Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 117 of 150
Found at i:36085564 original size:6 final size:6
Alignment explanation
Indices: 36085553--36085586 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
36085543 GTAGGTTTCC
* *
36085553 AAAATG AAAATG GAAATG GAAATG AAAATG AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
36085587 CGATTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:36085763 original size:26 final size:27
Alignment explanation
Indices: 36085734--36085808 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
36085724 CATATTTTTG
* *
36085734 AAAATTTTAATAGGGGTAAAATTATCA
1 AAAATTTTACTAGGGGTAAAATCATCA
* * *
36085761 AAAAATTTACCAGGGGTAAAATCGTC-
1 AAAATTTTACTAGGGGTAAAATCATCA
36085787 AAAATTTTACT-GAGGGTAAAAT
1 AAAATTTTACTAG-GGGTAAAAT
36085809 AGAGATGAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.03
26 18 0.45
27 21 0.52
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.29
Consensus pattern (27 bp):
AAAATTTTACTAGGGGTAAAATCATCA
Found at i:36086248 original size:17 final size:17
Alignment explanation
Indices: 36086226--36086260 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
36086216 AAGAAAGTAA
36086226 GATAATATCCCTGATAT
1 GATAATATCCCTGATAT
36086243 GATAATATCCCTGATAT
1 GATAATATCCCTGATAT
36086260 G
1 G
36086261 GTGAAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (17 bp):
GATAATATCCCTGATAT
Found at i:36092574 original size:47 final size:47
Alignment explanation
Indices: 36092505--36092599 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
36092495 TAGTGCCTAG
* * *
36092505 TGATTGAAATAAAAACTTCTAAATAGTTTAGTGACTTGATGAAAACT
1 TGATTGAAATAAAAACTTCTAAATAATTTAGTGAATTAATGAAAACT
36092552 TGATTGAAATAAAAACTTCTAAATAATTTAGTGAATTAATGAAAACT
1 TGATTGAAATAAAAACTTCTAAATAATTTAGTGAATTAATGAAAACT
36092599 T
1 T
36092600 TCAAATAGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (47 bp):
TGATTGAAATAAAAACTTCTAAATAATTTAGTGAATTAATGAAAACT
Found at i:36106888 original size:18 final size:17
Alignment explanation
Indices: 36106855--36106888 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36106845 GCAATTAATA
*
36106855 TAAAAAATAAAGATATT
1 TAAAAAATAAAAATATT
36106872 TAAAAAATATAAAATAT
1 TAAAAAATA-AAAATAT
36106889 AGCCTTTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAAATAAAAATATT
Found at i:36113235 original size:17 final size:18
Alignment explanation
Indices: 36113203--36113236 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36113193 AGTCAACAAA
*
36113203 ATAATAACAGTAAAATAC
1 ATAATAACAATAAAATAC
36113221 ATAATAA-AATAAAATA
1 ATAATAACAATAAAATA
36113237 AAACATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAATAACAATAAAATAC
Found at i:36113421 original size:3 final size:3
Alignment explanation
Indices: 36113413--36113481 Score: 65
Period size: 3 Copynumber: 23.7 Consensus size: 3
36113403 TAAAAATGGA
** *
36113413 AAT AAT AAT AAT AAT AAT AAT GGT AAT AAT AAC AAT -AT AAT AA- AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
36113460 AAT -AT AAT AAT AAAT AA- AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AA
36113482 ACAAAAGAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 8 0.15
3 41 0.76
4 5 0.09
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:36127612 original size:19 final size:19
Alignment explanation
Indices: 36127588--36127628 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36127578 TCCCCCTTTT
* *
36127588 TTTATTTTAATGCAATTTA
1 TTTATTTTAATACAATATA
*
36127607 TTTATTTTTATACAATATA
1 TTTATTTTAATACAATATA
36127626 TTT
1 TTT
36127629 TTTCTTCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTATTTTAATACAATATA
Found at i:36131555 original size:12 final size:12
Alignment explanation
Indices: 36131531--36131572 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
36131521 ATTAATCATT
36131531 TAATAAT-AAAA
1 TAATAATAAAAA
*
36131542 TAATACTAAAAA
1 TAATAATAAAAA
*
36131554 TATTAATAAAAA
1 TAATAATAAAAA
*
36131566 TATTAAT
1 TAATAAT
36131573 TAAATAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 6 0.22
12 21 0.78
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
TAATAATAAAAA
Found at i:36133873 original size:42 final size:42
Alignment explanation
Indices: 36133735--36134044 Score: 380
Period size: 42 Copynumber: 7.5 Consensus size: 42
36133725 TTTAAACAGA
* * * *
36133735 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* * * *
36133776 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
36133817 TTCACTGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
36133859 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
36133901 TTCACCGGCATTAAGCCTGATAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * *
36133943 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTAAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
36133985 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA-AATGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* * *
36134026 TTCACTGGCAATAAACCTG
1 TTCACCGGCATTAAGCCTG
36134045 ATAGGCACTG
Statistics
Matches: 237, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.01
41 79 0.33
42 155 0.65
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:36141050 original size:227 final size:227
Alignment explanation
Indices: 36140655--36141104 Score: 767
Period size: 227 Copynumber: 2.0 Consensus size: 227
36140645 TCATTGGTTG
*
36140655 AATGTCTTAAGTGTGCAATATCTCTGTCAAAAGATTCAGATTACCAATGGTGGAATACATTAACT
1 AATGTCTTAAGTGTGCAATATCTCTGTCAAAAGATTCAGATTACCAATGATGGAATACATTAACT
* *
36140720 TCTGTTGTGCCAAAAGAGAGGATTACTTGGGAATTCTTTCAAACTGAGTTTCAAAAGAAATATAT
66 TCTGTTGTGCCAAAAGAGAAGATTACTTGGGAATTCTTTCAAACTGAGTTTCAAAAGAAATACAT
* *
36140785 CAGTCAGAGATTTCTCGACCAGAAACGTAAAGAATTCTTGGAGCTTAAATAGGGTCATATGACAA
131 CAGTCAGAGATTTCTCGACCAGAAACGTAAAAAATTCTTGGAGCTTAAACAGGGTCATATGACAA
36140850 TGTCCGAATATGAACTAGAATTTGTTCGGCTA
196 TGTCCGAATATGAACTAGAATTTGTTCGGCTA
* * * *
36140882 AATGTCTTAAGTGTGCAGTATCTCTGTTAAAAGATTCAGCTTACCAGTGATGGAATACATTAACT
1 AATGTCTTAAGTGTGCAATATCTCTGTCAAAAGATTCAGATTACCAATGATGGAATACATTAACT
* * *
36140947 TCTGTTGTGCCGAAAGAGAAGATTACTTGGGAATTCTTTCAAATTGAG-TTCTGAAAGAAATACA
66 TCTGTTGTGCCAAAAGAGAAGATTACTTGGGAATTCTTTCAAACTGAGTTTC-AAAAGAAATACA
*
36141011 TCAGTCAGAGGTTTCTCGACCAGAAACGTAAAAAATTCTTGGAGCTTAAACAGGGTCATATGACA
130 TCAGTCAGAGATTTCTCGACCAGAAACGTAAAAAATTCTTGGAGCTTAAACAGGGTCATATGACA
36141076 ATGTCCGAATATGAACTAGAATTTGTTCG
195 ATGTCCGAATATGAACTAGAATTTGTTCG
36141105 ATTGAGTAAA
Statistics
Matches: 209, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
226 3 0.01
227 206 0.99
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (227 bp):
AATGTCTTAAGTGTGCAATATCTCTGTCAAAAGATTCAGATTACCAATGATGGAATACATTAACT
TCTGTTGTGCCAAAAGAGAAGATTACTTGGGAATTCTTTCAAACTGAGTTTCAAAAGAAATACAT
CAGTCAGAGATTTCTCGACCAGAAACGTAAAAAATTCTTGGAGCTTAAACAGGGTCATATGACAA
TGTCCGAATATGAACTAGAATTTGTTCGGCTA
Found at i:36145990 original size:25 final size:25
Alignment explanation
Indices: 36145912--36145990 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
36145902 CACACCACAA
* *
36145912 CTCGTATGAGCTTCCCATTATACAG
1 CTCGCATGAGCTTCCCATTATTCAG
*
36145937 CTCACATGAGCTT-CCAGTTACTT-AG
1 CTCGCATGAGCTTCCCA-TTA-TTCAG
*
36145962 CTCGCATGAGCTTCCCTTTATTCAG
1 CTCGCATGAGCTTCCCATTATTCAG
36145987 CTCG
1 CTCG
36145991 GAGAAGATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 5 0.11
25 37 0.82
26 3 0.07
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.33
Consensus pattern (25 bp):
CTCGCATGAGCTTCCCATTATTCAG
Found at i:36152651 original size:24 final size:21
Alignment explanation
Indices: 36152598--36152641 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36152588 ATATGGTCTT
36152598 TTGTTTTGCATGAGGCACATG
1 TTGTTTTGCATGAGGCACATG
36152619 TTGTTTTGCATGAGGCACATG
1 TTGTTTTGCATGAGGCACATG
36152640 TT
1 TT
36152642 CTTGTTTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (21 bp):
TTGTTTTGCATGAGGCACATG
Found at i:36154814 original size:26 final size:26
Alignment explanation
Indices: 36154785--36154836 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
36154775 AAATCATTAT
*
36154785 ATGATAATATAATT-CAATAATTTTTA
1 ATGA-AATATAATTAAAATAATTTTTA
36154811 ATGAAATATAATTAAAATAATTTTTA
1 ATGAAATATAATTAAAATAATTTTTA
36154837 TTATATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (26 bp):
ATGAAATATAATTAAAATAATTTTTA
Found at i:36154818 original size:25 final size:27
Alignment explanation
Indices: 36154785--36154859 Score: 86
Period size: 25 Copynumber: 2.9 Consensus size: 27
36154775 AAATCATTAT
*
36154785 ATGATAATATAATT-CAATAATTTTTA
1 ATGATAATATAATTAAAATAATTTTTA
36154811 ATGA-AATATAATTAAAATAATTTTT-
1 ATGATAATATAATTAAAATAATTTTTA
* * *
36154836 ATTATATTAT-ATTAATATAATTTT
1 ATGATAATATAATTAAAATAATTTT
36154860 AATATTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
25 25 0.58
26 18 0.42
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (27 bp):
ATGATAATATAATTAAAATAATTTTTA
Found at i:36159473 original size:30 final size:31
Alignment explanation
Indices: 36159432--36159507 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 31
36159422 CATAGAGAGA
* *
36159432 TTAATTAATTTTT-TATTATTTTATA-AGGAC
1 TTAATTGATTTTTAAATTATTTTA-AGAGGAC
*
36159462 TTAATTGATTTTTAAAATTATTTTAAGAGGTC
1 TTAATTGATTTTT-AAATTATTTTAAGAGGAC
36159494 TTAATTGATTTTTA
1 TTAATTGATTTTTA
36159508 GGGATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 12 0.30
31 2 0.05
32 26 0.65
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (31 bp):
TTAATTGATTTTTAAATTATTTTAAGAGGAC
Found at i:36159497 original size:32 final size:32
Alignment explanation
Indices: 36159446--36159507 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
36159436 TTAATTTTTT
36159446 ATTATTTTATAAGGACTTAATTGATTTTTAAA
1 ATTATTTTATAAGGACTTAATTGATTTTTAAA
*
36159478 ATTATTTTA-AGAGGTCTTAATTGATTTTTA
1 ATTATTTTATA-AGGACTTAATTGATTTTTA
36159508 GGGATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTATTTTATAAGGACTTAATTGATTTTTAAA
Found at i:36160089 original size:19 final size:20
Alignment explanation
Indices: 36160043--36160091 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
