Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 55 of 109
Found at i:10872779 original size:20 final size:20
Alignment explanation
Indices: 10872751--10872793 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10872741 ATATTTAAGA
*
10872751 TTTTTAATATAAAAT-AAAT
1 TTTTTAATAGAAAATAAAAT
10872770 TTTTTGAATAGAAAATAAAAT
1 TTTTT-AATAGAAAATAAAAT
10872791 TTT
1 TTT
10872794 CTATTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTAATAGAAAATAAAAT
Found at i:10872835 original size:19 final size:18
Alignment explanation
Indices: 10872811--10872846 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10872801 CATTTATTCG
10872811 TAAAATAATATTTTTAATA
1 TAAAAT-ATATTTTTAATA
*
10872830 TAAAATATTTTTTTAAT
1 TAAAATATATTTTTAAT
10872847 GATATAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAAATATATTTTTAATA
Found at i:10872860 original size:19 final size:18
Alignment explanation
Indices: 10872811--10872864 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
10872801 CATTTATTCG
*
10872811 TAAAATAATATTTTTAATA
1 TAAAATACT-TTTTTAATA
*
10872830 TAAAATATTTTTTTAATGA
1 TAAAATACTTTTTTAAT-A
10872849 TATAAA-ACTTTTTTAA
1 TA-AAATACTTTTTTAA
10872865 AAAGATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.26
19 20 0.65
20 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAAAATACTTTTTTAATA
Found at i:10878449 original size:104 final size:103
Alignment explanation
Indices: 10878182--10878463 Score: 275
Period size: 105 Copynumber: 2.7 Consensus size: 103
10878172 GTTAACACTT
* * * * * * * *
10878182 GTTAATATATACTTGTATGTTTTAATTTTTTTTGCCTATACCTATGGTTAACGCCCGTCAATATA
1 GTTAATATAGACTTGTATGTTTTAAATTTTTTTACCTATACCAATAGTTAA-GACTGTCAGTATA
**
10878247 AACTTAAAAATTTTTTTACATATACTGATGCTTAAAGCTC
65 AACTT-GTAATTTTTTTACATATACTGATGCTTAAAGCTC
* * * * *
10878287 GTCAATATAGACTTATATGTTTT-AATTTTTCTTACCTATATCGATAGTTAATACCTGTCAGTAT
1 GTTAATATAGACTTGTATGTTTTAAATTTTT-TTACCTATACCAATAGTTAAGA-CTGTCAGTAT
** * *
10878351 AAACTTGTAATTTTTCTTATTTATACTGATGCTTAGTATC-C
64 AAACTTGTAATTTTT-TTACATATACTGATGCTTA-AAGCTC
* *
10878392 GTTAGTATAGACTTGTAT-TTTTAAAATTTTTTACCTATACCAATAGTTAGAGACTGTCAGTATA
1 GTTAATATAGACTTGTATGTTTTAAATTTTTTTACCTATACCAATAGTTA-AGACTGTCAGTATA
10878456 GAA-TTGTA
65 -AACTTGTA
10878464 TGCTTTAATT
Statistics
Matches: 145, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
104 50 0.34
105 93 0.64
106 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (103 bp):
GTTAATATAGACTTGTATGTTTTAAATTTTTTTACCTATACCAATAGTTAAGACTGTCAGTATAA
ACTTGTAATTTTTTTACATATACTGATGCTTAAAGCTC
Found at i:10878454 original size:55 final size:55
Alignment explanation
Indices: 10878395--10878534 Score: 160
Period size: 55 Copynumber: 2.5 Consensus size: 55
10878385 AGTATCCGTT
*
10878395 AGTATAGACTTGTAT-TTTTAAAATTTTTTACCTATACC-AATAGTTAGAGACTGTC
1 AGTATAGAATTGTATGTTTT-AAATTTTTTACCTATACCGAAT-GTTAGAGACTGTC
* * *
10878450 AGTATAGAATTGTATGCTTT-AATTTTCTTACCTATACCGACTGTTAGAGATTGTC
1 AGTATAGAATTGTATGTTTTAAATTTT-TTACCTATACCGAATGTTAGAGACTGTC
* * * *
10878505 AATATAGATTTATATGTTTTAATTTTTTTA
1 AGTATAGAATTGTATGTTTTAAATTTTTTA
10878535 TTATGTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
54 6 0.08
55 56 0.78
56 10 0.14
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (55 bp):
AGTATAGAATTGTATGTTTTAAATTTTTTACCTATACCGAATGTTAGAGACTGTC
Found at i:10878667 original size:24 final size:24
Alignment explanation
Indices: 10878635--10878681 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10878625 TTTTTTTAAA
*
10878635 AATTATATTTTTAATTATTAATATT
1 AATTATATTTATAATTA-TAATATT
10878660 AATT-TATTTATAATTATAATAT
1 AATTATATTTATAATTATAATAT
10878682 GATATGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 11 0.52
25 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTATATTTATAATTATAATATT
Found at i:10880531 original size:3 final size:3
Alignment explanation
Indices: 10880525--10880574 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
10880515 TTATAATAAT
*
10880525 AAC AAC AAC AAA AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
10880573 AA
1 AA
10880575 TAATAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:10880579 original size:3 final size:3
Alignment explanation
Indices: 10880573--10880598 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10880563 CAACAACAAC
10880573 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10880599 AGTAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10881271 original size:19 final size:19
Alignment explanation
Indices: 10881247--10881312 Score: 91
Period size: 19 Copynumber: 3.5 Consensus size: 19
10881237 CCAAACAATG
10881247 AACAATTATATATAATATA
1 AACAATTATATATAATATA
*
10881266 AACAA-TATATA-AACAATA
1 AACAATTATATATAA-TATA
*
10881284 AACAATTATATATAATCTA
1 AACAATTATATATAATATA
10881303 AACAATTATA
1 AACAATTATA
10881313 CAAATCTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.05
18 14 0.34
19 23 0.56
20 2 0.05
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (19 bp):
AACAATTATATATAATATA
Found at i:10881288 original size:37 final size:36
Alignment explanation
Indices: 10881239--10881312 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 36
10881229 TGAAAAAGCC
*
10881239 AAACAATGAACAATTATATATAATATAAACAATATAT
1 AAACAATAAACAATTATATATAATATAAACAAT-TAT
*
10881276 AAACAATAAACAATTATATATAATCTAAACAATTAT
1 AAACAATAAACAATTATATATAATATAAACAATTAT
10881312 A
1 A
10881313 CAAATCTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 4 0.11
37 31 0.89
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.30
Consensus pattern (36 bp):
AAACAATAAACAATTATATATAATATAAACAATTAT
Found at i:10881488 original size:18 final size:19
Alignment explanation
Indices: 10881461--10881516 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
10881451 AAACAATAAG
10881461 CAATTATATATAATCTAAA
1 CAATTATATATAATCTAAA
10881480 CAA-TATATA-AA-CAATAAA
1 CAATTATATATAATC--TAAA
10881498 CAATTATATATAATCTAAA
1 CAATTATATATAATCTAAA
10881517 TAGTATGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 2 0.06
18 13 0.41
19 13 0.41
20 2 0.06
21 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
CAATTATATATAATCTAAA
Found at i:10881502 original size:37 final size:37
Alignment explanation
Indices: 10881451--10881531 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
10881441 TGAAAAAGCC
*
10881451 AAACAATAAGCAATTATATATAATCTAAACAATATAT
1 AAACAATAAACAATTATATATAATCTAAACAATATAT
* * *
10881488 AAACAATAAACAATTATATATAATCTAAATAGTATGT
1 AAACAATAAACAATTATATATAATCTAAACAATATAT
10881525 AAACAAT
1 AAACAAT
10881532 TATATATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.30
Consensus pattern (37 bp):
AAACAATAAACAATTATATATAATCTAAACAATATAT
Found at i:10883092 original size:64 final size:64
Alignment explanation
Indices: 10883024--10883254 Score: 219
Period size: 64 Copynumber: 3.7 Consensus size: 64
10883014 AAAAAAATAC
*
10883024 CTTGAATAGTCTCTCTTTAAATTTTTATGAAGG-GATTATTCAAGGCATTTTTGGCCAAAAATGT
1 CTTGAATAATCTCTCTTTAAATTTTTATG-AGGAGATTATTCAAGGCATTTTTGGCCAAAAATGT
* * * * * *
10883088 CTTGAATAATCTCCCTTTAAAATTTTATGAGGAGATTAGTCAAGGTATTTTTGACCAAAAATGC
1 CTTGAATAATCTCTCTTTAAATTTTTATGAGGAGATTATTCAAGGCATTTTTGGCCAAAAATGT
* * *** * *
10883152 CTTTAATAATCT-T-ATCCCATTTTCT-TG-GG-GATTATTCAAGGCATTTTTGGTCAAAAACGT
1 CTTGAATAATCTCTCTTTAAATTTT-TATGAGGAGATTATTCAAGGCATTTTTGGCCAAAAATGT
* * *
10883212 ATTGAACAATC-CTCTTT-AATTTTTATAAGGTA-ATTATTCAAGG
1 CTTGAATAATCTCTCTTTAAATTTTTATGAGG-AGATTATTCAAGG
10883255 TGTTTTTATC
Statistics
Matches: 132, Mismatches: 27, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
59 1 0.01
60 40 0.30
61 5 0.04
62 18 0.14
63 4 0.03
64 64 0.48
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (64 bp):
CTTGAATAATCTCTCTTTAAATTTTTATGAGGAGATTATTCAAGGCATTTTTGGCCAAAAATGT
Found at i:10883191 original size:124 final size:123
Alignment explanation
Indices: 10883055--10883284 Score: 304
Period size: 124 Copynumber: 1.9 Consensus size: 123
10883045 TTTTTATGAA
* * * *
10883055 GGGATTATTCAAGGCATTTTTGGCCAAAAATGTCTTGAATAATCTCCCTTTAAAATTTTATGAGG
1 GGGATTATTCAAGGCATTTTTGGCCAAAAACGTATTGAACAATC-CCCTTT-AAATTTTATAAGG
* *
10883120 -AGATTAGTCAAGGTATTTTTGA-C-CAAAAATGCCTTTAATAATCTTATCCCATTTTCTTG
64 TA-ATTAGTCAAGGTATTTTT-ATCAAAAAAATGCCTTGAATAATCTTATCCCATTTTCTTG
* * *
10883179 GGGATTATTCAAGGCATTTTTGGTCAAAAACGTATTGAACAATCCTCTTTAATTTTTATAAGGTA
1 GGGATTATTCAAGGCATTTTTGGCCAAAAACGTATTGAACAATCCCCTTTAAATTTTATAAGGTA
* *
10883244 ATTATTCAAGGTGTTTTTATCAAAAAAATGCCTTGAATAAT
66 ATTAGTCAAGGTATTTTTATCAAAAAAATGCCTTGAATAAT
10883285 TTCTTACAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
121 1 0.01
122 28 0.30
123 23 0.25
124 40 0.43
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (123 bp):
GGGATTATTCAAGGCATTTTTGGCCAAAAACGTATTGAACAATCCCCTTTAAATTTTATAAGGTA
ATTAGTCAAGGTATTTTTATCAAAAAAATGCCTTGAATAATCTTATCCCATTTTCTTG
Found at i:10883330 original size:125 final size:126
Alignment explanation
Indices: 10883177--10883414 Score: 306
Period size: 126 Copynumber: 1.9 Consensus size: 126
10883167 CCCATTTTCT
* * * *
10883177 TGGGGATTATTCAAGGCATTTTTGGTC-AAAAACG-TATTGAACAATCCTCTTTAATTTTTATAA
1 TGGGGATTATTAAAGGCATTTTTCGTCAAAAAACGCT-TTAAACAATCCTCTTAAATTTTTATAA
* * * *
10883240 GGT-AATTATTCAAGGTGTTTTT-ATCAAAAAAATGCCTTGAATAATTTCTTACAAAAAATTGAA
65 -GTAAATTATTCAAGGCGTTTTTGA-C-AAAAAATACCTTAAATAATCTCTTACAAAAAATTGAA
* *
10883303 TGGGG-TTATTAAAGGCATTTTTCGTCAAAAAACGCTTTAAATAATCCTCTTAAATTTTTATAAT
