Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 213 of 425
Found at i:65119610 original size:14 final size:15
Alignment explanation
Indices: 65119593--65119621 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65119583 ACACGAAAAT
65119593 TTCACACAT-ATAAA
1 TTCACACATAATAAA
65119607 TTCACACATAATAAA
1 TTCACACATAATAAA
65119622 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:65121317 original size:6 final size:6
Alignment explanation
Indices: 65121306--65121492 Score: 154
Period size: 6 Copynumber: 30.8 Consensus size: 6
65121296 AACCAAAATG
* *
65121306 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAACC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
65121354 AGTAA-C AGAATC AAAATC AGAATC AGAATT AGGTGAT- AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * *
65121403 AGAATT AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
65121451 AGAATC AGAATC AGAATT A-TATGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
65121493 GTGAATGCAA
Statistics
Matches: 146, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 13 0.09
6 119 0.82
7 9 0.06
8 5 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:65121340 original size:30 final size:30
Alignment explanation
Indices: 65121306--65121492 Score: 246
Period size: 30 Copynumber: 6.4 Consensus size: 30
65121296 AACCAAAATG
*
65121306 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
65121336 AGAATCAGAACCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
65121366 AAAATCAGAATCAGAATTAGGT----G-AT-
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
65121391 AGAATCAGAATCAGAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
65121421 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
65121451 AGAATCAGAATCAGAATTA-TATGACAGAATC
1 AGAATCAGAATCAGAATTAGTA--ACAGAATC
65121482 AGAATCAGAAT
1 AGAATCAGAAT
65121493 GTGAATGCAA
Statistics
Matches: 139, Mismatches: 7, Indels: 21
0.83 0.04 0.13
Matches are distributed among these distances:
24 2 0.01
25 18 0.13
26 2 0.01
27 1 0.01
28 1 0.01
29 5 0.04
30 88 0.63
31 22 0.16
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:65121406 original size:85 final size:85
Alignment explanation
Indices: 65121306--65121492 Score: 311
Period size: 85 Copynumber: 2.2 Consensus size: 85
65121296 AACCAAAATG
65121306 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAACCAATATTAGTAACAGAATCAAAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAACCAATATTAGTAACAGAATCAAAAT
* *
65121371 CAGAATCAGAATTAGGTGAT
66 CAGAATCAGAATTAGATGAC
* * * *
65121391 AGAATCAGAATCAGAATTAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAACCAATATTAGTAACAGAATCAAAAT
*
65121456 CAGAATCAGAATTATATGAC
66 CAGAATCAGAATTAGATGAC
65121476 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
65121493 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAACCAATATTAGTAACAGAATCAAAAT
CAGAATCAGAATTAGATGAC
Found at i:65121636 original size:27 final size:26
Alignment explanation
Indices: 65121599--65121664 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
65121589 AACATGGCTG
* *
65121599 CCAGAACAGATATCGTGATAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
65121625 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
65121652 CCAGAATCAGATA
1 CCAGAA-CAGATA
65121665 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:65121669 original size:27 final size:27
Alignment explanation
Indices: 65121618--65121672 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
65121608 ATATCGTGAT
* *
65121618 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATGTGGC
65121645 AGAGCCACCAGA-ATCAGATAATGTGGC
1 AGAGCCACCAGATA-CAGATAATGTGGC
65121672 A
1 A
65121673 AACCCACCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATGTGGC
Found at i:65121679 original size:27 final size:27
Alignment explanation
Indices: 65121623--65121680 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65121613 GTGATAGAGT
* * *
65121623 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
65121650 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
65121677 CACC
1 CACC
65121681 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:65122062 original size:27 final size:26
Alignment explanation
Indices: 65121983--65122065 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
65121973 TCGATCGGTC
* *
65121983 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGTCACCAG
* *
65122009 ATACAAATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGTCACCAG
*
65122036 AACAGATATTTGTGGCATAGTCACCAG
1 AACAGATA-TTGTGGCAGAGTCACCAG
65122063 AAC
1 AAC
65122066 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGTCACCAG
Found at i:65122294 original size:27 final size:27
Alignment explanation
Indices: 65122264--65122451 Score: 214
Period size: 27 Copynumber: 7.0 Consensus size: 27
65122254 GGGGCAAAAT
* * * *
65122264 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65122291 GGTAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65122318 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65122345 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
65122372 GGTAATTTTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65122399 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65122426 GGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
65122452 TAGTAATTTC
Statistics
Matches: 134, Mismatches: 27, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65122408 original size:81 final size:81
Alignment explanation
Indices: 65122309--65122460 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
65122299 TACCCTGCAG
* * *
65122309 GGGTATTTCGGTATTTCTACCCTATAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTTG
1 GGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGGA-AATTCTACCCTACAGGGGTATTTTA
65122373 GTAATTTTATCCTATAA
65 GTAATTTTATCCTATAA
* *
65122390 GGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTTAG
1 GGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTTAG
65122455 TAATTT
66 TAATTT
65122461 CATAATCAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 63 0.97
82 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGGAAATTCTACCCTACAGGGGTATTTTAG
TAATTTTATCCTATAA
Found at i:65122494 original size:27 final size:27
Alignment explanation
Indices: 65122464--65123059 Score: 755
Period size: 27 Copynumber: 22.1 Consensus size: 27
65122454 GTAATTTCAT
* * *
65122464 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65122491 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
65122518 AA-CTGAGCGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * * **
65122545 AACCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65122572 AATCGAGAGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
65122599 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65122626 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65122653 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65122680 AA-CTGAGGGTAAAAAGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65122707 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65122734 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65122761 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65122788 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65122815 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65122842 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65122869 AATTGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65122896 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65122923 AA-CTGAGGGTAAAATGGTAATT-TGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65122949 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65122976 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65123003 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65123030 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65123057 AAT
1 AAT
65123060 TGGGAGTACT
Statistics
Matches: 507, Mismatches: 47, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
26 33 0.07
27 468 0.92
28 6 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:65125081 original size:6 final size:6
Alignment explanation
Indices: 65125070--65125212 Score: 136
Period size: 6 Copynumber: 23.8 Consensus size: 6
65125060 AACCAAAATG
*
65125070 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
65125118 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AAAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
65125167 AGAATC AGAATC AGTATT AGTAA-- AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAAT
65125213 TACGTGACAA
Statistics
Matches: 114, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
4 2 0.02
5 8 0.07
6 97 0.85
7 5 0.04
8 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:65125085 original size:30 final size:30
Alignment explanation
Indices: 65125049--65125237 Score: 159
Period size: 30 Copynumber: 6.1 Consensus size: 30
65125039 AAGAAACATT
*
65125049 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAAAATCAGAATCAGA
* * *
65125079 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
* *
65125109 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAAAATCAGAATCAGA
*
65125139 ATCAGAATTAGGTGACAAAATCAGAATCAGA
1 ATCAGAATTAGG-AACAAAATCAGAATCAGA
* * *
65125170 ATCAGAATCAGTATTAGTAAAGAATCAGAATCAGA
1 ATCAGAATTAGGA--A--CAA-AATCAGAATCAGA
**
65125205 ATCAGAATTACGTG-ACAAAATCATTATCAGA
1 ATCAGAATTA-G-GAACAAAATCAGAATCAGA
65125236 AT
1 AT
65125238 GTGAATGCAA
Statistics
Matches: 131, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.01
30 58 0.44
31 43 0.33
32 3 0.02
34 3 0.02
35 22 0.17
36 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (30 bp):
ATCAGAATTAGGAACAAAATCAGAATCAGA
Found at i:65125173 original size:37 final size:35
Alignment explanation
Indices: 65125093--65125212 Score: 146
Period size: 37 Copynumber: 3.5 Consensus size: 35
65125083 GAATCAGTAA
65125093 CAGAATCAGAATCAGAATCA-ATATTAGT----AA-
1 CAGAATCAGAATCAGAATCAGA-ATTAGTAAAGAAT
65125123 CAGAATCAGAATCAGAATCAGAATTAGGTGACAA-AAT
1 CAGAATCAGAATCAGAATCAGAATTA-GT-A-AAGAAT
*
65125160 CAGAATCAGAATCAGAATCAGTATTAGTAAAGAAT
1 CAGAATCAGAATCAGAATCAGAATTAGTAAAGAAT
65125195 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
65125213 TACGTGACAA