36160033 TAATATTTTC
36160043 ATTTTTAATAACATATTAATA
1 ATTTTT-ATAACATATTAATA
*
36160064 ATATTTTATAATAT-TTAATA
1 AT-TTTTATAACATATTAATA
*
36160084 GTTTTTAT
1 ATTTTTAT
36160092 TTTTTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 7 0.28
21 8 0.32
22 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTTATAACATATTAATA
Found at i:36160189 original size:32 final size:32
Alignment explanation
Indices: 36160124--36160191 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
36160114 TTCAAATTTA
* *
36160124 TAAACATTTTAAAATAATTTTAAAAAATCAAT
1 TAAAAATTTTAAAATAATTTAAAAAAATCAAT
*
36160156 TAAAAATTTGTAAAATAA-TTAAAAAAATTAAT
1 TAAAAATTT-TAAAATAATTTAAAAAAATCAAT
36160188 TAAA
1 TAAA
36160192 TCCTCCACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 24 0.75
33 8 0.25
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (32 bp):
TAAAAATTTTAAAATAATTTAAAAAAATCAAT
Found at i:36164544 original size:14 final size:14
Alignment explanation
Indices: 36164525--36164555 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
36164515 AAAAAATCCT
36164525 AAAAAATTATTTTA
1 AAAAAATTATTTTA
36164539 AAAAAATTATTTTA
1 AAAAAATTATTTTA
36164553 AAA
1 AAA
36164556 TCACATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAAAATTATTTTA
Found at i:36165582 original size:11 final size:11
Alignment explanation
Indices: 36165562--36165641 Score: 51
Period size: 10 Copynumber: 7.5 Consensus size: 11
36165552 ATGTAATTTT
*
36165562 TTAAATAATTA
1 TTAAAAAATTA
36165573 TTAAAAAATTA
1 TTAAAAAATTA
*
36165584 -TAGAAAATT-
1 TTAAAAAATTA
** *
36165593 TTTTAAAATTT
1 TTAAAAAATTA
36165604 TGGTAAAAAATTA
1 T--TAAAAAATTA
*
36165617 TT-AATAATTA
1 TTAAAAAATTA
*
36165627 -TAAGAAATTA
1 TTAAAAAATTA
36165637 TTAAA
1 TTAAA
36165642 TTTATTTTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
9 1 0.02
10 28 0.54
11 15 0.29
13 8 0.15
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:36166589 original size:21 final size:22
Alignment explanation
Indices: 36166529--36166576 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
36166519 TAACTCAAAT
* * *
36166529 AAATAATACAAAAATACAAAAA
1 AAATGATATAAAATTACAAAAA
36166551 AAATGATATAAAATTACAAAAA
1 AAATGATATAAAATTACAAAAA
36166573 AAAT
1 AAAT
36166577 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATGATATAAAATTACAAAAA
Found at i:36166746 original size:2 final size:2
Alignment explanation
Indices: 36166739--36166776 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
36166729 NNNNNNNNNN
36166739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36166777 TCATATGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36166939 original size:38 final size:36
Alignment explanation
Indices: 36166889--36166967 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 36
36166879 AATTCATGTA
*
36166889 ATTTTATAATTTTATAAAT-TTTTTACACTTTTTTAT
1 ATTTTATAATTTT-TAAATATTTTTACACTTTTATAT
* *
36166925 ATTTTATAATATTTTTAATTATTTTTGCACTTTTATAT
1 ATTTTAT-A-ATTTTTAAATATTTTTACACTTTTATAT
36166963 ATTTT
1 ATTTT
36166968 TTATAGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 7 0.19
37 5 0.14
38 25 0.68
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (36 bp):
ATTTTATAATTTTTAAATATTTTTACACTTTTATAT
Found at i:36166949 original size:28 final size:28
Alignment explanation
Indices: 36166890--36167001 Score: 74
Period size: 28 Copynumber: 4.0 Consensus size: 28
36166880 ATTCATGTAA
*
36166890 TTTTATAATTTTATAA-ATTTTTTACACT-T
1 TTTTAT-ATTTTATAATA-TTTTTA-ATTAT
36166919 TTTTATATTTTATAATATTTTTAATTAT
1 TTTTATATTTTATAATATTTTTAATTAT
** *
36166947 TTTTGCACTTTTAT-ATATTTTTTA-TAGT
1 TTTTATA-TTTTATAATATTTTTAATTA-T
* * *
36166975 TTTTGTAATTTGTAAT-TTTTT-ATTAT
1 TTTTATATTTTATAATATTTTTAATTAT
36167001 T
1 T
36167002 ATTTTAAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
26 3 0.04
27 15 0.21
28 39 0.56
29 13 0.19
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTTATATTTTATAATATTTTTAATTAT
Found at i:36181922 original size:45 final size:45
Alignment explanation
Indices: 36181873--36181960 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
36181863 TCAATCATGG
* * *
36181873 TCTTACTAATTCCCGTCATGATGCTATAGCGTCTTTCAGCTATAA
1 TCTTACTAATTCCCATCATGATGCCATAGCATCTTTCAGCTATAA
* *** *
36181918 TCTTACTCATTTTTATCCTGATGCCATAGCATCTTTCAGCTAT
1 TCTTACTAATTCCCATCATGATGCCATAGCATCTTTCAGCTAT
36181961 GGTTTTACTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (45 bp):
TCTTACTAATTCCCATCATGATGCCATAGCATCTTTCAGCTATAA
Found at i:36185205 original size:85 final size:84
Alignment explanation
Indices: 36185058--36185216 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 84
36185048 GAAATTAAAA
* * * **
36185058 TTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGATTAACAAGATTTTATTCGATTTTAATTTT
1 TTAAATAAAATCTATTTCGAGATTTATTCCCGCCGATTAACAAGATTTTATTCAATACTAA-TTT
36185123 ATTTCCAAATTAGAATTAAT
65 ATTTCCAAATTAGAATTAAT
* * * *
36185143 TTAAATAAAATCTATTTCGAGATTTATTCCCGTCGTTTAAGAAGATTTTATTCAATACTAATTTG
1 TTAAATAAAATCTATTTCGAGATTTATTCCCGCCGATTAACAAGATTTTATTCAATACTAATTTA
36185208 TTTCCAAAT
66 TTTCCAAAT
36185217 GAAGACTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
84 12 0.18
85 53 0.82
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (84 bp):
TTAAATAAAATCTATTTCGAGATTTATTCCCGCCGATTAACAAGATTTTATTCAATACTAATTTA
TTTCCAAATTAGAATTAAT
Found at i:36190210 original size:14 final size:14
Alignment explanation
Indices: 36190191--36190236 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
36190181 AATCATTCTA
36190191 TTTATATATTTTAT
1 TTTATATATTTTAT
36190205 TTTATATATTTT-T
1 TTTATATATTTTAT
*
36190218 ATTTATATTTATTTAT
1 -TTTATATAT-TTTAT
36190234 TTT
1 TTT
36190237 GTTCGATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 1 0.04
14 20 0.71
15 6 0.21
16 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTATATATTTTAT
Found at i:36190467 original size:17 final size:16
Alignment explanation
Indices: 36190447--36190499 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
36190437 ATAGTTTTTT
36190447 AATTTTAATTTTAAATA
1 AATTTTAATTTTAAA-A
*
36190464 AATTTTATATCTTTATAA
1 AATTTTA-AT-TTTAAAA
*
36190482 AATCTATAATTTTAAAA
1 AAT-TTTAATTTTAAAA
36190499 A
1 A
36190500 TAAAATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.47
18 8 0.27
19 8 0.27
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (16 bp):
AATTTTAATTTTAAAA
Found at i:36199141 original size:2 final size:2
Alignment explanation
Indices: 36199134--36199165 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36199124 AATAAAAAGA
36199134 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36199166 GGGCAAAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36200097 original size:21 final size:21
Alignment explanation
Indices: 36200057--36200097 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
36200047 AATCAAATCA
*
36200057 ATAATAATTTTTATTTTTTGT
1 ATAATAATTTTTATTATTTGT
36200078 ATAA-AATTTTTATTAATTTG
1 ATAATAATTTTTATT-ATTTG
36200098 AACTACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
ATAATAATTTTTATTATTTGT
Found at i:36200657 original size:3 final size:3
Alignment explanation
Indices: 36200649--36200681 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
36200639 TTTTTAATAT
36200649 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36200682 ATTTTGTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36201311 original size:17 final size:17
Alignment explanation
Indices: 36201289--36201329 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
36201279 ACAGACTGGC
36201289 ACACGGCTGTGTGTCAT
1 ACACGGCTGTGTGTCAT
36201306 ACACGGCTGTGTGTCAT
1 ACACGGCTGTGTGTCAT
36201323 ACACGGC
1 ACACGGC
36201330 CTACTACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (17 bp):
ACACGGCTGTGTGTCAT
Found at i:36204942 original size:90 final size:90
Alignment explanation
Indices: 36204809--36205052 Score: 292
Period size: 90 Copynumber: 2.7 Consensus size: 90
36204799 CATCCATAGA
* *
36204809 TTTCTGACAGCTCTTATCTGCAAATATGTTATGCATTCACAACCATCTGGCAGCATATTAACCTG
1 TTTCTGGCAGCTCTTATATGCAAATATGTTATGCATTCACAACCATCTGGCAGCATATTAACCTG
*
36204874 CAACACTGGTGGTTCATCAACCCAT
66 CAACACTGGTGGTTCACCAACCCAT
* * * * * * *** *
36204899 TTTTTTGCAGCTCTTATGTGCAAATACGTTCTGCATTCACAACCATCTGACAATGTATTAATCTG
1 TTTCTGGCAGCTCTTATATGCAAATATGTTATGCATTCACAACCATCTGGCAGCATATTAACCTG
* *
36204964 CAACACTGGTGGTTCACCCATCCAT
66 CAACACTGGTGGTTCACCAACCCAT
* * * * *
36204989 TTTCTGGCAGCTCTTATATACAAATATGTTGTGCATTCACAATCGTTTGGCAGCGA-ATTAACCT
1 TTTCTGGCAGCTCTTATATGCAAATATGTTATGCATTCACAACCATCTGGCAGC-ATATTAACCT
36205053 ACAAATTTCT
Statistics
Matches: 125, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
90 125 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (90 bp):
TTTCTGGCAGCTCTTATATGCAAATATGTTATGCATTCACAACCATCTGGCAGCATATTAACCTG
CAACACTGGTGGTTCACCAACCCAT
Found at i:36210587 original size:15 final size:17
Alignment explanation
Indices: 36210562--36210605 Score: 67
Period size: 15 Copynumber: 2.8 Consensus size: 17
36210552 TAAAAATTAT
36210562 AAATTAA-ATTTTATT-
1 AAATTAATATTTTATTC
36210577 AAA-TAATATTTTATTC
1 AAATTAATATTTTATTC
36210593 AAATTAATATTTT
1 AAATTAATATTTT
36210606 GAAATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.12
15 11 0.42
16 3 0.12
17 9 0.35
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTAATATTTTATTC
Found at i:36212162 original size:13 final size:13
Alignment explanation
Indices: 36212146--36212195 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
36212136 TTTAAACCAA
36212146 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* * *
36212159 ACTTTTCCACAGC
1 ACTTTTCAAAAAC
36212172 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
36212185 ACTTTTCAAAA
1 ACTTTTCAAAA
36212196 GCAATGAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:36212198 original size:26 final size:26
Alignment explanation
Indices: 36212146--36212198 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
36212136 TTTAAACCAA
* *
36212146 ACTTTTCAAAAACACTTTTCCACAGC
1 ACTTTTCAAAAACACTTTTCAAAAGC
36212172 ACTTTTCAAAAACACTTTTCAAAAGC
1 ACTTTTCAAAAACACTTTTCAAAAGC