1 TGGGGATTATTAAAGGCATTTTTCGTCAAAAAACGCTTTAAACAATCCTCTTAAATTTTTATAAG
*
10883367 TAAATTATTGAAGGCGTTTTTGACAAAAAATACCTTAAATAATCTCTT
66 TAAATTATTCAAGGCGTTTTTGACAAAAAATACCTTAAATAATCTCTT
10883415 CTAATGTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
125 41 0.42
126 54 0.56
127 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.39
Consensus pattern (126 bp):
TGGGGATTATTAAAGGCATTTTTCGTCAAAAAACGCTTTAAACAATCCTCTTAAATTTTTATAAG
TAAATTATTCAAGGCGTTTTTGACAAAAAATACCTTAAATAATCTCTTACAAAAAATTGAA
Found at i:10883436 original size:62 final size:62
Alignment explanation
Indices: 10883308--10883485 Score: 173
Period size: 62 Copynumber: 2.9 Consensus size: 62
10883298 TTGAATGGGG
* * * * * *
10883308 TTATTAAAGGCATTTTTCGTCAAAAAACGCTTTAAATAATCCTCTT-AAATTTTTATAATTAAA
1 TTATTGAAGGCGTTTTTAG-CAAAAAACACCTTAAATAAT-CTCTTCTAATTTTTATAATTAAA
* * *
10883371 TTATTGAAGGCGTTTTT-GACAAAAAATACCTTAAATAATCTCTTCTAATGTTTTA-GATTAGA
1 TTATTGAAGGCGTTTTTAG-CAAAAAACACCTTAAATAATCTCTTCTAAT-TTTTATAATTAAA
* * * * *
10883433 TTATTGAAGGTGTTTTTAGCTAAAAACACCTTCAATAATCCCTTCTCATTTTT
1 TTATTGAAGGCGTTTTTAGCAAAAAACACCTTAAATAATCTCTTCTAATTTTT
10883486 TTTGGTGAGA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
61 9 0.09
62 67 0.69
63 21 0.22
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (62 bp):
TTATTGAAGGCGTTTTTAGCAAAAAACACCTTAAATAATCTCTTCTAATTTTTATAATTAAA
Found at i:10883685 original size:16 final size:15
Alignment explanation
Indices: 10883660--10883771 Score: 66
Period size: 16 Copynumber: 7.0 Consensus size: 15
10883650 TCTTTTGTAT
10883660 TTTATGTATTGTATTA
1 TTTATGTATT-TATTA
*
10883676 TTTATTTA-TTATTA
1 TTTATGTATTTATTA
*
10883690 TTATTATGTATTAATATA
1 -T-TTATGTATTTAT-TA
* *
10883708 TGTATATATTTATTTA
1 TTTATGTATTTA-TTA
* * *
10883724 TTTATTTTTGTTAATA
1 TTTATGTAT-TTATTA
10883740 TTTATGTGTATTTTATTA
1 TTTA--TGTA-TTTATTA
10883758 TTTATGTA-TTATTA
1 TTTATGTATTTATTA
10883772 CTAATATGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
14 11 0.15
15 2 0.03
16 39 0.53
17 8 0.11
18 13 0.18
19 1 0.01
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (15 bp):
TTTATGTATTTATTA
Found at i:10883845 original size:59 final size:60
Alignment explanation
Indices: 10883748--10883876 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 60
10883738 TATTTATGTG
*
10883748 TATTTTATTATTTATGTATTATTACTAATATGTATATATATAT-ATATATTATCTT-TT-T
1 TATTTTATTATTTATGTATTATTACT-ATATCTATATATATATGATATATTATCTTATTAT
* * * * *
10883806 TATTTTATTCATTTTTGTATTTTTACT-TATCTAATTATATATCTGATATATTTTTTTATTAT
1 TATTTTATT-ATTTATGTATTATTACTATATCT-A-TATATATATGATATATTATCTTATTAT
10883868 TATTTTATT
1 TATTTTATT
10883877 TATCCTATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
57 4 0.07
58 10 0.17
59 23 0.39
60 10 0.17
61 2 0.03
62 10 0.17
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.64
Consensus pattern (60 bp):
TATTTTATTATTTATGTATTATTACTATATCTATATATATATGATATATTATCTTATTAT
Found at i:10884410 original size:19 final size:20
Alignment explanation
Indices: 10884386--10884432 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
10884376 TTCCGACCAA
*
10884386 ATTCCGGTGA-AATTTCCAG
1 ATTCCGGCGACAATTTCCAG
*
10884405 ATTCCGGCGACATTTTCCAG
1 ATTCCGGCGACAATTTCCAG
*
10884425 AATCCGGC
1 ATTCCGGC
10884433 ACCGGTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (20 bp):
ATTCCGGCGACAATTTCCAG
Found at i:10884675 original size:8 final size:8
Alignment explanation
Indices: 10884662--10884687 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10884652 TCCGAGCCGA
10884662 GCCAAGCC
1 GCCAAGCC
10884670 GCCAAGCC
1 GCCAAGCC
10884678 GCCAAGCC
1 GCCAAGCC
10884686 GC
1 GC
10884688 TCCCCCGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.50, G:0.27, T:0.00
Consensus pattern (8 bp):
GCCAAGCC
Found at i:10884933 original size:59 final size:59
Alignment explanation
Indices: 10884871--10885514 Score: 757
Period size: 57 Copynumber: 10.8 Consensus size: 59
10884861 AAATAAAAAA
*
10884871 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAA-
1 TTCCAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * * *
10884930 TTCC--CAAAAATATTTTT-GGAGAAAAGCTGAAAGTATTAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
10884987 TTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
1 TTC-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
*
10885052 TTCCAAAAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCC---AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * * *
10885114 TTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
10885171 TT-TAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTA-AGAATAAAT
1 TTCCAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAAT
10885230 TTCC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
* *
10885292 TTCC--AAAAAATATTTTT-GGAGAAAAGTTGAAAGCATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
10885349 TTCAAAAAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATCAAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT--AAAT
* *
10885410 TT-CAAAAAAAATACTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
10885470 TTCC-AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
10885515 CTAAAAAAAA
Statistics
Matches: 514, Mismatches: 36, Indels: 70
0.83 0.06 0.11
Matches are distributed among these distances:
55 2 0.00
56 40 0.08
57 106 0.21
58 36 0.07
59 97 0.19
60 74 0.14
61 39 0.08
62 60 0.12
63 3 0.01
64 2 0.00
65 11 0.02
67 44 0.09
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:10885300 original size:240 final size:233
Alignment explanation
Indices: 10884876--10885527 Score: 841
Period size: 240 Copynumber: 2.7 Consensus size: 233
10884866 AAAAATTCCA
* * ***
10884876 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAA--TTCCCAAAA
1 AAAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTTAAAAAAA
* * * * *
10884939 ATATTTTTGGAGAAAAGCTGAAAGTATTAA-TTTTCCTCAGAAATAAATTTCAAAAAAAAAATAT
65 ATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTTCTTAAG-AATAAATTTC---CAAAAAATAT
10885003 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAAAAAT
125 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC-----AAAAAAT
* *
10885068 ATTTTTAGGA-AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
185 ATTTTT-GGAGAAAAGTTGAAAGCATCAATTTTCCTCAGAAATAAA-TTTC
10885118 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTTAAAAAAAT
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTTAAAAAAA-
10885182 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTCCAAAAAATATTTTT
65 ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTCCAAAAAATATTTTT
10885247 AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAATATTTTTGGA
129 AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAATATTTTTGGA
10885312 GAAAAGTTGAAAGCATCAATTTTCCTCAGAAATAAATTTC
194 GAAAAGTTGAAAGCATCAATTTTCCTCAGAAATAAATTTC
* * * * * *
10885352 AAAAAAAAATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATCAAAATTTCAAAA
1 AAAAAAATAT-TTTTGGGGAAAAGTTGAAAGTATCAATTTTTC-TCAGAAAT--AAATTTTAAAA
* *
10885417 AAAATACTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATCGAAATTTCCAAAAAAA
62 AAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTT-AAGAAT--AAATTTCC-AAAAAA
* *
10885481 TATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCCTAAAAAAAAAAT
122 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAT
10885528 TCATTCTTTC
Statistics
Matches: 372, Mismatches: 22, Indels: 34
0.87 0.05 0.08
Matches are distributed among these distances:
234 7 0.02
235 54 0.15
236 30 0.08
237 6 0.02
238 34 0.09
239 19 0.05
240 153 0.41
241 18 0.05
242 6 0.02
243 35 0.09
244 10 0.03
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (233 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTTAAAAAAAA
TATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTCCAAAAAATATTTTTAG
GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAATATTTTTGGAGA
AAAGTTGAAAGCATCAATTTTCCTCAGAAATAAATTTC
Found at i:10889376 original size:11 final size:11
Alignment explanation
Indices: 10889359--10889403 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
10889349 AGAGAAGATG
*
10889359 AAAAAAAAGAT
1 AAAAAAAAGAA
*
10889370 TAAAAAAAGAGA
1 AAAAAAAAGA-A
10889382 AAAAAAAAGAA
1 AAAAAAAAGAA
10889393 AAAAAAAAGAA
1 AAAAAAAAGAA
10889404 TGAATGAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:10889379 original size:23 final size:23
Alignment explanation
Indices: 10889343--10889407 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
10889333 ATGGATGAAA
10889343 AAAAAAAGAGAAGATGAAAAAAAAG
1 AAAAAAA-A-AAGATGAAAAAAAAG
**
10889368 ATTAAAAAAAGA-GAAAAAAAAAG
1 AAAAAAAAAAGATG-AAAAAAAAG
10889391 AAAAAAAAAAGAATGAA
1 AAAAAAAAAAG-ATGAA
10889408 TGAAGGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.03
23 22 0.67
24 4 0.12
25 6 0.18
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (23 bp):
AAAAAAAAAAGATGAAAAAAAAG
Found at i:10889398 original size:10 final size:10
Alignment explanation
Indices: 10889359--10889399 Score: 55
Period size: 10 Copynumber: 3.8 Consensus size: 10
10889349 AGAGAAGATG
10889359 AAAAAAAAGA
1 AAAAAAAAGA
10889369 TTAAAAAAAGAGA
1 --AAAAAAA-AGA
10889382 AAAAAAAAGA
1 AAAAAAAAGA
10889392 AAAAAAAA
1 AAAAAAAA
10889400 AGAATGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 11 0.39
11 7 0.25
12 7 0.25
13 3 0.11
