Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 190 of 195
Found at i:34066081 original size:11 final size:11
Alignment explanation
Indices: 34066065--34066113 Score: 80
Period size: 11 Copynumber: 4.4 Consensus size: 11
34066055 NNNNNNNNNN
34066065 AAAAAACAAAA
1 AAAAAACAAAA
34066076 AAAAAACAAAA
1 AAAAAACAAAA
*
34066087 AACAAAAAAAAA
1 AA-AAAACAAAA
34066099 AAAAAACAAAA
1 AAAAAACAAAA
34066110 AAAA
1 AAAA
34066114 CAAAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAAAA
Found at i:34066088 original size:18 final size:17
Alignment explanation
Indices: 34066065--34066118 Score: 83
Period size: 17 Copynumber: 3.1 Consensus size: 17
34066055 NNNNNNNNNN
34066065 AAAAAACAAAAAAAAAA
1 AAAAAACAAAAAAAAAA
34066082 CAAAAAAC-AAAAAAAAA
1 -AAAAAACAAAAAAAAAA
34066099 AAAAAACAAAAAAAACAA
1 AAAAAACAAAAAAAA-AA
34066117 AA
1 AA
34066119 CCAAAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.21
17 16 0.47
18 11 0.32
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAAAAAA
Found at i:34066093 original size:16 final size:16
Alignment explanation
Indices: 34066074--34066127 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
34066064 NAAAAAACAA
34066074 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
*
34066090 AAAAAAAAAAAAAAAC
1 AAAAAAAACAAAAAAC
*
34066106 AAAAAAAAC-AAAACC
1 AAAAAAAACAAAAAAC
34066121 AAAAAAA
1 AAAAAAA
34066128 TGTTGAGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
15 12 0.34
16 23 0.66
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:34066093 original size:23 final size:24
Alignment explanation
Indices: 34066067--34066127 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 24
34066057 NNNNNNNNAA
34066067 AAAACAAAAAAAAAAC-AAAAAAC
1 AAAACAAAAAAAAAACAAAAAAAC
*
34066090 AAAAAAAAAAAAAAACAAAAAAAAC
1 AAAACAAAAAAAAAAC-AAAAAAAC
*
34066115 AAAACCAAAAAAA
1 AAAACAAAAAAAA
34066128 TGTTGAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 15 0.45
25 18 0.55
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (24 bp):
AAAACAAAAAAAAAACAAAAAAAC
Found at i:34066100 original size:25 final size:25
Alignment explanation
Indices: 34066066--34066127 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
34066056 NNNNNNNNNA
*
34066066 AAAAACAAAAAAAAAACAAAAAACA-
1 AAAAA-AAAAAAAAAACAAAAAAAAC
34066091 AAAAAAAAAAAA-AACAAAAAAAAC
1 AAAAAAAAAAAAAAACAAAAAAAAC
**
34066115 AAAACCAAAAAAA
1 AAAAAAAAAAAAA
34066128 TGTTGAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 10 0.31
24 17 0.53
25 5 0.16
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAACAAAAAAAAC
Found at i:34066127 original size:1 final size:1
Alignment explanation
Indices: 34066065--34066118 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
34066055 NNNNNNNNNN
* * * * *
34066065 AAAAAACAAAAAAAAAACAAAAAACAAAAAAAAAAAAAAACAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34066119 CCAAAAAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:34066394 original size:24 final size:22
Alignment explanation
Indices: 34066322--34066403 Score: 69
Period size: 24 Copynumber: 3.6 Consensus size: 22
34066312 ATGTATTGTA
*
34066322 TTATTTATTA-TTATTA-TTAT
1 TTATTTATTATTTAATATTTAT
* * *
34066342 GTATTAATATATGTATATATTTAT
1 TTATTTAT-TATTTA-ATATTTAT
*
34066366 TTATTTATTTTTTAATATTTAT
1 TTATTTATTATTTAATATTTAT
34066388 GTGTATTTATTATTTA
1 -T-TATTTATTATTTA
34066404 TGTATATTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
20 6 0.13
21 2 0.04
22 10 0.21
23 7 0.15
24 22 0.47
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TTATTTATTATTTAATATTTAT
Found at i:34066401 original size:17 final size:16
Alignment explanation
Indices: 34066309--34066411 Score: 62
Period size: 16 Copynumber: 6.7 Consensus size: 16
34066299 TCTTTTGTAT
34066309 TTTATG-TATTGTATTA
1 TTTATGTTATT-TATTA
34066325 TTTA--TTA-TTATTA
1 TTTATGTTATTTATTA
*
34066338 -TTATG-TATTAATATA
1 TTTATGTTATTTAT-TA
* *
34066353 TGTAT-ATATTTATTTA
1 TTTATGTTATTTA-TTA
*
34066369 TTTAT-TT-TTTAATA
1 TTTATGTTATTTATTA
34066383 TTTATGTGTATTTATTA
1 TTTATGT-TATTTATTA
34066400 TTTATGTATATT
1 TTTATGT-TATT
34066412 ACTAATATGT
Statistics
Matches: 68, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
12 3 0.04
13 7 0.10
14 11 0.16
15 9 0.13
16 20 0.29
17 18 0.26
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (16 bp):
TTTATGTTATTTATTA
Found at i:34066468 original size:18 final size:18
Alignment explanation
Indices: 34066433--34066466 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34066423 TATATATATT
*
34066433 TTTATCTTTTTTATTTTA
1 TTTATCTTTTGTATTTTA
34066451 TTTAT-TTTTGTATTTT
1 TTTATCTTTTGTATTTT
34066467 TACTTATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTATCTTTTGTATTTTA
Found at i:34067471 original size:20 final size:20
Alignment explanation
Indices: 34067448--34067485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34067438 TGTAATATTC
34067448 TTTTTATTTATTTT-TTTTAT
1 TTTTTA-TTATTTTATTTTAT
34067468 TTTTTATTATTTTATTTT
1 TTTTTATTATTTTATTTT
34067486 CTTTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTATTATTTTATTTTAT
Found at i:34067570 original size:60 final size:59
Alignment explanation
Indices: 34067506--34068150 Score: 823
Period size: 60 Copynumber: 10.8 Consensus size: 59
34067496 GAATAAAAAA
34067506 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * * *
34067566 TTCC--AAATAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
**
34067623 TTAAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TT-CCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
34067683 TTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTC-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
34067743 TTCC--AAAAAATATTTTAAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
34067805 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
34067864 TTTC--AAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTTCTTA-AGAATAAAT
1 TTCCAAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAAT
*
34067921 TTCC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAGAAAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
* *
34067983 TTCAAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTC-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
** ** *
34068043 TTTAAAAAAAAAGGGTTTTT-GAGGAAAAATTGAAAGTATCAATTTTCCTT-GAAAATCGAAATT
1 TTCCAAAAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAA-T
*
34068106 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
34068151 CTACAAAAAA
Statistics
Matches: 526, Mismatches: 29, Indels: 60
0.86 0.05 0.10
Matches are distributed among these distances:
56 4 0.01
57 177 0.34
58 7 0.01
59 22 0.04
60 193 0.37
61 9 0.02
62 27 0.05
63 4 0.01
64 42 0.08
65 41 0.08
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:34071613 original size:136 final size:136
Alignment explanation
Indices: 34071454--34071722 Score: 529
Period size: 136 Copynumber: 2.0 Consensus size: 136
34071444 TGACTCAGAT
34071454 TCCAGGAGAATAGATACTAGAAGAGACCCCTTTTGAAAGAAATTTAACTTCTGTTTTTGTCCAAA
1 TCCAGGAGAATAGATACTAGAAGAGACCCCTTTTGAAAGAAATTTAACTTCTGTTTTTGTCCAAA
34071519 AAAAAAAAAGACTTCGGGAAACATTTTGCAATCCAGTGGTTATATTTTTTTACCTTACCAGTCAT
66 AAAAAAAAAGACTTCGGGAAACATTTTGCAATCCAGTGGTTATATTTTTTTACCTTACCAGTCAT
34071584 CAAGAG
131 CAAGAG
34071590 TCCAGGAGAATAGATACTAGAAGAGACCCCTTTTGAAAGAAATTTAACTTCTGTTTTTGTCCAAA
1 TCCAGGAGAATAGATACTAGAAGAGACCCCTTTTGAAAGAAATTTAACTTCTGTTTTTGTCCAAA
*
34071655 AAAAAAGAAGACTTCGGGAAACATTTTGCAATCCAGTGGTTATATTTTTTTACCTTACCAGTCAT
66 AAAAAAAAAGACTTCGGGAAACATTTTGCAATCCAGTGGTTATATTTTTTTACCTTACCAGTCAT
34071720 CAA
131 CAA
34071723 TTTGAAATTC
Statistics
Matches: 132, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 132 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (136 bp):
TCCAGGAGAATAGATACTAGAAGAGACCCCTTTTGAAAGAAATTTAACTTCTGTTTTTGTCCAAA
AAAAAAAAAGACTTCGGGAAACATTTTGCAATCCAGTGGTTATATTTTTTTACCTTACCAGTCAT
CAAGAG
Found at i:34093435 original size:12 final size:12
Alignment explanation
Indices: 34093418--34093442 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34093408 CTGTTTTTTT
34093418 CTGCTACAGTGA
1 CTGCTACAGTGA
34093430 CTGCTACAGTGA
1 CTGCTACAGTGA
34093442 C
1 C
34093443 ATTTTATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (12 bp):
CTGCTACAGTGA
Found at i:34098439 original size:21 final size:21
Alignment explanation
Indices: 34098413--34098452 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34098403 TTGTTATAGG
34098413 TTTTCACTTTTTCTAAAAATA
1 TTTTCACTTTTTCTAAAAATA
* *
34098434 TTTTCATTTTTTCTTAAAA
1 TTTTCACTTTTTCTAAAAA
34098453 CGATGTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTCACTTTTTCTAAAAATA
Found at i:34102443 original size:19 final size:18
Alignment explanation
Indices: 34102415--34102456 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
34102405 GAGGCCAATT
34102415 CTTTTCTTTTTTCCTTTC
1 CTTTTCTTTTTTCCTTTC
34102433 CTTTCTCTTTTTTCCTTTC
1 CTTT-TCTTTTTTCCTTTC
34102452 CTTTT
1 CTTTT
34102457 TCACTCTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CTTTTCTTTTTTCCTTTC
Found at i:34103179 original size:21 final size:21
Alignment explanation
Indices: 34103153--34103201 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
34103143 TCGACTCTTA
* * * *
34103153 TAAATATATAATTAAAAATTT
1 TAAATATAAAATGAAAAAATC
34103174 TAAATATAAAATGAAAAAATC
1 TAAATATAAAATGAAAAAATC
34103195 TAAATAT
1 TAAATAT
34103202 CCGCAACAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAATATAAAATGAAAAAATC
Found at i:34105364 original size:456 final size:456
Alignment explanation
Indices: 34104495--34105400 Score: 1404
Period size: 456 Copynumber: 2.0 Consensus size: 456
34104485 CCATGTGCCG
* * * * *
34104495 TAAAAATAATTTAAAAATCTTTTTTTGTTTCATTACTCTTTGTATCCTATGACAATAATAGACAT
1 TAAAAATAATTGAAAAATCTTTTTTTATTCCATTACTCCTTGTATCCTATGACAACAATAGACAT
*
34104560 AGATTGTGTCCAATCATCTATGATTTTTTCATAATCTTTAAGAAAGACTTTGGTTAAGTCTAAAT
66 AGATTGTGCCCAATCATCTATGATTTTTTCATAATCTTTAAGAAAGACTTTGGTTAAGTCTAAAT
* * * *
34104625 AAGTACCGCATTGAAAAATCATTTGTTTGTTTAACGAATCGATAACAGGGGTTTCAATCTTAACC
131 AAGTACCACATTGAAAAACCATTCGTTTGTTTAACGAATCGATAACAAGGGTTTCAATCTTAACC
*
34104690 TGACCTGTTTGGCCAGAATCAGATGTTTATTTTATCTCATCCTTGTTTAGGTGAAAATATTTTTC
196 TGACCTGTTTGGCCAGAATCAGATGTTTATTTTATCTCACCCTTGTTTAGGTGAAAATATTTTTC
*
34104755 TTTTAAATGAGGAAGATGTTGATCCATTATATCAAGATCAAGTAAATCTAGAAATCTTAAAGTAT
261 TTTTAAATGAGGAAGATGTTGATCCATTATATCAAGATCAAGTAAATCTAAAAATCTTAAAGTAT
* * *
34104820 CATCAATATCTGGGTTAGATATTGCTGACACTTTTCTTTTCTCACGTTCTTCTATTTTAGGGATA
326 CATCAATATCTGGGTTAGATATTGCTGACACTTTTCTTTTCTCACGCTCTTCTATTTGAAGGATA
* * *
34104885 AGAATTTCGCTTAGTTCTGGATCTGGTTGATCATCAGAACTATCATTTTCATCTGATGTGGTGCT
391 AAAATTTCACTTAGTTCTGGATCTGGTTGATCATCAGAACTATCATTTTCATATGATGTGGTGCT
34104950 A
456 A
* * *