36212198 A
1 A
36212199 ATGAAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTTTCAAAAGC
Found at i:36227832 original size:9 final size:9
Alignment explanation
Indices: 36227818--36227842 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36227808 AGTATAGGAA
36227818 AATAAAGAG
1 AATAAAGAG
36227827 AATAAAGAG
1 AATAAAGAG
36227836 AATAAAG
1 AATAAAG
36227843 GAAACAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (9 bp):
AATAAAGAG
Found at i:36231375 original size:16 final size:16
Alignment explanation
Indices: 36231354--36231384 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36231344 CTATGAGTGC
*
36231354 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
36231370 AAAATACAAAAGACA
1 AAAATACAAAAGACA
36231385 TAATAATGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:36232371 original size:19 final size:19
Alignment explanation
Indices: 36232347--36232421 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
36232337 AATCTTCGAG
*
36232347 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36232366 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
36232385 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
36232406 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
36232422 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:36232393 original size:21 final size:21
Alignment explanation
Indices: 36232348--36232410 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
36232338 ATCTTCGAGG
*
36232348 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
36232367 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
36232388 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
36232409 AT
1 AT
36232411 GTAATCTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 18 0.44
21 23 0.56
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:36232447 original size:22 final size:22
Alignment explanation
Indices: 36232400--36232444 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
36232390 ATGCAATCTT
*
36232400 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATATTAGA
*
36232422 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGTAATATTAGA
36232445 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (22 bp):
AGATATGATATGTAATATTAGA
Found at i:36232454 original size:22 final size:23
Alignment explanation
Indices: 36232410--36232454 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
36232400 AGATATGATA
* *
36232410 TGTAATCTTAGAAGATATGATTT
1 TGTAATATTAGAAGATATAATTT
*
36232433 TGTAATATTAG-AGATTTAATTT
1 TGTAATATTAGAAGATATAATTT
36232455 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATATTAGAAGATATAATTT
Found at i:36238171 original size:23 final size:24
Alignment explanation
Indices: 36238095--36238170 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
36238085 TTATAAGATT
* ***
36238095 AAAAAATTTAGTAATCAAT-CCCC
1 AAAAAATTTATTAATCAATATATC
* *
36238118 AAAAAAATTGTTAATCAATATATC
1 AAAAAATTTATTAATCAATATATC
* *
36238142 AAAAAATTTATTAATCATTATATG
1 AAAAAATTTATTAATCAATATATC
36238166 AAAAA
1 AAAAA
36238171 TTGATTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 16 0.38
24 26 0.62
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAAATTTATTAATCAATATATC
Found at i:36242079 original size:47 final size:47
Alignment explanation
Indices: 36242020--36242121 Score: 195
Period size: 47 Copynumber: 2.2 Consensus size: 47
36242010 ATTAGAGGAT
*
36242020 GAAAAAAATATGGGATTAAATATATTTGAGTCTAATTTCTCATAGAA
1 GAAACAAATATGGGATTAAATATATTTGAGTCTAATTTCTCATAGAA
36242067 GAAACAAATATGGGATTAAATATATTTGAGTCTAATTTCTCATAGAA
1 GAAACAAATATGGGATTAAATATATTTGAGTCTAATTTCTCATAGAA
36242114 GAAACAAA
1 GAAACAAA
36242122 GTAAGCAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (47 bp):
GAAACAAATATGGGATTAAATATATTTGAGTCTAATTTCTCATAGAA
Found at i:36243468 original size:18 final size:18
Alignment explanation
Indices: 36243442--36243479 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36243432 AAATAAAAAA
*
36243442 AACGTTTTG-AAATTGAAT
1 AACGATTTGTAAA-TGAAT
36243460 AACGATTTGTAAATGAAT
1 AACGATTTGTAAATGAAT
36243478 AA
1 AA
36243480 TATTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (18 bp):
AACGATTTGTAAATGAAT
Found at i:36245295 original size:2 final size:2
Alignment explanation
Indices: 36245288--36245316 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36245278 TACTCATTGA
36245288 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36245317 CATCAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36245853 original size:2 final size:2
Alignment explanation
Indices: 36245846--36245877 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
36245836 GAACCTCTTT
36245846 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36245878 GTTTAATAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36249260 original size:21 final size:21
Alignment explanation
Indices: 36249203--36249260 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
36249193 CGAATACGCC
* *
36249203 AATAGGAGCTCA-AA-AGCTG
1 AATAGAAGCTCATAAGAGCTA
* * *
36249222 AACAGAAGCTCGTGAGAGCTA
1 AATAGAAGCTCATAAGAGCTA
36249243 AATAGAAGCTCATAAGAG
1 AATAGAAGCTCATAAGAG
36249261 TTGATCCATC
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 9 0.31
20 1 0.03
21 19 0.66
ACGTcount: A:0.43, C:0.16, G:0.26, T:0.16
Consensus pattern (21 bp):
AATAGAAGCTCATAAGAGCTA
Found at i:36261105 original size:67 final size:67
Alignment explanation
Indices: 36261020--36261177 Score: 271
Period size: 67 Copynumber: 2.4 Consensus size: 67
36261010 TCTGGTTCTA
* * *
36261020 CCGATGAAGCACTGGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGTATT
1 CCGATGAGGCACTAGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
36261085 GT
66 GT
*
36261087 CCGATGAGGCACTAGGTGCCAAACACACTAATGATCACTGAGTGCAAACTATTTACCTCGGCATT
1 CCGATGAGGCACTAGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
36261152 GT
66 GT
*
36261154 CCGATGAGGCACTAGGTGTCAAAC
1 CCGATGAGGCACTAGGTGCCAAAC
36261178 TGGTGTAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 86 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (67 bp):
CCGATGAGGCACTAGGTGCCAAACACACTAATGAGCACTGAGTGCAAACTATTTACCTCGGCATT
GT
Found at i:36266460 original size:15 final size:15
Alignment explanation
Indices: 36266442--36266471 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36266432 ATTATAGATA
36266442 CTTTTATTTTCTTTT
1 CTTTTATTTTCTTTT
*
36266457 CTTTTTTTTTCTTTT
1 CTTTTATTTTCTTTT
36266472 TTCTCTCGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTATTTTCTTTT
Found at i:36271805 original size:29 final size:29
Alignment explanation
Indices: 36271763--36271818 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
36271753 AAAAGTCCTT
36271763 TTTTTTCAATATTTACCGAAATGGGCCGG
1 TTTTTTCAATATTTACCGAAATGGGCCGG
*
36271792 TTTTTT-AATTATTTACCGGAATGGGCC
1 TTTTTTCAA-TATTTACCGAAATGGGCC
36271819 ATTTTCCGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
TTTTTTCAATATTTACCGAAATGGGCCGG
Found at i:36275971 original size:13 final size:12
Alignment explanation
Indices: 36275940--36275972 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
36275930 ACTTACATTC
36275940 AAAAGCTCCTCT
1 AAAAGCTCCTCT
36275952 AAAAGCTCCTCT
1 AAAAGCTCCTCT
36275964 AGAAAGCTC
1 A-AAAGCTC
36275973 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.21
Consensus pattern (12 bp):
AAAAGCTCCTCT
Found at i:36278086 original size:62 final size:59
Alignment explanation
Indices: 36278013--36278129 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
36278003 AGTGATTATC
* * * *
36278013 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTTTATTAACTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTCATC-T-T-GATAAATATTATATTAACTTAATAAGAT
*
36278075 TTAATATTAAATTTAATCTAATATTCATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTCATCTTGATAAATATTATATTAACTTAATA
36278130 TTAATATGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 1 0.02
62 26 0.52
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTCATCTTGATAAATATTATATTAACTTAATAAGAT
Found at i:36281323 original size:42 final size:42
Alignment explanation
Indices: 36281276--36281364 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
36281266 AATATGTAAT
*
36281276 TCACTAACACATCTTTCCATATACAATATCCAATTGGTGAAA
1 TCACTAACACATCTTGCCATATACAATATCCAATTGGTGAAA
36281318 TCACTAACACATCTTGCCATATACAATATCCAATTGGTGAAA
1 TCACTAACACATCTTGCCATATACAATATCCAATTGGTGAAA
36281360 TCACT
1 TCACT
36281365 TAAATGAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (42 bp):
TCACTAACACATCTTGCCATATACAATATCCAATTGGTGAAA
Found at i:36281537 original size:49 final size:48
Alignment explanation
Indices: 36281482--36281620 Score: 206
Period size: 49 Copynumber: 2.8 Consensus size: 48
36281472 TTTATTTTCT
* *
36281482 CGATGCCATAGTTCAACTATGGTCTTACACGTAATCACATAACATATAC
1 CGATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATAACATATAC
36281531 CGATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATAACATATAC
1 CGATGCCATAGCC-AGCTATGGTCTTACACGTAATCACATAACATATAC
* * *
36281580 CGATGTCATAGCCCAGCTATGGTCTTACAAGGAATCACATA
1 CGATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATA
36281621 TCACTTATTG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
48 1 0.01
49 80 0.96
50 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (48 bp):
CGATGCCATAGCCAGCTATGGTCTTACACGTAATCACATAACATATAC
Found at i:36282828 original size:23 final size:23
Alignment explanation
Indices: 36282802--36282877 Score: 125
Period size: 23 Copynumber: 3.3 Consensus size: 23
36282792 ATAAGTGCCA
*
36282802 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36282825 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36282848 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36282871 CACTGAT
1 CACTGAT
36282878 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36284880 original size:19 final size:19
Alignment explanation
Indices: 36284811--36284883 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
36284801 ATTTTAAAAT
*
36284811 TTATTAAATTGAACTATAA
1 TTATTAAATTAAACTATAA
* * *
36284830 TTATTAAA-AAAATTAGAA