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:10889400 original size:12 final size:12
Alignment explanation
Indices: 10889339--10889400 Score: 54
Period size: 12 Copynumber: 4.9 Consensus size: 12
10889329 AATAATGGAT
10889339 GAAAAAAAAAAGA
1 GAAAAAAAAAA-A
10889352 GAAGATGAAAAAAAA
1 GAA-A--AAAAAAAA
**
10889367 G-ATTAAAAAAA
1 GAAAAAAAAAAA
*
10889378 GAGAAAAAAAAA
1 GAAAAAAAAAAA
10889390 GAAAAAAAAAA
1 GAAAAAAAAAA
10889401 GAATGAATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
11 8 0.21
12 17 0.44
13 3 0.08
14 2 0.05
15 2 0.05
16 7 0.18
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.05
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:10890711 original size:40 final size:40
Alignment explanation
Indices: 10890663--10890948 Score: 398
Period size: 40 Copynumber: 7.0 Consensus size: 40
10890653 GTCTAGGAGT
*
10890663 ATTTACTTTTTAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
10890703 ATTTACTTTTTTAAAG-TCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
10890745 ATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
10890786 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
10890828 ATTTACTTTTCCAAGTTCGTTGCCTCAGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
10890868 ATTTACTTTTCCAAGTTTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
10890908 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGC
10890949 TTTGGTAAAA
Statistics
Matches: 225, Mismatches: 9, Indels: 22
0.88 0.04 0.09
Matches are distributed among these distances:
40 84 0.37
41 54 0.24
42 84 0.37
43 3 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:10890737 original size:42 final size:40
Alignment explanation
Indices: 10890663--10890948 Score: 382
Period size: 42 Copynumber: 7.0 Consensus size: 40
10890653 GTCTAGGAGT
*
10890663 ATTTACTTTTTAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
10890703 ATTTACTTTTTTAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
10890745 ATTTACTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
10890786 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
10890828 ATTTACTTTTCCAAGTTCGT-TGCCTCAGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
10890868 ATTTACTTTTCCAAGT-TTGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
10890908 ATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGC
10890949 TTTGGTAAAA
Statistics
Matches: 223, Mismatches: 9, Indels: 26
0.86 0.03 0.10
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 77 0.35
41 55 0.25
42 85 0.38
43 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:10890779 original size:83 final size:82
Alignment explanation
Indices: 10890663--10890948 Score: 425
Period size: 83 Copynumber: 3.5 Consensus size: 82
10890653 GTCTAGGAGT
* * *
10890663 ATTTACTTTTTAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTTAAAGTCGTGGTAC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGGTGC
10890728 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
*
10890745 ATTTACTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTG
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGGTG
10890810 CCTCTGTTTAGAGGAGCA
65 CCTCTGTTTAGAGGAGCA
* * ** * *
10890828 ATTTACTTTTCCAAGTTCGTTGCCTCAGTTTAGAGGAGCAATTTAC-TTTTCCAAGT-TTGTTGC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGGTGC
10890891 CTCTGTTTAGAGGAGCA
66 CTCTGTTTAGAGGAGCA
10890908 ATTTACTTTTCAAAAG-TCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTTCGT--TGCCTCTGTTTAGAGGAGC
10890949 TTTGGTAAAA
Statistics
Matches: 187, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
80 37 0.20
81 10 0.05
82 62 0.33
83 78 0.42
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.39
Consensus pattern (82 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTTAAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCA
Found at i:10890972 original size:8 final size:8
Alignment explanation
Indices: 10890955--10890999 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
10890945 GAGCTTTGGT
10890955 AAAAAA-A
1 AAAAAACA
10890962 AAAAAACA
1 AAAAAACA
*
10890970 AAAAAAAA
1 AAAAAACA
10890978 AAAAAACA
1 AAAAAACA
10890986 AAAAAACCA
1 AAAAAA-CA
10890995 AAAAA
1 AAAAA
10891000 TGTTGAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 6 0.18
8 21 0.62
9 7 0.21
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:10890999 original size:1 final size:1
Alignment explanation
Indices: 10890955--10890991 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
10890945 GAGCTTTGGT
* *
10890955 AAAAAAAAAAAAACAAAAAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10890992 CCAAAAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10890999 original size:16 final size:16
Alignment explanation
Indices: 10890955--10890991 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
10890945 GAGCTTTGGT
10890955 AAAAAAAAAAAAACAA
1 AAAAAAAAAAAAACAA
10890971 AAAAAAAAAAAAACAA
1 AAAAAAAAAAAAACAA
10890987 AAAAA
1 AAAAA
10890992 CCAAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.95, C:0.05, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAACAA
Found at i:10891768 original size:27 final size:24
Alignment explanation
Indices: 10891722--10891776 Score: 56
Period size: 27 Copynumber: 2.2 Consensus size: 24
10891712 CTGGGAGTGA
* *
10891722 GAAAAATTTTTTAGAGATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
*
10891746 CGAAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAA-TTTTT-TAGAAATTTCTGG
10891773 GAAA
1 GAAA
10891777 TTTTCAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 6 0.24
26 9 0.36
27 10 0.40
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:10892514 original size:116 final size:116
Alignment explanation
Indices: 10892379--10892897 Score: 700
Period size: 116 Copynumber: 4.4 Consensus size: 116
10892369 TAAAAATAAA
* *
10892379 AAATTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TT
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
10892443 CTC-AAAAATATTTTTGGAGAAAAGCTT-AAAGTATCAATTTTCCTCAGAAAT
66 C-CAAAAAATATTTTTGGAGAAAAG-TTGAAAGTATCAATTTTCCTCAGAAAT
10892494 AAATTTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
1 AAATTTCAAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATT
*
10892559 TCCAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCAGAAAT
65 TCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
*
10892610 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATA
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATA
* *
10892675 AATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGCATCAATTTTCCTCAGAAAT
61 AATTTCCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
* * *
10892731 AAATTTCAACAAAAAATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAATCAAAA
1 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAAT--AAA
* * **
10892795 TTTCAAAAAAAATACTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTTGAAAAT
63 TTTC-CAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
*
10892850 CGAAATTTC--CAAAAAATATTTTT-GGG-AAAGTTG-AAGTATCAATTTTCC
1 --AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
10892898 CTAAAAAAAA
Statistics
Matches: 369, Mismatches: 18, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
115 52 0.14
116 103 0.28
117 25 0.07
118 43 0.12
119 33 0.09
120 47 0.13
121 66 0.18
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (116 bp):
AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
CCAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:10892542 original size:60 final size:57
Alignment explanation
Indices: 10892379--10892897 Score: 601
Period size: 60 Copynumber: 8.9 Consensus size: 57
10892369 TAAAAATAAA
* *
10892379 AAATTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTCAAAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
10892438 AAATTCTC---AAAAATATTTTTGGAGAAAAGCTT-AAAGTATCAATTTTCCTCAGAAAT
1 AAATT-TCAAAAAAAATATTTTTGG-GAAAAG-TTGAAAGTATCAATTTTCCTCAGAAAT
*
10892494 AAATTTCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT
1 AAATTTC-AAAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
* *
10892554 AAATTTC-CAAAAAATA-TTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
* *
10892610 AAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAAT
1 AAATTTC-AAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAA-TTTTCCT--CAG--AAAT
* *
10892674 AAATTTC-CAAAAAATATTTTTGGGGAAAAGTTGAAAGCATCAATTTTCCTCAGAAAT
1 AAATTTCAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
* *
10892731 AAATTTCAACAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAT
1 AAATTTCAA-AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAAT
* **
10892790 CAAAATTTCAAAAAAAATACTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTTGAAAAT
1 --AAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT
*
10892850 CGAAATTTC-CAAAAAATATTTTTGGG-AAAGTTG-AAGTATCAATTTTCC
1 --AAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
10892898 CTAAAAAAAA
Statistics
Matches: 407, Mismatches: 25, Indels: 58
0.83 0.05 0.12
Matches are distributed among these distances:
55 6 0.01
56 84 0.21
57 36 0.09
58 49 0.12
59 66 0.16
60 98 0.24
61 22 0.05
62 35 0.09
64 11 0.03
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (57 bp):
AAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT
Found at i:10895804 original size:19 final size:19
Alignment explanation