34104951 TAAAAATAATTGAAGAATCTTTTTTTATTCCATTGCTCCTTGTATCCTGTGACAACAATAGACAT
1 TAAAAATAATTGAAAAATCTTTTTTTATTCCATTACTCCTTGTATCCTATGACAACAATAGACAT
* * **
34105016 AGATTGTGCCCAATCATCTATGGTTTTTTCATAGTCTTTAAGAGGGACTTTGGTTAAGTCTAAAT
66 AGATTGTGCCCAATCATCTATGATTTTTTCATAATCTTTAAGAAAGACTTTGGTTAAGTCTAAAT
* *
34105081 AAGTACCACCTT-AAGAAACCGTTCGTTTGTTTAACGAATCGATAACAAGGGTTTCAATCTTAAC
131 AAGTACCACATTGAA-AAACCATTCGTTTGTTTAACGAATCGATAACAAGGGTTTCAATCTTAAC
* *
34105145 CTGACCTGTTTGGCCAGAATC-GAATGTTTGTTTTATCTCACCCTTGTTTAGGTGAGAATATTTT
195 CTGACCTGTTTGGCCAGAATCAG-ATGTTTATTTTATCTCACCCTTGTTTAGGTGAAAATATTTT
*** *
34105209 TCTTTTAAATGAGGAAGATGTTGATCCATTATATTGGGATCAGGTAAATCTAAAAATCTTAAAGT
259 TCTTTTAAATGAGGAAGATGTTGATCCATTATATCAAGATCAAGTAAATCTAAAAATCTTAAAGT
** * * *
34105274 ATCATCAATATCTGGGTTAGATATTGCTGACGTTTTTCTTTTTTCATGCTCTTCTGTTTGAAGGA
324 ATCATCAATATCTGGGTTAGATATTGCTGACACTTTTCTTTTCTCACGCTCTTCTATTTGAAGGA
* *
34105339 TAAAAATTTCACTT-GATTTTGGATCTGGTTGATCATCAGAACTATTATTTTCATATGATGTG
389 TAAAAATTTCACTTAG-TTCTGGATCTGGTTGATCATCAGAACTATCATTTTCATATGATGTG
34105401 ATTTCATCTG
Statistics
Matches: 407, Mismatches: 40, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
455 4 0.01
456 403 0.99
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (456 bp):
TAAAAATAATTGAAAAATCTTTTTTTATTCCATTACTCCTTGTATCCTATGACAACAATAGACAT
AGATTGTGCCCAATCATCTATGATTTTTTCATAATCTTTAAGAAAGACTTTGGTTAAGTCTAAAT
AAGTACCACATTGAAAAACCATTCGTTTGTTTAACGAATCGATAACAAGGGTTTCAATCTTAACC
TGACCTGTTTGGCCAGAATCAGATGTTTATTTTATCTCACCCTTGTTTAGGTGAAAATATTTTTC
TTTTAAATGAGGAAGATGTTGATCCATTATATCAAGATCAAGTAAATCTAAAAATCTTAAAGTAT
CATCAATATCTGGGTTAGATATTGCTGACACTTTTCTTTTCTCACGCTCTTCTATTTGAAGGATA
AAAATTTCACTTAGTTCTGGATCTGGTTGATCATCAGAACTATCATTTTCATATGATGTGGTGCT
A
Found at i:34110957 original size:19 final size:19
Alignment explanation
Indices: 34110927--34110972 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
34110917 TGGAGGCCAA
*
34110927 TTCCTTTCT-TTTTTCCTT
1 TTCCTTTCTCTTTTTTCTT
34110945 TT-CTTTCTCTTTTTTCTT
1 TTCCTTTCTCTTTTTTCTT
34110963 TTCCTTTCTC
1 TTCCTTTCTC
34110973 ACTCTATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCCTTTCTCTTTTTTCTT
Found at i:34113872 original size:28 final size:30
Alignment explanation
Indices: 34113813--34113878 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
34113803 CAAAATTAAT
* * *
34113813 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATTATTATATAAATATAAATATATA
34113843 AAAATATTATTATAT-AA-ATAAATATATA
1 AAAATATTATTATATAAATATAAATATATA
34113871 AAAA-ATTA
1 AAAATATTA
34113879 AATAATTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 4 0.12
28 14 0.42
29 2 0.06
30 13 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAATATTATTATATAAATATAAATATATA
Found at i:34113880 original size:20 final size:20
Alignment explanation
Indices: 34113857--34113896 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34113847 TATTATTATA
34113857 TAAATAAAT-ATATAAAAAAT
1 TAAATAAATAAT-TAAAAAAT
*
34113877 TAAATAATTAATTAAAAAAT
1 TAAATAAATAATTAAAAAAT
34113897 AATTTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAATAATTAAAAAAT
Found at i:34126091 original size:2 final size:2
Alignment explanation
Indices: 34126084--34126121 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34126074 GCTGTTCTTT
34126084 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
34126122 AAAGAAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34136479 original size:16 final size:13
Alignment explanation
Indices: 34136445--34136472 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34136435 ACCTGGAAAG
34136445 AAGACATTCTAGT
1 AAGACATTCTAGT
34136458 AAGACATTCTAGT
1 AAGACATTCTAGT
34136471 AA
1 AA
34136473 AACGACAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AAGACATTCTAGT
Found at i:34140296 original size:24 final size:24
Alignment explanation
Indices: 34140269--34140322 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
34140259 GAATAGCTGT
*
34140269 TGAAAGAGCAATTCGT-GAAGCTCG
1 TGAAAGAGC-ATTCGTAGAAGCCCG
* *
34140293 TGAAAGGGCCTTCGTAGAAGCCCG
1 TGAAAGAGCATTCGTAGAAGCCCG
34140317 TGAAAG
1 TGAAAG
34140323 GGCTGCTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.19
Consensus pattern (24 bp):
TGAAAGAGCATTCGTAGAAGCCCG
Found at i:34140323 original size:24 final size:23
Alignment explanation
Indices: 34140280--34140325 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
34140270 GAAAGAGCAA
*
34140280 TTCGTGAAGCTCGTGAAAGGGCC
1 TTCGTGAAGCCCGTGAAAGGGCC
34140303 TTCGTAGAAGCCCGTGAAAGGGC
1 TTCGT-GAAGCCCGTGAAAGGGC
34140326 TGCTGCTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.24, C:0.22, G:0.35, T:0.20
Consensus pattern (23 bp):
TTCGTGAAGCCCGTGAAAGGGCC
Found at i:34147186 original size:2 final size:2
Alignment explanation
Indices: 34147179--34147214 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34147169 ACACCAATTT
34147179 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
34147215 ATAATTAGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34149121 original size:16 final size:16
Alignment explanation
Indices: 34149100--34149133 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34149090 GTTAGTTGGA
34149100 ACTGGTAGCCATTATC
1 ACTGGTAGCCATTATC
34149116 ACTGGTAGCCATTATC
1 ACTGGTAGCCATTATC
34149132 AC
1 AC
34149134 ATAATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (16 bp):
ACTGGTAGCCATTATC
Found at i:34162020 original size:13 final size:14
Alignment explanation
Indices: 34161997--34162024 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34161987 ATAACTCCTC
34161997 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
34162011 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
34162025 GGTGGGGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:34174025 original size:24 final size:24
Alignment explanation
Indices: 34173972--34174033 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
34173962 TATTTTTAAA
*
34173972 ATATATTTAATATAAATAATATTT
1 ATATATTTAATATAAATAATACTT
* *
34173996 AT-TATTTACATATAAGTTA-ACTT
1 ATATATTTA-ATATAAATAATACTT
34174019 ATATATTTTAATATA
1 ATATA-TTTAATATA
34174034 TTTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 11 0.34
24 17 0.53
25 4 0.12
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (24 bp):
ATATATTTAATATAAATAATACTT
Found at i:34177979 original size:30 final size:31
Alignment explanation
Indices: 34177918--34177981 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
34177908 AAGCTACCAA
* *
34177918 TACTAAAAAAAAATGGATTAAATAGTAATTT
1 TACTAAAAAAAAAAGGATCAAATAGTAATTT
* *
34177949 TACTAAAAAAAAAAGGATCAAATATTATTTT
1 TACTAAAAAAAAAAGGATCAAATAGTAATTT
34177980 TA
1 TA
34177982 ACGAGATGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.33
Consensus pattern (31 bp):
TACTAAAAAAAAAAGGATCAAATAGTAATTT
Found at i:34181615 original size:59 final size:59
Alignment explanation
Indices: 34181544--34181662 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
34181534 CATTGGCTAT
34181544 GGAGTGGGGTTGAAGCCCTTGTGGGCTGTGGGGTACTTCTATTTTGTATCTATACATGG
1 GGAGTGGGGTTGAAGCCCTTGTGGGCTGTGGGGTACTTCTATTTTGTATCTATACATGG
34181603 GGAGTGGGGTTGAAGCCCTTGTGGGCTGTGGGGTACTTCTATTTTGTATCTATACATGG
1 GGAGTGGGGTTGAAGCCCTTGTGGGCTGTGGGGTACTTCTATTTTGTATCTATACATGG
34181662 G
1 G
34181663 CTTCTTTGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.15, C:0.13, G:0.36, T:0.35
Consensus pattern (59 bp):
GGAGTGGGGTTGAAGCCCTTGTGGGCTGTGGGGTACTTCTATTTTGTATCTATACATGG
Found at i:34185814 original size:23 final size:24
Alignment explanation
Indices: 34185774--34185824 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
34185764 TAAAAAAAAA
* *
34185774 ATTTTTTTGAATTTTTTTTAATATT
1 ATTTTTTTG-ATTATTTTAAATATT
*
34185799 ATTTTTTTG-TTATTTTAAATTTT
1 ATTTTTTTGATTATTTTAAATATT
34185822 ATT
1 ATT
34185825 ATTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
25 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (24 bp):
ATTTTTTTGATTATTTTAAATATT
Found at i:34185970 original size:21 final size:20
Alignment explanation
Indices: 34185926--34185966 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34185916 AAAGTTTTTG
*
34185926 ATAATTATAATTAAATAAAA
1 ATAATTAAAATTAAATAAAA
34185946 ATAATATAAAATT-AATAAAA
1 ATAAT-TAAAATTAAATAAAA
34185966 A
1 A
34185967 ATAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATTAAAATTAAATAAAA
Found at i:34185977 original size:21 final size:21
Alignment explanation
Indices: 34185934--34185977 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34185924 TGATAATTAT
* *
34185934 AATTAAATAAAAATAATATAA
1 AATTAAATAAAAATAAGAAAA
34185955 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
34185976 AA
1 AA
34185978 GAATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:34186165 original size:22 final size:22
Alignment explanation
Indices: 34186121--34186165 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34186111 TTTTTTTTCT
* *
34186121 TTAATAAAATAATAAAAATTAA
1 TTAATAAAATAAGAAAAAGTAA
* *
34186143 TTAATAAATTAAGAATAAGTAA
1 TTAATAAAATAAGAAAAAGTAA
34186165 T
1 T
34186166 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TTAATAAAATAAGAAAAAGTAA
Found at i:34186431 original size:30 final size:28
Alignment explanation
Indices: 34186370--34186459 Score: 85
Period size: 30 Copynumber: 3.1 Consensus size: 28
34186360 ATTTAGATAC
* *
34186370 AAATAAATGATTAAAAATTTAATTAAGTGT
1 AAATAAA-AATTAAAAATTTATTTAA-TGT
34186400 AAATTAAAAATTAAAAATTTATTTGAATGT
1 AAA-TAAAAATTAAAAATTTATTT-AATGT
* *
34186430 -AATAAAAGTATAAAAAATTATTTAA-GT
1 AAATAAAAAT-TAAAAATTTATTTAATGT
34186457 AAA
1 AAA
34186460 ACGATAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.04
28 10 0.19
29 14 0.27
30 20 0.38
31 6 0.12
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (28 bp):
AAATAAAAATTAAAAATTTATTTAATGT
Found at i:34186850 original size:24 final size:24
Alignment explanation
Indices: 34186823--34186873 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
34186813 AAAATTTAAT
34186823 ATGAAAATTAACAATATATAAAAA
1 ATGAAAATTAACAATATATAAAAA
*
34186847 ATGAAAATTAATAATATATAAAAA
1 ATGAAAATTAACAATATATAAAAA
34186871 ATG
1 ATG
34186874 CTTATAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (24 bp):
ATGAAAATTAACAATATATAAAAA
Found at i:34186869 original size:22 final size:22
Alignment explanation
Indices: 34186808--34186869 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
34186798 AATCAATAAT
* * *
34186808 TTAATAAAATTTAATATGAAAA
1 TTAATAATATATAAAATGAAAA
*
34186830 TTAACAATATATAAAAAATGAAAA
1 TTAATAATATAT--AAAATGAAAA
34186854 TTAATAATATATAAAA
1 TTAATAATATATAAAA
34186870 AATGCTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
22 13 0.39
24 20 0.61
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (22 bp):
TTAATAATATATAAAATGAAAA