1 TTATTAAATTAAACTATAA
36284848 TTACATTTAAAAATTAAACTATAA
1 TT--A-TT--AAATTAAACTATAA
36284872 TTATTAAATTAA
1 TTATTAAATTAA
36284884 GTTATTCGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
18 8 0.20
19 15 0.37
20 1 0.02
21 4 0.10
22 1 0.02
23 3 0.07
24 9 0.22
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (19 bp):
TTATTAAATTAAACTATAA
Found at i:36291718 original size:15 final size:15
Alignment explanation
Indices: 36291700--36291746 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
36291690 TCAAGTGTCC
*
36291700 AAAAAATAAATGTTG
1 AAAAAATAAGTGTTG
* *
36291715 AAAAAATTAGTATTG
1 AAAAAATAAGTGTTG
*
36291730 AAAAATTAAGTGTTG
1 AAAAAATAAGTGTTG
36291745 AA
1 AA
36291747 TTTAAGTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (15 bp):
AAAAAATAAGTGTTG
Found at i:36294836 original size:35 final size:35
Alignment explanation
Indices: 36294790--36294860 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
36294780 ACACAGATGA
36294790 CACATTATATTTTAAACAGCATCTGAAAGTTAATT
1 CACATTATATTTTAAACAGCATCTGAAAGTTAATT
*
36294825 CACATTATATTTTAAACGGCATCTGAAAGTTAATT
1 CACATTATATTTTAAACAGCATCTGAAAGTTAATT
36294860 C
1 C
36294861 TCAAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
CACATTATATTTTAAACAGCATCTGAAAGTTAATT
Found at i:36298635 original size:9 final size:9
Alignment explanation
Indices: 36298623--36298661 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
36298613 AAATATATTT
36298623 ATTTTTAAA
1 ATTTTTAAA
*
36298632 ATTTTTTAA
1 ATTTTTAAA
*
36298641 ATTTTAAAA
1 ATTTTTAAA
36298650 TATTTTTAAA
1 -ATTTTTAAA
36298660 AT
1 AT
36298662 ACTTTTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:36298645 original size:17 final size:18
Alignment explanation
Indices: 36298625--36298735 Score: 82
Period size: 22 Copynumber: 5.8 Consensus size: 18
36298615 ATATATTTAT
36298625 TTTTAAAAT-TTTTTAAA
1 TTTTAAAATATTTTTAAA
36298642 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTT--AA-A
** *
36298663 CTTTTTTATTATTTTT-AA
1 -TTTTAAAATATTTTTAAA
36298681 TTTTAAAATATTTTTAAAATA
1 TTTTAAAATATTTTT--AA-A
* * *
36298702 CTTTTTAAATTTTTTTTAA
1 -TTTTAAAATATTTTTAAA
36298721 TTTTAAAATATTTTT
1 TTTTAAAATATTTTT
36298736 TTTAATTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
17 21 0.29
18 19 0.26
19 2 0.03
20 4 0.05
21 2 0.03
22 25 0.34
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTAAAATATTTTTAAA
Found at i:36298677 original size:50 final size:47
Alignment explanation
Indices: 36298620--36298751 Score: 117
Period size: 50 Copynumber: 2.7 Consensus size: 47
36298610 AATAAATATA
36298620 TTTATTTTTAAAATTTTTTAAATTTTAAAATA-TTTTTAAAATACTTTTT
1 TTTATTTTTAAAATTTTTTAAATTTTAAAATACTTTTT-AAAT--TTTTT
**
36298669 TATTATTTTT--AATTTTAAAATATTTTTAAAATACTTTTTAAATTTTTT
1 T-TTATTTTTAAAATTTTTTAA-A-TTTTAAAATACTTTTTAAATTTTTT
* * *
36298717 TTAATTTTAAAATATTTTTTTTAATTTTTAAAATA
1 TTTATTTTTAAA-A--TTTTTTAAATTTTAAAATA
36298752 AATTTTTGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
47 6 0.09
48 14 0.21
49 3 0.04
50 33 0.49
51 5 0.07
52 6 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (47 bp):
TTTATTTTTAAAATTTTTTAAATTTTAAAATACTTTTTAAATTTTTT
Found at i:36298690 original size:39 final size:40
Alignment explanation
Indices: 36298624--36298735 Score: 174
Period size: 39 Copynumber: 2.8 Consensus size: 40
36298614 AATATATTTA
*
36298624 TTTTTAAAATT-TTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTT-AAATTATTTTTAATTTTAAAATATTTTTAAAATAC
*
36298664 TTTTT-TATTATTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAATTATTTTTAATTTTAAAATATTTTTAAAATAC
*
36298703 TTTTTAAATTTTTTTTAATTTTAAAATATTTTT
1 TTTTTAAATTATTTTTAATTTTAAAATATTTTT
36298736 TTTAATTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
38 3 0.05
39 33 0.50
40 30 0.45
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTTTAAATTATTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:36298706 original size:28 final size:28
Alignment explanation
Indices: 36298653--36298706 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
36298643 TTTAAAATAT
* * *
36298653 TTTTAAAATACTTTTTTATTATTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTAA
36298681 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTT-AAATACTTTT
36298707 TAAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAATACTTTTAA
Found at i:36298735 original size:11 final size:11
Alignment explanation
Indices: 36298622--36298720 Score: 67
Period size: 11 Copynumber: 9.8 Consensus size: 11
36298612 TAAATATATT
36298622 TATTTTTAAAA
1 TATTTTTAAAA
36298633 T-TTTTT--AA
1 TATTTTTAAAA
36298641 -A-TTTTAAAA
1 TATTTTTAAAA
36298650 TATTTTTAAAA
1 TATTTTTAAAA
* *
36298661 TACTTTTT-TAT
1 TA-TTTTTAAAA
36298672 TATTTTT---A
1 TATTTTTAAAA
36298680 -A-TTTTAAAA
1 TATTTTTAAAA
36298689 TATTTTTAAAA
1 TATTTTTAAAA
*
36298700 TACTTTTTAAAT
1 TA-TTTTTAAAA
*
36298712 TTTTTTTAA
1 TATTTTTAA
36298721 TTTTAAAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
6 4 0.06
7 5 0.07
8 2 0.03
9 3 0.04
10 12 0.17
11 31 0.44
12 14 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:36298735 original size:21 final size:21
Alignment explanation
Indices: 36298669--36298751 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
36298659 AATACTTTTT
*
36298669 TATTATTTTTAA-TTTTAAAA
1 TATTTTTTTTAATTTTTAAAA
** *
36298689 TA-TTTTTAAAATACTTTT-TAA
1 TATTTTTTTTAAT--TTTTAAAA
36298710 -ATTTTTTTTAA-TTTTAAAA
1 TATTTTTTTTAATTTTTAAAA
36298729 TATTTTTTTTAATTTTTAAAA
1 TATTTTTTTTAATTTTTAAAA
36298750 TA
1 TA
36298752 AATTTTTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
18 4 0.08
19 8 0.16
20 14 0.29
21 19 0.39
22 4 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTTTTTTTAATTTTTAAAA
Found at i:36298757 original size:20 final size:20
Alignment explanation
Indices: 36298714--36298758 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36298704 TTTTAAATTT
**
36298714 TTTTTAATTTTAAAATATTT
1 TTTTTAATTTTAAAATATAA
36298734 TTTTTAATTTTTAAAATA-AA
1 TTTTTAA-TTTTAAAATATAA
36298754 TTTTT
1 TTTTT
36298759 GGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTAATTTTAAAATATAA
Found at i:36298757 original size:21 final size:20
Alignment explanation
Indices: 36298713--36298758 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
36298703 TTTTTAAATT
**
36298713 TTTTTTAATTTTAAAATATT
1 TTTTTTAATTTTAAAATAAA
36298733 TTTTTTAATTTTTAAAATAAA
1 TTTTTTAA-TTTTAAAATAAA
36298754 TTTTT
1 TTTTT
36298759 GGTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATAAA
Found at i:36298758 original size:40 final size:39
Alignment explanation
Indices: 36298625--36298758 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
36298615 ATATATTTAT
36298625 TTTTAAAAT--TTTTTAAATTTTAAAATATTTTTAAAATA
1 TTTTAAAATAATTTTT-AATTTTAAAATATTTTTAAAATA
** *
36298663 CTTTT-TTATTATTTTTAATTTTAAAATATTTTTAAAATA
1 -TTTTAAAATAATTTTTAATTTTAAAATATTTTTAAAATA
* ** **
36298702 CTTTTTAAATTTTTTTTAATTTTAAAATATTTTTTTTAAT-
1 -TTTTAAAATAATTTTTAATTTTAAAATA-TTTTTAAAATA
36298742 TTTTAAAATAAATTTTT
1 TTTTAAAAT-AATTTTT
36298759 GGTATTTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.03
39 40 0.50
40 30 0.38
41 8 0.10
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTAAAATAATTTTTAATTTTAAAATATTTTTAAAATA
Found at i:36299197 original size:6 final size:6
Alignment explanation
Indices: 36299186--36299219 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
36299176 TTTTTTATTT
36299186 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
36299220 GAAATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:36299236 original size:116 final size:117
Alignment explanation
Indices: 36299104--36299319 Score: 287
Period size: 116 Copynumber: 1.8 Consensus size: 117
36299094 AAGTCAGAAA
36299104 GAAATTTGAAATTTATACACTATCATGGTTATCCT-GTTAAAATTTTACAATTTAAAAATAACTA
1 GAAATTTGAAATTTATACACTATCATGGTTAT-CTAGTTAAAATTTTACAATTTAAAAATAACTA
* * *
36299168 AAT-A-AATATTTTTTATTTAAATCAAAATCAAAATCAAAATCAAAATCAAAAT
65 AATAAGAAGATTGTGTATTTAAATCAAAAT-AAAATCAAAATCAAAATCAAAAT
* * * * * *
36299220 GAAATTT-AAATTTTATATATTATCATTGTTATCTAGTTAAATTTTTATAATTTAAAAATAATTA
1 GAAATTTGAAA-TTTATACACTATCATGGTTATCTAGTTAAAATTTTACAATTTAAAAATAACTA
36299284 AATAAGTAAGATTGTGTATTTAAATCAAAATAAAAT
65 AATAAG-AAGATTGTGTATTTAAATCAAAATAAAAT
36299320 TTGAAATTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
115 5 0.06
116 54 0.63
117 1 0.01
118 5 0.06
119 21 0.24
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.40
Consensus pattern (117 bp):
GAAATTTGAAATTTATACACTATCATGGTTATCTAGTTAAAATTTTACAATTTAAAAATAACTAA
ATAAGAAGATTGTGTATTTAAATCAAAATAAAATCAAAATCAAAATCAAAAT
Found at i:36299491 original size:20 final size:22
Alignment explanation
Indices: 36299443--36299498 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 22
36299433 TAAATTAAAC
* *
36299443 AATTTTTAAAATAAAGTTTTGA
1 AATTCTTAAAATATAGTTTTGA
*
36299465 TATTCTTAAAATATA-TTTT-A
1 AATTCTTAAAATATAGTTTTGA
36299485 AATTCTTAAAATAT
1 AATTCTTAAAATAT
36299499 TTTCTTAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 14 0.47
21 4 0.13
22 12 0.40
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTCTTAAAATATAGTTTTGA
Found at i:36300247 original size:26 final size:27
Alignment explanation
Indices: 36300189--36300250 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
36300179 GAAAAAAATA
*
36300189 TAAATTATTATTTTAATATAATTAAAT
1 TAAATTATTATTTTAATATAATTAAAC
* *
36300216 TGAATTGTT-TTTTAATATAATTAAAC
1 TAAATTATTATTTTAATATAATTAAAC
36300242 TAAATTATT
1 TAAATTATT
36300251 GAGCTAACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (27 bp):
TAAATTATTATTTTAATATAATTAAAC
Found at i:36300357 original size:49 final size:48
Alignment explanation
Indices: 36300290--36300393 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 48
36300280 TATGTTGAAG
*
36300290 AAATTAATTTATTATGATTTTATTTATTTTTG-TGTCTTTTCTTGGATT
1 AAATTAATGTATTATGATTTTATTTATTTTTGCT-TCTTTTCTTGGATT
36300338 AAATTAATGTATTTATGATTTTATTTATTTTTGCTTCTTTTCTTGGATT
1 AAATTAATGTA-TTATGATTTTATTTATTTTTGCTTCTTTTCTTGGATT
36300387 AAATTAA
1 AAATTAA
36300394 AGCGTTTATT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
