAAGATGTGGGATTGTTTTATGGTGAAAAAGAAAAAGGT
GGCACCACAAACCTAGAAAAAAAAAAGAGAAAAAAGAAACCAAAAAAATAGAGAAAAAAAAAGAT
ACTTTCTAGGG
Found at i:3802069 original size:12 final size:12
Alignment explanation
Indices: 3802052--3802098 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
3802042 CAAACCTAGA
3802052 AAAAAAAAAGAG
1 AAAAAAAAAGAG
* **
3802064 AAAAAAGAAGCC
1 AAAAAAAAAGAG
*
3802076 AAAAAAATAGAG
1 AAAAAAAAAGAG
3802088 AAAAAAAAAGA
1 AAAAAAAAAGA
3802099 AGGGAAAGTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.79, C:0.04, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:3806429 original size:33 final size:33
Alignment explanation
Indices: 3806391--3806455 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
3806381 AAGATTGATC
*
3806391 TATGTTAAGAGTTTATTTAGGTGCAAAATAAAT
1 TATGTTAAGAGCTTATTTAGGTGCAAAATAAAT
*
3806424 TATGTTAAGAGCTTATTTAGGTGCAAATTAAA
1 TATGTTAAGAGCTTATTTAGGTGCAAAATAAA
3806456 ACATAAGGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (33 bp):
TATGTTAAGAGCTTATTTAGGTGCAAAATAAAT
Found at i:3806470 original size:30 final size:28
Alignment explanation
Indices: 3806429--3806560 Score: 115
Period size: 30 Copynumber: 4.5 Consensus size: 28
3806419 TAAATTATGT
* * *
3806429 TAAGAGCTTATTTAGGTGCAAATTAAAAC
1 TAAGGGCTTATTT-GGTACAAATTAAAGC
*
3806458 ATAAGGGCTTATTTGGATACAAATTAAAGTT
1 -TAAGGGCTTATTTGG-TACAAATTAAAG-C
*
3806489 TAAGGGCTTATTTGGGTACAAAGTAAAGGC
1 TAAGGGCTTATTT-GGTACAAATTAAA-GC
*
3806519 TAAGGGCTTATTTGGATAC-AATAAAAG-
1 TAAGGGCTTATTTGG-TACAAATTAAAGC
3806546 TATAGGGACTTATTT
1 TA-AGGG-CTTATTT
3806561 AAATAAAGTG
Statistics
Matches: 87, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.02
28 5 0.06
29 16 0.18
30 61 0.70
31 3 0.03
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (28 bp):
TAAGGGCTTATTTGGTACAAATTAAAGC
Found at i:3806499 original size:60 final size:59
Alignment explanation
Indices: 3806428--3806561 Score: 164
Period size: 60 Copynumber: 2.3 Consensus size: 59
3806418 ATAAATTATG
* * * *
3806428 TTAAGAGCTTATTTAGGTGCAAATTAAA-ACATAAGGGCTTATTTGGATACAAATTAAAGT
1 TTAAGGGCTTATTTAGGTACAAAGTAAAGAC-TAAGGGCTTATTTGGATAC-AATAAAAGT
* *
3806488 TTAAGGGCTTATTTGGGTACAAAGTAAAGGCTAAGGGCTTATTTGGATACAATAAAAGT
1 TTAAGGGCTTATTTAGGTACAAAGTAAAGACTAAGGGCTTATTTGGATACAATAAAAGT
*
3806547 AT-AGGGACTTATTTA
1 TTAAGGG-CTTATTTA
3806562 AATAAAGTGG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
58 4 0.06
59 16 0.25
60 43 0.67
61 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (59 bp):
TTAAGGGCTTATTTAGGTACAAAGTAAAGACTAAGGGCTTATTTGGATACAATAAAAGT
Found at i:3814778 original size:34 final size:36
Alignment explanation
Indices: 3814734--3814801 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
3814724 AATGGTATTG
*
3814734 GATTTTTTTTTAATTAAT-AATTTATT-TTTTCTCC
1 GATTTATTTTTAATTAATAAATTTATTCTTTTCTCC
** *
3814768 GATTTATTTTTGGTTAATAAATTTTTTCTTTTCT
1 GATTTATTTTTAATTAATAAATTTATTCTTTTCT
3814802 TTTTCAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 15 0.54
35 7 0.25
36 6 0.21