Found at i:34186934 original size:48 final size:48
Alignment explanation
Indices: 34186881--34187782 Score: 704
Period size: 48 Copynumber: 19.1 Consensus size: 48
34186871 ATGCTTATAA
*
34186881 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAT
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * *
34186929 GAGCTTTTTTAATAT-TAATTTTAAAGTTATTGAGCCTCTATTGAGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * * *
34186976 GA-ATATTTTC-A-A-GAATTTTTAAAGTTGTGGAACCTCTACTT-AGAA
1 GAGCT-TTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTA-TTGAGAG
* * * * *
34187021 GAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCTTCTACTT-AAAT
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTA-TTGAGAG
* * *
34187069 GAGCTTTTTCAAGATGAAAATTTTTAAGTTGTTGAGCCT-TTTCTTAGAG
1 GAGCTTTTTCAAGATG-AAATTTTAAAGTTGTTGAGCCTCTAT-TGAGAG
* * *
34187118 GAACCTCTTTCAAGATGAAATTTT-AAGTTGTTGAGCCTCTGTTGAGAG
1 G-AGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * * *
34187166 GAGTTTTTTCAAGAT-TAATTTTAAAGTTGTTGAACCTCTACTGGGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* ** *
34187213 AAGC-TTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAG
1 GAGCTTTTTC-AAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * *
34187261 GAGCATTTTT----A-GAATTTTTAAAGTTGTGGAGCCTCTGTT-ATTAG
1 GAGC-TTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGA-GAG
* * * * *
34187305 GAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTATTTAGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* *
34187353 GAGCTTTTTCAATATGAGAATTTTAAAGTTGTTGAGCCTCTACTT-AGAA
1 GAGCTTTTTCAAGATGA-AATTTTAAAGTTGTTGAGCCTCTA-TTGAGAG
* * * * * *
34187402 GAGCTTTTTCAATATGAATTTTTAAAATTGTTGAGTCTCTGTTTAGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * * * *
34187450 TAGCCTCTTTCAAGAAGAAA-TTTAAAGTTGTTGAGCCTCTGTTAAGAT
1 GAG-CTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * *
34187498 TAGCATTTTC-A-A-GAATTTTTAAAGTTG-TGAAGCCTCTACTT-AGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTG-AGCCTCTA-TTGAGAG
* * *
34187543 GAGCTTTTTCAAGATGAAATTTTAAAATTGTTGAGCCTCTACTGAGAT
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * *
34187591 GAGCTTTTTCAAGAT-TAATTTTAAAGTTATTGAGCCTCTGTTGGGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * *
34187638 GAGCTTTTTTAAGATGAATTTTTAAAGTTATTGAG-CT-TATGCTGAAAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTAT--TGAGAG
* * ** *
34187686 GAGCATTTTT--A-A-GAATTTTTAAAGTTGTTGAGTCTCTGCTGAAAG
1 GAGC-TTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
* * * * *
34187731 GAGCATTTTC-A-A-GAATTTTTAAAGTTATTAAGTCTCTAATT-AGAG
1 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCT-ATTGAGAG
34187776 GAGCTTT
1 GAGCTTT
34187783 CTAAATAAAT
Statistics
Matches: 698, Mismatches: 112, Indels: 91
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.01
44 40 0.06
45 124 0.18
46 27 0.04
47 128 0.18
48 260 0.37
49 94 0.13
50 19 0.03
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (48 bp):
GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGAG
Found at i:34187152 original size:97 final size:95
Alignment explanation
Indices: 34186881--34187782 Score: 663
Period size: 93 Copynumber: 9.6 Consensus size: 95
34186871 ATGCTTATAA
* * *
34186881 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTA-TTGAGATGAGCTTTTTTAATAT-
1 GAGCTTTTTCAAGATG-AATTTTAAAGTTGTTGAGCCTCTACTT-AGAGGAGCTTTTTCAAAATG
* * *
34186944 TAATTTTAAAGTTATTGAGCCTCTA-TTGAGAG
64 AAATTTTAAAGTTGTTGAGCCTCTACTT-AAAG
* * * * * *
34186976 GA-ATATTTTCAAGA--ATTTTTAAAGTTGTGGAACCTCTACTTAGAAGAGCTTTTTCAAAATAA
1 GAGCT-TTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAAATGA
* *
34187038 AATTTTAAAGTTGTTGAGCTTCTACTTAAAT
65 AATTTTAAAGTTGTTGAGCCTCTACTTAAAG
* * * * * *
34187069 GAGCTTTTTCAAGATGAAAATTTTTAAGTTGTTGAGCCTTTTCTTAGAGGAACCTCTTTCAAGAT
1 GAGCTTTTTCAAGATG--AATTTTAAAGTTGTTGAGCCTCTACTTAGAGG-AGCTTTTTCAAAAT
* *
34187134 GAAATTTT-AAGTTGTTGAGCCTCT-GTTGAGAG
63 GAAATTTTAAAGTTGTTGAGCCTCTACTT-AAAG
* * * ** * *
34187166 GAGTTTTTTCAAGATTAATTTTAAAGTTGTTGAACCTCTACTGGGAGAAGC-TTTTCTAAGATGA
1 GAGCTTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTC-AAAATGA
*
34187230 AATTTTAAAGTTGTTGAGCCTCTGC-TAAGAG
65 AATTTTAAAGTTGTTGAGCCTCTACTTAA-AG
* * * * *
34187261 GAGCATTTTT--AGA--ATTTTTAAAGTTGTGGAGCCTCT-GTTATTAGGAGCTTTTTCAAAATA
1 GAGC-TTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTTA-GAGGAGCTTTTTCAAAATG
* * * *
34187321 AAATTTTAAAATTGTTGAGCATCTATTTAGAG
64 AAATTTTAAAGTTGTTGAGCCTCTACTTAAAG
* * *
34187353 GAGCTTTTTCAATATGAGAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAATATG
1 GAGCTTTTTCAAGAT--GAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAAATG
* * * ** *
34187418 AATTTTTAAAATTGTTGAGTCTCTGTTTAGAG
64 AAATTTTAAAGTTGTTGAGCCTCTACTTAAAG
* * * * * ** *
34187450 TAGCCTCTTTCAAGAAGAAATTTAAAGTTGTTGAGCCTCT-GTTAAGATTAGCATTTTC--AA-G
1 GAG-CTTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTT-AGAGGAGCTTTTTCAAAATG
* *
34187511 AATTTTTAAAGTTG-TGAAGCCTCTACTTAGAG
64 AAATTTTAAAGTTGTTG-AGCCTCTACTTAAAG
* * * * *
34187543 GAGCTTTTTCAAGATGAAATTTTAAAATTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGAT-T
1 GAGCTTTTTCAAGATG-AATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAAATGA
* * **
34187607 AATTTTAAAGTTATTGAGCCTCT-GTTGGGAG
65 AATTTTAAAGTTGTTGAGCCTCTACTT-AAAG
* * * * * * *
34187638 GAGCTTTTTTAAGATGAATTTTTAAAGTTATTGAGCTTATGCTGAAAGGAGCATTTTT---AA-G
1 GAGCTTTTTCAAGATGAA-TTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC-TTTTTCAAAATG
* * * *
34187699 AATTTTTAAAGTTGTTGAGTCTCTGCTGAAAG
64 AAATTTTAAAGTTGTTGAGCCTCTACTTAAAG
* * * * * *
34187731 GAGCATTTTCAAGA--ATTTTTAAAGTTATTAAGTCTCTAATTAGAGGAGCTTT
1 GAGCTTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTT
34187783 CTAAATAAAT
Statistics
Matches: 641, Mismatches: 126, Indels: 86
0.75 0.15 0.10
Matches are distributed among these distances:
89 3 0.00
90 25 0.04
91 7 0.01
92 107 0.17
93 146 0.23
94 30 0.05
95 123 0.19
96 48 0.07
97 122 0.19
98 30 0.05
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (95 bp):
GAGCTTTTTCAAGATGAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCTTTTTCAAAATGAA
ATTTTAAAGTTGTTGAGCCTCTACTTAAAG
Found at i:34187409 original size:189 final size:190
Alignment explanation
Indices: 34186894--34187673 Score: 651
Period size: 189 Copynumber: 4.1 Consensus size: 190
34186884 CTTTTTCAAG
* * * * * *
34186894 ATGAAA-TTTTAAAGTTGTTGAGCCTCTATTGA-GATGAGCTTTTTTAATATTAATTTTAAAGTT
1 ATGAAATTTTTAAAGTTGTTGAGCCTCTGTT-ATTAGGAGCTTTTTCAAAATAAATTTTAAAGTT
* * * * *
34186957 ATTGAGCCTCTATTGAGAGGA-ATATTTTC-A-A-GA-ATTTTTAAAGTTGTGGAACCTCTACTT
65 GTTGAGCCTCTATTTAGAGGAGCT-TTTTCAAGATGAGAATTTTAAAGTTGTTGAACCTCTACTT
* * * * *
34187017 AGAAGAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCTTCTACTTAA-ATGAGCTTTTTCAA
129 AGAAGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGC-TAAGAGGAGCTTTTT--A
* * * *
34187081 GATGAAAATTTTT-AAGTTGTTGAGCCT-T-TTCTTAGAGGAACCTCTTTCAAGATGAAATTTT-
1 -ATG-AAATTTTTAAAGTTGTTGAGCCTCTGTTATT--AGG-AGCTTTTTCAAAAT-AAATTTTA
* * * *
34187142 AAGTTGTTGAGCCTCTGTTGAGAGGAGTTTTTTCAAGAT--TAATTTTAAAGTTGTTGAACCTCT
60 AAGTTGTTGAGCCTCTATTTAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAACCTCT
* *
34187205 AC-TGGGAGAAGC-TTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCATT
125 ACTTAGAAG-AGCTTTTTC-AAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC-TT
34187268 TTT-
187 TTTA
* *
34187271 A-G-AATTTTTAAAGTTGTGGAGCCTCTGTTATTAGGAGCTTTTTCAAAATAAAATTTTAAAATT
1 ATGAAATTTTTAAAGTTGTTGAGCCTCTGTTATTAGGAGCTTTTTCAAAAT-AAATTTTAAAGTT
* * *
34187334 GTTGAGCATCTATTTAGAGGAGCTTTTTCAATATGAGAATTTTAAAGTTGTTGAGCCTCTACTTA
65 GTTGAGCCTCTATTTAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAACCTCTACTTA
* * * * * * * *
34187399 GAAGAGCTTTTTCAATATGAATTTTTAAAATTGTTGAGTCTCTGTTTAGAGTAGCCTCTTTCA
130 GAAGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAG-CT-TTTTA
** ** ** *
34187462 A-GAAGAAATTTAAAGTTGTTGAGCCTCTGTTAAGATTAGCATTTTCAAGAAT---TTTTAAAGT
1 ATGAA-ATTTTTAAAGTTGTTGAGCCTCTGTTATTAGGAGCTTTTTCAA-AATAAATTTTAAAGT
* * *
34187523 TG-TGAAGCCTCTACTTAGAGGAGCTTTTTCAAGATGA-AATTTTAAAATTGTTGAGCCTCTACT
64 TGTTG-AGCCTCTATTTAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAACCTCTACT
* * * * * **
34187586 GAGATGAGCTTTTTCAAGAT-TAATTTTAAAGTTATTGAGCCTCTGTTGGGAGGAGCTTTTTTA
128 TAGAAGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC-TTTTTA
*
34187649 A-GATGAATTTTTAAAGTTATTGAGC
1 ATGA--AATTTTTAAAGTTGTTGAGC
34187674 TTATGCTGAA
Statistics
Matches: 486, Mismatches: 72, Indels: 68
0.78 0.12 0.11
Matches are distributed among these distances:
186 25 0.05
187 59 0.12
188 50 0.10
189 131 0.27
190 95 0.20
191 22 0.05
192 61 0.13
193 40 0.08
194 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (190 bp):
ATGAAATTTTTAAAGTTGTTGAGCCTCTGTTATTAGGAGCTTTTTCAAAATAAATTTTAAAGTTG
TTGAGCCTCTATTTAGAGGAGCTTTTTCAAGATGAGAATTTTAAAGTTGTTGAACCTCTACTTAG
AAGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCTTTTTA
Found at i:34187435 original size:284 final size:285
Alignment explanation
Indices: 34186884--34187673 Score: 787
Period size: 284 Copynumber: 2.8 Consensus size: 285
34186874 CTTATAAGAG
* * * *
34186884 CTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGATGAGCTTTTTTAATATTAATT
1 CTTTTTCAAGAT-AAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTCTAAGATAAATT
* * *
34186949 TTAAAGTTATTGAGCCTCTATTGAGAGGAATATTTTCAAGAATTTTTAAAGTTGTGGAACCTCTA
65 TTAAAGTTATTGAGCCTCTACTAAGAGGAACATTTTCAAGAATTTTTAAAGTTGTGGAACCTCTA
* * *
34187014 CTTAGAAGAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCTTCTACTTAAATGAGCTTTTTC
130 CTTAGAAGAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTACTTAAAGGAGCTTTTTC
* * * *
34187079 AAGATGAAAATTTTTAAGTTGTTGAGCCTTTTCTTAGAGGAACCTCTTTCAAGATGAAATTTTAA
195 AAGATGAAAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAACCTCTTTCAAGATGAAATTTTAA
*
34187144 GTTGTTGAGCCTCTGTTGAGAGGAG-
260 ATTGTTGAGCCTCTGTTGAGAGGAGC
* * * *
34187169 TTTTTTCAAGATTAATTTTAAAGTTGTTGAACCTCTACTGGGA-GAAGCTTTTCTAAGATGAAAT
1 CTTTTTCAAGATAAATTTTAAAGTTGTTGAGCCTCTACTGAGATG-AGCTTTTCTAAGAT-AAAT
* * * * *
34187233 TTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCATTTT-TAGAATTTTTAAAGTTGTGGAGCCTCT
64 TTTAAAGTTATTGAGCCTCTACTAAGAGGAACATTTTCAAGAATTTTTAAAGTTGTGGAACCTCT
* * * * *
34187297 -GTTATTAGGAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTATTTAGAGGAGCTTTT
129 ACTTA-GAAGAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTACTTAAAGGAGCTTTT
* * * * * *
34187361 TCAATATGAGAATTTTAAAGTTGTTGAGCCTCTACTTAGAAG-AGCTTTTTCAATATGAATTTTT
193 TCAAGATGAAAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAACCTCTTTCAAGATGAAATTTT
* * *
34187425 AAAATTGTTGAGTCTCTGTTTAGAGTAGC
258 -AAATTGTTGAGCCTCTGTTGAGAGGAGC
* * ** * * *