Statistics
Matches: 80, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
30 24 0.30
31 3 0.04
34 2 0.03
35 22 0.28
36 4 0.05
37 25 0.31
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (35 bp):
CAGAATCAGAATCAGAATCAGAATTAGTAAAGAAT
Found at i:65125200 original size:66 final size:67
Alignment explanation
Indices: 65125093--65125237 Score: 247
Period size: 66 Copynumber: 2.2 Consensus size: 67
65125083 GAATCAGTAA
*
65125093 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTAGGTGACAAA
1 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAAA
65125158 AT
66 AT
*
65125160 CAGAATCAGAATCAGAATCAGTATTAGTAA-AGAATCAGAATCAGAATCAGAATTACGTGACAAA
1 CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAAA
65125224 AT
66 AT
**
65125226 CATTATCAGAAT
1 CAGAATCAGAAT
65125238 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
66 45 0.61
67 29 0.39
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (67 bp):
CAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAATCAGAATTACGTGACAAA
AT
Found at i:65125392 original size:27 final size:26
Alignment explanation
Indices: 65125355--65125420 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
65125345 AGCATGGCTG
*
65125355 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
65125381 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
65125408 CCAGAATCAGATA
1 CCAGAA-CAGATA
65125421 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:65125425 original size:27 final size:27
Alignment explanation
Indices: 65125355--65125428 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
65125345 AGCATGGCTG
* *
65125355 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
65125381 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
65125408 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
65125429 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:65125435 original size:27 final size:27
Alignment explanation
Indices: 65125379--65125436 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65125369 GTGACAGAGT
* * *
65125379 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
65125406 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
65125433 CACC
1 CACC
65125437 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:65125818 original size:27 final size:26
Alignment explanation
Indices: 65125739--65125821 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
65125729 TCGATTGGTC
* *
65125739 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGTCACCAG
* *
65125765 ATACAAATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGTCACCAG
*
65125792 AACAGATATTTGTGGCATAGTCACCAG
1 AACAGATA-TTGTGGCAGAGTCACCAG
65125819 AAC
1 AAC
65125822 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGTCACCAG
Found at i:65126215 original size:27 final size:27
Alignment explanation
Indices: 65126020--65126207 Score: 214
Period size: 27 Copynumber: 7.0 Consensus size: 27
65126010 GGGGCAAAAT
* * * *
65126020 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65126047 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
65126074 GGTATTTTTACCCTACAAGTGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65126101 GATAATTCTACCCTACAGGGGTCTTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65126128 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65126155 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65126182 GGAAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
65126208 TAGTAATTTC
Statistics
Matches: 132, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65126250 original size:27 final size:27
Alignment explanation
Indices: 65126220--65126872 Score: 842
Period size: 27 Copynumber: 24.2 Consensus size: 27
65126210 GTAATTTCAC
* *
65126220 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65126247 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
65126274 AA-CTGAAGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
65126301 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65126328 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65126355 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65126382 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
65126409 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65126436 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
65126463 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65126490 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65126517 AA-CTGAGGGTAAAAAGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
65126544 AATCGAGGGTAAAACGGTAAATCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65126571 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65126598 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65126625 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65126652 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
65126679 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65126706 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65126733 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
65126760 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
65126787 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
65126814 AATCGAGGGTAAAACAATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
65126841 AA-CTGAAGGTAAAAAGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
65126868 AATCG
1 AATCG
65126873 GGAGTACTTT
Statistics
Matches: 550, Mismatches: 58, Indels: 36
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.01
27 535 0.97
28 8 0.01
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:65128881 original size:2 final size:2
Alignment explanation
Indices: 65128876--65128901 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65128866 CATAATCTTG
65128876 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
65128902 CAGTGAGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65132068 original size:47 final size:47
Alignment explanation
Indices: 65132009--65132130 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
65131999 GCATTGGCAC
*
65132009 TAAGACAAGGATACCATGTAAGACCATGTTTGGAATATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
65132056 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
65132103 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
65132131 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:65132250 original size:55 final size:54
Alignment explanation
Indices: 65132117--65132329 Score: 196
Period size: 55 Copynumber: 3.9 Consensus size: 54
65132107 ATAAGGATAT
* * * *
65132117 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGGAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGAAC
* * * **
65132171 CATGTAAGACCATGTCAAGACATGGAATTGATGAGTTACTATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGAAAAGGAAC
* * * *
65132226 CATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGG-CAACGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGA-AC
* * * * * * * * *
65132279 GATGCAAGACCATGTCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAAGG
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGG
65132330 TTCCCGAGTA
Statistics
Matches: 127, Mismatches: 28, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
52 3 0.02
53 38 0.30
54 39 0.31
55 47 0.37
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAAGGAAC
Found at i:65132317 original size:53 final size:53
Alignment explanation
Indices: 65132112--65132316 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
65132102 GTAAGATAAG
* * *
65132112 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGG
1 GATA-CATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAA-A
* * *
65132167 GA-ATCATGTAAGACCATGTCAAGACATGG-AATTGATGAGTTACTATAAGGAAAA
1 GATA-CATGTAAGACCATGCCAAGACATGGCAA-TGATAAGTT-CTATAAGGCAAA
* * * * * * * *
65132221 GGTCCCATGTAAGACCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAC
1 GAT-ACATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAA
* * *
65132274 GATACGATGCAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 GATAC-ATGTAAGACCATGCCAAGACATGGCAATGATAAGTTC
65132317 AAAAAGGAAA
Statistics
Matches: 121, Mismatches: 23, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
52 1 0.01
53 42 0.35
54 35 0.29
55 42 0.35
56 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (53 bp):
GATACATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCTATAAGGCAAA
Found at i:65132438 original size:16 final size:17
Alignment explanation
Indices: 65132419--65132451 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
65132409 CTTATTTAAT
*
65132419 ATTGATATTAT-AAGTA
1 ATTGAGATTATCAAGTA
65132435 ATTGAGATTATCAAGTA
1 ATTGAGATTATCAAGTA
65132452 TTAAGTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (17 bp):
ATTGAGATTATCAAGTA
Found at i:65134540 original size:33 final size:33
Alignment explanation
Indices: 65134498--65134564 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
65134488 ATTTTATGGC
65134498 TCCTGTCATAGTTGTTCCCAGTGCTTGTGAGTA
1 TCCTGTCATAGTTGTTCCCAGTGCTTGTGAGTA
65134531 TCCTGTCATAGTTGTTCCCAGTGCTTGTGAGTA
1 TCCTGTCATAGTTGTTCCCAGTGCTTGTGAGTA
65134564 T
1 T
65134565 TATCCTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (33 bp):
TCCTGTCATAGTTGTTCCCAGTGCTTGTGAGTA
Found at i:65137801 original size:40 final size:40
Alignment explanation
Indices: 65137676--65137826 Score: 130
Period size: 40 Copynumber: 3.8 Consensus size: 40
65137666 TCGAATGATG
* * *
65137676 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
65137716 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
65137756 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
65137797 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
65137827 TTCGCTATAT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:65141440 original size:47 final size:47
Alignment explanation
Indices: 65141381--65141501 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
65141371 CATTGGCACC
* *
65141381 AAGACAAGGATACCATGTAAGACTATGTTTGGAACATGGCATTTGGT
1 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
* * *
65141428 AAGACAATGATACCCTGTAAAACCATGTTTGGAACATGACATTTGGT
1 AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
* *
65141475 AAGATAAGGATATCATGTAAGACCATG