48 10 0.19
49 42 0.79
50 1 0.02
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (48 bp):
AAATTAATGTATTATGATTTTATTTATTTTTGCTTCTTTTCTTGGATT
Found at i:36300506 original size:26 final size:28
Alignment explanation
Indices: 36300451--36300508 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
36300441 GAAAAAACTA
**
36300451 AATTATTATTTTAATATAAATTAAGTTG
1 AATTATTATTTTAATATAAATTAAAATG
36300479 AATTATT-TTTTAATAT-AATTAAAATG
1 AATTATTATTTTAATATAAATTAAAATG
36300505 AATT
1 AATT
36300509 GTTGAGCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.43
27 9 0.32
28 7 0.25
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (28 bp):
AATTATTATTTTAATATAAATTAAAATG
Found at i:36305963 original size:23 final size:23
Alignment explanation
Indices: 36305932--36305982 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
36305922 ACCTACTTTC
* * *
36305932 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
36305955 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
36305978 TTACA
1 TTACA
36305983 TTAATTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:36306891 original size:28 final size:28
Alignment explanation
Indices: 36306851--36306923 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
36306841 ATACAATGAA
** *
36306851 GGCCTTAGCCCAATTTAGTAGCAGTGTG
1 GGCCTTAGCCCAATACAATAGCAGTGTG
*
36306879 GGCCTTAGCCCAATACAATATCAGTGTG
1 GGCCTTAGCCCAATACAATAGCAGTGTG
36306907 GGCCTTAGCCCAATACA
1 GGCCTTAGCCCAATACA
36306924 GTAACATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAATAGCAGTGTG
Found at i:36307329 original size:27 final size:27
Alignment explanation
Indices: 36307299--36307815 Score: 560
Period size: 27 Copynumber: 19.2 Consensus size: 27
36307289 GGTATAAAAA
*
36307299 TCATTTTA-CCTTATGGGGGTATTTCGG
1 TCATTTTACCCTT-TGAGGGTATTTCGG
* * * *
36307326 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * * **
36307353 TCATTTTATCCTTCGGGGGTATTTCTA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
36307380 TTATTTTACCCTTCGA-GGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
36307406 TTATTTTACCCTTCGAGGGTATTTAGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
36307433 TCATTTTACCC-TTCAGGGGTATTTTGA
1 TCATTTTACCCTTTGA-GGGTATTTCGG
* ** *
36307460 TCATTTAACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
36307487 TCATTTTACCCTTTG-GGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
36307513 TCATTTTACCTTTTGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* **
36307540 TCATTTTACCCTTCGAGGGTATTTCAA
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
36307567 TCATTTTATCCTTTAAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* * *
36307594 TCATTTTATCCTTCGGGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
36307621 TCATTTTAGCCTTTGAGGGTATTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
36307648 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
36307675 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
* *
36307702 TCATTTTACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTTGAGGGTATTTCGG
*
36307729 TCATTTTA-CCTTTCGAGGGTATTTTGG
1 TCATTTTACCCTTT-GAGGGTATTTCGG
* * * *
36307756 TCATTTTACCATTCGAGTGTGTTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGG
36307783 TCATTTTACCCTTT-AGGGGTATTTCGG
1 TCATTTTACCCTTTGA-GGGTATTTCGG
36307810 TCATTT
1 TCATTT
36307816 GCCCATAACT
Statistics
Matches: 422, Mismatches: 60, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
26 56 0.13
27 358 0.85
28 8 0.02
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTTTGAGGGTATTTCGG
Found at i:36314011 original size:32 final size:32
Alignment explanation
Indices: 36313970--36314037 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
36313960 ATATAAAATG
36313970 TATGAAAATATCATTCTCATGTTAAGTGATAT
1 TATGAAAATATCATTCTCATGTTAAGTGATAT
36314002 TATGAAAATATCATTCTCATGTTAAGTGATAT
1 TATGAAAATATCATTCTCATGTTAAGTGATAT
36314034 TATG
1 TATG
36314038 GCATATGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (32 bp):
TATGAAAATATCATTCTCATGTTAAGTGATAT
Found at i:36314216 original size:20 final size:21
Alignment explanation
Indices: 36314180--36314220 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
36314170 CTTACATGCC
*
36314180 AAAGTGAAAAAATTGATTTTT
1 AAAGTGAAAAAAGTGATTTTT
36314201 AAAGTG-AAAAAGTGATTTTT
1 AAAGTGAAAAAAGTGATTTTT
36314221 GTGGTCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (21 bp):
AAAGTGAAAAAAGTGATTTTT
Found at i:36314324 original size:47 final size:47
Alignment explanation
Indices: 36314265--36314425 Score: 216
Period size: 47 Copynumber: 3.4 Consensus size: 47
36314255 AAATGAAGAA
* * *
36314265 AAAGTGGAAGTTTATTTGCAAAAGTGGTGACTTGTCCACAATATTGT
1 AAAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCACAATATTAT
*
36314312 AAAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCACAATTTTAT
1 AAAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCACAATATTAT
* * * ** *
36314359 TAAGTGGCAGTTCATCTACAAAAGTGGTGGTTTGTCCATAATATTATT
1 AAAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCACAATATTA-T
36314407 AAA-TGGCAGTTTATCTGCA
1 AAAGTGGCAGTTTATCTGCA
36314426 TTACTGTGAC
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 96 0.97
48 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (47 bp):
AAAGTGGCAGTTTATCTGCAAAAGTGGTGACTTGTCCACAATATTAT
Found at i:36315599 original size:21 final size:21
Alignment explanation
Indices: 36315574--36315615 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36315564 ATACATGGTA
*
36315574 AAAGGTATTGATAATTTTTGT
1 AAAGGTATCGATAATTTTTGT
*
36315595 AAAGGTATCGATACTTTTTGT
1 AAAGGTATCGATAATTTTTGT
36315616 GTAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (21 bp):
AAAGGTATCGATAATTTTTGT
Found at i:36315933 original size:3 final size:3
Alignment explanation
Indices: 36315925--36315956 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
36315915 ATCACAAGTC
36315925 TGT TGT TGT TGT TGT TGT TGT TGT TGT T-T TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
36315957 CTATCTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TGT
Found at i:36319601 original size:3 final size:3
Alignment explanation
Indices: 36319588--36319628 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
36319578 TTTCATTTTC
*
36319588 TCT TAT TCT TCT TCT TCT TCT TCT TCT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
36319629 ATTGCCCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:36319978 original size:56 final size:57
Alignment explanation
Indices: 36319888--36320055 Score: 184
Period size: 56 Copynumber: 3.0 Consensus size: 57
36319878 TGTTGGGTTA
* *
36319888 GTGGTGGAAAAGAATAAAGAA-AAAAAAGTGGTGGGCCATGGTCA-TAATGAAGGGCTT
1 GTGGTGGAAAAGAATAAA-AATAAATAAGTGGTGGGCCATGG-CATTAATGAAGGGCAT
* *
36319945 GTGGTGGAAAGGAA-AAAAATAAATAAGTGGTGGGCCAAT-GCATTAATGAAGTGCAT
1 GTGGTGGAAAAGAATAAAAATAAATAAGTGGTGGGCC-ATGGCATTAATGAAGGGCAT
* ** * *
36320001 ATGGTGGAAAAGAATAATGATGAAAT-AGTGGTGGGCGAAGGCATTAATGAAGGGC
1 GTGGTGGAAAAGAATAAAAAT-AAATAAGTGGTGGGCCATGGCATTAATGAAGGGC
36320056 CTGTTGAACG
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
55 4 0.04
56 43 0.46
57 43 0.46
58 4 0.04
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (57 bp):
GTGGTGGAAAAGAATAAAAATAAATAAGTGGTGGGCCATGGCATTAATGAAGGGCAT
Found at i:36320047 original size:57 final size:56
Alignment explanation
Indices: 36319889--36320055 Score: 185
Period size: 57 Copynumber: 2.9 Consensus size: 56
36319879 GTTGGGTTAG
* * * * *
36319889 TGGTGGAAAAGAATAAAGAAAAAAAAGTGGTGGGCCATGGTCA-TAATGAAGGGCTTG
1 TGGTGGAAAAGAATAAAG-ATAAATAGTGGTGGGCCAAGG-CATTAATGAAGGGCATA
* * * *
36319946 TGGTGGAAAGGAA-AAAAATAAATAAGTGGTGGGCCAATGCATTAATGAAGTGCATA
1 TGGTGGAAAAGAATAAAGATAAAT-AGTGGTGGGCCAAGGCATTAATGAAGGGCATA
* *
36320002 TGGTGGAAAAGAATAATGATGAAATAGTGGTGGGCGAAGGCATTAATGAAGGGC
1 TGGTGGAAAAGAATAAAGAT-AAATAGTGGTGGGCCAAGGCATTAATGAAGGGC
36320056 CTGTTGAACG
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
55 6 0.07
56 39 0.43
57 42 0.46
58 4 0.04
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (56 bp):
TGGTGGAAAAGAATAAAGATAAATAGTGGTGGGCCAAGGCATTAATGAAGGGCATA
Found at i:36320103 original size:30 final size:30
Alignment explanation
Indices: 36320069--36320126 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
36320059 TTGAACGGTC
*
36320069 AAATGGGTTGCTAAGAAATGAAATTGGGAT
1 AAATGGGTTACTAAGAAATGAAATTGGGAT
*
36320099 AAATGGGTTATTAAGAAATGAAATTGGG
1 AAATGGGTTACTAAGAAATGAAATTGGG
36320127 CAAGATCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.28
Consensus pattern (30 bp):
AAATGGGTTACTAAGAAATGAAATTGGGAT
Found at i:36325595 original size:22 final size:22
Alignment explanation
Indices: 36325567--36325612 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
36325557 GGAAATCATT
36325567 TCCACTTCATTCAACCACTTGG
1 TCCACTTCATTCAACCACTTGG
36325589 TCCACTTCATTCAACCACTTGG
1 TCCACTTCATTCAACCACTTGG
36325611 TC
1 TC
36325613 TGAATTGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.37, G:0.09, T:0.33
Consensus pattern (22 bp):
TCCACTTCATTCAACCACTTGG
Found at i:36329109 original size:96 final size:98
Alignment explanation
Indices: 36328921--36329131 Score: 356
Period size: 96 Copynumber: 2.2 Consensus size: 98
36328911 AGAGTACGAG
*
36328921 AAAAAGTAAAAAAAAAAATTGGTGGTGGCTTGGCAATGGCCGGCACCACCTTTTAAAAAAAATTT
1 AAAAAGT--AAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAAAAAATTT
*
36328986 ACTTTTTTTGTTTCAGATAAGATATCAGTATACAA
64 ACTTTTTTCGTTTCAGATAAGATATCAGTATACAA
36329021 AAAAAGTAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTT-AAAAAAA-TTAC
1 AAAAAGTAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAAAAAATTTAC
36329084 TTTTTTCGTGTT-AGATAAGATATCAGTATACAA
66 TTTTTTCGT-TTCAGATAAGATATCAGTATACAA
36329117 AAAAAGTAAAAAAAA
1 AAAAAGTAAAAAAAA
36329132 TTACTTTTTT
Statistics
Matches: 108, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
96 48 0.44
97 9 0.08
98 44 0.41
100 7 0.06
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (98 bp):
AAAAAGTAAAAAAAAATTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAAAAAATTTAC
TTTTTTCGTTTCAGATAAGATATCAGTATACAA