34187454 CTCTTTCAAGA-AGAAATTTAAAGTTGTTGAGCCTCTGTTAAGATTAGCATTTTC-AAG--AATT
1 CTTTTTCAAGATA-AATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC-TTTTCTAAGATAAAT
* * * * * * * *
34187515 TTTAAAGTT-GTGAAGCCTCTACTTAGAGGAGCTTTTTCAAGATGAAATTTTAAAATTGTTGAGC
64 TTTAAAGTTATTG-AGCCTCTACTAAGAGGAACATTTTC-A-A-GAATTTTTAAAGTTGTGGAAC
* * * * * * * * **
34187579 CTCTACTGAGATGAGCTTTTTCAAGAT-TAATTTTAAAGTTATTGAGCCTCT-GTTGGGAGGAGC
125 CTCTACTTAGAAGAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTACTT-AAAGGAGC
* * *
34187642 TTTTTTAAGATG-AATTTTTAAAGTTATTGAGC
189 TTTTTCAAGATGAAAATTTTAAAGTTGTTGAGC
34187674 TTATGCTGAA
Statistics
Matches: 417, Mismatches: 73, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
281 2 0.00
282 33 0.08
283 22 0.05
284 194 0.47
285 122 0.29
286 42 0.10
287 2 0.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (285 bp):
CTTTTTCAAGATAAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTCTAAGATAAATTT
TAAAGTTATTGAGCCTCTACTAAGAGGAACATTTTCAAGAATTTTTAAAGTTGTGGAACCTCTAC
TTAGAAGAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTACTTAAAGGAGCTTTTTCA
AGATGAAAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAACCTCTTTCAAGATGAAATTTTAAA
TTGTTGAGCCTCTGTTGAGAGGAGC
Found at i:34187488 original size:332 final size:326
Alignment explanation
Indices: 34186886--34187673 Score: 896
Period size: 332 Copynumber: 2.4 Consensus size: 326
34186876 TATAAGAGCT
*
34186886 TTTTC-AAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGATGAGCTTTTTTA-ATATTAATT
1 TTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC-TTTTTAGATA-T--TT
* * * * *
34186949 TTAAAGTTATTGAGCCTCTATTGAGAGGA-ATATTTTCAAGAAT--TTTTAAAGTTGTGGAACCT
62 TTAAAGTTATTGAGCCTCTGTT-AGAGGAGCT-TTTTCAA-AATAATTTTAAAGTTGTTGAGCAT
*
34187011 CTACTTAGAAGAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCTTCTACTTAAATGAGCTTT
124 CTACTTAGAAGAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTT
* * *
34187076 TTCAAGATGAAAATTTTTAAGTTGTTGAGCCTTTTCTTAGAGGAACCTCTTTCAAGATGAAATTT
189 TTCAAGATG-AAATTTTTAAATTGTTGAGCCTTGTCTTAGAGGAACCTCTTTCAAGAAGAAATTT
* * **
34187141 TAAGTTGTTGAGCCTCTGTTGAGAGGAGTTTTTTCAAGATTAATTTTAAAGTTGTTGAA-CCTCT
253 AAAGTTGTTGAGCCTCTGTTAAGAGGAGCATTTTCAAGA--AATTTTAAAGTTG-TGAAGCCTCT
*
34187205 ACTGGGAGAAGC
315 ACTGAGAGAAGC
* * *
34187217 TTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCATTTTTAGA-ATTTTTA
1 TTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGC-TTTTTAGATATTTTTA
* * * *
34187281 AAGTTGTGGAGCCTCTGTTATTAGGAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTA
65 AAGTTATTGAGCCTCTGTTA-GAGGAGCTTTTTCAAAAT--AATTTTAAAGTTGTTGAGCATCTA
* * * *
34187346 TTTAGAGGAGCTTTTTCAATATGAGAATTTTAAAGTTGTTGAGCCTCTACTTAGAA-GAGCTTTT
127 CTTAGAAGAGCTTTTTCAAAAT-AAAATTTTAAAGTTGTTGAGCCTCTACTTA-AATGAGCTTTT
* * * *
34187410 TCAATATG-AATTTTTAAAATTGTTGAGTCTCTGT-TTAGAGTAGCCTCTTTCAAGAAGAAATTT
190 TCAAGATGAAATTTTT-AAATTGTTGAGCCT-TGTCTTAGAGGAACCTCTTTCAAGAAGAAATTT
** *
34187473 AAAGTTGTTGAGCCTCTGTTAAGATTAGCATTTTCAAGAATTTTTAAAGTTGTGAAGCCTCTACT
253 AAAGTTGTTGAGCCTCTGTTAAGAGGAGCATTTTCAAGAAATTTTAAAGTTGTGAAGCCTCTACT
* *
34187538 TAGAGGAGC
318 GAGAGAAGC
* *
34187547 TTTT-TCAAGATGAAATTTTAAAATTGTTGAGCCTCTACTGAGATGAGCTTTTTCAAGATTAATT
1 TTTTCT-AAGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTT--AGA-TATTT
* * * *
34187611 TTAAAGTTATTGAGCCTCTGTTGGGAGGAGCTTTTTTAAGATGAATTTTTAAAGTTATTGAGC
62 TTAAAGTTATTGAGCCTCTGTT-AGAGGAGCTTTTTCAAAAT-AA-TTTTAAAGTTGTTGAGC
34187674 TTATGCTGAA
Statistics
Matches: 387, Mismatches: 50, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
328 4 0.01
329 42 0.11
330 69 0.18
331 16 0.04
332 155 0.40
333 99 0.26
334 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (326 bp):
TTTTCTAAGATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTTAGATATTTTTAA
AGTTATTGAGCCTCTGTTAGAGGAGCTTTTTCAAAATAATTTTAAAGTTGTTGAGCATCTACTTA
GAAGAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCCTCTACTTAAATGAGCTTTTTCAAGA
TGAAATTTTTAAATTGTTGAGCCTTGTCTTAGAGGAACCTCTTTCAAGAAGAAATTTAAAGTTGT
TGAGCCTCTGTTAAGAGGAGCATTTTCAAGAAATTTTAAAGTTGTGAAGCCTCTACTGAGAGAAG
C
Found at i:34187532 original size:141 final size:139
Alignment explanation
Indices: 34187369--34187632 Score: 370
Period size: 141 Copynumber: 1.9 Consensus size: 139
34187359 TTTCAATATG
* *
34187369 AGAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAATATGAATTTTTAAAATTGTT
1 AGAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAAGATGAAATTTTAAAATTGTT
* ** * *
34187434 GAGTCTCTGTTTAGA-GTAGCCTCTTTCAAGAAGAAATTTAAAGTTGTTGAGCCTCTGTTAAGAT
66 GAGCCTCTACTGAGATG-AG-CTCTTTCAAGAAGAAATTTAAAGTTATTGAGCCTCTGTTAAGAT
34187498 TAGCATTTTCA
129 TAGCATTTTCA
*
34187509 AGAATTTTTAAAGTTG-TGAAGCCTCTACTTAGAGGAGCTTTTTCAAGATGAAATTTTAAAATTG
1 AGAA-TTTTAAAGTTGTTG-AGCCTCTACTTAGAAGAGCTTTTTCAAGATGAAATTTTAAAATTG
* ** *
34187573 TTGAGCCTCTACTGAGATGAGCTTTTTCAAGATTAATTTTAAAGTTATTGAGCCTCTGTT
64 TTGAGCCTCTACTGAGATGAGCTCTTTCAAGAAGAAATTTAAAGTTATTGAGCCTCTGTT
34187633 GGGAGGAGCT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
140 40 0.37
141 68 0.62
142 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (139 bp):
AGAATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGCTTTTTCAAGATGAAATTTTAAAATTGTT
GAGCCTCTACTGAGATGAGCTCTTTCAAGAAGAAATTTAAAGTTATTGAGCCTCTGTTAAGATTA
GCATTTTCA
Found at i:34187714 original size:140 final size:142
Alignment explanation
Indices: 34186881--34187782 Score: 720
Period size: 140 Copynumber: 6.4 Consensus size: 142
34186871 ATGCTTATAA
* * *
34186881 GAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTATTGAGATGAGCTTTTTTAATATTA
1 GAGCTTTTTCAAGAT-AAATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGATGA
* * ** * *
34186946 A-TTTTAAAGTTATTGAGCCTCTA-TTGAGAGGAATATTTTCA-A-GAATTTTTAAAGTTGTGGA
65 ATTTTTAAAGTTGTTGAGCCTCTACTT-AAAGGAGCATTTTTAGATGAATTTTTAAAGTTGTTGA
* * * *
34187007 ACCTCTACTTAGAA
129 GCCTCTGCTGAGAG
* * * * *
34187021 GAGCTTTTTCAAAATAAAATTTTAAAGTTGTTGAGCTTCTACTT-AAATGAGCTTTTTCAAGATG
1 GAGCTTTTTCAAGAT-AAATTTTAAAGTTGTTGAGCCTCTA-TTGAGAGGAGCTTTTTTAAGATG
* * * * * * *
34187085 AAAATTTTT-AAGTTGTTGAGCCTTTTCTTAGAGGAACCTCTTTCAAGATGAAATTTT-AAGTTG
64 --AATTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCAT-TTT-TAGATGAATTTTTAAAGTTG
*
34187148 TTGAGCCTCTGTTGAGAG
125 TTGAGCCTCTGCTGAGAG
* * * * * * *
34187166 GAGTTTTTTCAAGATTAATTTTAAAGTTGTTGAACCTCTACTGGGAGAAGCTTTTCTAAGATGAA
1 GAGCTTTTTCAAGATAAATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGATGAA
* * *
34187231 ATTTTAAAGTTGTTGAGCCTCTGC-TAAGAGGAGCATTTTT--A-GAATTTTTAAAGTTGTGGAG
66 TTTTTAAAGTTGTTGAGCCTCTACTTAA-AGGAGCATTTTTAGATGAATTTTTAAAGTTGTTGAG
* *
34187292 CCTCTG-TTATTAG
130 CCTCTGCTGA-GAG
* * * * * *
34187305 GAGCTTTTTCAAAATAAAATTTTAAAATTGTTGAGCATCTATTTAGAGGAGCTTTTTCAATATGA
1 GAGCTTTTTCAAGAT-AAATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGATGA
* * *
34187370 GAATTTTAAAGTTGTTGAGCCTCTACTTAGAA-GAGC-TTTTTCAATATGAATTTTTAAAATTGT
65 -ATTTTTAAAGTTGTTGAGCCTCTACTTA-AAGGAGCATTTTT--AGATGAATTTTTAAAGTTGT
* * *
34187433 TGAGTCTCTGTTTAGAG
126 TGAGCCTCTGCTGAGAG
* * * * * ** * *
34187450 TAGCCTCTTTCAAGA-AGAAATTTAAAGTTGTTGAGCCTCTGTTAAGATTAGC-ATTTTCA-A-G
1 GAG-CTTTTTCAAGATA-AATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGATG
* * *
34187511 AATTTTTAAAGTTG-TGAAGCCTCTACTTAGAGGAGC-TTTTTCAAGATGAAATTTTAAAATTGT
64 AATTTTTAAAGTTGTTG-AGCCTCTACTTAAAGGAGCATTTTT--AGATGAATTTTTAAAGTTGT
* *
34187574 TGAGCCTCTACTGAGAT
126 TGAGCCTCTGCTGAGAG
* * * *
34187591 GAGCTTTTTCAAGATTAATTTTAAAGTTATTGAGCCTCTGTTGGGAGGAGCTTTTTTAAGATGAA
1 GAGCTTTTTCAAGATAAATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGATGAA
* * * * * *
34187656 TTTTTAAAGTTATTGAGCTTATGCTGAAAGGAGCATTTTTA-A-GAATTTTTAAAGTTGTTGAGT
66 TTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCATTTTTAGATGAATTTTTAAAGTTGTTGAGC
*
34187719 CTCTGCTGAAAG
131 CTCTGCTGAGAG
* * * * *
34187731 GAGCATTTTCAAG--AATTTTTAAAGTTATTAAGTCTCTAATT-AGAGGAGCTTT
1 GAGCTTTTTCAAGATAAATTTTAAAGTTGTTGAGCCTCT-ATTGAGAGGAGCTTT
34187783 CTAAATAAAT
Statistics
Matches: 614, Mismatches: 113, Indels: 72
0.77 0.14 0.09
Matches are distributed among these distances:
138 39 0.06
139 34 0.06
140 178 0.29
141 103 0.17
142 42 0.07
143 62 0.10
144 50 0.08
145 87 0.14
146 19 0.03
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (142 bp):
GAGCTTTTTCAAGATAAATTTTAAAGTTGTTGAGCCTCTATTGAGAGGAGCTTTTTTAAGATGAA
TTTTTAAAGTTGTTGAGCCTCTACTTAAAGGAGCATTTTTAGATGAATTTTTAAAGTTGTTGAGC
CTCTGCTGAGAG
Found at i:34189022 original size:21 final size:21
Alignment explanation
Indices: 34188979--34189022 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34188969 TGATAAGTAT
* *
34188979 AATTAAATAAAAATAATACAA
1 AATTAAATAAAAATAAGAAAA
34189000 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
34189021 AA
1 AA
34189023 GAAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:34197938 original size:15 final size:16
Alignment explanation
Indices: 34197908--34197942 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
34197898 AATATTTTCT
34197908 TTTTTTTTATGAATTTA
1 TTTTTTTTAT-AATTTA
34197925 TTTTTTTTAT-ATTTA
1 TTTTTTTTATAATTTA
34197940 TTT
1 TTT
34197943 AATTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
17 10 0.56
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTTATAATTTA
Found at i:34199139 original size:23 final size:23
Alignment explanation
Indices: 34199081--34199144 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
34199071 ATTTAGGATA
34199081 AAATTTATATAAAATTTTTTAAAT
1 AAATTTA-ATAAAATTTTTTAAAT
* *
34199105 AAAGTTT-GTAAAGTTTTTTTAAAT
1 AAA-TTTAATAAA-ATTTTTTAAAT
34199129 -AATTTAATAAACATTT
1 AAATTTAATAAA-ATTT
34199145 AATAAAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 3 0.09
23 13 0.41
24 13 0.41
25 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
AAATTTAATAAAATTTTTTAAAT
Found at i:34208797 original size:33 final size:33
Alignment explanation
Indices: 34208755--34208819 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
34208745 TACGAGACAA
34208755 GAGAAGAGAAAAAAACCATGAAGCTTCATACAC
1 GAGAAGAGAAAAAAACCATGAAGCTTCATACAC
*
34208788 GAGAAGAGAAAAAGACCATGAAGCTTCATACA
1 GAGAAGAGAAAAAAACCATGAAGCTTCATACA
34208820 GTTGATTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.51, C:0.17, G:0.20, T:0.12
Consensus pattern (33 bp):
GAGAAGAGAAAAAAACCATGAAGCTTCATACAC
Found at i:34215621 original size:2 final size:2
Alignment explanation
Indices: 34215614--34215647 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34215604 TTGTTTGAAC
34215614 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
34215648 ACTTAAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:34230078 original size:2 final size:2
Alignment explanation
Indices: 34230071--34230105 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
34230061 TACAATAATG