1 AAGACAAGGATACCATGTAAGACCATG
65141502 ACAAGGCATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (47 bp):
AAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGT
Found at i:65141571 original size:54 final size:54
Alignment explanation
Indices: 65141480--65141675 Score: 200
Period size: 54 Copynumber: 3.6 Consensus size: 54
65141470 TTGGTAAGAT
* * * * *
65141480 AAGGATATCATGTAAGACCATGACAAGGCATGCCATTGATAAGTTCTATAAAGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
65141534 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-C
** * * * * * *
65141590 AAGG-TCCCATGTAAAATCGTGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
65141642 AAGGATA-CGATGCAAGACCATGTCAAGACATGGC
1 AAGGATATC-ATGTAAGACCATGTCAAGACATGGC
65141676 GATGGTAAGT
Statistics
Matches: 114, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 5 0.04
53 26 0.23
54 41 0.36
55 38 0.33
56 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:65141706 original size:108 final size:109
Alignment explanation
Indices: 65141503--65141711 Score: 257
Period size: 108 Copynumber: 1.9 Consensus size: 109
65141493 AAGACCATGA
*
65141503 CAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGTAAGACCATGTCAAGACATGGC
1 CAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGCAAGACCATGTCAAGACATGGC
* * *
65141568 ATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAAATCGTGC
66 ATTGATAAGTTACTAAAAGGAAAAGGTCCCAAGTAAAATCGTGC
* * * * *
65141612 CAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATA-CGATGCAAGACCATGTCAAGACATGG
1 CAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATC-ATGCAAGACCATGTCAAGACATGG
*
65141675 CGA-TGGTAAGTT-C-AAAATGGAAAAGGATCCCAAGTAA
65 C-ATTGATAAGTTACTAAAA-GGAAAAGG-TCCCAAGTAA
65141712 TCCAAAGAGT
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
106 3 0.03
107 10 0.12
108 52 0.60
109 21 0.24
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (109 bp):
CAAGGCATGCCATTGATAAGTTCTATAAAGCAAGGAAATCATGCAAGACCATGTCAAGACATGGC
ATTGATAAGTTACTAAAAGGAAAAGGTCCCAAGTAAAATCGTGC
Found at i:65146150 original size:39 final size:39
Alignment explanation
Indices: 65146105--65146225 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
65146095 AAGCAAGACA
65146105 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
65146144 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
** * *
65146183 CTGGAAATGTATCCAAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
65146222 CTGG
1 CTGG
65146226 TAATATAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:65155613 original size:2 final size:2
Alignment explanation
Indices: 65155606--65155634 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65155596 ACTTGAGTGA
65155606 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
65155635 AATGTTTGGA
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:65171693 original size:8 final size:8
Alignment explanation
Indices: 65171680--65171720 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
65171670 AAGAACAAGA
65171680 AAAGAAAC
1 AAAGAAAC
65171688 AAAGAAAC
1 AAAGAAAC
65171696 AAAGAAAC
1 AAAGAAAC
65171704 AAAGAAA-
1 AAAGAAAC
65171711 AAA-AAAC
1 AAAGAAAC
65171718 AAA
1 AAA
65171721 AAGAGAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 3 0.09
7 6 0.19
8 23 0.72
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAGAAAC
Found at i:65171989 original size:17 final size:17
Alignment explanation
Indices: 65171967--65172000 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
65171957 AGTATCAAGT
*
65171967 AAAATTGACACAACAAA
1 AAAATTAACACAACAAA
65171984 AAAATTAACACAACAAA
1 AAAATTAACACAACAAA
65172001 CACAGTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.18, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAATTAACACAACAAA
Found at i:65172590 original size:41 final size:41
Alignment explanation
Indices: 65172543--65172629 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 41
65172533 GTGAGCTTAC
**
65172543 ATGAGCTGGTGTAGAGTACTCTGAGGT-ATCTTGAGCTGAAG
1 ATGAGCTGGTGTAGAGTACTCTGAACTGA-CTTGAGCTGAAG
65172584 ATGAGCTGGTGTAGAGTACTCTGAACTGACTTGAGCTGAAG
1 ATGAGCTGGTGTAGAGTACTCTGAACTGACTTGAGCTGAAG
65172625 ATGAG
1 ATGAG
65172630 TTGCATATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.33, T:0.28
Consensus pattern (41 bp):
ATGAGCTGGTGTAGAGTACTCTGAACTGACTTGAGCTGAAG
Found at i:65178165 original size:41 final size:41
Alignment explanation
Indices: 65178095--65178174 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
65178085 GCTGACATGT
*
65178095 GCTGGTGTAGAGTACTCTAAGCTATCTTGAGCTGAAGATAA
1 GCTGGTGTAGAGTACTCTAAGCTATCTTGAGCTAAAGATAA
* **
65178136 GCTGGTGTAGAGTACTTTGTGCTGA-CTTGAGCTAAAGAT
1 GCTGGTGTAGAGTACTCTAAGCT-ATCTTGAGCTAAAGAT
65178175 GAGTTGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (41 bp):
GCTGGTGTAGAGTACTCTAAGCTATCTTGAGCTAAAGATAA
Found at i:65197565 original size:25 final size:25
Alignment explanation
Indices: 65197524--65197591 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
65197514 TTTAATAACC
* *
65197524 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAACCCCTTTTGATAAACT
*
65197549 GGGGCAAAACCCCTTTTCGGTAAACT
1 GGGGCAAAACCCCTTTT-GATAAACT
*
65197575 GGGGC-AAAGCCCTTTTG
1 GGGGCAAAACCCCTTTTG
65197592 CACTTCCTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.03
25 25 0.66
26 12 0.32
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (25 bp):
GGGGCAAAACCCCTTTTGATAAACT
Found at i:65197572 original size:26 final size:25
Alignment explanation
Indices: 65197524--65197590 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 25
65197514 TTTAATAACC
*
65197524 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
* *
65197549 GGGGCAAAACCCCTTTTCGGTAAACT
1 GGGGC-AAAGCCCTTTTCGATAAACT
65197575 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
65197591 GCACTTCCTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 15 0.41
26 22 0.59
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:65197749 original size:25 final size:25
Alignment explanation
Indices: 65197721--65197768 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65197711 ATAATTAAAC
* * *
65197721 CCTAGGTGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
65197746 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
65197769 CACATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:65200071 original size:46 final size:46
Alignment explanation
Indices: 65199996--65200217 Score: 270
Period size: 46 Copynumber: 4.8 Consensus size: 46
65199986 TGTAACCCGC
* * * * *
65199996 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
65200042 CCATGAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
65200092 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
65200135 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
65200181 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65200218 TGCTCAACCA
Statistics
Matches: 151, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 2 0.01
46 106 0.70
47 27 0.18
48 2 0.01
49 2 0.01
50 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:65204158 original size:16 final size:17
Alignment explanation
Indices: 65204127--65204172 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
65204117 TATAATTTTA
*
65204127 TTTATTTTTATTTCATC
1 TTTATTTATATTTCATC
*
65204144 TTTATTTAT-TTTCATG
1 TTTATTTATATTTCATC
*
65204160 TCTATTTATATTT
1 TTTATTTATATTT
65204173 ATGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTATTTATATTTCATC
Found at i:65205463 original size:284 final size:283
Alignment explanation
Indices: 65204954--65205522 Score: 1111
Period size: 284 Copynumber: 2.0 Consensus size: 283
65204944 GGGAATTCTG
65204954 TAAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAGAAGGCCCAAGCTTAAAATAGAACC
1 TAAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAGAAGGCCCAAGCTTAAAATAGAACC
65205019 CGGCAATTTTAGTTAATTTTTGTTCCATAAGAAAAATGGGGTGAAATTATGAAATAGGACCTATG
66 CGGCAATTTTAGTTAATTTTTGTTCCATAAGAAAAATGGGGTGAAATTATGAAATAGGACCTATG
65205084 TGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTAGCCAAATAAATAGGAGTGCAAAATAGG
131 TGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTAGCCAAATAAATAGGAGTGCAAAATAGG
65205149 AGGATTTGCATGACAAACCTCCCATTTTACATGTAGTGGCTGGTCATCATGTTGTTGTAGACAAA
196 AGGATTTGCATGACAAACCTCCCATTTTACATGTAGTGGCTGGTCATCATGTTGTTGTAGACAAA
65205214 ATGTGCACTTGCTAGCCATAATT
261 ATGTGCACTTGCTAGCCATAATT
65205237 TAAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAGAAGGCCCAAGCTTAAAATAGAACC
1 TAAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAGAAGGCCCAAGCTTAAAATAGAACC
65205302 CGGCAATTTTAGTTAATTTTTGTTCCATAAGAAAAATGGGGGTGAAATTATGAAATAGGACCTAT
66 CGGCAATTTTAGTTAATTTTTGTTCCATAAGAAAAAT-GGGGTGAAATTATGAAATAGGACCTAT
*
65205367 GTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTGGCCAAATAAATAGGAGTGCAAAATAG
130 GTGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTAGCCAAATAAATAGGAGTGCAAAATAG
*
65205432 GAGGATTTGCATGACAAACCTCCCATTTTACATGTAGTGGTTGGTCATCATGTTGTTGTAGACAA
195 GAGGATTTGCATGACAAACCTCCCATTTTACATGTAGTGGCTGGTCATCATGTTGTTGTAGACAA
65205497 AATGTGCACTTGCTAGCCATAATT
260 AATGTGCACTTGCTAGCCATAATT
65205521 TA
1 TA
65205523 TGGTACAAAT
Statistics
Matches: 283, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
283 102 0.36
284 181 0.64
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (283 bp):
TAAATGTTGGCATAGGTTTAATTATGTTAGTGGGCCTCTAGAAGGCCCAAGCTTAAAATAGAACC
CGGCAATTTTAGTTAATTTTTGTTCCATAAGAAAAATGGGGTGAAATTATGAAATAGGACCTATG
TGAAAATGTTTGAAAATGCTATAGGCTAAATTGAAGTAGCCAAATAAATAGGAGTGCAAAATAGG
AGGATTTGCATGACAAACCTCCCATTTTACATGTAGTGGCTGGTCATCATGTTGTTGTAGACAAA
ATGTGCACTTGCTAGCCATAATT
Found at i:65205572 original size:26 final size:26
Alignment explanation
Indices: 65205543--65205650 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
65205533 TGATACAAAT
65205543 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65205569 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65205595 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65205621 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65205647 TGAT
1 TGAT
65205651 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65207359 original size:54 final size:54
Alignment explanation
Indices: 65207271--65207448 Score: 284