Found at i:36329130 original size:53 final size:53
Alignment explanation
Indices: 36329073--36329239 Score: 291
Period size: 53 Copynumber: 3.2 Consensus size: 53
36329063 ACCACCTTTT
* * *
36329073 AAAAAAATTACTTTTTTCGTGTTAGATAAGATATCAGTATACAAAAAAAGT-A
1 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
36329125 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
1 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
*
36329178 AAAAAAATTACTTTTTTCATGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
1 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
36329231 AAAAAAATT
1 AAAAAAATT
36329240 TGGGTGGTGG
Statistics
Matches: 110, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 48 0.44
53 62 0.56
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.31
Consensus pattern (53 bp):
AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
Found at i:36329133 original size:52 final size:52
Alignment explanation
Indices: 36329073--36329236 Score: 283
Period size: 52 Copynumber: 3.1 Consensus size: 52
36329063 ACCACCTTTT
* * *
36329073 AAAAAAATTACTTTTTTCGTGTTAGATAAGATATCAGTATACAAAAAAAGTA
1 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTA
36329125 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTAA
1 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGT-A
*
36329178 AAAAAAATTACTTTTTTCATGTCAGATAAGCTATCAGTATACGAAAAAAGTA
1 AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTA
36329230 AAAAAAA
1 AAAAAAA
36329237 ATTTGGGTGG
Statistics
Matches: 107, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
52 56 0.52
53 51 0.48
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.30
Consensus pattern (52 bp):
AAAAAAATTACTTTTTTCGTGTCAGATAAGCTATCAGTATACGAAAAAAGTA
Found at i:36331905 original size:104 final size:100
Alignment explanation
Indices: 36331719--36332196 Score: 581
Period size: 98 Copynumber: 4.7 Consensus size: 100
36331709 ACCCTATATA
* * *
36331719 TTTTTAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCAC-TAAATTTTTTTTAACTTTTTTCGTA
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAATTTTTTTTTACTTTTTTCGTA
*
36331783 TACTGATAGCTTATCTGACACGAAAAAAGTAAATT
66 TACTGATATCTTATCTGACACGAAAAAAGTAAATT
*
36331818 TTTTTAAAAAGGTGGTGCAGGCCATTGCCAGGCCACCACAAAAAAATAATTTTTTTTACTTTTTT
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCAC--AAAAAT--TTTTTTTTACTTTTTT
*
36331883 CGTATACTGATACCTTATCTGACACGAAAAAAGT-AATT
62 CGTATACTGATATCTTATCTGACACGAAAAAAGTAAATT
*
36331921 TTTTTAAAAAAAAAGGTGGTGCTGGCCATTGCCAGGCCACCACCAAAAAAAATAATTTTTTTTTA
1 TTTTT----AAAAAGGTGGTGCCGGCCATTGCCAGGCCACCA-C-----AAA-AATTTTTTTTTA
* **
36331986 CTTTTTTCGTAATACTGATATCTTATCTGACACGAAAAAATTAAAAAAA
55 CTTTTTTCGT-ATACTGATATCTTATCTGACACGAAAAAAGT--AAATT
* * *
36332035 TTTTT--AAAGGTGGTGCCGGCCATTTCCAGGTCACCACCAAAATTTTTTTTTAC-TTTTTCGTA
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAATTTTTTTTTACTTTTTTCGTA
*
36332097 TACTG-TATCTTATCTGACACGAAAAAAGTAATTT
66 TACTGATATCTTATCTGACACGAAAAAAGTAAATT
* * **
36332131 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGTCACCACCAATTTTTTTTTTTACTTTTTCTCGT
1 TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAATTTTTTTTTACTTTTT-TCGT
36332196 A
65 A
36332197 CTCTGGTACC
Statistics
Matches: 336, Mismatches: 21, Indels: 43
0.84 0.05 0.11
Matches are distributed among these distances:
96 7 0.02
98 68 0.20
99 47 0.14
100 13 0.04
101 13 0.04
102 6 0.02
103 9 0.03
104 48 0.14
107 33 0.10
108 29 0.09
110 19 0.06
111 34 0.10
112 3 0.01
114 7 0.02
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (100 bp):
TTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACAAAAATTTTTTTTTACTTTTTTCGTA
TACTGATATCTTATCTGACACGAAAAAAGTAAATT
Found at i:36332020 original size:215 final size:204
Alignment explanation
Indices: 36331719--36332172 Score: 586
Period size: 206 Copynumber: 2.2 Consensus size: 204
36331709 ACCCTATATA
* *
36331719 TTTTT-AAAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-C------TA-AATTTTTTTTAACTT
1 TTTTTAAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAAAAATAATTTTTTTTAACTT
**
36331775 TTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGT-AAATTTTTTTAAAAAGGTGGTGCAGG
66 TTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAAAAATTTTT--AAAGGTGGTGCAGG
36331839 CCATTGCCAGGCCACCACAAAAAAATAATTTTTTTTACTTTTTTCGTATACTGATACCTTATCTG
129 CCATTGCCAGGCCACCAC--AAAAAT--TTTTTTTTAC-TTTTTCGTATACTG-TACCTTATCTG
36331904 ACACGAAAAAAGTAATT
188 ACACGAAAAAAGTAATT
* *
36331921 TTTTTAAAAAAAAAGGTGGTGCTGGCCATTGCCAGGCCACCACCAAAAAAAATAATTTTTTTTTA
1 TTTTT---AAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAAAAATAATTTTTTTTAA
* *
36331986 CTTTTTTCGTAATACTGATATCTTATCTGACACGAAAAAATTAAAAAAATTTTTAAAGGTGGTGC
63 CTTTTTTCGT-ATACTGATAGCTTATCTGACACGAAAAAAGT-AAAAAATTTTTAAAGGTGGTGC
* * * * *
36332051 CGGCCATTTCCAGGTCACCACCAAAATTTTTTTTTACTTTTTCGTATACTGTATCTTATCTGACA
126 AGGCCATTGCCAGGCCACCACAAAAATTTTTTTTTACTTTTTCGTATACTGTACCTTATCTGACA
36332116 CGAAAAAAGTAATT
191 CGAAAAAAGTAATT
* *
36332130 TTTTTTAAAAAGGTGGTGCCGGCCATTGCCAGGTCACCACCAA
1 TTTTTAAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAA
36332173 TTTTTTTTTT
Statistics
Matches: 221, Mismatches: 16, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
202 5 0.02
206 66 0.30
207 1 0.00
209 32 0.14
210 14 0.06
211 10 0.05
213 6 0.03
214 21 0.10
215 58 0.26
217 8 0.04
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (204 bp):
TTTTTAAAAAAGGTGGTGCCGGCCATTGCCAGGCCACCACCAAAAAAAATAATTTTTTTTAACTT
TTTTCGTATACTGATAGCTTATCTGACACGAAAAAAGTAAAAAATTTTTAAAGGTGGTGCAGGCC
ATTGCCAGGCCACCACAAAAATTTTTTTTTACTTTTTCGTATACTGTACCTTATCTGACACGAAA
AAAGTAATT
Found at i:36338961 original size:16 final size:16
Alignment explanation
Indices: 36338940--36338970 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36338930 CATATTAGAG
36338940 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
36338956 CATATATATTTGAAA
1 CATATAAATTTGAAA
36338971 ACTTTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:36343847 original size:8 final size:8
Alignment explanation
Indices: 36343830--36343871 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
36343820 AATACATAAA
36343830 TTTT-CTT
1 TTTTCCTT
36343837 TTTTCCTT
1 TTTTCCTT
36343845 TTTTCCTT
1 TTTTCCTT
*
36343853 TTTCCCTT
1 TTTTCCTT
36343861 TCTTTCCTT
1 T-TTTCCTT
36343870 TT
1 TT
36343872 ATTATTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 4 0.13
8 20 0.65
9 7 0.23
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTCCTT
Found at i:36361847 original size:43 final size:43
Alignment explanation
Indices: 36361786--36361909 Score: 153
Period size: 43 Copynumber: 2.9 Consensus size: 43
36361776 ATTTCTGAAA
*
36361786 TGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGACT
1 TGTGTTTACATGTAAGACCACGTCTGGGATGTTGGCATCGACT
* * *
36361829 TGTGTTTACGTGTAAGACC-CTGTCTGGGATAG-TGGCGTCGATT
1 TGTGTTTACATGTAAGACCAC-GTCTGGGAT-GTTGGCATCGACT
* * *
36361872 TGTGATCACATGTAAGACCACGTTTGGGATGTTGGCAT
1 TGTGTTTACATGTAAGACCACGTCTGGGATGTTGGCAT
36361910 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 2 0.03
43 64 0.94
44 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (43 bp):
TGTGTTTACATGTAAGACCACGTCTGGGATGTTGGCATCGACT
Found at i:36375104 original size:38 final size:38
Alignment explanation
Indices: 36375054--36375270 Score: 186
Period size: 38 Copynumber: 5.7 Consensus size: 38
36375044 CACATAGCAT
*
36375054 GCCACACAGGCTTCACCGAATACGCCATTACAGAATAT
1 GCCACACAGGCTTCACCGAATACGCCATTACAGAATAC
* * *
36375092 GCCATACTGGCTTCACCAAATACG-CATTACAGAATAC
1 GCCACACAGGCTTCACCGAATACGCCATTACAGAATAC
** ** * *
36375129 GCCACACAGGCTTCACTAAATATACTATTATAGAATAC
1 GCCACACAGGCTTCACCGAATACGCCATTACAGAATAC
* * * ** *
36375167 GCCACACAAGCTTCACTGAATATGTTATTACAAAATAC
1 GCCACACAGGCTTCACCGAATACGCCATTACAGAATAC
* * * *
36375205 GCCATACAAGCTTCACCGAATA-GACCGTTACATAATAC
1 GCCACACAGGCTTCACCGAATACG-CCATTACAGAATAC
* * * * *
36375243 TCGACACGGGCTTTATCGAATACGCCAT
1 GCCACACAGGCTTCACCGAATACGCCAT
36375271 GAAGGTCTTA
Statistics
Matches: 145, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
37 32 0.22
38 112 0.77
39 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (38 bp):
GCCACACAGGCTTCACCGAATACGCCATTACAGAATAC
Found at i:36375180 original size:75 final size:76
Alignment explanation
Indices: 36375054--36375242 Score: 182
Period size: 75 Copynumber: 2.5 Consensus size: 76
36375044 CACATAGCAT
* * * * **
36375054 GCCACACAGGCTTCACCGAATACGCCATTACAGAATATGCCATACTGGCTTCACCAAATACG-CA
1 GCCACACAGGCTTCACCAAATACACCATTACAGAATACGCCACACAAGCTTCACCAAATACGTCA
*
36375118 TTACAGAATAC
66 TTACAAAATAC
* * * * ** * *
36375129 GCCACACAGGCTTCACTAAATATACTATTATAGAATACGCCACACAAGCTTCACTGAATATGTTA
1 GCCACACAGGCTTCACCAAATACACCATTACAGAATACGCCACACAAGCTTCACCAAATACGTCA
36375194 TTACAAAATAC
66 TTACAAAATAC
* * * * * *
36375205 GCCATACAAGCTTCACCGAATAGACCGTTACATAATAC
1 GCCACACAGGCTTCACCAAATACACCATTACAGAATAC
36375243 TCGACACGGG
Statistics
Matches: 89, Mismatches: 24, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
75 49 0.55
76 40 0.45
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.23
Consensus pattern (76 bp):
GCCACACAGGCTTCACCAAATACACCATTACAGAATACGCCACACAAGCTTCACCAAATACGTCA
TTACAAAATAC
Found at i:36376795 original size:26 final size:26
Alignment explanation
Indices: 36376766--36376836 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
36376756 GATTTTTTTT
36376766 AAAATTTTATTGGGGGTAAAATCGTC
1 AAAATTTTATTGGGGGTAAAATCGTC
* * *
36376792 AAAATTTTATCGGGGGTGAAATTGTC
1 AAAATTTTATTGGGGGTAAAATCGTC
*
36376818 AAAATTTTACT-GGGGTAAA
1 AAAATTTTATTGGGGGTAAA
36376837 TTTGGGGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.34
Consensus pattern (26 bp):
AAAATTTTATTGGGGGTAAAATCGTC
Found at i:36384455 original size:19 final size:19
Alignment explanation
Indices: 36384431--36384470 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
36384421 ACGTTATTTC
36384431 GTAACACGGGAGGACTAAT
1 GTAACACGGGAGGACTAAT
*
36384450 GTAACACGGGAGGACTGAT
1 GTAACACGGGAGGACTAAT
36384469 GT
1 GT
36384471 CGCAACATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.17