34230071 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
34230106 ATAAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:34237698 original size:6 final size:6
Alignment explanation
Indices: 34237681--34237724 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
34237671 AACAACAACA
* *
34237681 ATAATA ATAATT ATAATT AT-ATT ATAATT ATAATT ATTATT ATA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATA
34237725 TACGTAATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:34237709 original size:17 final size:18
Alignment explanation
Indices: 34237687--34237724 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
34237677 AACAATAATA
34237687 ATAATTATAATTA-TATT
1 ATAATTATAATTATTATT
34237704 ATAATTATAATTATTATT
1 ATAATTATAATTATTATT
34237722 ATA
1 ATA
34237725 TACGTAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTATAATTATTATT
Found at i:34237713 original size:23 final size:23
Alignment explanation
Indices: 34237681--34237725 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34237671 AACAACAACA
34237681 ATAATAATAATTATAATTATATT
1 ATAATAATAATTATAATTATATT
* *
34237704 ATAATTATAATTATTATTATAT
1 ATAATAATAATTATAATTATAT
34237726 ACGTAATGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAATAATAATTATAATTATATT
Found at i:34238114 original size:27 final size:27
Alignment explanation
Indices: 34238068--34238122 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
34238058 GAATTTCGTT
*
34238068 AATAATAATTTATTGATA-TTATTTTA
1 AATAATAATTTATTAATATTTATTTTA
34238094 AATATATAATTTA-TAATTATTTATTTTA
1 AATA-ATAATTTATTAA-TATTTATTTTA
34238122 A
1 A
34238123 TTTATTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 10 0.40
28 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
AATAATAATTTATTAATATTTATTTTA
Found at i:34238123 original size:13 final size:14
Alignment explanation
Indices: 34238083--34238129 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
34238073 TAATTTATTG
*
34238083 ATATTATTTTAAAT
1 ATATTATTTTAATT
*
34238097 ATATAATTTATAATT
1 ATATTATTT-TAATT
34238112 AT-TTATTTTAATT
1 ATATTATTTTAATT
34238125 -TATTA
1 ATATTA
34238130 GATACAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 1 0.04
13 8 0.29
14 13 0.46
15 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATATTATTTTAATT
Found at i:34240462 original size:32 final size:32
Alignment explanation
Indices: 34240426--34240488 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
34240416 TGTAAGAGTT
34240426 TATTTTAATTTTATG-TTAGATTTATTAATTTA
1 TATTTTAATTTTATGATTA-ATTTATTAATTTA
* *
34240458 TATTTTAATTTTTTGATTAATTTATTCATTT
1 TATTTTAATTTTATGATTAATTTATTAATTT
34240489 GATTATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (32 bp):
TATTTTAATTTTATGATTAATTTATTAATTTA
Found at i:34246261 original size:15 final size:14
Alignment explanation
Indices: 34246221--34246274 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
34246211 AATGAACAAT
*
34246221 AAATAAATTAAAACC
1 AAATAAATTTAAA-C
34246236 AAATAAATTTAAAC
1 AAATAAATTTAAAC
34246250 AAATAAATTTTAAAC
1 AAATAAA-TTTAAAC
34246265 GAACATAAAT
1 -AA-ATAAAT
34246275 GAACTTAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
14 8 0.23
15 19 0.54
16 3 0.09
17 5 0.14
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (14 bp):
AAATAAATTTAAAC
Found at i:34246304 original size:21 final size:21
Alignment explanation
Indices: 34246250--34246304 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
34246240 AAATTTAAAC
* * *
34246250 AAATAAATTTTAAACGAACAT
1 AAATGAATCTTAAACAAACAT
*
34246271 AAATGAA-CTTAAACAAATAT
1 AAATGAATCTTAAACAAACAT
34246291 AAATGAATCTTAAA
1 AAATGAATCTTAAA
34246305 ATATGATTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.27
Consensus pattern (21 bp):
AAATGAATCTTAAACAAACAT
Found at i:34247903 original size:3 final size:3
Alignment explanation
Indices: 34247895--34247924 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34247885 TAAATTTATC
34247895 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34247925 CCCATTGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34261923 original size:48 final size:47
Alignment explanation
Indices: 34261845--34261941 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 47
34261835 TTATGAACCT
*
34261845 TATCTATGGTCTCCTTCATCACCGTATATCATATGTTGATAGGCAGA
1 TATCTATGGTCTCCTTCATCACCGTATATCATATGTTGATAGCCAGA
* *
34261892 TATCTATGGGTCTCCTTCATCACTGTTTATCATATGTTGATAGCCAGA
1 TATCTAT-GGTCTCCTTCATCACCGTATATCATATGTTGATAGCCAGA
34261940 TA
1 TA
34261942 CTTTTTCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 7 0.15
48 39 0.85
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (47 bp):
TATCTATGGTCTCCTTCATCACCGTATATCATATGTTGATAGCCAGA
Found at i:34263319 original size:31 final size:27
Alignment explanation
Indices: 34263252--34263320 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 27
34263242 ATATATATTA
* *
34263252 TATACATTGTTAATAAATTAGATAATAT
1 TATAC-TTATTAATAAATTAAATAATAT
34263280 TAT-CTTATTAATAAATTAAATCAAATGAT
1 TATACTTATTAATAAATTAAAT--AAT-AT
34263309 TATACTTTATTA
1 TATAC-TTATTA
34263321 TGAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
26 15 0.44
27 1 0.03
28 6 0.18
29 5 0.15
30 1 0.03
31 6 0.18
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (27 bp):
TATACTTATTAATAAATTAAATAATAT
Found at i:34269244 original size:98 final size:98
Alignment explanation
Indices: 34269075--34269251 Score: 300
Period size: 98 Copynumber: 1.8 Consensus size: 98
34269065 CTATTATCAA
* * * * *
34269075 TGACTTTTTATGCAGTGAGAAATGGATATCCTTGGACCGTTCACCCTGACTATAGGTTAGAAAAG
1 TGACTTTTTAGGCAGTGAGAAATGGATATCCTTAGACCGTTCACCCTGACCATAGGTCAAAAAAG
34269140 ATTTGTCTTAATAGCAGTAGATTTTTTAGTCTG
66 ATTTGTCTTAATAGCAGTAGATTTTTTAGTCTG
*
34269173 TGACTTTTTAGGTAGTGAGAAATGGATATCCTTAGACCGTTCACCCTGACCATAGGTCAAAAAAG
1 TGACTTTTTAGGCAGTGAGAAATGGATATCCTTAGACCGTTCACCCTGACCATAGGTCAAAAAAG
34269238 ATTTGTCTTAATAG
66 ATTTGTCTTAATAG
34269252 AGGCCTTAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (98 bp):
TGACTTTTTAGGCAGTGAGAAATGGATATCCTTAGACCGTTCACCCTGACCATAGGTCAAAAAAG
ATTTGTCTTAATAGCAGTAGATTTTTTAGTCTG
Found at i:34274948 original size:13 final size:13
Alignment explanation
Indices: 34274930--34274954 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34274920 TACGAGTTAA
34274930 AAAAAATAAAAAT
1 AAAAAATAAAAAT
34274943 AAAAAATAAAAA
1 AAAAAATAAAAA
34274955 GCTTCTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:34277131 original size:29 final size:29
Alignment explanation
Indices: 34277053--34277145 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 29
34277043 TATTATCCTC
* * *
34277053 AAATAAATCTTCAAAGTTTAATTTGTTTCT
1 AAATAAATCTT-AAATTTTAATTTGTATAT
* **
34277083 AAACAAACTCTTATTTTTTAATTTGTATAT
1 AAATAAA-TCTTAAATTTTAATTTGTATAT
* * * *
34277113 AAATAAGTCTTAAATTTTAGTTTATATTT
1 AAATAAATCTTAAATTTTAATTTGTATAT
34277142 AAAT
1 AAAT
34277146 TAATTTTCAT
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 21 0.43
30 24 0.49
31 4 0.08
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (29 bp):
AAATAAATCTTAAATTTTAATTTGTATAT
Found at i:34277220 original size:19 final size:20
Alignment explanation
Indices: 34277196--34277233 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34277186 TTAAGTACAA
34277196 TTAAAATAT-AAA-AATTTAT
1 TTAAAA-ATGAAATAATTTAT
34277215 TTAAAAATGAAATAATTTA
1 TTAAAAATGAAATAATTTA
34277234 AAGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 9 0.53
20 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
TTAAAAATGAAATAATTTAT
Found at i:34281860 original size:35 final size:36
Alignment explanation
Indices: 34281778--34281860 Score: 84
Period size: 35 Copynumber: 2.4 Consensus size: 36
34281768 TTTGAATAAC
* *
34281778 AAATCT-TTTAAATGTTATTTTAAAAATAATTATTT
1 AAATCTATTTAAATGTAATTTTAAAAATAATTATTG
** *
34281813 AAAT-TAACTAAAT-TAAGTTTT-AAATTAATTATTG
1 AAATCTATTTAAATGTAA-TTTTAAAAATAATTATTG
34281847 AAATCTATTTAAAT
1 AAATCTATTTAAAT
34281861 ATTATTTACG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
34 18 0.47
35 20 0.53
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (36 bp):
AAATCTATTTAAATGTAATTTTAAAAATAATTATTG
Found at i:34283313 original size:5 final size:5
Alignment explanation
Indices: 34283303--34283334 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
34283293 AATCGGTTCA
34283303 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
34283335 TTTGCCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:34283321 original size:14 final size:14
Alignment explanation
Indices: 34283302--34283337 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
34283292 CAATCGGTTC
34283302 ATTTATTTTATTTT
1 ATTTATTTTATTTT
34283316 ATTTATTTTATTTT
1 ATTTATTTTATTTT
34283330 ATTT-TTTT
1 ATTTATTTT
34283338 GCCTTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:34288022 original size:14 final size:13
Alignment explanation
Indices: 34288003--34288049 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
34287993 TTTTAAATTT
34288003 AAGAAAAATAAATA
1 AAGAAAAATAAA-A
34288017 AAGAAAAA-AGAAA
1 AAGAAAAATA-AAA
*
34288030 AAGTAAAATAAAA
1 AAGAAAAATAAAA
*
34288043 AACAAAA
1 AAGAAAA
34288050 TAGAGGGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (13 bp):
AAGAAAAATAAAA
Found at i:34290729 original size:16 final size:15
Alignment explanation
Indices: 34290704--34290733 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34290694 AGAGGTAAGT
34290704 TTGATTTAGTTGAAA
1 TTGATTTAGTTGAAA
34290719 TTGACTTTAGTTGAA
1 TTGA-TTTAGTTGAA
34290734 TAAGCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (15 bp):
TTGATTTAGTTGAAA
Found at i:34309982 original size:2 final size:2
Alignment explanation
Indices: 34309975--34310000 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34309965 TACGAGTCAC
34309975 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
34310001 TTAAATGTCC
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:34320508 original size:43 final size:43
Alignment explanation
Indices: 34320455--34320547 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
34320445 CAATTATCTG
* *
34320455 ACATGTAAATCATTATTATCATAGTTTACTTATTATATCATTA
1 ACATGCAAATCATTAGTATCATAGTTTACTTATTATATCATTA
* *
34320498 ACATGCAAATCATTGGTATCCTAGTTTACTTATTATATCATTA
1 ACATGCAAATCATTAGTATCATAGTTTACTTATTATATCATTA
34320541 ACATGCA
1 ACATGCA
34320548 TGGTTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (43 bp):
ACATGCAAATCATTAGTATCATAGTTTACTTATTATATCATTA
Found at i:34328924 original size:205 final size:206
Alignment explanation
Indices: 34328562--34328939 Score: 561
Period size: 205 Copynumber: 1.8 Consensus size: 206
34328552 AGTGTTTTTA
*
34328562 TTTTAAAAACGTCTTAAATAATATATTTCAAAAAATCAAAAGAGTAATTGTTATTTCACAATTTT
1 TTTTAAAAACGTCTTAAATAATATATTTCAAAAAATCAAAAGAATAATTGTTATTTCACAATTTT