Period size: 54 Copynumber: 3.3 Consensus size: 54
65207261 AGGAAGCGTC
* * * *
65207271 CTGGTGGCTATGCCACAATTATCTGATCTAGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACGATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
* *
65207325 CTGGTGGCTATGCCATGATTATCTGATATGGTGGCTGTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
*
65207379 CTGGTGGCTATGCCACGATTATCTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
*
65207433 CTGGTGGCTCTGCCAC
1 CTGGTGGCTATGCCAC
65207449 AATATCTATA
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATATGGTGGCTCTGCCACATATATCTGTT
Found at i:65207459 original size:32 final size:27
Alignment explanation
Indices: 65207271--65207465 Score: 211
Period size: 27 Copynumber: 7.2 Consensus size: 27
65207261 AGGAAGCGTC
* *
65207271 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
65207298 CTAGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* * *
65207325 CTGGTGGCTATGCCATGAT-TATCTGAT
1 CTGGTGGCTCTGCCA-CATATATCTGTT
* *
65207352 ATGGTGGCTGTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
65207379 CTGGTGGCTATGCCACGAT-TATCTGATT
1 CTGGTGGCTCTGCCAC-ATATATCTG-TT
65207407 -TGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
65207433 CTGGTGGCTCTGCCACA-ATATCTATAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
65207460 CTGGTG
1 CTGGTG
65207466 ACTTCGTCAC
Statistics
Matches: 143, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
26 13 0.09
27 123 0.86
28 7 0.05
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:65209596 original size:2 final size:2
Alignment explanation
Indices: 65209589--65209615 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65209579 GAGACTAGTC
65209589 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 A
65209616 CATGTCATGA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65213878 original size:43 final size:42
Alignment explanation
Indices: 65213723--65213884 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 42
65213713 TGTGTTATCG
* *
65213723 TGTAAGACCACATCTGGGATGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCGTACTT-T-A-TTACA
* * * * *
65213767 TGTAAGACCACGTCTGGGACGTTGGTATTGTACTTGATTTCA
1 TGTAAGACCACATCTGGGACGTTGGCATCGTACTTTATTACA
* **
65213809 TGTAAGACC-CTATCTAGGACAATGGCATCGATACTTTATTACA
1 TGTAAGACCAC-ATCTGGGACGTTGGCATCG-TACTTTATTACA
* *
65213852 TGAAAGACCACATCTGGGACGTTGGCATTGTAC
1 TGTAAGACCACATCTGGGACGTTGGCATCGTAC
65213885 GAGCTTTCTG
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 34 0.36
44 27 0.29
45 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGTACTTTATTACA
Found at i:65219657 original size:40 final size:39
Alignment explanation
Indices: 65219612--65219741 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
65219602 CGGAATACAA
65219612 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
65219652 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
65219692 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
65219732 CCGGATATAA
1 CCGGATATAA
65219742 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:65236922 original size:15 final size:15
Alignment explanation
Indices: 65236898--65236927 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65236888 ACTAATGTAT
65236898 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
65236913 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
65236928 ACAAGTGTTG
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:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:65238252 original size:6 final size:6
Alignment explanation
Indices: 65238208--65238234 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
65238198 AAGGTGACAA
65238208 AATCAG AATCAG AATCAG AATCAG AAT
1 AATCAG AATCAG AATCAG AATCAG AAT
65238235 TAGGTGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
AATCAG
Found at i:65239336 original size:27 final size:27
Alignment explanation
Indices: 65239306--65239686 Score: 471
Period size: 27 Copynumber: 14.2 Consensus size: 27
65239296 AACACCCTAG
** *
65239306 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239333 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239360 AGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239387 GGGTGAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * * * *
65239414 GTGTAAAACGGTAATTCTATAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239441 AGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239468 AGGTAAAAC-GATAATTCTGTAAATCGA
1 GGGTAAAACAG-TAATTTTGTAAATCGA
*
65239495 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
65239522 GGGTAAAATAGTAACTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239549 GGGTAAAA-AATAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
65239575 TGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
65239602 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
65239629 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* **
65239656 GGGT-AAATAGTAATTTTGTATTTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
65239682 GGGTA
1 GGGTA
65239687 CTCTGATAAT
Statistics
Matches: 307, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 47 0.15
27 260 0.85
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:65247488 original size:71 final size:71
Alignment explanation
Indices: 65247404--65247567 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65247394 CGATTTGTCT
65247404 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65247469 CTTTCA
66 CTTTCA
65247475 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65247540 CTTTCA
66 CTTTCA
65247546 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65247568 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65247605 original size:71 final size:70
Alignment explanation
Indices: 65247404--65247601 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
65247394 CGATTTGTCT
* * * *
65247404 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65247469 CTTTCA
65 CTTTCA
* * * *
65247475 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65247540 CTTTCA
65 CTTTCA
* *
65247546 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65247602 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65249559 original size:18 final size:18
Alignment explanation
Indices: 65249536--65249588 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
65249526 AAAATGTGAG
*
65249536 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
65249554 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
65249572 AAATGATGTTCAAATTT
1 AAATGATGTTCACATTT
65249589 ATGGAAATGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:65250134 original size:72 final size:72
Alignment explanation
Indices: 65250012--65250248 Score: 363
Period size: 72 Copynumber: 3.3 Consensus size: 72
65250002 AAATGCTAAA
* * *
65250012 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAACTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
65250077 GTGTAAT
66 GTGTAAT
65250084 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
65250149 GTGTAAT
66 GTGTAAT
* *
65250156 CT-GCTTTTATTAATAGTTGTTTATGTTTGGTCTTTGAGATATTGAATTTATGTTCTACTTATTT
1 CTAG-TTTTATCAATAGTTGTTTATGTTTGGTTTTTGA-ATATTGAATTTATGTTCTACTTATTT
* *
65250220 ATACT-AAAT
64 AT-GTGTAAT
65250229 -TAGTTTTATCAATAGTTGTT
1 CTAGTTTTATCAATAGTTGTT
65250249 AATATATGAT
Statistics
Matches: 153, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
71 1 0.01
72 119 0.78
73 32 0.21
74 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGAATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:65252321 original size:13 final size:13
Alignment explanation
Indices: 65252300--65252363 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
65252290 ACACCTAAAA
65252300 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
65252313 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
65252326 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
65252339 TTTTTAAAAGCAC
1 TTTTCAAAAGCAC
*
65252352 TTTTTAAAAGCA
1 TTTTCAAAAGCA
65252364 TTGCCAAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:65266887 original size:15 final size:15
Alignment explanation
Indices: 65266867--65266900 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
65266857 TCAACGGATT
65266867 ATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAA
*
65266882 ATCCGTCCGGGCTAG
1 ATCCGTCCGGGCTAA
65266897 ATCC
1 ATCC
65266901 TTTTCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.21
Consensus pattern (15 bp):
ATCCGTCCGGGCTAA
Found at i:65266915 original size:59 final size:59
Alignment explanation
Indices: 65266823--65266944 Score: 235
Period size: 59 Copynumber: 2.1 Consensus size: 59
65266813 TTCAAGGAAC
*
65266823 ATCCGTCCGGTCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
65266882 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
1 ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
65266941 ATCC
1 ATCC
65266945 TTACTGCAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (59 bp):
ATCCGTCCGGGCTAGATCCTTTTCATAATTGAGATCAACGGATTATCCGTCCGGGCTAA
Found at i:65271167 original size:27 final size:28
Alignment explanation
Indices: 65271111--65271180 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
65271101 AAATTTGTAC
65271111 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65271139 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
65271166 AGCACTAAGCGTGCG
1 AGCACTAAGTGTGCG
65271181 GACCCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:65273843 original size:2 final size:2
Alignment explanation
Indices: 65273836--65273888 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
65273826 TGATTGATGT
65273836 TA TA TA TA TA 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 TA TA TA TA TA
65273878 TA TA TA TA TA T
1 TA TA TA TA TA T
65273889 GTTCGGCTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65280070 original size:27 final size:28
Alignment explanation
Indices: 65280035--65280102 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
65280025 TATGAGATTG
*
65280035 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
* *
65280063 GCAC-AAGTGTACGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
65280090 GCACTAAGTGTGC
1 GCACTAAGTGTGC
65280103 AAACTTACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