Indices: 10895780--10895816 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10895770 AAGAAATATT
10895780 CAAAAATCA-AAATTTAACC
1 CAAAAA-CATAAATTTAACC
10895799 CAAAAACATAAATTTAAC
1 CAAAAACATAAATTTAAC
10895817 AAGGTAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (19 bp):
CAAAAACATAAATTTAACC
Found at i:10897154 original size:3 final size:3
Alignment explanation
Indices: 10897146--10897193 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
10897136 AGAAAAATGA
*
10897146 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10897194 CTTACACGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10904535 original size:2 final size:2
Alignment explanation
Indices: 10904530--10904568 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
10904520 TGAGAGATGA
* * *
10904530 AT AT AT AT AT AT AT AT AT AT AT AT AA AT GT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10904569 GAAATCGGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10904828 original size:14 final size:15
Alignment explanation
Indices: 10904802--10904830 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10904792 TAAAATTAAT
10904802 TAAATTATAATAAAA
1 TAAATTATAATAAAA
10904817 TAAATT-TAATAAAA
1 TAAATTATAATAAAA
10904831 GTCAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAATTATAATAAAA
Found at i:10911133 original size:41 final size:41
Alignment explanation
Indices: 10911061--10911149 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 41
10911051 AACGATCGAA
* *
10911061 ATTGAACCAAAAGTCAAGAAAATGATCTGGACTGAGCCAAT
1 ATTGAACCAAAAGTCAAGAAAATGATCTGGACCGAGCCAAG
** * * *
10911102 ATTGAACCATCAGTCTAA-AAACTGATTTGGACCGAGCTAAG
1 ATTGAACCAAAAGTC-AAGAAAATGATCTGGACCGAGCCAAG
10911143 ATTGAAC
1 ATTGAAC
10911150 GATCGAGACT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 38 0.95
42 2 0.05
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (41 bp):
ATTGAACCAAAAGTCAAGAAAATGATCTGGACCGAGCCAAG
Found at i:10911188 original size:55 final size:55
Alignment explanation
Indices: 10911104--10911251 Score: 163
Period size: 55 Copynumber: 2.7 Consensus size: 55
10911094 GAGCCAATAT
* * * * * * *
10911104 TGAACCATC-AGTCTAAAAACTGATTTGGACCGAGCTAAGATTGAACGATCGAGAC
1 TGAACCA-CAAGTCTAAAAAATGATCTGGACCAAGCCAAAATTGAACAACCGAGAC
* * *
10911159 TGAACCACAAGTCTAAAAAATGATCTGGACTAAGCCAAAATTGAACAACCGGGAT
1 TGAACCACAAGTCTAAAAAATGATCTGGACCAAGCCAAAATTGAACAACCGAGAC
* * *
10911214 TGAACCATAAGTCTGAAAAATGATCTGGACTAAGCCAA
1 TGAACCACAAGTCTAAAAAATGATCTGGACCAAGCCAA
10911252 GATCAAACAA
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 1 0.01
55 79 0.99
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (55 bp):
TGAACCACAAGTCTAAAAAATGATCTGGACCAAGCCAAAATTGAACAACCGAGAC
Found at i:10911261 original size:55 final size:55
Alignment explanation
Indices: 10911159--10911423 Score: 194
Period size: 55 Copynumber: 4.8 Consensus size: 55
10911149 CGATCGAGAC
* * * * * * ** *
10911159 TGAACCACAAGTCTAAAAAATGATCTGGACTAAGCCAAAATTGAACAACCGGGAT
1 TGAACCATAAGTCTGAAAAATAATCTAGACTGAGCCAAGATCAAACAACCAGGAT
* * * *
10911214 TGAACCATAAGTCTGAAAAATGATCTGGACTAAGCCAAGATCAAACAACCAAGAT
1 TGAACCATAAGTCTGAAAAATAATCTAGACTGAGCCAAGATCAAACAACCAGGAT
* * * * * * * * *
10911269 TAAATCC-CAAGTC-AAGAAAACAATCTAGACTGAGCTAAGATCGAGCGATCAGGAT
1 TGAA-CCATAAGTCTGA-AAAATAATCTAGACTGAGCCAAGATCAAACAACCAGGAT
* * *** * *
10911324 TGAACCATAAGTTTGAAAAATAATCTAAACTGAGCCAAGATCAAGTGATCGGGAT
1 TGAACCATAAGTCTGAAAAATAATCTAGACTGAGCCAAGATCAAACAACCAGGAT
* * *
10911379 TGAATCATAAGTTTGAAAAATAATTTTA-ACTGAGCCAAGATCAAA
1 TGAACCATAAGTCTGAAAAATAA-TCTAGACTGAGCCAAGATCAAA
10911424 AATGAAAATC
Statistics
Matches: 172, Mismatches: 33, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
54 3 0.02
55 163 0.95
56 6 0.03
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (55 bp):
TGAACCATAAGTCTGAAAAATAATCTAGACTGAGCCAAGATCAAACAACCAGGAT
Found at i:10916093 original size:16 final size:16
Alignment explanation
Indices: 10916072--10916103 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10916062 ATGAAAGAGA
10916072 AATTTAAATCTAATAT
1 AATTTAAATCTAATAT
10916088 AATTTAAATCTAATAT
1 AATTTAAATCTAATAT
10916104 GAAAAAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAAATCTAATAT
Found at i:10919879 original size:6 final size:6
Alignment explanation
Indices: 10919870--10919907 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
10919860 ATCATGAGAG
* *
10919870 TGGGAA TGGGAA TGGGAA TGGGAA TGAGAA TGTGAA TG
1 TGGGAA TGGGAA TGGGAA TGGGAA TGGGAA TGGGAA TG
10919908 CGAACATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.45, T:0.21
Consensus pattern (6 bp):
TGGGAA
Found at i:10923172 original size:21 final size:22
Alignment explanation
Indices: 10923141--10923193 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
10923131 ATATATAATT
10923141 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
10923163 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
10923185 ATATTTTAT
1 ATATTTTAT
10923194 TAATTTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:10929971 original size:27 final size:28
Alignment explanation
Indices: 10929922--10929976 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
10929912 TTTTTAAATC
**
10929922 AAAATAAATATATTATATTTAATAATATT
1 AAAATAAATATATTATAAATAAT-ATATT
10929951 AAAA-AAATA-ATTATAAATAATATATT
1 AAAATAAATATATTATAAATAATATATT
10929977 CAAGATGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 10 0.42
28 5 0.21
29 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAATAAATATATTATAAATAATATATT
Found at i:10932292 original size:2 final size:2
Alignment explanation
Indices: 10932285--10932327 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
10932275 ACAGAAGAAA
10932285 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10932327 A
1 A
10932328 AAACGGGCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10933411 original size:17 final size:18
Alignment explanation
Indices: 10933378--10933430 Score: 90
Period size: 18 Copynumber: 2.9 Consensus size: 18
10933368 AACCTTTTTT
10933378 ATTTTATTTGAAAAAAAG
1 ATTTTATTTGAAAAAAAG
10933396 ATTTTATTTGAAAAAAAG
1 ATTTTATTTGAAAAAAAG
10933414 ATTTT-TTTGGAAAAAAA
1 ATTTTATTT-GAAAAAAA
10933431 AATTAAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 3 0.09
18 31 0.91
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTTATTTGAAAAAAAG
Found at i:10934269 original size:23 final size:24
Alignment explanation
Indices: 10934239--10934283 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
10934229 CTTAGGAAGA
*
10934239 TTTCAACAAAGTTT-AAAGGTTGC
1 TTTCAACAAAATTTAAAAGGTTGC
10934262 TTTCAACAAAATTTAAAAGGTT
1 TTTCAACAAAATTTAAAAGGTT
10934284 TTGTAGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (24 bp):
TTTCAACAAAATTTAAAAGGTTGC
Found at i:10942030 original size:64 final size:64
Alignment explanation
Indices: 10941962--10942130 Score: 191
Period size: 65 Copynumber: 2.6 Consensus size: 64
10941952 TTGAATAGAG
* *
10941962 TTATTAAAGGCATTTTAAACCAAAAATGCATTGAATAGTCCCCTTTTAAATTTTTATG-AGAGGA
1 TTATTAAAGGCATTTTTAACCAAAAATGCATTGAATAATCCCCTTTTAAATTTTTATGAAG-GGA
* * *
10942026 TTATTCAAA-GCATTTTTTGACCAAAAATATC-TTGAATAATCCTCTTTTAAATTTTTATGAAGG
1 TTATT-AAAGGCA-TTTTTAACCAAAAAT-GCATTGAATAATCCCCTTTTAAATTTTTATGAAGG
10942089 GA
63 GA
* * * * *
10942091 TTATTCAAGGTATTTTTAACAAAAAACGCATTCAATAATC
1 TTATTAAAGGCATTTTTAACCAAAAATGCATTGAATAATC
10942131 TTATCCCATT
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
63 1 0.01
64 31 0.36
65 52 0.60
66 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (64 bp):
TTATTAAAGGCATTTTTAACCAAAAATGCATTGAATAATCCCCTTTTAAATTTTTATGAAGGGA
Found at i:10942202 original size:60 final size:62
Alignment explanation
Indices: 10942075--10942230 Score: 167
Period size: 60 Copynumber: 2.5 Consensus size: 62
10942065 TCCTCTTTTA
* *
10942075 AATTTTTATGAAGG-GATTATTCAAGGTATTTTTAACAAAAAACGCATTCAATAATCTTATCC
1 AATTTTTATG-AGGTAATTATTCAAGGCATTTTTAACAAAAAACGCATTCAATAATCTTATCC
* *** * * *
10942137 CATTTTCT-TG-GG-AATTATTCAAGGCATTTTTGGTAAAAAACGCATTGAATAATCTTCTTC
1 AATTTT-TATGAGGTAATTATTCAAGGCATTTTTAACAAAAAACGCATTCAATAATCTTATCC
* *
10942197 AATTTTTATGAGGTAATTATTTAAGGCGTTTTTA
1 AATTTTTATGAGGTAATTATTCAAGGCATTTTTA
10942231 CCCGAAAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
59 1 0.01
60 49 0.64
61 2 0.03
62 24 0.31
63 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (62 bp):
AATTTTTATGAGGTAATTATTCAAGGCATTTTTAACAAAAAACGCATTCAATAATCTTATCC
Found at i:10944601 original size:24 final size:24
Alignment explanation
Indices: 10944574--10944622 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10944564 TTTTTCAAAT
*
10944574 ATAATCCA-TACAAAGTAAAATTTC
1 ATAAT-CATTACAAAGCAAAATTTC
*
10944598 ATAATCATTCCAAAGCAAAATTTC
1 ATAATCATTACAAAGCAAAATTTC
10944622 A
1 A
10944623 AATTTTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (24 bp):
ATAATCATTACAAAGCAAAATTTC
Found at i:10944947 original size:19 final size:19
Alignment explanation
Indices: 10944923--10944959 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10944913 AAGAAATATT
10944923 CAAAAATCA-AAATTTAACC
1 CAAAAA-CATAAATTTAACC
10944942 CAAAAACATAAATTTAAC
1 CAAAAACATAAATTTAAC
10944960 AAGGTAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (19 bp):
CAAAAACATAAATTTAACC
Found at i:10945282 original size:20 final size:19
Alignment explanation
Indices: 10945253--10945298 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