Consensus pattern (19 bp):
GTAACACGGGAGGACTAAT
Found at i:36394579 original size:18 final size:19
Alignment explanation
Indices: 36394544--36394579 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36394534 TCAAACTACA
*
36394544 AAAAAAAATCATTTTTTAG
1 AAAAAAAATCATTATTTAG
36394563 AAAAAAAAT-ATTATTTA
1 AAAAAAAATCATTATTTA
36394580 TCATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAAAAAATCATTATTTAG
Found at i:36407873 original size:11 final size:11
Alignment explanation
Indices: 36407839--36407866 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36407829 TCTTTCAATA
36407839 TTCTCTCAAAT
1 TTCTCTCAAAT
36407850 TTCTCTCAAAT
1 TTCTCTCAAAT
36407861 TTCTCT
1 TTCTCT
36407867 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:36409690 original size:18 final size:18
Alignment explanation
Indices: 36409667--36409703 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36409657 GCCAGGTGAC
* *
36409667 TATCCTATCCCTTTTATG
1 TATCCTAACCCTTATATG
36409685 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
36409703 T
1 T
36409704 TTTCTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.46
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:36411890 original size:27 final size:27
Alignment explanation
Indices: 36411853--36411930 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
36411843 AATGTGAAAG
36411853 GGGGTTGCTAAGTGCTGATTCCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCCGA
36411880 GGGGTTGCTAAGTGCTGATTCCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCCGA
36411907 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
36411931 TAATTATTGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.14, C:0.26, G:0.33, T:0.27
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:36411951 original size:33 final size:33
Alignment explanation
Indices: 36411909--36412064 Score: 126
Period size: 33 Copynumber: 4.6 Consensus size: 33
36411899 TCCCCCGAGG
*
36411909 GGTTGCTAAGTGCTGATTCCCCTAATTATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTTATTGGT
*
36411942 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAGAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA-TTT--AT-T----GGT
**
36411985 GGTTGCTAAGTGCTGATTCCCC---CGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCTATTTATTGGT
* *
36412012 GGTTACTAAGTGCTGATTCTCCTATTTATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTTATTGGT
36412045 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
36412065 ACCGCATCTG
Statistics
Matches: 97, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
27 20 0.21
28 2 0.02
30 1 0.01
32 2 0.02
33 38 0.39
34 2 0.02
35 3 0.03
36 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 22 0.23
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.36
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTTATTGGT
Found at i:36411987 original size:103 final size:102
Alignment explanation
Indices: 36411880--36412168 Score: 438
Period size: 103 Copynumber: 2.8 Consensus size: 102
36411870 ATTCCCCCGA
36411880 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTAATTATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTAATTATTGGTGGT
* * *
36411945 TGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAGAG
66 TGCTAAGTGCTGATTCCACCGCATCTGAAATGTGA-AG
* * *
36411983 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTACTAAGTGCTGATTCTCCTATTTATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTAATTATTGGTGGT
36412048 TGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAG
66 TGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAG
* ** *
36412085 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCC-GATTCATTGGTGG
1 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTAATT-ATTGGTGG
* *
36412149 -TGCTAAGTGCGGAATCCACC
65 TTGCTAAGTGCTGATTCCACC
36412169 AACAACGGTT
Statistics
Matches: 170, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
101 20 0.12
102 56 0.33
103 94 0.55
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.31
Consensus pattern (102 bp):
GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCTAATTATTGGTGGT
TGCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAG
Found at i:36412009 original size:130 final size:130
Alignment explanation
Indices: 36411776--36412030 Score: 431
Period size: 130 Copynumber: 2.0 Consensus size: 130
36411766 TTGCATATAA
** * *
36411776 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTGTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTT
*
36411841 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTACTAAGTGCTGATTCCCCCG
*
36411906 AGGGGTTGCTAAGTGCTGATTCCCCTAATT-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCC-AATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
*
36411970 TTAAATGTGAGAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTACTAAGTGCTGATTC
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTACTAAGTGCTGATTC
36412031 TCCTATTTAT
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
130 114 0.97
131 3 0.03
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.32
Consensus pattern (130 bp):
AGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTACTAAGTGCTGATTCCCCCG
Found at i:36415389 original size:123 final size:125
Alignment explanation
Indices: 36415170--36415519 Score: 454
Period size: 123 Copynumber: 2.8 Consensus size: 125
36415160 CCCAAACATG
* * * *
36415170 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAAATTCTTCACAAATAGCATCCTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
36415235 TATAAGTGGTTTTATATTATTTGCTCAGAAACGTCAAAAAA-AATTATAGATT-AAAAAC
66 TAGAAGTGGTTTTATATTATTTGCTCAGAAACGTCAAAAAATAATTATAGATTCAAAAAC
* * * *
36415293 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGCAATTTTACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * *** ****
36415357 CTAGAAGCGGTTTTATACTATTTGCTCAGAAACGTCAAAAAATAATTATTTTTTCTGTGAC
65 CTAGAAGTGGTTTTATATTATTTGCTCAGAAACGTCAAAAAATAATTATAGATTCAAAAAC
* *
36415418 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATACCATTCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* ** *
36415483 TAGAAGTGATTTTATATTATTTTATCAGAAATGTCAA
66 TAGAAGTGGTTTTATATTATTTGCTCAGAAACGTCAA
36415520 CTCGAAATTA
Statistics
Matches: 193, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
122 1 0.01
123 93 0.48
124 8 0.04
125 90 0.47
126 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGTGGTTTTATATTATTTGCTCAGAAACGTCAAAAAATAATTATAGATTCAAAAAC
Found at i:36419269 original size:22 final size:22
Alignment explanation
Indices: 36419220--36419284 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
36419210 GCTAAATATT
36419220 ATTTTAAATTTA-T-TATTAAC
1 ATTTTAAATTTATTGTATTAAC
*
36419240 ATTGTTTAAATTTATTGTATTACC
1 A-T-TTTAAATTTATTGTATTAAC
*
36419264 ATTTTAATTTTATATGTATTA
1 ATTTTAAATTTAT-TGTATTA
36419285 TTTTTCTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 20 0.53
23 9 0.24
24 7 0.18
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTTTAAATTTATTGTATTAAC
Found at i:36426226 original size:45 final size:45
Alignment explanation
Indices: 36426172--36426397 Score: 235
Period size: 45 Copynumber: 5.1 Consensus size: 45
36426162 GGAGTAGGTT
* *
36426172 GAAGATAGCAGATCTTGCCTGCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
36426217 GAAGTTAGCAGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
36426262 AAAGATAGCAAATCTTGTCTTTCTGTATTGGCAGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *** * * * *
36426307 GAAG-TCA-CA-AGCCTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTT
1 GAAGAT-AGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
36426350 GAAAATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
36426395 GAA
1 GAA
36426398 AACCCCAGCC
Statistics
Matches: 143, Mismatches: 32, Indels: 12
0.76 0.17 0.06
Matches are distributed among these distances:
43 18 0.13
44 27 0.19
45 98 0.69
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:36426367 original size:44 final size:44
Alignment explanation
Indices: 36426319--36426475 Score: 118
Period size: 44 Copynumber: 3.6 Consensus size: 44
36426309 AGTCACAAGC
36426319 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* *** * * * * *** *
36426363 CTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAAACCCCAG-C
1 CTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * * * *
36426407 CTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGAT
1 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
* * *
36426451 CCTGTCTCCCTAAGCAGTAGTGGAG
1 CTTGTCTCCCTGAGCAGCAGTGGAG
36426476 CAGATCAAAG
Statistics
Matches: 80, Mismatches: 31, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
43 17 0.21
44 43 0.54
45 20 0.25
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (44 bp):
CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGAT
Found at i:36426451 original size:88 final size:88
Alignment explanation
Indices: 36426138--36426457 Score: 370
Period size: 88 Copynumber: 3.6 Consensus size: 88
36426128 GAAACCACAA
* *
36426138 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTGCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
* *
36426203 CAGCGAAGTAGATCGAAGTTAGC
66 CAGCGAAGTAGATCGAAGTCACC
* * * * *** * * ** * *
36426226 AGATCTTGTCTTCTTGTATTGGCAGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTTCTGTATT
1 AG-CCTTATCTCCCTG-AGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATT
* *
36426291 GGCAGCGAAGTAGATTGAAGTCACA
64 GGCAGCGAAGTAGATCGAAGTCACC
* *
36426316 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
** *
36426381 CAGCGAAGTAGATCGAAAACCCC
66 CAGCGAAGTAGATCGAAGTCACC
* * * *
36426404 AGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCT
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCT
36426458 CCCTAAGCAG
Statistics
Matches: 187, Mismatches: 43, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
88 108 0.58
89 19 0.10
90 60 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGTCTTCCTGTATTGG
CAGCGAAGTAGATCGAAGTCACC
Found at i:36426504 original size:132 final size:130
Alignment explanation
Indices: 36426402--36427029 Score: 815