ACGTcount: A:0.22, C:0.07, G:0.06, T:0.65
Consensus pattern (36 bp):
GATTTATTTTTAATTAATAAATTTATTCTTTTCTCC
Found at i:3820410 original size:34 final size:34
Alignment explanation
Indices: 3820367--3820439 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
3820357 ATAGAGTTTA
** *
3820367 TTAAAAATAAATATTTGAAAAACTTTAAAATTTT
1 TTAAAAATAAATATCCGAAAAACTTTAAAAATTT
**
3820401 TTAAAAATAAATATCCGAAAAGTTTTAAAAATTT
1 TTAAAAATAAATATCCGAAAAACTTTAAAAATTT
3820435 TTAAA
1 TTAAA
3820440 TTTATTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (34 bp):
TTAAAAATAAATATCCGAAAAACTTTAAAAATTT
Found at i:3822271 original size:29 final size:29
Alignment explanation
Indices: 3822211--3822272 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
3822201 ACTTTATTTA
* *
3822211 TTTTTTTATTTGATCTGAGAGATTATTAT
1 TTTTTTTACTTGATCTGAGAGATTAGTAT
* *
3822240 TTTTTTTACTTGATCTGAGAGGTTAGTCT
1 TTTTTTTACTTGATCTGAGAGATTAGTAT
3822269 TTTT
1 TTTT
3822273 CATTTTCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.06, G:0.16, T:0.58
Consensus pattern (29 bp):
TTTTTTTACTTGATCTGAGAGATTAGTAT
Found at i:3822673 original size:17 final size:18
Alignment explanation
Indices: 3822646--3822679 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3822636 ATGCTTGACA
*
3822646 TATTAAAAATATTTATAC
1 TATTAAAAATAGTTATAC
3822664 TATT-AAAATAGTTATA
1 TATTAAAAATAGTTATA
3822680 TTTTACATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
TATTAAAAATAGTTATAC
Found at i:3822852 original size:65 final size:63
Alignment explanation
Indices: 3822769--3822909 Score: 144
Period size: 65 Copynumber: 2.2 Consensus size: 63
3822759 TAAATAAAAT
* * *
3822769 ATAAAATAATATATTTTAATCTATTA-AAATTACAATATTAATATATTATATAATATTAATTATT
1 ATAAAAAAATATATTTTAATATATTAGAAATTA-AATAATAATATA--ATAT--TATTAATTATT
3822833 GAA
61 GAA
** *
3822836 ATAAAAAAAT-TA-TTTAATATATTAGTTATTAAATAATAATATAATATTATTTATTATTGAA
1 ATAAAAAAATATATTTTAATATATTAGAAATTAAATAATAATATAATATTATTAATTATTGAA
*
3822897 ATATTAAAAATAT
1 ATA-AAAAAATAT
3822910 TTGTATTTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
61 16 0.25
62 6 0.09
63 5 0.08
65 22 0.34
66 6 0.09
67 9 0.14
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (63 bp):
ATAAAAAAATATATTTTAATATATTAGAAATTAAATAATAATATAATATTATTAATTATTGAA
Found at i:3823401 original size:21 final size:20
Alignment explanation
Indices: 3823367--3823405 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3823357 CTTATATCTG
3823367 TTGATCAATAAATTATTTTTC
1 TTGATCAATAAATT-TTTTTC
* *
3823388 TTGATCAGTTAATTTTTT
1 TTGATCAATAAATTTTTT
3823406 ATTAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (20 bp):
TTGATCAATAAATTTTTTTC
Found at i:3826066 original size:18 final size:17
Alignment explanation
Indices: 3826017--3826053 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
3826007 TCTTTAGGAT
3826017 TTTTAA-GA-TTTTAGA
1 TTTTAAGGAGTTTTAGA
3826032 TTTTAAGGAGTTTTAGA
1 TTTTAAGGAGTTTTAGA
3826049 TTTTA
1 TTTTA
3826054 TGGGGGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (17 bp):
TTTTAAGGAGTTTTAGA
Done.