10945243 ATAAACTAAC
10945253 ATAATAAAAATAT-ATTAAA
1 ATAATAAAAAT-TCATTAAA
10945272 ATAAGTAAAAATTCATTAAAA
1 ATAA-TAAAAATTCATT-AAA
10945293 ATAATA
1 ATAATA
10945299 TAACTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 12 0.50
21 7 0.29
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAATAAAAATTCATTAAA
Found at i:10949391 original size:25 final size:22
Alignment explanation
Indices: 10949334--10949397 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 22
10949324 ATTTTTAATA
10949334 TTATT-AATTATTTATTAAACT
1 TTATTAAATTATTTATTAAACT
*
10949355 TTA-TAAATTTATTTATTTAAAATTT
1 TTATTAAA-TTATTTA-TT-AAA-CT
10949380 TTATTAAATTATTT-TTAA
1 TTATTAAATTATTTATTAA
10949398 TAAAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
20 1 0.03
21 5 0.14
22 9 0.25
23 4 0.11
24 3 0.08
25 10 0.28
26 4 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTAAATTATTTATTAAACT
Found at i:10950035 original size:16 final size:16
Alignment explanation
Indices: 10949996--10950036 Score: 59
Period size: 14 Copynumber: 2.6 Consensus size: 16
10949986 TTTTAAAATT
10949996 AATTAAATTATAATAA
1 AATTAAATTATAATAA
10950012 AA-TAAATT-TAATAA
1 AATTAAATTATAATAA
10950026 AAGTTAAATTA
1 AA-TTAAATTA
10950037 ACTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.36
15 6 0.27
16 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTAAATTATAATAA
Found at i:10956469 original size:55 final size:55
Alignment explanation
Indices: 10956393--10956544 Score: 196
Period size: 55 Copynumber: 2.8 Consensus size: 55
10956383 ATTGAACTAC
* * * *
10956393 AAGTCTAAAAAACGATTTGGACCGAGCTAAGATTGAACGACCGAGACTGAACCAT
1 AAGTCTAAAAAATGATTTGGACTGAGCCAAGATTGAACAACCGAGACTGAACCAT
* * * * * *
10956448 AAGTCTAGAAAATGATTTGGACTAAGCCAAAATTGAACAACTGGGATTGAACCAT
1 AAGTCTAAAAAATGATTTGGACTGAGCCAAGATTGAACAACCGAGACTGAACCAT
* *
10956503 AAGTCTAAAAAATGATTTAGACTGAGCCAAGATCGAACAACC
1 AAGTCTAAAAAATGATTTGGACTGAGCCAAGATTGAACAACC
10956545 AAGATTAAAT
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 81 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (55 bp):
AAGTCTAAAAAATGATTTGGACTGAGCCAAGATTGAACAACCGAGACTGAACCAT
Found at i:10956624 original size:55 final size:55
Alignment explanation
Indices: 10956565--10956701 Score: 150
Period size: 55 Copynumber: 2.5 Consensus size: 55
10956555 TCCAAGTCAA
* *
10956565 AAAAACGATATAAACTGAGCTAAGATC-GAGTGATCAGGATTGAATCATAAATTTG
1 AAAAACAATATAAACTGAGCTAAGATCAAAG-GATCAGGATTGAATCATAAATTTG
* * * * * *
10956620 AAAAATAATCTAAACTGAGCTAAGATCAAAGGATCATGATTGAATCATAAGTCTC
1 AAAAACAATATAAACTGAGCTAAGATCAAAGGATCAGGATTGAATCATAAATTTG
* * * *
10956675 AAAAATAATTTTAACTGAGCCAAGATC
1 AAAAACAATATAAACTGAGCTAAGATC
10956702 GAAAATGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
55 68 0.97
56 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (55 bp):
AAAAACAATATAAACTGAGCTAAGATCAAAGGATCAGGATTGAATCATAAATTTG
Found at i:10959439 original size:12 final size:12
Alignment explanation
Indices: 10959415--10959453 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10959405 GATGGTGATC
*
10959415 ATGAGAGTGGGA
1 ATGAGAATGGGA
*
10959427 ATGGGAATGGGA
1 ATGAGAATGGGA
*
10959439 ATGAGAATGTGA
1 ATGAGAATGGGA
10959451 ATG
1 ATG
10959454 CGAACATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.21
Consensus pattern (12 bp):
ATGAGAATGGGA
Found at i:10960215 original size:3 final size:3
Alignment explanation
Indices: 10960207--10960231 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10960197 TGGAAACATT
10960207 TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC T
10960232 TCACTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:10962727 original size:21 final size:22
Alignment explanation
Indices: 10962696--10962748 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
10962686 ATATATAATT
10962696 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
10962718 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
10962740 ATATTTTAT
1 ATATTTTAT
10962749 TAATTTCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:10967555 original size:12 final size:12
Alignment explanation
Indices: 10967534--10967565 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10967524 TATTCAGCAG
10967534 TAAAAATTTTAT
1 TAAAAATTTTAT
*
10967546 TAAAATTTTTAT
1 TAAAAATTTTAT
10967558 TAAAAATT
1 TAAAAATT
10967566 AAAAATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAAAATTTTAT
Found at i:10972161 original size:34 final size:34
Alignment explanation
Indices: 10972118--10972184 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
10972108 TTAGAGTGGC
10972118 ATTTGATTATAAGTA-TTTGTCTGGTTTTTCTGGA
1 ATTTGATTATAAGTATTTTG-CTGGTTTTTCTGGA
*
10972152 ATTTGATTATACGTATTTTGCTGGTTTTTCTGG
1 ATTTGATTATAAGTATTTTGCTGGTTTTTCTGG
10972185 CGTTTCCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.18, C:0.07, G:0.21, T:0.54
Consensus pattern (34 bp):
ATTTGATTATAAGTATTTTGCTGGTTTTTCTGGA
Found at i:10972586 original size:12 final size:12
Alignment explanation
Indices: 10972569--10972594 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10972559 ATTTATTAAT
10972569 TTAAATTTTTTA
1 TTAAATTTTTTA
10972581 TTAAATTTTTTA
1 TTAAATTTTTTA
10972593 TT
1 TT
10972595 TATTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:10977187 original size:25 final size:27
Alignment explanation
Indices: 10977138--10977206 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 27
10977128 TTTATTAAAT
*
10977138 AATATATATT-AT-TATTTTAAATT-A
1 AATAGATATTAATATATTTTAAATTAA
* * *
10977162 ATTAGA-ATTAATATATTTTTATTTAA
1 AATAGATATTAATATATTTTAAATTAA
*
10977188 AATATATATTAATATATTT
1 AATAGATATTAATATATTT
10977207 ATTAAAAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.09
24 6 0.17
25 9 0.26
26 5 0.14
27 12 0.34
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
AATAGATATTAATATATTTTAAATTAA
Found at i:10978872 original size:23 final size:24
Alignment explanation
Indices: 10978812--10978866 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 24
10978802 AATATATTTT
* * *
10978812 TTATTTTATTAAATTCACA-TATA
1 TTATTTTATTAATTTTAAATTATA
*
10978835 AT-TTTTATTAATTTTAAATTATA
1 TTATTTTATTAATTTTAAATTATA
10978858 TTATTTTAT
1 TTATTTTAT
10978867 ATTTTTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 13 0.52
23 6 0.24
24 6 0.24
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (24 bp):
TTATTTTATTAATTTTAAATTATA
Found at i:10981290 original size:23 final size:25
Alignment explanation
Indices: 10981264--10981313 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
10981254 TATTAATTTA
10981264 ATATCTTTT-AA-TTTTTAAAAATC
1 ATATCTTTTCAATTTTTTAAAAATC
*
10981287 ATATTTTTTCAATTTTTTAAAAATC
1 ATATCTTTTCAATTTTTTAAAAATC
10981312 AT
1 AT
10981314 TTTAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 14 0.58
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATCTTTTCAATTTTTTAAAAATC
Found at i:10981520 original size:34 final size:34
Alignment explanation
Indices: 10981482--10981548 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
10981472 ATTTTGAAAT
* *
10981482 TTTTATAAAATTTCCATTTTTTTTAATTTTTAAC
1 TTTTATAAAATTTCCATTCTTTTTAATATTTAAC
* *
10981516 TTTTATAAATTTTCTATTCTTTTTAATATTTAA
1 TTTTATAAAATTTCCATTCTTTTTAATATTTAA
10981549 GCAAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (34 bp):
TTTTATAAAATTTCCATTCTTTTTAATATTTAAC
Found at i:10981804 original size:36 final size:36
Alignment explanation
Indices: 10981745--10981814 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
10981735 AAATTCTTTT
* *
10981745 TAAAAACGTTAAATATTATAAAATATTAAAAAAACA
1 TAAAAACGTAAAATATTAGAAAATATTAAAAAAACA
* *
10981781 TAAAAA-GTAAAATATATAGAAAATTTTATAAAAA
1 TAAAAACGTAAAATAT-TAGAAAATATTAAAAAAA
10981815 TTCTAAAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (36 bp):
TAAAAACGTAAAATATTAGAAAATATTAAAAAAACA
Found at i:10983288 original size:30 final size:31
Alignment explanation
Indices: 10983220--10983316 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
10983210 ATAATTCTAT
*
10983220 TTTTTAAAATGATAT-GAATTTTTTATTTAA
1 TTTTTAAAATGATATAGAAATTTTTATTTAA
*
10983250 TATTTTAAAATGATATAG-ACTTTTTATTTAA
1 T-TTTTAAAATGATATAGAAATTTTTATTTAA
*** *
10983281 TTTTTAAACCAATGTAGAAATTTTTATTTAA
1 TTTTTAAAATGATATAGAAATTTTTATTTAA
10983312 TTTTT
1 TTTTT
10983317 TGAAAAGGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 13 0.22
31 44 0.76
32 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (31 bp):
TTTTTAAAATGATATAGAAATTTTTATTTAA
Found at i:10983428 original size:49 final size:48
Alignment explanation
Indices: 10983375--10983469 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 48
10983365 TTATCTTCTA
* * *
10983375 TTAAA-AATAGTATTTTACTAAAAAATATCATAAAAAATTAAAAATTATT
1 TTAAATAATAATATTTT-CTAAAAAATATC-CAAAAAATAAAAAATTATT
* * *
10983424 TTAAATCATAATATTTTCTAAAATATATCCAAAATATAAAAAATTA
1 TTAAATAATAATATTTTCTAAAAAATATCCAAAAAATAAAAAATTA
10983470 AATTTTCATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
48 14 0.36
49 16 0.41
50 9 0.23
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (48 bp):
TTAAATAATAATATTTTCTAAAAAATATCCAAAAAATAAAAAATTATT
Found at i:10983580 original size:20 final size:20
Alignment explanation
Indices: 10983552--10983594 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
10983542 ATATTTAAGA
*
10983552 TTTTTAATATAAAAT-AAAT
1 TTTTTAATAGAAAATAAAAT
10983571 TTTTTGAATAGAAAATAAAAT
1 TTTTT-AATAGAAAATAAAAT