27 21 0.62
28 13 0.38
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:65282689 original size:17 final size:19
Alignment explanation
Indices: 65282662--65282698 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
65282652 TTAGCATTCT
65282662 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
65282680 TACC-AGAGTTCATACTCA
1 TACCAAGAGTTCATACTCA
65282698 T
1 T
65282699 GGGTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:65291836 original size:11 final size:12
Alignment explanation
Indices: 65291804--65291837 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
65291794 TTTCTTTTAT
*
65291804 TTTAAATTAATA
1 TTTAAATTATTA
65291816 TTTAAATTATTA
1 TTTAAATTATTA
65291828 TTT-AATTATT
1 TTTAAATTATT
65291838 GGGTTTAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTTAAATTATTA
Found at i:65292477 original size:31 final size:31
Alignment explanation
Indices: 65292442--65292500 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
65292432 TAAATAATTT
* *
65292442 TTTATATTTTTTTGAATTTT-TGAAATTTATA
1 TTTATATATTTTAGAATTTTAT-AAATTTATA
65292473 TTTATATATTTTAGAATTTTATAAATTT
1 TTTATATATTTTAGAATTTTATAAATTT
65292501 TAAGTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (31 bp):
TTTATATATTTTAGAATTTTATAAATTTATA
Found at i:65292732 original size:18 final size:17
Alignment explanation
Indices: 65292709--65292743 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
65292699 AAATAGATTT
65292709 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
65292727 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
65292744 ACCCAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:65297465 original size:20 final size:20
Alignment explanation
Indices: 65297440--65297499 Score: 120
Period size: 20 Copynumber: 3.0 Consensus size: 20
65297430 TGCCTTACAT
65297440 GCCCGTGTGCTTGGGGACAC
1 GCCCGTGTGCTTGGGGACAC
65297460 GCCCGTGTGCTTGGGGACAC
1 GCCCGTGTGCTTGGGGACAC
65297480 GCCCGTGTGCTTGGGGACAC
1 GCCCGTGTGCTTGGGGACAC
65297500 ACCCATGTCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.10, C:0.30, G:0.40, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGCTTGGGGACAC
Found at i:65311123 original size:43 final size:43
Alignment explanation
Indices: 65311064--65311549 Score: 454
Period size: 43 Copynumber: 10.6 Consensus size: 43
65311054 AAGTTCAGTT
* * *
65311064 TAATGTAA-TGGCACTAAGTGTGCGATACAATTATAACCTCGAC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
65311107 TAATTAATTGGCACTAAATGTACGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
65311150 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
65311193 TAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
65311236 TAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
65311279 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* * * * **
65311322 TAATTAATTAGCACTAAGTGTGCGAGTTCGTTGAATGTTCAAAGATGATCGAA
1 TAATTAATTGGCACTAAGTGTGCGA-TAC----AA--TT-ATAGCT--TCGGC
* *
65311375 TGAATTAATGTTTCGAGCATTGAAATGGTAAGCG-TGACAAATAAGAAGGTATTATAGCTTCGGC
1 T-AATTAA---TT-G-GCACT-AAGT-GT--GCGAT-AC--------A---ATTATAGCTTCGGC
* *
65311439 TAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
65311482 TAATTAATTAGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
65311525 TAATTAATTAGCACTAAGTGTGCGA
1 TAATTAATTGGCACTAAGTGTGCGA
65311550 GTTCGTTGAA
Statistics
Matches: 375, Mismatches: 38, Indels: 60
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.01
43 301 0.80
44 2 0.01
46 1 0.00
48 2 0.01
50 2 0.01
51 4 0.01
53 4 0.01
54 10 0.03
55 1 0.00
56 2 0.01
57 5 0.01
58 3 0.01
59 5 0.01
60 5 0.01
61 3 0.01
62 1 0.00
63 9 0.02
64 4 0.01
66 5 0.01
67 2 0.01
69 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:65311571 original size:203 final size:203
Alignment explanation
Indices: 65311222--65311628 Score: 796
Period size: 203 Copynumber: 2.0 Consensus size: 203
65311212 GTGTGATACA
65311222 ATTATAGCTTCGGCTAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGCTAATTAAT
1 ATTATAGCTTCGGCTAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGCTAATTAAT
*
65311287 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAGTGTGCGAGTTCG
66 TAGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAGTGTGCGAGTTCG
*
65311352 TTGAATGTTCAAAGATGATCGAATGAATTAATGTTTCGAGCATTGAAATGGTAAGCGTGACAAAT
131 TTGAATGTTCAAAGATGATCGAATGAATTAATGTTTCGAGCATTGAAATGATAAGCGTGACAAAT
65311417 AAGAAGGT
196 AAGAAGGT
65311425 ATTATAGCTTCGGCTAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGCTAATTAAT
1 ATTATAGCTTCGGCTAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGCTAATTAAT
65311490 TAGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAGTGTGCGAGTTCG
66 TAGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAGTGTGCGAGTTCG
65311555 TTGAATGTTCAAAGATGATCGAATGAATTAATGTTTCGAGCATTGAAATGATAAGCGTGACAAAT
131 TTGAATGTTCAAAGATGATCGAATGAATTAATGTTTCGAGCATTGAAATGATAAGCGTGACAAAT
65311620 AAGAAGGT
196 AAGAAGGT
65311628 A
1 A
65311629 ATGGTACAGG
Statistics
Matches: 202, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
203 202 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (203 bp):
ATTATAGCTTCGGCTAATTAATTGGCACCAAGTGTGTGATACAATTATAGCTTCGGCTAATTAAT
TAGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTAATTAGCACTAAGTGTGCGAGTTCG
TTGAATGTTCAAAGATGATCGAATGAATTAATGTTTCGAGCATTGAAATGATAAGCGTGACAAAT
AAGAAGGT
Found at i:65316454 original size:42 final size:42
Alignment explanation
Indices: 65316371--65316457 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
65316361 AATTACACGC
*** *
65316371 ACACGGCCTAGAACATGGGCGTGTGGGGCAATTCAGAGAGTT
1 ACACGGCCTAGAACATGGGCGTGTGACCCAACTCAGAGAGTT
* *
65316413 ACACGGCCT-GACACATGGGCGTGTGACCCTACTCAGTGAGTT
1 ACACGGCCTAGA-ACATGGGCGTGTGACCCAACTCAGAGAGTT
65316455 ACA
1 ACA
65316458 TGGGTGAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.05
42 36 0.95
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (42 bp):
ACACGGCCTAGAACATGGGCGTGTGACCCAACTCAGAGAGTT
Found at i:65328790 original size:23 final size:23
Alignment explanation
Indices: 65328736--65328806 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
65328726 AAGCCATGAT
*
65328736 CGGTAAGCTCCTCTTGAGCTGATGAA
1 CGGTAAGCT-CTATTGAGCTGA--AA
**
65328762 TAGTAAGCTCTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
*
65328785 CGGTAAGCTCTATCGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
65328807 CAATAAGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.54
25 11 0.28
26 7 0.18
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (23 bp):
CGGTAAGCTCTATTGAGCTGAAA
Found at i:65335185 original size:29 final size:29
Alignment explanation
Indices: 65335151--65335282 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
65335141 TACTCGATTT
** * *
65335151 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
65335180 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
65335209 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
65335238 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
65335267 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
65335283 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:65347160 original size:15 final size:15
Alignment explanation
Indices: 65347136--65347165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65347126 ACTAATGTAT
65347136 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
65347151 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
65347166 ACAAGTGTTG
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:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:65349441 original size:41 final size:40
Alignment explanation
Indices: 65349381--65349526 Score: 186
Period size: 41 Copynumber: 3.6 Consensus size: 40
65349371 CTCGCACAAG
* * * *
65349381 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
65349421 GCCTTCGGGACTTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGAC-TTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
65349462 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
65349503 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65349527 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
40 30 0.33
41 59 0.64
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:65352976 original size:31 final size:31
Alignment explanation
Indices: 65352938--65353014 Score: 145
Period size: 31 Copynumber: 2.5 Consensus size: 31
65352928 TAACGGTTAT
65352938 TGGGCCGAAGCCTTTTCATAAATCATATCAC
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
*
65352969 TGGGCCGAAGCCTTTTCATAAATCATATCAT
1 TGGGCCGAAGCCTTTTCATAAATCATATCAC
65353000 TGGGCCGAAGCCTTT
1 TGGGCCGAAGCCTTT
65353015 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
TGGGCCGAAGCCTTTTCATAAATCATATCAC
Found at i:65353085 original size:42 final size:42
Alignment explanation
Indices: 65353038--65353129 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
65353028 TGGCCCTTAG
* ** *
65353038 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
65353080 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
65353122 GCCTATTT
1 GCCCATTT
65353130 GGGGAGATTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:65353302 original size:25 final size:26
Alignment explanation
Indices: 65353274--65353370 Score: 153
Period size: 25 Copynumber: 3.8 Consensus size: 26
65353264 CCTCTTTAAT
65353274 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
65353299 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
65353324 AACTGGGGCATAAGTCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
65353350 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
65353371 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 33 0.51
26 32 0.49
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:65353348 original size:51 final size:51
Alignment explanation
Indices: 65353274--65353370 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
65353264 CCTCTTTAAT
65353274 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
65353324 AACTGGGGCATAAGTCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
65353371 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 10 0.23
51 24 0.55
52 10 0.23
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:65354264 original size:27 final size:27