* ** * * *
34328627 TTTATTTAGGTCAAATTTAAAAATTATGTTACTTTTCTTTTGAAATCTTAAAATACTATAGGGAG
66 TTTATTTAGGTCAAATATAAAAATTACATTACTTTTATTTTGAAATCTTAAAATACTATAGGAAA
*
34328692 AGTGAGTTTTTTATATTAGGATTTTGAATATTATTAGAAATTTGTTAGTTTTTTTCGGAATTAGA
131 AGTGAGTTTTTTATATTAAGATTTTGAATATTATTAGAAATTTGTTAGTTTTTTTCGGAATTAGA
34328757 TTATTCTGAAT
196 TTATTCTGAAT
* *
34328768 TTTTAAAAATG-CTTTAAATAAT-TCATTTCAAAAAATCGAAAA-AATAATTGTTGTTTCACAA-
1 TTTTAAAAACGTC-TTAAATAATAT-ATTTCAAAAAATC-AAAAGAATAATTGTTATTTCACAAT
*
34328829 TTTTTTATTTAGGTCAAATATGAAAATTACATTACTTTTATTTTGAAAT-TCTAAAATACTATAG
63 TTTTTTATTTAGGTCAAATATAAAAATTACATTACTTTTATTTTGAAATCT-TAAAATACTATAG
*
34328893 GAAAAGTGAGTTTTTTAT-TTCAAGTTTTTGAATATTATTAGAAATTT
127 GAAAAGTGAGTTTTTTATATT-AAGATTTTGAATATTATTAGAAATTT
34328940 ATCAATTTTT
Statistics
Matches: 155, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
204 3 0.02
205 99 0.64
206 49 0.32
207 4 0.03
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (206 bp):
TTTTAAAAACGTCTTAAATAATATATTTCAAAAAATCAAAAGAATAATTGTTATTTCACAATTTT
TTTATTTAGGTCAAATATAAAAATTACATTACTTTTATTTTGAAATCTTAAAATACTATAGGAAA
AGTGAGTTTTTTATATTAAGATTTTGAATATTATTAGAAATTTGTTAGTTTTTTTCGGAATTAGA
TTATTCTGAAT
Found at i:34344705 original size:11 final size:11
Alignment explanation
Indices: 34344691--34344720 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
34344681 TTTTATATTA
34344691 ATAATATAAAT
1 ATAATATAAAT
34344702 ATAATATAAAT
1 ATAATATAAAT
34344713 ATTAATAT
1 A-TAATAT
34344721 TAGTTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:34344996 original size:29 final size:29
Alignment explanation
Indices: 34344962--34345034 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
34344952 TGTTTTTATA
* ** *
34344962 TATATTTATGTTTGTCGTATCTATTTGTG
1 TATATTCATGTTAATCGTATCTATTGGTG
*
34344991 TATATTCATGTTAATCGTGTCTATTGGTG
1 TATATTCATGTTAATCGTATCTATTGGTG
*
34345020 TATATTCACGTTAAT
1 TATATTCATGTTAAT
34345035 TATGTATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (29 bp):
TATATTCATGTTAATCGTATCTATTGGTG
Found at i:34345044 original size:29 final size:29
Alignment explanation
Indices: 34344983--34345044 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
34344973 TTGTCGTATC
* * * *
34344983 TATTTGTGTATATTCATGTTAATCGTGTC
1 TATTGGTGTATATTCACGTTAATCATGTA
*
34345012 TATTGGTGTATATTCACGTTAATTATGTA
1 TATTGGTGTATATTCACGTTAATCATGTA
34345041 TATT
1 TATT
34345045 TGTATTATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (29 bp):
TATTGGTGTATATTCACGTTAATCATGTA
Found at i:34345195 original size:26 final size:26
Alignment explanation
Indices: 34345157--34345213 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
34345147 TTTAAACATG
* * *
34345157 TTTT-ATATTTCATGTCATATTTATA
1 TTTTAATAATTCATATCATATTCATA
34345182 TTTTAATAATTCATATCATATTCATA
1 TTTTAATAATTCATATCATATTCATA
34345208 TTTTAA
1 TTTTAA
34345214 ATACGATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTAATAATTCATATCATATTCATA
Found at i:34355110 original size:3 final size:3
Alignment explanation
Indices: 34355102--34355247 Score: 72
Period size: 3 Copynumber: 46.7 Consensus size: 3
34355092 TTAATTTTTA
* *
34355102 ATT ATT ATT ATTT ATT AAT A-T ATA ATT ATT -TT ATT ATT ATTT ATCT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T
* * *
34355148 ATT AAT A-T ATT -TT ATT ATTT ATCT GTT AAT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT AT-T ATT ATT ATT ATT
*
34355194 ATTT ATCT ATT CATAT ATT ATT ATTT ATCT ATT AAT ATAT ATT -TT -TT
1 A-TT AT-T ATT -AT-T ATT ATT A-TT AT-T ATT ATT AT-T ATT ATT ATT
34355241 ATT -TT AT
1 ATT ATT AT
34355248 CTTTTTTTCT
Statistics
Matches: 114, Mismatches: 10, Indels: 38
0.70 0.06 0.23
Matches are distributed among these distances:
2 14 0.12
3 63 0.55
4 36 0.32
5 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:34355112 original size:29 final size:32
Alignment explanation
Indices: 34355093--34355157 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
34355083 TTTTTATTTT
34355093 TAATT-TTTAATTATTATTATTTATTAATATA
1 TAATTATTTAATTATTATTATTTATTAATATA
* *
34355124 TAATTATTTTATTATTATTTATCTATTAATATA
1 TAATTATTTAATTATTA-TTATTTATTAATATA
34355157 T
1 T
34355158 TTTATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 5 0.17
32 10 0.33
33 15 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (32 bp):
TAATTATTTAATTATTATTATTTATTAATATA
Found at i:34355127 original size:24 final size:24
Alignment explanation
Indices: 34355080--34355243 Score: 91
Period size: 25 Copynumber: 6.3 Consensus size: 24
34355070 ATTTGTATTG
* * *
34355080 TTATTTTTATTT-TTAATTTTTAA
1 TTATTATTATTTATTAATATATAA
34355103 TTATTATTATTTATTAATATATAA
1 TTATTATTATTTATTAATATATAA
* *
34355127 TTATT-TTATTATTATTTATCTATTAA
1 TTATTATTA-T-TTATTAATATA-TAA
34355153 TATATTTTATTATTTATCTGTTAATATATATTA
1 T-TA--TTATTATTTA----TTAATATATA--A
*
34355186 TTATTATTATTTATCTATTCATAT-A
1 TTATTATTATTTAT-TAAT-ATATAA
* *
34355211 TTATTATTTATCTATTAATATATAT
1 TTATTA-TTATTTATTAATATATAA
*
34355236 TTTTTATT
1 TTATTATT
34355244 TTATCTTTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 35
0.70 0.08 0.22
Matches are distributed among these distances:
23 14 0.13
24 21 0.19
25 24 0.22
26 12 0.11
27 5 0.05
28 7 0.06
29 3 0.03
30 13 0.12
31 2 0.02
32 8 0.07
33 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
TTATTATTATTTATTAATATATAA
Found at i:34355151 original size:22 final size:21
Alignment explanation
Indices: 34355070--34355247 Score: 76
Period size: 20 Copynumber: 8.6 Consensus size: 21
34355060 GGATAAATTC
*
34355070 ATTTGTATTGTTATTT-TTATT
1 ATTT-TATTATTATTTATTATT
* * *
34355091 -TTTAATTTTTAATTATTATT
1 ATTTTATTATTATTTATTATT
* *
34355111 A-TTTATTA--ATATATAATT
1 ATTTTATTATTATTTATTATT
34355129 ATTTTATTATTATTTATCTATT
1 ATTTTATTATTATTTAT-TATT
*
34355151 AATATATT-TTATTATTTATCTGTT
1 -AT-T-TTATTATTATTTAT-TATT
* *
34355175 AATATA-TATTA-TTATTATT
1 ATTTTATTATTATTTATTATT
*
34355194 A-TTTATCTATTCATATATTATT
1 ATTTTAT-TATT-ATTTATTATT
*
34355216 A-TTTATCTATTA-ATATATATT
1 ATTTTAT-TATTATTTAT-TATT
34355237 -TTTTATT-TTAT
1 ATTTTATTATTAT
34355248 CTTTTTTTCT
Statistics
Matches: 124, Mismatches: 16, Indels: 35
0.71 0.09 0.20
Matches are distributed among these distances:
18 11 0.09
19 22 0.18
20 26 0.21
21 22 0.18
22 22 0.18
23 3 0.02
24 16 0.13
25 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTATTATTATTTATTATT
Found at i:34356046 original size:5 final size:5
Alignment explanation
Indices: 34356036--34356079 Score: 52
Period size: 5 Copynumber: 8.0 Consensus size: 5
34356026 TTAGTATTCC
34356036 TTATT TTATTT TTAATTT TTATTT TTATT TTATT TTATT TTATT
1 TTATT TTA-TT TT-A-TT TTA-TT TTATT TTATT TTATT TTATT
34356080 AAATGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 20 0.54
6 11 0.30
7 6 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:34356053 original size:7 final size:6
Alignment explanation
Indices: 34356039--34356076 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
34356029 GTATTCCTTA
34356039 TTTTAT TTTTAAT TTTTAT TTTTA- TTTTA- TTTTAT TTT
1 TTTTAT TTTT-AT TTTTAT TTTTAT TTTTAT TTTTAT TTT
34356077 ATTAAATGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.33
6 14 0.47
7 6 0.20
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:34356057 original size:13 final size:11
Alignment explanation
Indices: 34356036--34356079 Score: 63
Period size: 10 Copynumber: 3.9 Consensus size: 11
34356026 TTAGTATTCC
34356036 TTATTTTATTT
1 TTATTTTATTT
34356047 TTAATTTTTATTT
1 TT-A-TTTTATTT
34356060 TTATTTTA-TT
1 TTATTTTATTT
34356070 TTATTTTATT
1 TTATTTTATT
34356080 AAATGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.33
11 8 0.27
12 2 0.07
13 10 0.33
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:34356227 original size:59 final size:58
Alignment explanation
Indices: 34356102--34356262 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 58
34356092 TTAAATAAAA
* * * *
34356102 TTTC-AAAAAATATTTTTGAGAAAAATTTGAAAGA-ATCAACTTTCCTTGAAAATAAGT
1 TTTCAAAAAAATATTTTTGAGAAAAAATTGAAA-ATATCAATTTTTCTCGAAAATAAGT
* *
34356159 TTTCTAAAAAATATTTTTGAGAAAAAATTGAAAATATCAATTTTTCTCGAAATTAAAG-
1 TTTCAAAAAAATATTTTTGAGAAAAAATTGAAAATATCAATTTTTCTCGAAAAT-AAGT
* *
34356217 TTTCAAAAAAAAATATTTTGA-AAAAAAGTTGAAAGTATCAATTTTT
1 TTTCAAAAAAATAT-TTTTGAGAAAAAA-TTGAAAATATCAATTTTT
34356263 TTTGTACAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
57 5 0.05
58 60 0.66
59 26 0.29
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (58 bp):
TTTCAAAAAAATATTTTTGAGAAAAAATTGAAAATATCAATTTTTCTCGAAAATAAGT
Found at i:34356360 original size:18 final size:18
Alignment explanation
Indices: 34356320--34356364 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34356310 AAGCTGAATC
**
34356320 ATTTTTTTATTTTATTTC
1 ATTTTTTTATTTTATTGA
* *
34356338 TTTTTTTTATTTTCTTGA
1 ATTTTTTTATTTTATTGA
34356356 ATTTTTTTA
1 ATTTTTTTA
34356365 ATGTTAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (18 bp):
ATTTTTTTATTTTATTGA
Found at i:34367801 original size:41 final size:41
Alignment explanation
Indices: 34367736--34368102 Score: 388
Period size: 41 Copynumber: 8.9 Consensus size: 41
34367726 CGTCAATGAG
* * *
34367736 CATTTACTTTTCAAAAGTCATTGAGCCTCTAATTAGAGGAGC
1 CATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC
*
34367778 CTTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
1 CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
* * * * * *
34367819 AATTTACTTTCCAAAAGTTGTTGAGCTTCTGATTAGATGAGC
1 CATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC
* * * *
34367861 CTTTTATTTTTCCAAGTCGTTGAGCTTTTGATTAGAGGAGC
1 CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
* * * *
34367902 AATTTACTTTTCAAAAATCGTTGAGCCTCTTATTAGAGGAGC
1 CATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC
* *
34367944 CATTTATTTTTCAAAGTCATTGAGCCTCTGATTAGATGAGC
1 CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
34367985 CATTTA-TTTTCAAA---GTTGA--CTCTGATTAGAGGAGC
1 CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
* *
34368020 CATTTA-TTTTCAAAGTTGTTGAGCCTCTGATTAAAGGAGC
1 CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
** *
34368060 TTTGTTTATGTTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGG
1 --CATTTA--TTTT-TCAAAGTCGTTGAGCCTCTGATTAGAGG
34368103 GCTTTAATCA
Statistics
Matches: 271, Mismatches: 41, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
35 29 0.11
37 4 0.01
38 5 0.02
40 23 0.08
41 100 0.37
42 82 0.30
45 3 0.01
46 25 0.09
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (41 bp):
CATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC
Found at i:34367834 original size:83 final size:83
Alignment explanation
Indices: 34367733--34368102 Score: 434
Period size: 83 Copynumber: 4.5 Consensus size: 83
34367723 GATCGTCAAT
* * *
34367733 GAGC-ATTTACTTTTCAAAAGTCATTGAGCCTCTAATTAGAGGAGCCTTTTATTTTTCAAAGTCG