10983592 TTT
1 TTT
10983595 CTATTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 9 0.43
21 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTAATAGAAAATAAAAT
Found at i:10985277 original size:2 final size:2
Alignment explanation
Indices: 10985270--10985299 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10985260 AAAGCATCTA
10985270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10985300 GTTTTATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10987904 original size:21 final size:21
Alignment explanation
Indices: 10987878--10987919 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10987868 TTTCAGCAGA
10987878 TAGGTGTTGTATTGAAGGTAT
1 TAGGTGTTGTATTGAAGGTAT
10987899 TAGGTGTTGTATTGAAGGTAT
1 TAGGTGTTGTATTGAAGGTAT
10987920 GAAGTGGGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (21 bp):
TAGGTGTTGTATTGAAGGTAT
Found at i:10989399 original size:14 final size:15
Alignment explanation
Indices: 10989380--10989408 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10989370 TCTACTTAAA
10989380 TAATTATA-ATATTT
1 TAATTATATATATTT
10989394 TAATTATATATATTT
1 TAATTATATATATTT
10989409 ATTCGAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATTATATATATTT
Found at i:10991591 original size:10 final size:10
Alignment explanation
Indices: 10991565--10991598 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10991555 TTTTTGTGAA
10991565 TATATTGTATT
1 TATATT-TATT
*
10991576 TTTATTTATT
1 TATATTTATT
10991586 TATATTTATT
1 TATATTTATT
10991596 TAT
1 TAT
10991599 TAAGTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TATATTTATT
Found at i:10991976 original size:23 final size:24
Alignment explanation
Indices: 10991937--10991981 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
10991927 ATTCATTTAA
*
10991937 TATTTAATGTTCATG-AATAAAAT
1 TATTTAATGTTAATGAAATAAAAT
10991960 TATTTAAT-TTAATTGAAATAAA
1 TATTTAATGTTAA-TGAAATAAA
10991982 CACGAATCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 10 0.53
24 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (24 bp):
TATTTAATGTTAATGAAATAAAAT
Found at i:10994114 original size:11 final size:11
Alignment explanation
Indices: 10994098--10994124 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10994088 AAGTTTCAGG
10994098 GAAAGAGAAGA
1 GAAAGAGAAGA
10994109 GAAAGAGAAGA
1 GAAAGAGAAGA
10994120 GAAAG
1 GAAAG
10994125 TTGCAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (11 bp):
GAAAGAGAAGA
Found at i:10996179 original size:16 final size:16
Alignment explanation
Indices: 10996144--10996190 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
10996134 TAAATATGGT
*
10996144 AAAATGATAT-AATATG
1 AAAATGATATAAATA-A
10996160 AAAATGATATAAATAA
1 AAAATGATATAAATAA
*
10996176 AAAAT-ATAAAAATAA
1 AAAATGATATAAATAA
10996191 TATAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 9 0.32
16 15 0.54
17 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAATGATATAAATAA
Found at i:11005637 original size:48 final size:48
Alignment explanation
Indices: 11005585--11005697 Score: 147
Period size: 48 Copynumber: 2.4 Consensus size: 48
11005575 GGTTGCTGGT
* *
11005585 GCCTTGGTTGGTGGTGCAGGAGTTGGGGGTTTATATGG-GAGAGTAGGG
1 GCCTTGGTTGGAGGTGCAGGAGTTGGGGGTTTATATGGCG-GAGTAGGA
** * *
11005633 GCCTTGACTGGAGGTGCAGGAGTTGGTGGTTTATATGGCGGAGTCGGA
1 GCCTTGGTTGGAGGTGCAGGAGTTGGGGGTTTATATGGCGGAGTAGGA
*
11005681 GCCTTGGTTGGGGGTGC
1 GCCTTGGTTGGAGGTGC
11005698 TGGCGCCTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 54 0.98
49 1 0.02
ACGTcount: A:0.13, C:0.11, G:0.48, T:0.28
Consensus pattern (48 bp):
GCCTTGGTTGGAGGTGCAGGAGTTGGGGGTTTATATGGCGGAGTAGGA
Found at i:11005731 original size:117 final size:117
Alignment explanation
Indices: 11005572--11005784 Score: 322
Period size: 117 Copynumber: 1.8 Consensus size: 117
11005562 GTGGCTTGTA
* * * *
11005572 TGGGGTTGCTGGTGCCTTGGTTGGTGGTGCAGGAGTTGGGGGTTTATATGGGAGAGTAGGGG-CC
1 TGGGGGTGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGAGAGT-GGGGCCC
* *
11005636 TTGACTGGAGGTG-CAGGAGTTGGTGGTTTATATGGCGGAGTCGGAGCCTTGGT
65 GTGACTGGAGGTGTC-GGAGTTGGGGGTTTATATGGCGGAGTCGGAGCCTTGGT
*
11005689 TGGGGGTGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGGGAGTGGGGCCCG
1 TGGGGGTGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGAGAGTGGGGCCCG
*
11005754 TGACTGGTGGTGTCGGAGTTGGGGGTTTATA
66 TGACTGGAGGTGTCGGAGTTGGGGGTTTATA
11005785 AGGGGGATTA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
116 4 0.05
117 81 0.94
118 1 0.01
ACGTcount: A:0.12, C:0.10, G:0.48, T:0.30
Consensus pattern (117 bp):
TGGGGGTGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGAGAGTGGGGCCCG
TGACTGGAGGTGTCGGAGTTGGGGGTTTATATGGCGGAGTCGGAGCCTTGGT
Found at i:11005762 original size:48 final size:49
Alignment explanation
Indices: 11005710--11005886 Score: 191
Period size: 48 Copynumber: 3.7 Consensus size: 49
11005700 GCGCCTTAGT
*
11005710 TGGTGGTGCAGGAATTGGGGGTTTATATGGGGGAGT-GGGGCCCGTGAC
1 TGGTGGTGCAGGAGTTGGGGGTTTATATGGGGGAGTAGGGGCCCGTGAC
* * *
11005758 TGGTGGTGTC-GGAGTTGGGGGTTTATAAGGGGGATTAGGGGCCTG-GAC
1 TGGTGGTG-CAGGAGTTGGGGGTTTATATGGGGGAGTAGGGGCCCGTGAC
* * * * *
11005806 TGGAGGTGCAGGAGTTGGGGGTTCATATCGGGGAGTAGGAG-CCTTGAC
1 TGGTGGTGCAGGAGTTGGGGGTTTATATGGGGGAGTAGGGGCCCGTGAC
* * * * *
11005854 TGGGGGAGCTGGAGTTGGGGCTTTGTATGGGGG
1 TGGTGGTGCAGGAGTTGGGGGTTTATATGGGGG
11005887 TGCTGGAGTG
Statistics
Matches: 106, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
47 2 0.02
48 96 0.91
49 8 0.08
ACGTcount: A:0.15, C:0.10, G:0.50, T:0.25
Consensus pattern (49 bp):
TGGTGGTGCAGGAGTTGGGGGTTTATATGGGGGAGTAGGGGCCCGTGAC
Found at i:11005814 original size:117 final size:117
Alignment explanation
Indices: 11005578--11005814 Score: 300
Period size: 117 Copynumber: 2.0 Consensus size: 117
11005568 TGTATGGGGT
* * * *
11005578 TGCTGGTGCCTTGGTTGGTGGTGCAGGAGTTGGGGGTTTATATGGGAGAGTAGGGGCCTTGACTG
1 TGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGAGAGTAGGGGCCGTGACTG
* * * * *
11005643 GAGGTGCAGGAGTTGGTGGTTTATATGGCGGAGTCGGAGCCTTGGTTGGGGG
66 GAGGTGCAGGAGTTGGGGGTTTATAAGGCGGAGTAGGAGCCTTGGCTGGAGG
*
11005695 TGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGGGAGT-GGGGCCCGTGACT
1 TGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGAGAGTAGGGG-CCGTGACT
* * * *
11005759 GGTGGTGTC-GGAGTTGGGGGTTTATAAGGGGGATTAGGGGCC-TGGACTGGAGG
65 GGAGGTG-CAGGAGTTGGGGGTTTATAAGGCGGAGTAGGAGCCTTGG-CTGGAGG
11005812 TGC
1 TGC
11005815 AGGAGTTGGG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
116 7 0.07
117 95 0.92
118 1 0.01
ACGTcount: A:0.13, C:0.11, G:0.48, T:0.28
Consensus pattern (117 bp):
TGCTGGCGCCTTAGTTGGTGGTGCAGGAATTGGGGGTTTATATGGGAGAGTAGGGGCCGTGACTG
GAGGTGCAGGAGTTGGGGGTTTATAAGGCGGAGTAGGAGCCTTGGCTGGAGG
Found at i:11005867 original size:27 final size:27
Alignment explanation
Indices: 11005837--11005900 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
11005827 TTCATATCGG
11005837 GGAGTAGGAGCCTTG-ACTGGGGGAGCT
1 GGAGTAGGAGCCTTGTA-TGGGGGAGCT
* * * *
11005864 GGAGTTGGGGCTTTGTATGGGGGTGCT
1 GGAGTAGGAGCCTTGTATGGGGGAGCT
*
11005891 GGAGTGGGAG
1 GGAGTAGGAG
11005901 TCTCAACTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.14, C:0.09, G:0.53, T:0.23
Consensus pattern (27 bp):
GGAGTAGGAGCCTTGTATGGGGGAGCT
Found at i:11009401 original size:15 final size:15
Alignment explanation
Indices: 11009381--11009411 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11009371 AATATTTTGA
*
11009381 TAATTTTTTTATTTT
1 TAATTTTTTAATTTT
11009396 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
11009411 T
1 T
11009412 TTCATTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TAATTTTTTAATTTT
Found at i:11017085 original size:29 final size:29
Alignment explanation
Indices: 11017041--11017098 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11017031 CATTCGATCT
11017041 ACGTCAAGTACCTCGAGGGAGGTAGGCAG
1 ACGTCAAGTACCTCGAGGGAGGTAGGCAG
*
11017070 ACGTCAAGTACTTCGAGGGAGGTAGGCAG
1 ACGTCAAGTACCTCGAGGGAGGTAGGCAG
11017099 GGTGGTCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.38, T:0.16
Consensus pattern (29 bp):
ACGTCAAGTACCTCGAGGGAGGTAGGCAG
Found at i:11017164 original size:37 final size:37
Alignment explanation
Indices: 11017123--11017194 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
11017113 GTGACGAAGG
*
11017123 CATCACGAGGTTGGGTGCGGAAGAATATCATGGACCT
1 CATCACGAGGTTGAGTGCGGAAGAATATCATGGACCT
* *
11017160 CATCACGAGTTTGAGTGCGGGAGAATATCATGGAC
1 CATCACGAGGTTGAGTGCGGAAGAATATCATGGAC
11017195 TTAAGGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (37 bp):
CATCACGAGGTTGAGTGCGGAAGAATATCATGGACCT
Found at i:11026054 original size:21 final size:21
Alignment explanation
Indices: 11026019--11026064 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
11026009 GGTCATTTAT
* *
11026019 TTTTGTTTTCGTTTTCTG-TA
1 TTTTATTTTCGTTTTCAGTTA
11026039 TTTTATTTTCGTTTTTCAGTTA
1 TTTTATTTTCG-TTTTCAGTTA
11026061 TTTT
1 TTTT
11026065 TAAAGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 6 0.27
22 6 0.27
ACGTcount: A:0.09, C:0.09, G:0.11, T:0.72
Consensus pattern (21 bp):
TTTTATTTTCGTTTTCAGTTA
Found at i:11026333 original size:22 final size:22
Alignment explanation
Indices: 11026308--11026350 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11026298 TTAATTTATA
11026308 TTAATAAATAATATTATATTAG
1 TTAATAAATAATATTATATTAG
*
11026330 TTAATAAATAATATTGTATTA