Alignment explanation
Indices: 65354178--65354256 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
65354168 TATTCCTCAT
*
65354178 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
**
65354205 TTTACCCTACAGGGGCTTTACAATCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
65354232 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
65354257 TTTTTACCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:65354348 original size:27 final size:27
Alignment explanation
Indices: 65354295--65354359 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
65354285 TTTCATCCTA
* * *
65354295 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
65354322 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
65354349 CAATGGTATTT
1 CAAGGGTATTT
65354360 AGAACGACAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:65354410 original size:27 final size:26
Alignment explanation
Indices: 65354370--65354635 Score: 111
Period size: 27 Copynumber: 9.9 Consensus size: 26
65354360 AGAACGACAA
*
65354370 GGGTATTTCT-GTAACTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTTAAATCAG
* *
65354397 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT-TAAATCAG
* * *
65354423 AGGGTATTTCGGTAA-TTTCACAAACAAG
1 -GGGTATTTTGGTAATTTTTA-AATC-AG
* *
65354451 TGGTATTTTGGTAA-TTTTACAAACTAG
1 GGGTATTTTGGTAATTTTTA-AATC-AG
* *
65354478 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTT-TAAATCAG
* * * *
65354504 AGGGTATTTCGGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTT-TAAATCAG
* *
65354532 GGGTATTTTAGCAA-TTTTACAGA-CTA-
1 GGGTATTTTGGTAATTTTTA-A-ATC-AG
*
65354558 GGGTATTTTGGTAA-TTTTACTGATC-G
1 GGGTATTTTGGTAATTTTTA--AATCAG
* *
65354584 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTT-TAAATCAG
*
65354612 GGGTATTTTAGTAATTTTGTAAAT
1 GGGTATTTTGGTAATTTT-TAAAT
65354636 TGAGGGTAAA
Statistics
Matches: 188, Mismatches: 31, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
25 3 0.02
26 34 0.18
27 139 0.74
28 9 0.05
29 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTTAAATCAG
Found at i:65354456 original size:54 final size:54
Alignment explanation
Indices: 65354397--65354643 Score: 257
Period size: 54 Copynumber: 4.6 Consensus size: 54
65354387 TGTAAATCAG
* *
65354397 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAA
* ***
65354450 GTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTTGGTAATTTTACAAACCAA
* *** * * * *
65354505 GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGA-CTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAA
** * **
65354558 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAA
* **
65354612 GGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
65354644 AAACAGTAAT
Statistics
Matches: 160, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
53 43 0.27
54 114 0.71
55 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTTACAAACCAA
Found at i:65354486 original size:81 final size:81
Alignment explanation
Indices: 65354395--65354629 Score: 357
Period size: 81 Copynumber: 2.9 Consensus size: 81
65354385 TTTGTAAATC
*
65354395 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CAAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAG-GGTATTT
*
65354459 TGGTAATTTTACAAACT
65 TAGTAATTTTACAAACT
65354476 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
* *
65354541 AGCAATTTTACAGACT
66 AGTAATTTTACAAACT
** * * **
65354557 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
65354621 AGTAATTTT
66 AGTAATTTT
65354630 GTAAATTGAG
Statistics
Matches: 142, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
80 65 0.46
81 73 0.51
82 4 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTACAAACT
Found at i:65354641 original size:27 final size:27
Alignment explanation
Indices: 65354397--65354790 Score: 211
Period size: 27 Copynumber: 14.6 Consensus size: 27
65354387 TGTAAATCAG
*
65354397 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTATAAATTGA
* * * **
65354424 GGGTATTTCGGTAATTTCACAAA-CAA
1 GGGTATTTTGGTAATTTTATAAATTGA
* *
65354450 GTGGTATTTTGGTAATTTTACAAACT-A
1 G-GGTATTTTGGTAATTTTATAAATTGA
*
65354477 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTATAAATTGA
* * ***
65354505 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAATTGA
* * * * *
65354532 GGGTATTTTAGCAATTTTACAGACT-A
1 GGGTATTTTGGTAATTTTATAAATTGA
* *
65354558 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTTA-TAAATTGA
* ***
65354585 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATTGA
* *
65354612 GGGTATTTTAGTAATTTTGTAAATTGA
1 GGGTATTTTGGTAATTTTATAAATTGA
***** * * *
65354639 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATTGA
***** * *
65354666 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATTGA
**** * * * *
65354693 GGGTAAAACGGTAATTCTGTAAGTCGA
1 GGGTATTTTGGTAATTTTATAAATTGA
*** *
65354720 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTATTTTGGTAATTTTATAAATTGA
* * *
65354747 GGGTACTTTGGTAATTTTACAATTTGA
1 GGGTATTTTGGTAATTTTATAAATTGA
*
65354774 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
65354791 GGTAAACTAA
Statistics
Matches: 308, Mismatches: 52, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 23 0.07
27 283 0.92
28 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATTGA
Found at i:65356053 original size:46 final size:46
Alignment explanation
Indices: 65355916--65356133 Score: 189
Period size: 46 Copynumber: 4.7 Consensus size: 46
65355906 TGAGTGAAGT
* * *
65355916 GCCGATGCCATGTCCCAGACATAGTCTT-GACTGGCTCAT-ATCTCAAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGAG
*
65355963 G-CGATGCCATTTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AG
* * * *
65356010 GTCGATTCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAG
* * *
65356056 GCCGATGCATGTCCCAGACATGTCTTACACT-AGC-ACTCGTCTGGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTA-TCATCTCGAG
*
65356102 GCCAATGCCATGTCCCAGACATGTCTTACACT
1 GCCGATG-CATGTCCCAGACATGTCTTACACT
65356134 AGCCAAAAAT
Statistics
Matches: 146, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.01
46 88 0.60
47 51 0.35
48 5 0.03
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:65356114 original size:93 final size:92
Alignment explanation
Indices: 65355914--65356133 Score: 243
Period size: 93 Copynumber: 2.4 Consensus size: 92
65355904 CGTGAGTGAA
* * *
65355914 GTGCCGATGCCATGTCCCAGACATAGTCTT-GACTGGCTCATATCTCAAGGCGATGCCATTTCCC
1 GTGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCACATCTCAAGGCGATGCCATGTCCC
65355978 AGACATGGTCTTACACTGACTATCATCTC
65 AGACATGGTCTTACACTGAC-ATCATCTC
* * * * *
65356007 GTAGTCGAT-TCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG-CATGTCC
1 GT-GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGG-CGATGCCATGTCC
* *
65356070 CAGACAT-GTCTTACACT-AGCACTCGTCTG
64 CAGACATGGTCTTACACTGA-CA-TCATCTC
*
65356099 GATGCCAATGCCATGTCCCAGACATGTCTTACACT
1 G-TGCCGATGCCATGTCCCAGACATGTCTTACACT
65356134 AGCCAAAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
91 2 0.02
92 26 0.24
93 69 0.64
94 10 0.09
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GTGCCGATGCCATGTCCCAGACATGTCTTACACTGGCTCACATCTCAAGGCGATGCCATGTCCCA
GACATGGTCTTACACTGACATCATCTC
Found at i:65359544 original size:42 final size:43
Alignment explanation
Indices: 65359482--65359589 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 43
65359472 ACTTATGAAA
*
65359482 TACGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TACTTGAT
1 TACGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATACTTGAT
* * *
65359524 TTCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGAT
1 TACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATACTTGAT
* *
65359567 TACATGTAAGACCATGTCTGGGA
1 TACGTGTAAGACCCTGTCTGGGA
65359590 TGTTAGCATT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 29 0.52
43 26 0.46
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATACTTGAT
Found at i:65366142 original size:48 final size:48
Alignment explanation
Indices: 65366031--65366299 Score: 353
Period size: 48 Copynumber: 5.6 Consensus size: 48
65366021 ATGAGATTTC
* **
65366031 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CTGA-GATATGTGCTT
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--TGATGATG-TATGTGCCA
*
65366080 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
* * * *
65366128 GTCTGAGACCATGTCTAGGACATGGCATCGATGATGATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
* * * * *
65366176 GTGTAAGACTATGCCTGGTACATGGCATCGGCGATAATGTATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
* *
65366224 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
*
65366272 GTGTAAAACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
65366300 TGGCAATGAT
Statistics
Matches: 192, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
47 1 0.01
48 160 0.83
49 31 0.16
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATGTATGTGCCA
Found at i:65366325 original size:96 final size:97
Alignment explanation
Indices: 65366031--65366347 Score: 355
Period size: 96 Copynumber: 3.3 Consensus size: 97
65366021 ATGAGATTTC
* * *
65366031 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CTGAGATATGTGCTTGTGTAAGACCATGTC
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--TGATGATATATGTGCTAGTGTAAGACCATGTC
*
65366095 TGGGACATGACATCGG--TGATGATGTATGTGCCA
64 TGGGACATGGCATCGGCATGAT-ATGTATGTGCCA
* * * * * * * *
65366128 GTCTGAGACCATGTCTAGGACATGGCATCGATGATGATGTATGTGCCAGTGTAAGACTATGCCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCATGTCTG
*
65366193 GTACATGGCATCGGC--GATAATGTATGTGCCA
66 GGACATGGCATCGGCATGAT-ATGTATGTGCCA
*
65366224 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAAACCATGTCTG
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCATGTCTG
* *
65366289 GGACATGGCATTGGCAATGATATGTA-GAT-TCA
66 GGACATGGCATCGGC-ATGATATGTATG-TGCCA
*
65366321 -TGTAAGGCCATG-CTGGGGACATGGCAT
1 GTGTAAGACCATGTCT-GGGACATGGCAT
65366348 TCGTACTTTA
Statistics
Matches: 186, Mismatches: 27, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
95 3 0.02
96 144 0.77
97 30 0.16
98 6 0.03
99 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.27
Consensus pattern (97 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATATGTGCTAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATGATATGTATGTGCCA
Found at i:65371986 original size:12 final size:12
Alignment explanation
Indices: 65371956--65372002 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
65371946 TTCTCTAAAG
*
65371956 CTTTTCTGTTCT
1 CTTTTCTCTTCT
65371968 C--TTCTCTTCT
1 CTTTTCTCTTCT
65371978 CTTTTCTCTTCT
1 CTTTTCTCTTCT
65371990 CTTTTCTCTTCT
1 CTTTTCTCTTCT
65372002 C
1 C
65372003 CATAATTCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 9 0.28
12 23 0.72
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (12 bp):
CTTTTCTCTTCT
Found at i:65371986 original size:17 final size:17
Alignment explanation
Indices: 65371956--65372002 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
65371946 TTCTCTAAAG
*
65371956 CTTTTCTGTTCTCTTCT
1 CTTTTCTCTTCTCTTCT
* *
65371973 CTTCTCTTTTCTCTTCT
1 CTTTTCTCTTCTCTTCT
65371990 CTTTTCTCTTCTC
1 CTTTTCTCTTCTC
65372003 CATAATTCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (17 bp):
CTTTTCTCTTCTCTTCT
Found at i:65374911 original size:45 final size:46
Alignment explanation
Indices: 65374847--65375021 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
65374837 TGTAACCCGC
*
65374847 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
65374892 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
65374942 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65374985 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65375022 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:65375012 original size:93 final size:92
Alignment explanation
Indices: 65374854--65375024 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
65374844 CGCCCATAAG
*
65374854 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65374919 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
65374946 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65375011 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
65375025 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65382525 original size:93 final size:93
Alignment explanation
Indices: 65382413--65382584 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
65382403 CGCCCATAAG
*
65382413 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
65382477 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
65382506 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65382571 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65382585 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65382579 original size:46 final size:46
Alignment explanation
Indices: 65382406--65382581 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
65382396 TGTAACCCGC
* *
65382406 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
65382452 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65382502 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65382545 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65382582 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65384480 original size:51 final size:51
Alignment explanation
Indices: 65384404--65384580 Score: 261
Period size: 51 Copynumber: 3.5 Consensus size: 51
65384394 CTAATACAGG
65384404 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
* * * * * *
65384455 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG---TCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
*
65384504 TAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
65384555 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
65384581 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
48 4 0.04
49 37 0.34
51 63 0.58
52 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
Found at i:65384534 original size:100 final size:99
Alignment explanation
Indices: 65384354--65384587 Score: 378
Period size: 100 Copynumber: 2.3 Consensus size: 99
65384344 CTGGTACACG
* * * * *
65384354 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACAGGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAACATCTAATACACGTAGTAGCCTACACTT
65384419 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
64 AGTACTACACACGTGATCACAGTTTTCGGGTACGCA
**
65384455 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACA-TCTAATACACGTAGTAGCCTACACTTA
65384520 GTACTACACACGTGATCACAGTTTTCGGGTACGCA
65 GTACTACACACGTGATCACAGTTTTCGGGTACGCA
65384555 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC
65384588 TCACAATAGA
Statistics
Matches: 125, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
99 4 0.03
100 92 0.74
101 29 0.23
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACATCTAATACACGTAGTAGCCTACACTTAG
TACTACACACGTGATCACAGTTTTCGGGTACGCA
Found at i:65386753 original size:28 final size:27
Alignment explanation
Indices: 65386716--65386808 Score: 134
Period size: 27 Copynumber: 3.4 Consensus size: 27
65386706 CCCCAAAATA
65386716 GGTAAAATGACCGTAATATCCCTGTAG
1 GGTAAAATGACCGTAATATCCCTGTAG
* *
65386743 GGTAAAAATGACCGTAATGTCCCTATAG
1 GGT-AAAATGACCGTAATATCCCTGTAG
*
65386771 GGTAAAATGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAATATCCC-TGTAG
65386798 GGTAAAATGAC
1 GGTAAAATGAC
65386809 GATTATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 3 0.05
27 31 0.53
28 25 0.42
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (27 bp):
GGTAAAATGACCGTAATATCCCTGTAG
Found at i:65386981 original size:27 final size:27
Alignment explanation
Indices: 65386944--65387008 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
65386934 ACGGAGGAAG
*
65386944 TACTG-TACTGGTGACCATGTCACATT
1 TACTGTTACTGGTGACCATGCCACATT
* **
65386970 TACTGTTACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGACCATGCCACATT
*
65386997 TACTGTTTCTGG
1 TACTGTTACTGG
65387009 CATCTATGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (27 bp):
TACTGTTACTGGTGACCATGCCACATT
Found at i:65392594 original size:27 final size:27
Alignment explanation
Indices: 65392563--65392680 Score: 173
Period size: 27 Copynumber: 4.4 Consensus size: 27
65392553 CCCCAAAATA
*
65392563 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
65392590 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
65392617 AGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
65392644 GGTAAAATGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
65392671 GGTAAAATGA
1 GGTAAAATGA
65392681 TGATTATGCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:65397049 original size:40 final size:39
Alignment explanation
Indices: 65396998--65397161 Score: 172
Period size: 39 Copynumber: 4.2 Consensus size: 39
65396988 TTCAGTCACT
* * *
65396998 AGCATAAAGCCTTCGAGACTTTAAACCCGGATATATTTCC
1 AGCATATAGCCTGCG-GACTTTAAACCCGGATATAATTCC
* **
65397038 AGCATATAGCCTGCGGACCTTAAGTCCGGATATAATTCC
1 AGCATATAGCCTGCGGACTTTAAACCCGGATATAATTCC
*
65397077 AGCATATAGCCTGCGGGTA-TTTAAACCTGGATATAATTCC
1 AGCATATAGCCTGC-GG-ACTTTAAACCCGGATATAATTCC
* * **
65397117 AGCACATAGCCTGC-GACCCTTAAGTCCGGATATAATTCC
1 AGCATATAGCCTGCGGA-CTTTAAACCCGGATATAATTCC
65397156 AG-ATAT
1 AGCATAT
65397162 CATGCATATT
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 53 0.51
40 45 0.43
41 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
AGCATATAGCCTGCGGACTTTAAACCCGGATATAATTCC
Found at i:65397077 original size:39 final size:39
Alignment explanation
Indices: 65397024--65397161 Score: 176
Period size: 39 Copynumber: 3.5 Consensus size: 39
65397014 GACTTTAAAC
*
65397024 CCGGATATATTTCCAGCATATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
* *
65397063 CCGGATATAATTCCAGCATATAGCCTGCGGGTA-TTTAA-A
1 CCGGATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGT
*
65397102 CCTGGATATAATTCCAGCACATAGCCTGC-GACCCTTAAGT
1 CC-GGATATAATTCCAGCATATAGCCTGCGGA-CCTTAAGT
65397142 CCGGATATAATTCCAG-ATAT
1 CCGGATATAATTCCAGCATAT
65397162 CATGCATATT
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
37 1 0.01
38 4 0.05
39 47 0.55
40 33 0.38
41 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
Found at i:65397129 original size:79 final size:78
Alignment explanation
Indices: 65397017--65397161 Score: 238
Period size: 79 Copynumber: 1.8 Consensus size: 78
65397007 CCTTCGAGAC
* *
65397017 TTTAAACCCGGATATATTTCCAGCATATAGCCTGCGGA-CCTTAAGTCCGGATATAATTCCAGCA
1 TTTAAACCCGGATATAATTCCAGCACATAGCCTGC-GACCCTTAAGTCCGGATATAATTCCAG-A
65397081 TATAGCCTGCGGGTA
64 TATAGCCTGCGGGTA
*
65397096 TTTAAACCTGGATATAATTCCAGCACATAGCCTGCGACCCTTAAGTCCGGATATAATTCCAGATA
1 TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGACCCTTAAGTCCGGATATAATTCCAGATA
65397161 T
66 T
65397162 CATGCATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
78 6 0.10
79 56 0.90
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (78 bp):
TTTAAACCCGGATATAATTCCAGCACATAGCCTGCGACCCTTAAGTCCGGATATAATTCCAGATA
TAGCCTGCGGGTA
Found at i:65404766 original size:39 final size:39
Alignment explanation
Indices: 65404723--65404860 Score: 174
Period size: 39 Copynumber: 3.5 Consensus size: 39
65404713 GACTTTAAAC
*
65404723 CCGGATAT-ATTACCAGCATATAGCCTGTGGACCTTAAGT
1 CCGGATATAATT-CCAGCATATAGCCTGCGGACCTTAAGT
* **
65404762 CCGGATATAATTCCAGCATATAGCCTGCGGGTA-TTTAAAC
1 CCGGATATAATTCCAGCATATAGCCTGC-GG-ACCTTAAGT
* *
65404802 CCGGATATAATTCCAGCACATAGCCTGCGGACCATAAGT
1 CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
65404841 CCGGATATAATTCCAG-ATAT
1 CCGGATATAATTCCAGCATAT
65404861 CATGCATATT
Statistics
Matches: 85, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
38 4 0.05
39 44 0.52
40 36 0.42
41 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (39 bp):
CCGGATATAATTCCAGCATATAGCCTGCGGACCTTAAGT
Found at i:65404840 original size:79 final size:78
Alignment explanation
Indices: 65404716--65404860 Score: 238
Period size: 79 Copynumber: 1.8 Consensus size: 78
65404706 CCTTTGGGAC
* * *
65404716 TTTAAACCCGGATATATTACCAGCATATAGCCTGTGGACCTTAAGTCCGGATATAATTCCAGCAT
1 TTTAAACCCGGATATATTACCAGCACATAGCCTGCGGACCATAAGTCCGGATATAATTCCAG-AT
65404781 ATAGCCTGCGGGTA
65 ATAGCCTGCGGGTA
65404795 TTTAAACCCGGATATAATT-CCAGCACATAGCCTGCGGACCATAAGTCCGGATATAATTCCAGAT
1 TTTAAACCCGGATAT-ATTACCAGCACATAGCCTGCGGACCATAAGTCCGGATATAATTCCAGAT
65404859 AT
65 AT
65404861 CATGCATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
78 4 0.06
79 55 0.89
80 3 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (78 bp):