1 GAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
34367797 TTGAGCCTCTGATTAGAG
66 TTGAGCCTCTGATTAGAG
* * * * * *
34367815 GAGCAATTTACTTTCCAAAAGTTGTTGAGCTTCTGATTAGATGAGCCTTTTATTTTTCCAAGTCG
1 GAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
* *
34367880 TTGAGCTTTTGATTAGAG
66 TTGAGCCTCTGATTAGAG
* * *
34367898 GAGCAATTTACTTTTCAAAAATCGTTGAGCCTCTTATTAGAGGAGCCATTTATTTTTCAAAGTCA
1 GAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
*
34367963 TTGAGCCTCTGATTAGAT
66 TTGAGCCTCTGATTAGAG
* *
34367981 GAGCCATTTA-TTTTC-AAA---GTTGA--CTCTGATTAGAGGAGCCATTTA-TTTTCAAAGTTG
1 GAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
*
34368038 TTGAGCCTCTGATTAAAG
66 TTGAGCCTCTGATTAGAG
** * * *
34368056 GAGCTTTGTTTATGTTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGG
1 GAGC--AATTTA-CTTTTC-AAAAGTCGTTGAGCCTCTGATTAGAGG
34368103 GCTTTAATCA
Statistics
Matches: 246, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
75 30 0.12
76 21 0.09
77 4 0.02
78 5 0.02
79 5 0.02
81 6 0.02
82 9 0.04
83 149 0.61
84 5 0.02
86 12 0.05
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (83 bp):
GAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCG
TTGAGCCTCTGATTAGAG
Found at i:34368340 original size:3 final size:3
Alignment explanation
Indices: 34368318--34368486 Score: 58
Period size: 3 Copynumber: 56.3 Consensus size: 3
34368308 TTTGTAATTT
* *
34368318 TTA TT- TTA TT- TTA TTTA TTA TTA CTA TTA TTA TTTA TTA ATA -TA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* **
34368362 TAA TT- TT- TTA TTA TTA TTTA TCTA TTA ACA -TA TT- TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA -TTA
* *
34368406 TCTG TTA ATA -TA TT- TT- TTA TTA TTA TTA TTTA TCTA TTCA TCTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TT-A T-TA
*
34368450 TTA TTA TTTA TCTA TTA ATA TATA TT- TT- TTA TT- TTA T
1 TTA TTA -TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA T
34368487 CTTTTTTTCT
Statistics
Matches: 130, Mismatches: 13, Indels: 46
0.69 0.07 0.24
Matches are distributed among these distances:
2 25 0.19
3 68 0.52
4 36 0.28
5 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:34368345 original size:18 final size:17
Alignment explanation
Indices: 34368314--34368378 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
34368304 TTTATTTGTA
*
34368314 ATTT-TTATTTTATTTT
1 ATTTATTATTATATTTT
34368330 ATTTATTATTACTATTATT
1 ATTTATTATTA-TATT-TT
*
34368349 ATTTATTAATATATAATTT
1 ATTTATT-AT-TATATTTT
34368368 -TTTATTATTAT
1 ATTTATTATTAT
34368379 TTATCTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
16 7 0.17
17 7 0.17
18 10 0.24
19 11 0.26
20 5 0.12
21 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTATTATTATATTTT
Found at i:34368350 original size:24 final size:24
Alignment explanation
Indices: 34368319--34368433 Score: 77
Period size: 24 Copynumber: 5.0 Consensus size: 24
34368309 TTGTAATTTT
*
34368319 TATT-TTATTTTATTTATTATTAC
1 TATTATTATTTTATTTATTATTAA
*
34368342 TATTATTA-TTTA-TTAATATATAA
1 TATTATTATTTTATTTATTAT-TAA
*
34368365 T-TTTTTATTATTATTTATCTATTAA
1 TATTATTATT-TTATTTAT-TATTAA
* *
34368390 CA-TATT-TTATTATTTATCTGTTAA
1 TATTATTATT-TTATTTAT-TATTAA
34368414 TA-TATT-TTTTA-TTATTATTA
1 TATTATTATTTTATTTATTATTA
34368434 TTTATCTATT
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.05
22 15 0.20
23 15 0.20
24 30 0.39
25 9 0.12
26 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (24 bp):
TATTATTATTTTATTTATTATTAA
Found at i:34368406 original size:34 final size:31
Alignment explanation
Indices: 34368331--34368475 Score: 74
Period size: 32 Copynumber: 4.8 Consensus size: 31
34368321 TTTTATTTTA
* *
34368331 TTTATTA-TTACTATTATTATTTATTAATAT
1 TTTATTATTTATTATTATTATCTATTAATAT
* * * *
34368361 ATAATTTTTTATTATTATTTATCTATTAACA-
1 TTTATTATTTATTATTA-TTATCTATTAATAT
*
34368392 --TA-T-TTTATTA-T-TTATCTGTTAATAT
1 TTTATTATTTATTATTATTATCTATTAATAT
* * *
34368417 ATTTTTTA-TTATTATTATTTATCTATTCATCT
1 -TTTATTATTTATTATTA-TTATCTATTAATAT
* * *
34368449 ATTATTATTTATCTATTAATATATATT
1 TTTATTATTTAT-TATTATTATCTATT
34368476 TTTTATTTTA
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
24 11 0.13
26 1 0.01
27 7 0.08
28 2 0.02
29 8 0.09
30 5 0.06
31 13 0.15
32 33 0.39
33 5 0.06
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.62
Consensus pattern (31 bp):
TTTATTATTTATTATTATTATCTATTAATAT
Found at i:34368429 original size:56 final size:53
Alignment explanation
Indices: 34368315--34368486 Score: 201
Period size: 56 Copynumber: 3.2 Consensus size: 53
34368305 TTATTTGTAA
* * *
34368315 TTTTTATT-TTATTTTATTTATT-AT-TACTATTA-TTATTTATTAATATATAAT
1 TTTTTATTATTA-TTTATCTATTCATATATTATTATTTATCTATTAATATAT-AT
* * *
34368366 TTTTTATTATTATTTATCTATTAACATATTTTATTATTTATCTGTTAATATATTT
1 TTTTTATTATTATTTATCTATT--CATATATTATTATTTATCTATTAATATATAT
*
34368421 TTTATTATTATTATTTATCTATTCATCTATTATTATTTATCTATTAATATATAT
1 TTT-TTATTATTATTTATCTATTCATATATTATTATTTATCTATTAATATATAT
34368475 TTTTTATT-TTAT
1 TTTTTATTATTAT
34368487 CTTTTTTTCT
Statistics
Matches: 104, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
51 17 0.16
52 7 0.07
53 5 0.05
54 32 0.31
55 10 0.10
56 33 0.32
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (53 bp):
TTTTTATTATTATTTATCTATTCATATATTATTATTTATCTATTAATATATAT
Found at i:34368457 original size:14 final size:13
Alignment explanation
Indices: 34368332--34368488 Score: 60
Period size: 14 Copynumber: 11.9 Consensus size: 13
34368322 TTTATTTTAT
34368332 TTATTATTA-CTA
1 TTATTATTATCTA
34368344 TTATTATTTAT-TAA
1 TTATTA-TTATCT-A
* * *
34368358 TATATAATTTTTTA
1 T-TATTATTATCTA
34368372 TTATTATTTATCTA
1 TTATTA-TTATCTA
**
34368386 TTAACA-TAT-T-
1 TTATTATTATCTA
*
34368396 TTATTATTTATCTG
1 TTATTA-TTATCTA
* * *
34368410 TTAATA-TATTTT
1 TTATTATTATCTA
34368422 TTATTATTAT-TA
1 TTATTATTATCTA
34368434 TTTATCTATTCATCTA
1 -TTAT-TATT-ATCTA
34368450 TTATTATTTATCTA
1 TTATTA-TTATCTA
* * *
34368464 TTAATATATATTTT
1 TTATTAT-TATCTA
34368478 TTATT-TTATCT
1 TTATTATTATCT
34368489 TTTTTTCTTG
Statistics
Matches: 109, Mismatches: 19, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
10 4 0.04
11 1 0.01
12 26 0.24
13 18 0.17
14 45 0.41
15 13 0.12
16 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (13 bp):
TTATTATTATCTA
Found at i:34368960 original size:20 final size:20
Alignment explanation
Indices: 34368926--34368966 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
34368916 GAGATTGTTT
34368926 AGAGAGAGAAGGAGAGAAAA
1 AGAGAGAGAAGGAGAGAAAA
34368946 AGAG-GAGAAGAGAGAGAAAA
1 AGAGAGAGAAG-GAGAGAAAA
34368966 A
1 A
34368967 AAAATTATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (20 bp):
AGAGAGAGAAGGAGAGAAAA
Found at i:34369310 original size:19 final size:18
Alignment explanation
Indices: 34369286--34369328 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
34369276 TATATTAAAA
34369286 TTATTTAGTATTTCTTATT
1 TTATTTAGTATTT-TTATT
**
34369305 TTATTTTTTATTTTTATT
1 TTATTTAGTATTTTTATT
34369323 TTATTT
1 TTATTT
34369329 TTTAAATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (18 bp):
TTATTTAGTATTTTTATT
Found at i:34369323 original size:18 final size:19
Alignment explanation
Indices: 34369294--34369332 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
34369284 AATTATTTAG
34369294 TATTTCTTATTTTATTTTT
1 TATTTCTTATTTTATTTTT
34369313 TATTT-TTATTTTATTTTT
1 TATTTCTTATTTTATTTTT
34369331 TA
1 TA
34369333 AATGATTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TATTTCTTATTTTATTTTT
Found at i:34369408 original size:58 final size:58
Alignment explanation
Indices: 34369346--34369579 Score: 247
Period size: 58 Copynumber: 3.9 Consensus size: 58
34369336 GATTTTCTTT
* * *
34369346 AAATAAAATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGA
1 AAATAAATTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
* * *
34369404 AAATAAGTTTTCTAAAAAATATTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTGA
1 AAATAAATTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
* * * *
34369462 AAAT-AATTTTCTAAAAAAAAAGTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTT-TTTCG
1 AAATAAATTTTC---AAAAAAA----TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-G
34369525 A
58 A
* * *
34369526 AATTAAAGTTTCAGAAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTT
1 AAATAAATTTTCA-AAAAAATAT-TTTTGAGAAAAAGTTGAAAGTATCAATTTT
34369580 TTTTGTACAC
Statistics
Matches: 146, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
57 6 0.04
58 56 0.38
59 1 0.01
60 34 0.23
62 1 0.01
63 8 0.05
64 34 0.23
65 6 0.04
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (58 bp):
AAATAAATTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
Found at i:34369544 original size:64 final size:59
Alignment explanation
Indices: 34369358--34369582 Score: 215
Period size: 64 Copynumber: 3.7 Consensus size: 59
34369348 ATAAAATTTC
* * *
34369358 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTCT--A
1 AAAAAAAT-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAG-TTTCTAAA
* * * *
34369418 AAAAATA-TTTTTGAGAAAAAGTTGAAAATATCAATTTTCCTTGAAAATAATTTTCTAAA
1 AAAAAAATTTTTTGAGAAAAAGTTGAAAGTATCAATTTT-TTTGAAAATAAGTTTCTAAA
* * * * *
34369477 AAAAAAGTTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTC-AGA
1 AAAAAA----ATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTT-GAAAAT-AAGTTTCTAAA
*
34369541 AAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTT
1 AAAAAAATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTT
34369583 TGTACACAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
57 5 0.04
58 40 0.29
59 6 0.04
60 38 0.28
63 2 0.01
64 41 0.30
65 6 0.04
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (59 bp):
AAAAAAATTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAGTTTCTAAA
Found at i:34370740 original size:26 final size:26
Alignment explanation
Indices: 34370711--34370762 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34370701 TCTGCTAGAT
34370711 TGCATTGCCAATGCCAGCTAAGGTGG
1 TGCATTGCCAATGCCAGCTAAGGTGG
34370737 TGCATTGCCAATGCCAGCTAAGGTGG
1 TGCATTGCCAATGCCAGCTAAGGTGG
34370763 AACTCAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (26 bp):
TGCATTGCCAATGCCAGCTAAGGTGG
Found at i:34384800 original size:40 final size:40
Alignment explanation
Indices: 34384735--34384814 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
34384725 CATAAAGTTC
34384735 TAGTTAATCCAAAGAACGAACAGATTTTTACC-GCTTTCTT
1 TAGTTAATCCAAAGAACGAACAGATTTTTACCAG-TTTCTT
*
34384775 TAGTTAATCCAAAGATA-GAATAGATTTTTACCAGTTTCTT
1 TAGTTAATCCAAAGA-ACGAACAGATTTTTACCAGTTTCTT
34384815 GGACGCGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 35 0.95
41 2 0.05
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (40 bp):
TAGTTAATCCAAAGAACGAACAGATTTTTACCAGTTTCTT