1 TTAATAAATAATATTATATTA
11026351 ATAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TTAATAAATAATATTATATTAG
Found at i:11026334 original size:32 final size:34
Alignment explanation
Indices: 11026268--11026334 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
11026258 GTTACATTTA
* *
11026268 TTATATTAATAAAGTAATATTTTTTATTATTTAAT
1 TTATATTAATAAAGTAATA-TTTATATTAGTTAAT
11026303 TTATATTAATAAA-TAATA-TTATATTAGTTAAT
1 TTATATTAATAAAGTAATATTTATATTAGTTAAT
11026335 AAATAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 12 0.40
34 5 0.17
35 13 0.43
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (34 bp):
TTATATTAATAAAGTAATATTTATATTAGTTAAT
Found at i:11026344 original size:35 final size:35
Alignment explanation
Indices: 11026270--11026344 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
11026260 TACATTTATT
* * * *
11026270 ATATTAATAAAGTAATATTTTTTATTATTTAATTT
1 ATATTAATAAAGTAATATTTATTATTATATAAATA
11026305 ATATTAATAAA-TAATATTATATTAGTTA-ATAAATA
1 ATATTAATAAAGTAATATT-TATTA-TTATATAAATA
11026340 ATATT
1 ATATT
11026345 GTATTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
34 7 0.21
35 24 0.71
36 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (35 bp):
ATATTAATAAAGTAATATTTATTATTATATAAATA
Found at i:11026363 original size:22 final size:22
Alignment explanation
Indices: 11026306--11026389 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 22
11026296 ATTTAATTTA
* *
11026306 TATTAA-TAAATAATATTATAT
1 TATTAATTAATTAATATTGTAT
*
11026327 TAGTTAA-TAAATAATATTGTAT
1 TA-TTAATTAATTAATATTGTAT
*
11026349 TAATAATTAATTAATTAATTGATAT
1 TATTAATTAATTAA-T-ATTG-TAT
11026374 TATTATATT-ATTAATA
1 TATTA-ATTAATTAATA
11026390 ACAAATGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.09
22 26 0.49
23 2 0.04
24 5 0.09
25 12 0.23
26 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TATTAATTAATTAATATTGTAT
Found at i:11028099 original size:59 final size:58
Alignment explanation
Indices: 11028030--11028366 Score: 484
Period size: 58 Copynumber: 5.7 Consensus size: 58
11028020 TTTTTTTTAG
*
11028030 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAATTTCGATTTTC-AA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTT--ATTTTCTAA
11028089 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TTTTC---TAA
* * *
11028151 GGAAAATTGATAATTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCT-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAA
*
11028208 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGGAAATTTATTTTCTAA
*
11028266 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTA-TTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TT-TTTTGGAAATTTATTTTCTAA
* *
11028326 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
11028367 TAGAATTTTT
Statistics
Matches: 258, Mismatches: 11, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
57 42 0.16
58 58 0.22
59 51 0.20
60 54 0.21
61 3 0.01
62 50 0.19
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTCTAA
Found at i:11028339 original size:60 final size:57
Alignment explanation
Indices: 11028030--11028366 Score: 482
Period size: 59 Copynumber: 5.7 Consensus size: 57
11028020 TTTTTTTTAG
* *
11028030 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--ATTTCT-AA
*
11028089 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA--TTTC---TAA
*
11028151 GGAAAATTGATAATTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
11028208 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAATA-TTTTTTGGAAATTTATTTCTAA
11028266 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TT-TTTTGGAAATTTATTTCTAA
*
11028326 GGAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
11028367 TAGAATTTTT
Statistics
Matches: 261, Mismatches: 5, Indels: 26
0.89 0.02 0.09
Matches are distributed among these distances:
56 3 0.01
57 39 0.15
58 51 0.20
59 63 0.24
60 54 0.21
62 50 0.19
63 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:11028355 original size:30 final size:30
Alignment explanation
Indices: 11028261--11028355 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
11028251 GAAATTTATT
11028261 TCTAAGGAAAATTGATACTTTCAACTTTTC
1 TCTAAGGAAAATTGATACTTTCAACTTTTC
* * * * * *
11028291 CCTAA--AAATATT-TTATTTTGGAAATTTATT
1 TCTAAGGAAA-ATTGATACTTT-CAACTTT-TC
11028321 TCTAAGGAAAATTGATACTTTCAACTTTTC
1 TCTAAGGAAAATTGATACTTTCAACTTTTC
11028351 TCTAA
1 TCTAA
11028356 AAATATTTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
28 8 0.17
29 8 0.17
30 15 0.32
31 8 0.17
32 8 0.17
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (30 bp):
TCTAAGGAAAATTGATACTTTCAACTTTTC
Found at i:11028470 original size:12 final size:12
Alignment explanation
Indices: 11028444--11028497 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
11028434 AACCTAATCT
*
11028444 AATAAATAA-AA
1 AATAAAAAATAA
11028455 AATAAAAAATAA
1 AATAAAAAATAA
11028467 AATAAACAAATAA
1 AATAAA-AAATAA
*
11028480 ACA-AAGAAATAA
1 A-ATAAAAAATAA
11028492 AA-AAAA
1 AATAAAA
11028498 TTCAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 12 0.32
12 15 0.41
13 9 0.24
14 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:11028477 original size:8 final size:7
Alignment explanation
Indices: 11028447--11028512 Score: 50
Period size: 8 Copynumber: 9.4 Consensus size: 7
11028437 CTAATCTAAT
11028447 AAATAAA
1 AAATAAA
11028454 AAATAAA
1 AAATAAA
11028461 AAAT--A
1 AAATAAA
11028466 AAATAAA
1 AAATAAA
11028473 CAAATAAA
1 -AAATAAA
*
11028481 CAAAGAAA
1 -AAATAAA
11028489 TAAA-AAA
1 -AAATAAA
*
11028496 AATTCAAA
1 AAAT-AAA
11028504 AAA-AAA
1 AAATAAA
11028510 AAA
1 AAA
11028513 ACCTGGAGCG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.10
6 8 0.16
7 15 0.30
8 22 0.44
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.12
Consensus pattern (7 bp):
AAATAAA
Found at i:11028489 original size:20 final size:19
Alignment explanation
Indices: 11028447--11028495 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11028437 CTAATCTAAT
11028447 AAATAAAAAATAAAAAATA
1 AAATAAAAAATAAAAAATA
*
11028466 AAATAAACAAATAAACAAA-G
1 AAATAAA-AAATAAA-AAATA
11028486 AAATAAAAAA
1 AAATAAAAAA
11028496 AATTCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 14 0.52
21 3 0.11
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (19 bp):
AAATAAAAAATAAAAAATA
Found at i:11028856 original size:20 final size:20
Alignment explanation
Indices: 11028831--11028868 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11028821 GAACACCGGT
*
11028831 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
11028851 GCCGGAATCTGGAAATTT
1 GCCGGAATCTGGAAATTT
11028869 CACCGGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:11028874 original size:19 final size:20
Alignment explanation
Indices: 11028832--11028876 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
11028822 AACACCGGTG
* *
11028832 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCA
11028852 CCGGAATCTGGAAA-TTTCA
1 CCGGAATCTGGAAATTTTCA
11028871 CCGGAA
1 CCGGAA
11028877 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCA
Found at i:11032745 original size:20 final size:19
Alignment explanation
Indices: 11032708--11032764 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
11032698 ATAATTTTTT
11032708 ATTATATAAATTAAATTTA
1 ATTATATAAATTAAATTTA
11032727 ATTA-ATAAACTTAAAATTT-
1 ATTATATAAA-TT-AAATTTA
* *
11032746 TTTAATTTAAATTAAATTT
1 ATT-ATATAAATTAAATTT
11032765 TAAAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 5 0.16
19 14 0.44
20 9 0.28
21 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATATAAATTAAATTTA
Found at i:11032762 original size:19 final size:18
Alignment explanation
Indices: 11032700--11032765 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 18
11032690 ATATTTTTAT
11032700 AATTTTTTATTATATAAATTA
1 AATTTTTTA--AT-TAAATTA
*
11032721 AATTTAATTAA-TAAACTTAA
1 AATTT-TTTAATTAAA-TT-A
11032741 AATTTTTTAATTTAAATTA
1 AATTTTTTAA-TTAAATTA
11032760 AATTTT
1 AATTTT
11032766 AAAAAATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
18 4 0.11
19 13 0.34
20 9 0.24
21 9 0.24
22 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTTTTAATTAAATTA
Found at i:11035693 original size:51 final size:51
Alignment explanation
Indices: 11035623--11035767 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 51
11035613 AAAAAAAGTT
* * *
11035623 TTATAATATTTCTGCATTACTCTTCACCTGTCTTAGTATTTAGCAAGGATA
1 TTATAATATTCCTGAATTACTCTTAACCTGTCTTAGTATTTAGCAAGGATA
* * *
11035674 TTATAAAATTCCTGAATTACACTTAAACCTGTCTTAGTATTTAGCATGGATA
1 TTATAATATTCCTGAATTACTCTT-AACCTGTCTTAGTATTTAGCAAGGATA
* *
11035726 TCATAATATTCCTGAATTACTCTTAAGCTGTCTTAGTATTTA
1 TTATAATATTCCTGAATTACTCTTAACCTGTCTTAGTATTTA
11035768 CCTTCTTTCA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 37 0.45
52 46 0.55
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (51 bp):
TTATAATATTCCTGAATTACTCTTAACCTGTCTTAGTATTTAGCAAGGATA
Found at i:11036401 original size:25 final size:25
Alignment explanation
Indices: 11036360--11036423 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
11036350 CAAAATAAAT
*
11036360 TAGGA-AATCA-AGTTGCACTAATG
1 TAGGAGAATCAGATTTGCACTAATG
11036383 TAGGAGAATCAGATTTGCACTAATG
1 TAGGAGAATCAGATTTGCACTAATG
* *
11036408 TAGGGGAATTAGATTT
1 TAGGAGAATCAGATTT
11036424 TTACACTCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 5 0.14
24 5 0.14
25 26 0.72
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (25 bp):