Period size: 132 Copynumber: 4.8 Consensus size: 130
36426392 ATCGAAAACC
*
36426402 CCAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
1 CCAGCC-TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
*
36426467 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGGTTTAAGC
65 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAA-GTAGTAGGGAAGCAGATTTAAGC
36426532 CA
129 CA
* * * *
36426534 CCAGTCCTATCTCCCTTACCAGCAGTGGAGTAGGTTGAAGATTGTAGACCCTGTCTCCCTAAACA
1 CCAG-CCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
* * * * *
36426599 ATAGTGGAGTAGATCAAAGACGGTGAATCTTAGCTTCCCAATATAGTAGGGAAGCAGGTTTAAGC
65 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAA-GTAGTAGGGAAGCAGATTTAAGC
*
36426664 TA
129 CA
* * * *
36426666 CCAGTCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTAAGCA
1 CCAG-CCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
*
36426731 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTGGTAGGGAAGCAGATTTAAGC
65 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAA-GTAGTAGGGAAGCAGATTTAAGC
36426796 CA
129 CA
* ** * * * *
36426798 CCAATCCTATCTCCCTGAATAGCAGTGGAGTAGGTTGAAGAATGCAGATCCCGTCTCTCTAAGCA
1 CC-AGCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
* * * * *
36426863 GTAGTGGAGCAGATCAAAGACGGTGAATCTTGTATTTCCAAGGTAGTAGGGAATCAGATTTAAAC
65 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAA-GTAGTAGGGAAGCAGATTTAAGC
36426928 CA
129 CA
* * * ** *
36426930 CCAATCCTATATCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCCTAAGCA
1 CC-AGCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCA
* * * * *
36426995 GTAGTGGAGTAGATCGAAGGCAGTGAATCTCATCT
65 GTAGTGGAGCAGATCAAAGACGGTGAATCTTATCT
36427030 CCTTAGCGTT
Statistics
Matches: 432, Mismatches: 62, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
132 429 0.99
133 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (130 bp):
CCAGCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
TAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGTAGTAGGGAAGCAGATTTAAGCCA
Found at i:36426795 original size:264 final size:264
Alignment explanation
Indices: 36426397--36427029 Score: 903
Period size: 264 Copynumber: 2.4 Consensus size: 264
36426387 AGTAGATCGA
* *
36426397 AAACC-CCAGCCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCC
1 AAACCACCAGTCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCC
*
36426461 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGGT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGAT
* * * * *
36426526 TTAAGCCACCAGTCCTATCTCCCTTACCAGCAGTGGAGTAGGTTGAAGATTGTAGA-CCCTGTCT
131 TTAAGCCACCAATCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGAATGCAGATCCC-GTCT
* * *
36426590 CCCTAAACAATAGTGGAGTAGATCAAAGACGGTGAATCTTAG-CTTCCCAATATAGTAGGGAAGC
195 CCCTAAACAATAGTGGAGCAGATCAAAGACGGTGAATCTT-GTATTCCCAAGATAGTAGGGAAGC
*
36426654 AGGTTT
259 AGATTT
* * * * * *
36426660 AAGCTACCAGTCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCC
1 AAACCACCAGTCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCC
*
36426725 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTGGTAGGGAAGCAGAT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGAT
*
36426790 TTAAGCCACCAATCCTATCTCCCTGAATAGCAGTGGAGTAGGTTGAAGAATGCAGATCCCGTCTC
131 TTAAGCCACCAATCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGAATGCAGATCCCGTCTC
* * * * * *
36426855 TCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTGTATTTCCAAGGTAGTAGGGAATCAG
196 CCTAAACAATAGTGGAGCAGATCAAAGACGGTGAATCTTGTATTCCCAAGATAGTAGGGAAGCAG
36426920 ATTT
261 ATTT
* * * * *
36426924 AAACCACCAATCCTATATCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCC
1 AAACCACCAGTCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCC
* * * * *
36426989 TAAGCAGTAGTGGAGTAGATCGAAGGCAGTGAATCTCATCT
66 TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCT
36427030 CCTTAGCGTT
Statistics
Matches: 326, Mismatches: 41, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
263 4 0.01
264 319 0.98
265 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (264 bp):
AAACCACCAGTCTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCC
TAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGAT
TTAAGCCACCAATCCTATCTCCCTGAACAGCAGTGGAGTAGGTTGAAGAATGCAGATCCCGTCTC
CCTAAACAATAGTGGAGCAGATCAAAGACGGTGAATCTTGTATTCCCAAGATAGTAGGGAAGCAG
ATTT
Found at i:36430283 original size:89 final size:89
Alignment explanation
Indices: 36430116--36430412 Score: 402
Period size: 89 Copynumber: 3.3 Consensus size: 89
36430106 TGAAACTATA
* *
36430116 AGCCTTGCCTCCCTAAGTTTGCAGTGGAGCAGACTAAAGATAGCAGATCTTGCCTTCATGTACTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGCAGATCTTGTCTTCATGTACTG
*
36430181 GC--TGCAAAGCAGATCGAAGACACT
66 GCAGTG-AAA-CAGATCGAAGACACC
* * * * *
36430205 AGCCTTGCCTCTCTGAGTTTGCAGCGGAGCAGACTAAAGATAGTAGATCTTGTCTTCCTGTATTG
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGCAGATCTTGTCTTCATGTACTG
36430270 GCAGTGAAACAGATCGAAGACACC
66 GCAGTGAAACAGATCGAAGACACC
* * * * *
36430294 AGCCTTGCCTCCCTGAGTTTGTAGTGGAGCAGACTGAAA-ACAGCAAATCTTGTCTTCTTATACT
1 AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACT-AAAGATAGCAGATCTTGTCTTCATGTACT
*
36430358 GGCAGTGAAGCAGATCGAAGACACC
65 GGCAGTGAAACAGATCGAAGACACC
*
36430383 AGCCTTGCCTCTCTGAGTTTTGCAGTGGAG
1 AGCCTTGCCTCCCTGAG-TTTGCAGTGGAG
36430413 TAGGTTGAAG
Statistics
Matches: 184, Mismatches: 20, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
89 165 0.90
90 17 0.09
91 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (89 bp):
AGCCTTGCCTCCCTGAGTTTGCAGTGGAGCAGACTAAAGATAGCAGATCTTGTCTTCATGTACTG
GCAGTGAAACAGATCGAAGACACC
Found at i:36430409 original size:45 final size:45
Alignment explanation
Indices: 36430187--36430409 Score: 122
Period size: 45 Copynumber: 5.0 Consensus size: 45
36430177 ACTGGCTGCA
* *
36430187 AAGCAGATCGAAGACACTAGCCTTGCCTCTCTGAG-TTTGCAGCG
1 AAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTTTGCAGTG
* * * ** * * *
36430231 GAGCAGA-CTAAAGATAGTAGATCTTGTCT-TCCT--GTATTGGCAGTG
1 AAGCAGATC-GAAGACACCAG-CCTTGCCTCT-CTGAGT-TTTGCAGTG
* * *
36430276 AAACAGATCGAAGACACCAGCCTTGCCTCCCTGAG-TTTGTAGTG
1 AAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTTTGCAGTG
* * * ** * * * *
36430320 GAGCAGA-CTGAAAACAGCAAATCTTGTCT-TCTTA-TACTGGCAGTG
1 AAGCAGATC-GAAGACA-CCAGCCTTGCCTCTCTGAGT-TTTGCAGTG
36430365 AAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTTTGCAGTG
1 AAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTTTGCAGTG
36430410 GAGTAGGTTG
Statistics
Matches: 123, Mismatches: 40, Indels: 31
0.63 0.21 0.16
Matches are distributed among these distances:
43 3 0.02
44 52 0.42
45 64 0.52
46 4 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (45 bp):
AAGCAGATCGAAGACACCAGCCTTGCCTCTCTGAGTTTTGCAGTG
Found at i:36430869 original size:173 final size:172
Alignment explanation
Indices: 36430560--36431029 Score: 509
Period size: 173 Copynumber: 2.7 Consensus size: 172
36430550 TTGAAGAAAC
* * *
36430560 CAATCCTATCTCACTGAAGTTGCAGTAAAGCGAATTAAAA-CCACAGATCTTATCTCTCTGAAGT
1 CAATCCTATCTCACTGAAGTTGCAGTGAAGCG-ATTAAAATGC-TAGATCTTATCTCTCTGAAGT
* * *
36430624 TGCAG-AGAAAAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGGGCAGACT-AAAAACG
64 TGCAGTAGAGAAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAC-
* * *
36430687 ATGAATCTTATCTCCCTAAAGTTGAAGCAAAGTAGATTGAAGCCAA
128 A-CAATCTTATCTCCCTAAAGTTGAAGCAAAGTAGATTAAAACCAA
* * * * *
36430733 TAATCCTATCTCCCTGAAGTTGCAGCGGAGCTGATTAAAATGCTAGATATTATCTCTCTGAAGTT
1 CAATCCTATCTCACTGAAGTTGCAGTGAAGC-GATTAAAATGCTAGATCTTATCTCTCTGAAGTT
* * * * *
36430798 GCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTACAGTAGAGCAGACTGAATAAAC-
65 GCAGTAGAGAAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-AAACA
* * ** ***
36430862 CAATCTTATCTCCTTGAAGTTGCTGTGGAGTAGATTAAAACCAA
129 CAATCTTATCTCCCTAAAGTTGAAGCAAAGTAGATTAAAACCAA
* * * * * *
36430906 CAATCCTATCTCTCTAAATTTGCAGTGAATCAGATTAAAATGATGGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCACTGAAGTTGCAGTGAAGC-GATTAAAATGCTAGATCTTATCTCTCTGAAGTT
* * * *
36430971 GCAGTAGAGTAGATCGC-TACAAGTCTTATCTCACTGAAGTTGTAATGGAGCAGACTGAA
65 GCAGTAGAGAAGATCGCAT-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
36431030 GATAGCAAAT
Statistics
Matches: 247, Mismatches: 44, Indels: 12
0.82 0.15 0.04
Matches are distributed among these distances:
172 1 0.00
173 194 0.79
174 46 0.19
175 2 0.01
176 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (172 bp):
CAATCCTATCTCACTGAAGTTGCAGTGAAGCGATTAAAATGCTAGATCTTATCTCTCTGAAGTTG
CAGTAGAGAAGATCGCATCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAACACA
ATCTTATCTCCCTAAAGTTGAAGCAAAGTAGATTAAAACCAA
Found at i:36432446 original size:24 final size:23
Alignment explanation
Indices: 36432417--36432528 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 23
36432407 GTTTTGTATA
*
36432417 TTATTATTTTAGATTTATCATGTT
1 TTATTATTTTAAATTTATCA-GTT
* *
36432441 TTATTATTTGT-AATTTATCAATA
1 TTATTATTT-TAAATTTATCAGTT
* *
36432464 TTACTATTTTAAATTCATC-GTT
1 TTATTATTTTAAATTTATCAGTT
*
36432486 AATATTATTTTAAATTTATCA-TGT
1 -TTATTATTTTAAATTTATCAGT-T
* *
36432510 ATATCTATTTCAAATTTAT
1 TTAT-TATTTTAAATTTAT
36432529 TATTAATATT
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
22 2 0.03
23 37 0.52
24 31 0.44
25 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (23 bp):
TTATTATTTTAAATTTATCAGTT
Found at i:36432502 original size:46 final size:47
Alignment explanation
Indices: 36432442--36432564 Score: 123
Period size: 45 Copynumber: 2.7 Consensus size: 47
36432432 TATCATGTTT
* *
36432442 TATTATTTGT-AATTTATCA-ATAT-TACTATTTTAAATTCATCGTTAA
1 TATTATTT-TAAATTTATCATATATAT-CTATTTCAAATTCATCATTAA
* * *
36432488 TATTATTTTAAATTTATCATGTATATCTATTTCAAATTTATTATTAA
1 TATTATTTTAAATTTATCATATATATCTATTTCAAATTCATCATTAA
*
36432535 TA-T-TTTTAAATTTATTATATACTAT-TATTT
1 TATTATTTTAAATTTATCATATA-TATCTATTT
36432565 TTGGATTTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
45 22 0.33
46 21 0.32
47 22 0.33
48 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (47 bp):
TATTATTTTAAATTTATCATATATATCTATTTCAAATTCATCATTAA
Done.