Found at i:34393011 original size:27 final size:27
Alignment explanation
Indices: 34392978--34393041 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
34392968 TGATCAATAA
34392978 AAAATTATTTATTGTTTAATAAAAAAT
1 AAAATTATTTATTGTTTAATAAAAAAT
34393005 AAAATTATTTATTGTTTAATAAAAAAT
1 AAAATTATTTATTGTTTAATAAAAAAT
34393032 AAAATTATTT
1 AAAATTATTT
34393042 TTTAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
AAAATTATTTATTGTTTAATAAAAAAT
Found at i:34393059 original size:20 final size:21
Alignment explanation
Indices: 34392974--34393078 Score: 65
Period size: 22 Copynumber: 4.7 Consensus size: 21
34392964 TGATTGATCA
34392974 ATAAAAAATTATTTATTGTTT
1 ATAAAAAATTATTTATTGTTT
34392995 AATAAAAAATAAAATTATTTATTGTTT
1 -AT----AA-AAAATTATTTATTGTTT
* *
34393022 AATAAAAAATAAAATTATT-TTT
1 -ATAAAAAAT-TATTTATTGTTT
34393044 -TAAAAAATTATCTTA-TGAATTT
1 ATAAAAAATTAT-TTATTG--TTT
34393066 A-AAAAAATTATTT
1 ATAAAAAATTATTT
34393079 GTCAACACTT
Statistics
Matches: 68, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
19 2 0.03
20 11 0.16
21 2 0.03
22 23 0.34
23 8 0.12
26 2 0.03
27 20 0.29
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (21 bp):
ATAAAAAATTATTTATTGTTT
Found at i:34393148 original size:31 final size:31
Alignment explanation
Indices: 34393110--34393293 Score: 118
Period size: 31 Copynumber: 5.8 Consensus size: 31
34393100 TTTATTTATG
34393110 AATAATATATTATTAATATAATATATTAATA
1 AATAATATATTATTAATATAATATATTAATA
*
34393141 AATAATATATTAATAA-AT-AT-TATT-ATA
1 AATAATATATTATTAATATAATATATTAATA
* *
34393168 AATAA-ATATTATAATAATATATTAATACTAATA
1 AATAATATATTAT--TAATATAAT-ATATTAATA
*
34393201 AATATTATTAATTTAATTAATA-AATATATTAATA
1 AATAATA-T-A-TT-ATTAATATAATATATTAATA
* *
34393235 GATAATAT-TATATGAATA-AATA-ATATAATA
1 AATAATATAT-TATTAATATAATATAT-TAATA
*
34393265 TCAATATTATA-TATTAATAAATAATATAT
1 --AATAATATATTATTAAT--ATAATATAT
34393294 AAAATAAAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 38
0.70 0.08 0.22
Matches are distributed among these distances:
26 6 0.05
27 8 0.07
28 7 0.06
29 6 0.05
30 19 0.16
31 22 0.18
32 9 0.08
33 9 0.08
34 18 0.15
35 5 0.04
36 6 0.05
37 2 0.02
38 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
AATAATATATTATTAATATAATATATTAATA
Found at i:34393217 original size:18 final size:17
Alignment explanation
Indices: 34393110--34393293 Score: 70
Period size: 15 Copynumber: 11.6 Consensus size: 17
34393100 TTTATTTATG
* *
34393110 AATAATATATTATTAAT
1 AATAATATATTAATACT
34393127 -ATAATATATTAATA--
1 AATAATATATTAATACT
34393141 AATAATATATTAATA--
1 AATAATATATTAATACT
34393156 AAT-AT-TATT-ATA--
1 AATAATATATTAATACT
34393168 AATAA-ATA-T--TA-T
1 AATAATATATTAATACT
34393180 AATAATATATTAATACT
1 AATAATATATTAATACT
*
34393197 AATAAATATTATTAATTTAATT
1 AAT-AATA-TATTAA--T-ACT
*
34393219 AATAAATATATTAATAGAT
1 AAT-AATATATTAATA-CT
* *
34393238 AATATTATATGAATA--
1 AATAATATATTAATACT
*
34393253 AATAATATAAT-AT-C-
1 AATAATATATTAATACT
34393267 AATATTATATATTAATA--
1 AATA--ATATATTAATACT
34393284 AATAATATAT
1 AATAATATAT
34393294 AAAATAAAAA
Statistics
Matches: 138, Mismatches: 9, Indels: 42
0.73 0.05 0.22
Matches are distributed among these distances:
11 2 0.01
12 12 0.09
13 10 0.07
14 9 0.07
15 31 0.22
16 21 0.15
17 10 0.07
18 15 0.11
19 11 0.08
21 7 0.05
22 10 0.07
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
AATAATATATTAATACT
Found at i:34393294 original size:66 final size:63
Alignment explanation
Indices: 34393116--34393294 Score: 164
Period size: 66 Copynumber: 2.9 Consensus size: 63
34393106 TATGAATAAT
* * *
34393116 ATATTAT--TAATATAAT-ATATTAATAAATA--ATATATTAATAAATATTAT-TATAAATAA
1 ATATTATAATAATATAATAATACTAATAAATATTATATATTAATAAATAATATATATAAAGAA
* *
34393173 ATATTATAATAATATATTAATACTAATAAATATTAT-TAATTTAATTAATAA-ATATATTAATAG
1 ATATTATAATAATATAATAATACTAATAAATATTATAT-A-TTAATAAATAATATATA-TAA-AG
34393236 ATA
62 A-A
34393239 ATATTAT-ATGAATA-AATAATA-TAATATCAATATTATATATTAATAAATAATATATA
1 ATATTATAAT-AATATAATAATACTAATA--AATATTATATATTAATAAATAATATATA
34393295 AAATAAAAAA
Statistics
Matches: 99, Mismatches: 7, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
57 7 0.07
59 8 0.08
60 12 0.12
61 1 0.01
62 5 0.05
63 11 0.11
64 8 0.08
65 20 0.20
66 26 0.26
67 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (63 bp):
ATATTATAATAATATAATAATACTAATAAATATTATATATTAATAAATAATATATATAAAGAA
Found at i:34393296 original size:42 final size:40
Alignment explanation
Indices: 34393111--34393296 Score: 89
Period size: 39 Copynumber: 4.8 Consensus size: 40
34393101 TTATTTATGA
34393111 ATAAT-ATATTATTAATATAAT-ATATTAATAAATAATAT-AT
1 ATAATAATA-TATTAATATAATAATA-T-ATAAATAATATAAT
*
34393151 -TAATAA-ATATTATTATAAATAA-ATATTATAATAATAT-AT
1 ATAATAATATATTAATAT-AATAATATA-TA-AATAATATAAT
* * * *
34393190 -TAATACTA-ATAAATATTATTAAT-T-TAATTAATA-AAT
1 ATAATAATATATTAATA-TAATAATATATAAATAATATAAT
* * *
34393226 ATATTAATAGA-TAATATTAT-ATGA-ATAAATAATATAAT
1 ATAATAATATATTAATATAATAAT-ATATAAATAATATAAT
34393264 ATCAATATTATATATTAATA-AATAATATATAAA
1 AT-AATA--ATATATTAATATAATAATATATAAA
34393297 ATAAAAAAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 40
0.67 0.09 0.24
Matches are distributed among these distances:
35 2 0.02
36 10 0.09
37 21 0.19
38 17 0.15
39 37 0.34
40 4 0.04
41 7 0.06
42 12 0.11
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (40 bp):
ATAATAATATATTAATATAATAATATATAAATAATATAAT
Found at i:34393399 original size:15 final size:15
Alignment explanation
Indices: 34393379--34393419 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
34393369 TGTAATTATT
*
34393379 TTTTAATATTAATAA
1 TTTTAATATAAATAA
34393394 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
34393410 TTTCAATATA
1 TTTTAATATA
34393420 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:34393408 original size:16 final size:16
Alignment explanation
Indices: 34393379--34393444 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
34393369 TGTAATTATT
*
34393379 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
34393394 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
34393410 -TTT--CAAT--AT-A
1 TTTTAATAATAAATAA
34393420 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
34393436 TTCTTAATA
1 TT-TTAATA
34393445 TTTTAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.03
11 5 0.12
13 6 0.15
15 12 0.30
16 10 0.25
17 6 0.15
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:34393417 original size:25 final size:26
Alignment explanation
Indices: 34393389--34393454 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
34393379 TTTTAATATT
34393389 AATAATTTTAATAATAAATAATT-TC
1 AATAATTTTAATAATAAATAATTCTC
*
34393414 AATATATTTTAATAATAAATAATTCTT
1 AATA-ATTTTAATAATAAATAATTCTC
34393441 AAT-ATTTTAATAAT
1 AATAATTTTAATAAT
34393455 TATATAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
25 15 0.39
26 19 0.50
27 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTCTC
Found at i:34393422 original size:26 final size:25
Alignment explanation
Indices: 34393389--34393454 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
34393379 TTTTAATATT
34393389 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAA-TTC
34393414 AATATATTTTAATAATAAATAATTC
1 AATATATTTTAATAATAAATAATTC
*
34393439 -TTAATATTTTAATAAT
1 AAT-ATATTTTAATAAT
34393455 TATATAAATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
24 1 0.03
25 20 0.53
26 17 0.45
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATATTTTAATAATAAATAATTC
Found at i:34393605 original size:13 final size:14
Alignment explanation
Indices: 34393575--34393607 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34393565 AAAATATAAA
34393575 TATTTTTTAAAACT
1 TATTTTTTAAAACT
*
34393589 TATTTTTTAATAC-
1 TATTTTTTAAAACT
34393602 TATTTT
1 TATTTT
34393608 CAGCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTTTTAAAACT
Found at i:34394017 original size:7 final size:7
Alignment explanation
Indices: 34393993--34394026 Score: 50
Period size: 7 Copynumber: 4.6 Consensus size: 7
34393983 AGATGCAAAA
34393993 AAAATTT
1 AAAATTT
34394000 ATAAATATT
1 A-AAAT-TT
34394009 AAAATTT
1 AAAATTT
34394016 AAAATTT
1 AAAATTT
34394023 AAAA
1 AAAA
34394027 ATATTTAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.56
8 8 0.32
9 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:34394305 original size:21 final size:21
Alignment explanation
Indices: 34394281--34394331 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
34394271 CCTAAAATTA
34394281 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
34394302 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
34394323 AT-AAATATT
1 ATAAAATATT
34394332 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:34394369 original size:25 final size:24
Alignment explanation
Indices: 34394321--34394370 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
34394311 TATTTTTTAA
* * *
34394321 ATATAAATATTTAAATATATAATT
1 ATATAAATATATAAATAAAAAATT
34394345 ATATAAAATATATAAATAAAAAATT
1 ATAT-AAATATATAAATAAAAAATT
34394370 A
1 A
34394371 ACTTAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATAAATATATAAATAAAAAATT
Found at i:34416048 original size:4 final size:4
Alignment explanation
Indices: 34416039--34416066 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34416029 AAGAAGGATT
34416039 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
34416067 ACTGGGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:34416646 original size:2 final size:2
Alignment explanation
Indices: 34416639--34416672 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
34416629 TTCGTGAGTG
*
34416639 TA TA TA TA TA TA TA TA TG 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
34416673 GATAGATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34419112 original size:2 final size:2
Alignment explanation
Indices: 34419105--34419147 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
34419095 AATAAAGGAA
* *
34419105 AT AT AT AT AC AT GAT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34419148 GTCAACATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:34434907 original size:1 final size:1
Alignment explanation
Indices: 34434901--34434935 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
34434891 TTAAAATTTA
* *
34434901 TTTTTTTGTTTTTTGTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34434936 GCAACCAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:34444497 original size:24 final size:25
Alignment explanation
Indices: 34444470--34444516 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
34444460 TAACTTAGTT
34444470 ATGA-TACAATAA-ATAATTATTTAA
1 ATGATTACAATAATATAA-TATTTAA
*
34444494 ATGATTACATTAATATAATATTT
1 ATGATTACAATAATATAATATTT
34444517 GATTATGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
ATGATTACAATAATATAATATTTAA
Done.