TAGGAGAATCAGATTTGCACTAATG
Found at i:11037960 original size:23 final size:23
Alignment explanation
Indices: 11037932--11037979 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11037922 GGGAAATAGC
11037932 ATTTTTAGGTATGAAATATTTGG
1 ATTTTTAGGTATGAAATATTTGG
11037955 ATTTTTAGGTATGAAATATTTGG
1 ATTTTTAGGTATGAAATATTTGG
11037978 AT
1 AT
11037980 GTCCTAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (23 bp):
ATTTTTAGGTATGAAATATTTGG
Found at i:11038912 original size:23 final size:24
Alignment explanation
Indices: 11038886--11038947 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 24
11038876 CAAAATAAAT
11038886 TAGGAAATCATA-CTG-CACTAATG
1 TAGGAAATCATATCTGTC-CTAATG
*
11038909 TAGGAAAATCAGATCTGTCCTAATG
1 TAGG-AAATCATATCTGTCCTAATG
*
11038934 TAGGGGAATCATAT
1 TA-GGAAATCATAT
11038948 TTCTACATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 4 0.12
24 7 0.22
25 18 0.56
26 3 0.09
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (24 bp):
TAGGAAATCATATCTGTCCTAATG
Found at i:11042754 original size:18 final size:17
Alignment explanation
Indices: 11042679--11042779 Score: 73
Period size: 18 Copynumber: 5.7 Consensus size: 17
11042669 ATTTCATTTG
11042679 TTATTAATAATATAATA
1 TTATTAATAATATAATA
* *
11042696 ATATCAATTAAT-TAATTAA
1 TTATTAA-TAATATAA-T-A
*
11042715 TTATTAATACA-ATATTA
1 TTATTAATA-ATATAATA
11042732 TTTATTAACTAATATAATA
1 -TTATTAA-TAATATAATA
*
11042751 TTATTTATTAATATAATA
1 TTA-TTAATAATATAATA
*
11042769 TT-TAAATAATA
1 TTATTAATAATA
11042780 AAAAATATTA
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
16 7 0.11
17 9 0.14
18 31 0.47
19 19 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATTAATAATATAATA
Found at i:11042754 original size:22 final size:22
Alignment explanation
Indices: 11042719--11042761 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11042709 AATTAATTAT
11042719 TAATACAATATTATTTATTAAC
1 TAATACAATATTATTTATTAAC
*
11042741 TAATATAATATTATTTATTAA
1 TAATACAATATTATTTATTAA
11042762 TATAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATACAATATTATTTATTAAC
Found at i:11043286 original size:19 final size:19
Alignment explanation
Indices: 11043239--11043278 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11043229 ATTGTTGAAT
11043239 TGAAAGCTTTAGTGAGCTG
1 TGAAAGCTTTAGTGAGCTG
11043258 TGAAAGCTTTAGTGAGCTG
1 TGAAAGCTTTAGTGAGCTG
11043277 TG
1 TG
11043279 GCAGCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.10, G:0.33, T:0.33
Consensus pattern (19 bp):
TGAAAGCTTTAGTGAGCTG
Found at i:11046707 original size:63 final size:63
Alignment explanation
Indices: 11046605--11046727 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
11046595 GTCCCAGAGC
** * *
11046605 CGCACGGGTTCGGAGCTTAAGTCTCGACCCGTGATAAGTGATATCAGAGCCAGCCCTAAATCG
1 CGCACGGGTTCAAAGCTTAAGTCTCGACCCGTGACAAGTGATATCAGAGCCAACCCTAAATCG
*
11046668 CGCACGGGTTCAAAGCTTAAGTCTCGACCTC-TGACAAGTGATGTCAGAGCCAACCCTAAA
1 CGCACGGGTTCAAAGCTTAAGTCTCGACC-CGTGACAAGTGATATCAGAGCCAACCCTAAA
11046728 CCGTTCGATC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 53 0.98
64 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (63 bp):
CGCACGGGTTCAAAGCTTAAGTCTCGACCCGTGACAAGTGATATCAGAGCCAACCCTAAATCG
Found at i:11047084 original size:16 final size:18
Alignment explanation
Indices: 11047049--11047095 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
11047039 TTTTTTTCTG
11047049 GATTATTCATTATT-ATAT
1 GATTATTCATT-TTCATAT
11047067 GA-TATT-ATTTTCATAT
1 GATTATTCATTTTCATAT
11047083 GATTATTCATTTT
1 GATTATTCATTTT
11047096 TTCAATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 8 0.31
18 7 0.27
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.57
Consensus pattern (18 bp):
GATTATTCATTTTCATAT
Found at i:11054208 original size:15 final size:15
Alignment explanation
Indices: 11054188--11054217 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11054178 ATCAAAGTGA
*
11054188 AAAAAATTAAAAAAT
1 AAAAAATAAAAAAAT
11054203 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
11054218 TATCGAAATA
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:11055412 original size:52 final size:49
Alignment explanation
Indices: 11055323--11055423 Score: 130
Period size: 52 Copynumber: 2.0 Consensus size: 49
11055313 AGATAAAAAA
* *
11055323 ACTTACAGAAAAAAATTTAAAAAAAAAAGATCATTAATAGGTAAATTTG
1 ACTTACAGAAAAAAATTCAAAAAAAAAAAATCATTAATAGGTAAATTTG
* **
11055372 ACTTATAGAAAAAAAATTCCAAAAGAAAAAAAATTTTTAATAGGTAAATTTG
1 ACTTACAG-AAAAAAATT-CAAAA-AAAAAAAATCATTAATAGGTAAATTTG
11055424 TATGGTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
49 7 0.16
50 9 0.20
51 4 0.09
52 24 0.55
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (49 bp):
ACTTACAGAAAAAAATTCAAAAAAAAAAAATCATTAATAGGTAAATTTG
Found at i:11055634 original size:43 final size:43
Alignment explanation
Indices: 11055572--11055653 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
11055562 AGATATGATT
*
11055572 TATGGATATATATATATATGTGTTTGATTATATTGAAAGGATG
1 TATGGATATATATAGATATGTGTTTGATTATATTGAAAGGATG
* *
11055615 TATGGATATATATAGATATGTGTTTGATTGTGTTGAAAG
1 TATGGATATATATAGATATGTGTTTGATTATATTGAAAG
11055654 AATACACATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (43 bp):
TATGGATATATATAGATATGTGTTTGATTATATTGAAAGGATG
Found at i:11056297 original size:49 final size:49
Alignment explanation
Indices: 11056238--11056335 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
11056228 GGATTAAAAA
* * *
11056238 ACTTATAAAAAAAAATTAAAAGAAAAGAT-ATTTTTATTAGGCAAGTTTG
1 ACTTAAAAAAAAAAATTAAAAGAAAAG-TGATTCTTAATAGGCAAGTTTG
** *
11056287 ACTTAAAAAAAAATTTTAAAAGTAAAGTGATTCTTAATAGGCAAGTTTG
1 ACTTAAAAAAAAAAATTAAAAGAAAAGTGATTCTTAATAGGCAAGTTTG
11056336 TATAGTTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 41 0.98
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (49 bp):
ACTTAAAAAAAAAAATTAAAAGAAAAGTGATTCTTAATAGGCAAGTTTG
Found at i:11057842 original size:48 final size:48
Alignment explanation
Indices: 11057758--11057968 Score: 246
Period size: 48 Copynumber: 4.4 Consensus size: 48
11057748 CACTCCAGCA
** **
11057758 CCCCCATATAAGGCCCCAACTCCAGCTCCCCCAGTCAAGGTTCCTACT
1 CCCCCATATAAACCCCCAACTCCAGCTCCCCCAGTCAAGGCCCCTACT
* * *
11057806 CCCCGATATGAACCCCCAACTCCAGCTCCCCCAGTCAAGGCTCCTACT
1 CCCCCATATAAACCCCCAACTCCAGCTCCCCCAGTCAAGGCCCCTACT
* * * * * *
11057854 CCCCGATATGAACCCCCAACTCCTGCACCTCCAGTCAAGGCCCCTAAT
1 CCCCCATATAAACCCCCAACTCCAGCTCCCCCAGTCAAGGCCCCTACT
* * *
11057902 CCCCCTTATAAACCCCCAACTCC-GACGCCACCAGTCAAGGGCCCC-ACT
1 CCCCCATATAAACCCCCAACTCCAG-CTCCCCCAGTCAA-GGCCCCTACT
11057950 CCCCCATATAAACCCCCAA
1 CCCCCATATAAACCCCCAA
11057969 TTCCTGCACC
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 137 0.95
49 6 0.04
ACGTcount: A:0.25, C:0.48, G:0.11, T:0.16
Consensus pattern (48 bp):
CCCCCATATAAACCCCCAACTCCAGCTCCCCCAGTCAAGGCCCCTACT
Found at i:11057999 original size:117 final size:117
Alignment explanation
Indices: 11057889--11058120 Score: 306
Period size: 117 Copynumber: 2.0 Consensus size: 117
11057879 CACCTCCAGT
* * * * *
11057889 CAAGGCCCCTAATCCCCCTTATAAACCCCCAACTCC-GACGCCACCAGTCAAGGGCCCC-ACTCC
1 CAAGGCCCCGAATCCCCCATATAAAACACCAACTCCTG-CACCACCAGTCAA-GGCCCCTACTCC
* * *
11057952 CCCATATAAACCCCCAATTCCTGCACCACCAACTAAGGCGCCAGCACCCCCAAC
64 CCCATATAAACCCCCAACTCCTGCACCACCAACCAAGGCACCAGCACCCCCAAC
* * * * *
11058006 CAAGGCTCCGACTCCGCCATATAAAACACCAACTCCTGCACCTCCAGTCAAGGCCCCTACTCTCC
1 CAAGGCCCCGAATCCCCCATATAAAACACCAACTCCTGCACCACCAGTCAAGGCCCCTACTCCCC
*
11058071 CATATAAACCCCCAACTCCTGCACCACCAACCAAGGCACCAGCAACCCCA
66 CATATAAACCCCCAACTCCTGCACCACCAACCAAGGCACCAGCACCCCCA
11058121 TACAAGCCAC
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 6 0.06
117 92 0.93
118 1 0.01
ACGTcount: A:0.29, C:0.47, G:0.11, T:0.12
Consensus pattern (117 bp):
CAAGGCCCCGAATCCCCCATATAAAACACCAACTCCTGCACCACCAGTCAAGGCCCCTACTCCCC
CATATAAACCCCCAACTCCTGCACCACCAACCAAGGCACCAGCACCCCCAAC
Found at i:11058106 original size:48 final size:48
Alignment explanation
Indices: 11057995--11058107 Score: 138
Period size: 48 Copynumber: 2.4 Consensus size: 48
11057985 TAAGGCGCCA
* *
11057995 GCACCCCCAACCAAGGCTCCGACTCCGCCATATAAAACACCAACTCCT
1 GCACCACCAACCAAGGCCCCGACTCCGCCATATAAAACACCAACTCCT
* ** * * *
11058043 GCACCTCCAGTCAAGGCCCCTACTCTC-CCATATAAACCCCCAACTCCT
1 GCACCACCAACCAAGGCCCCGACTC-CGCCATATAAAACACCAACTCCT
11058091 GCACCACCAACCAAGGC
1 GCACCACCAACCAAGGC
11058108 ACCAGCAACC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 53 0.98
49 1 0.02
ACGTcount: A:0.29, C:0.47, G:0.11, T:0.13
Consensus pattern (48 bp):
GCACCACCAACCAAGGCCCCGACTCCGCCATATAAAACACCAACTCCT
Found at i:11060551 original size:24 final size:24
Alignment explanation
Indices: 11060500--11060551 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11060490 TAGCTTGGTT
* *
11060500 TCCAACTTCCTGTTATCATCAGCG
1 TCCAACTTCCTGTTATCATCAACA
* *
11060524 TCCAACTTTCTGTTGTCATCAACA
1 TCCAACTTCCTGTTATCATCAACA
11060548 TCCA
1 TCCA
11060552 TCGTCCCCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.35
Consensus pattern (24 bp):
TCCAACTTCCTGTTATCATCAACA
Found at i:11066167 original size:3 final size:3
Alignment explanation
Indices: 11066159--11066183 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11066149 AAGTAAAACA
11066159 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
11066184 TCAAAGGCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Done.