TTTAAACCCGGATATATTACCAGCACATAGCCTGCGGACCATAAGTCCGGATATAATTCCAGATA
TAGCCTGCGGGTA
Found at i:65409609 original size:38 final size:35
Alignment explanation
Indices: 65409550--65409667 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
65409540 TCAATCATGC
*
65409550 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
65409589 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
65409620 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
65409651 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
65409668 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:65409611 original size:31 final size:31
Alignment explanation
Indices: 65409573--65409667 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
65409563 CCTTTTCATA
*
65409573 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
65409604 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
65409635 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
65409666 TT
1 TT
65409668 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:65409910 original size:24 final size:24
Alignment explanation
Indices: 65409859--65410001 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
65409849 GCTTTATCAT
*
65409859 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
65409884 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
65409908 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
65409931 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
65409955 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
65409979 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
65410002 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:65409938 original size:47 final size:48
Alignment explanation
Indices: 65409859--65410000 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
65409849 GCTTTATCAT
* *
65409859 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
65409908 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
65409955 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
65410001 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:65409959 original size:71 final size:72
Alignment explanation
Indices: 65409858--65410001 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
65409848 TGCTTTATCA
*
65409858 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
65409923 GCCCTTT
66 GCCCTTT
* * **
65409930 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
65409993 AGCCCTTT
65 AGCCCTTT
65410001 T
1 T
65410002 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:65410077 original size:20 final size:20
Alignment explanation
Indices: 65410052--65410111 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
65410042 TATGATTACC
65410052 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
65410072 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
65410092 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
65410112 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:65410082 original size:11 final size:11
Alignment explanation
Indices: 65410052--65410106 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
65410042 TATGATTACC
65410052 TCATGTGCATA
1 TCATGTGCATA
*
65410063 TCA--TACATA
1 TCATGTGCATA
65410072 TCATGTGCATA
1 TCATGTGCATA
* *
65410083 TCA--TACATT
1 TCATGTGCATA
65410092 TCATGTGCATA
1 TCATGTGCATA
65410103 TCAT
1 TCAT
65410107 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65410186 original size:25 final size:25
Alignment explanation
Indices: 65410154--65410201 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65410144 ATACATAAAC
* * *
65410154 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65410179 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65410202 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65411793 original size:27 final size:27
Alignment explanation
Indices: 65411438--65411782 Score: 401
Period size: 27 Copynumber: 12.8 Consensus size: 27
65411428 GGGTATTTTA
* * *
65411438 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
65411465 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
65411492 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
65411519 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
65411546 GTAATT-TGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
65411572 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
65411599 ATAATTATGTAAATCTG-GGGTAAAATG
1 GTAATTCTATAAATC-GAGGGTAAAACG
* * *
65411626 GTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTAAAACG
**
65411653 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
65411680 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACG
65411707 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
65411734 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
65411761 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
65411783 CTTTGGTAAT
Statistics
Matches: 284, Mismatches: 27, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
26 25 0.09
27 256 0.90
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:65411804 original size:27 final size:27
Alignment explanation
Indices: 65411706--65412009 Score: 249
Period size: 27 Copynumber: 11.3 Consensus size: 27
65411696 AGGGTAAAAC
* * ****
65411706 GGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
****
65411733 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
65411760 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
65411787 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
65411814 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
65411841 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
65411868 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
65411895 GATAATTTTACAAA-CTAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
65411921 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * * *
65411948 GGTAATTTTATAAACCAATGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
65411975 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
65412001 GGTAATTTT
1 GGTAATTTT
65412010 GTAAACCAAA
Statistics
Matches: 239, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
26 43 0.18
27 194 0.81
28 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:65411874 original size:54 final size:53
Alignment explanation
Indices: 65411832--65411988 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 53
65411822 TACAGGTCGA
* *
65411832 GGGTATTTCAG-TAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTT-AGATAATTTCACAAACTA-GGGTATTTTGGTAATTTTACAAACGAG
* * *
65411886 GGGTATTTTGATAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTAGATAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACGAG
* * * * * * *
65411939 GGGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAATTTTACAAA
1 GGGTATTTAGATAATTTCACAAA-CTAGGGTATTTTGGTAATTTTACAAA
65411989 GCAGGGTATT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
53 49 0.53
54 44 0.47
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (53 bp):
GGGTATTTAGATAATTTCACAAACTAGGGTATTTTGGTAATTTTACAAACGAG
Found at i:65411949 original size:80 final size:78
Alignment explanation
Indices: 65411778--65412009 Score: 259
Period size: 80 Copynumber: 2.9 Consensus size: 78
65411768 TATAAATCGA
* * * * ** **
65411778 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACA-AAC-AGGGTATTTTG
* *
65411842 GTAATTTCACAAATTAG
62 GTAATTTTACAAACTAG
65411859 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAGGGTATTTTGGT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAAC-AGGGTATTTTGGT
65411924 AATTTTACAAACTAG
64 AATTTTACAAACTAG
* * **
65411939 GGGTATTTTGGTAATTTTATAAACCAATGGTATTTTAGTAATTTTACAAAGCAGGGTATTTTGGT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAA-CAGGGTATTTTGGT
65412004 AATTTT
64 AATTTT
65412010 GTAAACCAAA
Statistics
Matches: 132, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 88 0.67
81 39 0.30
82 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (78 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACAGGGTATTTTGGTAA
TTTTACAAACTAG
Found at i:65412015 original size:53 final size:53
Alignment explanation
Indices: 65411860--65412027 Score: 232
Period size: 53 Copynumber: 3.2 Consensus size: 53
65411850 ACAAATTAGG
* * * * *
65411860 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACTAG
1 GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
65411913 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
65411966 TGGTATTTTAGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTTGTAAACCAA
1 -GGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAACCAA
*
65412019 AGTATTTTA
1 GGTATTTTA
65412028 AACATGGATA
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
52 8 0.08
53 75 0.71
54 22 0.21
55 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.42
Consensus pattern (53 bp):
GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:65412023 original size:26 final size:26
Alignment explanation
Indices: 65411860--65412026 Score: 181
Period size: 27 Copynumber: 6.3 Consensus size: 26
65411850 ACAAATTAGG
* *
65411860 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
* * *
65411887 GGTATTTTGATAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTACAAACCAA
* *
65411913 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCA-A
*
65411940 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
* * *
65411966 TGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTACAAACCAA
**
65411993 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTACAAACCAA
*
65412019 AGTATTTT
1 GGTATTTT
65412027 AAACATGGAT
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
26 53 0.43
27 70 0.57
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.43
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACCAA
Found at i:65414855 original size:38 final size:35
Alignment explanation
Indices: 65414796--65414913 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
65414786 TCAATCATGC
*
65414796 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
65414835 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
65414866 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
65414897 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
65414914 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Done.