Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 108 of 163
Found at i:34756934 original size:16 final size:16
Alignment explanation
Indices: 34756915--34756945 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34756905 TTGAATTTTT
34756915 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
34756931 TTTCAAATTTATATG
1 TTTCAAATATATATG
34756946 CTCTAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:34757602 original size:74 final size:71
Alignment explanation
Indices: 34757519--34757705 Score: 200
Period size: 71 Copynumber: 2.6 Consensus size: 71
34757509 TATTTACCAT
*
34757519 TATTAAATAA-AAGATAAT-ATTCAT-GTATTTAATTTTTATAATAAACTTCTCTCTTAACAAAT
1 TATTTAATAATAA-ATAATAATTCATAGTATTTAA--TTTATAAT--ACTTCTCTC-TAACAAAT
34757581 ATTTGGATTAAA
60 ATTTGGATTAAA
** * * *
34757593 TATTTAATAATAAATTTTAATTGATATTTTTTAATTTATAATACTTCTCTCTAACAAATATTTGG
1 TATTTAATAATAAATAATAATTCATAGTATTTAATTTATAATACTTCTCTCTAACAAATATTTGG
34757658 ATTAAA
66 ATTAAA
** * * *
34757664 TATTTAATAATAAATTTTAATTGATATTTTTTAATTTATAAT
1 TATTTAATAATAAATAATAATTCATAGTATTTAATTTATAAT
34757706 GTTAATTGAA
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
71 62 0.60
72 9 0.09
74 20 0.19
75 7 0.07
76 6 0.06
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (71 bp):
TATTTAATAATAAATAATAATTCATAGTATTTAATTTATAATACTTCTCTCTAACAAATATTTGG
ATTAAA
Found at i:34757662 original size:71 final size:73
Alignment explanation
Indices: 34757553--34757705 Score: 283
Period size: 71 Copynumber: 2.1 Consensus size: 73
34757543 GTATTTAATT
34757553 TTTATAATAAACTTCTCTCTTAACAAATATTTGGATTAAATATTTAATAATAAATTTTAATTGAT
1 TTTATAAT-AACTTCTCTCTTAACAAATATTTGGATTAAATATTTAATAATAAATTTTAATTGAT
34757618 ATTTTTTAA
65 ATTTTTTAA
34757627 TTTATAAT-ACTTCTCTC-TAACAAATATTTGGATTAAATATTTAATAATAAATTTTAATTGATA
1 TTTATAATAACTTCTCTCTTAACAAATATTTGGATTAAATATTTAATAATAAATTTTAATTGATA
34757690 TTTTTTAA
66 TTTTTTAA
34757698 TTTATAAT
1 TTTATAAT
34757706 GTTAATTGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
71 62 0.78
72 9 0.11
74 8 0.10
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.50
Consensus pattern (73 bp):
TTTATAATAACTTCTCTCTTAACAAATATTTGGATTAAATATTTAATAATAAATTTTAATTGATA
TTTTTTAA
Found at i:34758267 original size:5 final size:5
Alignment explanation
Indices: 34758257--34758284 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
34758247 TTTTCCTCTT
34758257 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
34758285 AAGAGTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:34759820 original size:10 final size:10
Alignment explanation
Indices: 34759802--34759834 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
34759792 GTATTAATAA
34759802 TTAAAAAAAC
1 TTAAAAAAAC
34759812 TTTAAAAAAA-
1 -TTAAAAAAAC
34759822 TTAAAAAAAC
1 TTAAAAAAAC
34759832 TTA
1 TTA
34759835 GTTCAACCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 3 0.14
11 9 0.43
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (10 bp):
TTAAAAAAAC
Found at i:34763439 original size:12 final size:12
Alignment explanation
Indices: 34763418--34763448 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
34763408 ATGAAGAATT
34763418 ATAA-TTTCTTC
1 ATAATTTTCTTC
34763429 ATAATTTTCTTC
1 ATAATTTTCTTC
34763441 ATAATTTT
1 ATAATTTT
34763449 TTAATAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (12 bp):
ATAATTTTCTTC
Found at i:34765376 original size:11 final size:11
Alignment explanation
Indices: 34765362--34765392 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
34765352 TAAAAAAAGT
34765362 ATTTTAAAAAA
1 ATTTTAAAAAA
*
34765373 ATTTAAAAAAA
1 ATTTTAAAAAA
34765384 ATTTTAAAA
1 ATTTTAAAA
34765393 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:34765380 original size:23 final size:23
Alignment explanation
Indices: 34765346--34765392 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
34765336 AAATTAAAAT
34765346 AAAAATTAAAAAAAGTATTTTAA
1 AAAAATTAAAAAAAGTATTTTAA
34765369 AAAAATTTAAAAAAA--ATTTTAA
1 AAAAA-TTAAAAAAAGTATTTTAA
34765391 AA
1 AA
34765393 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.39
23 5 0.22
24 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAATTAAAAAAAGTATTTTAA
Found at i:34766927 original size:25 final size:25
Alignment explanation
Indices: 34766886--34766933 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
34766876 AAATCTATAT
*
34766886 AATTAAAATATACTAAATATAAAAG
1 AATTAAAATATACTAAAAATAAAAG
*
34766911 AATTAAAAATTTA-TAAAAATAAA
1 AATT-AAAATATACTAAAAATAAA
34766934 TATATAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AATTAAAATATACTAAAAATAAAAG
Found at i:34767394 original size:335 final size:335
Alignment explanation
Indices: 34767039--34767696 Score: 1307
Period size: 335 Copynumber: 2.0 Consensus size: 335
34767029 TTTTGTAACA
34767039 AAAAAAAAAAAAAAAAACCCCACTCCTTTTTTTTCCCTTTTTTTTTTTTTGAAAAATTATTGTGG
1 AAAAAAAAAAAAAAAAACCCCACTCCTTTTTTTTCCCTTTTTTTTTTTTTGAAAAATTATTGTGG
34767104 CTTTCAGCCTATTTTACATGCAACTAAAATTTCATATAAAATTATTTTTTATAATATTTGACCGA
66 CTTTCAGCCTATTTTACATGCAACTAAAATTTCATATAAAATTATTTTTTATAATATTTGACCGA
34767169 GTACCAATATTTTAAAAATTGGATTAGTGATTAAATCAATTAAATAACTAATTTTTAGTCTAATT
131 GTACCAATATTTTAAAAATTGGATTAGTGATTAAATCAATTAAATAACTAATTTTTAGTCTAATT
34767234 AGTTTAATTGTTGGCCTTATAAATCAGTTTAATTGTTATTTTTTTTCCTAGTTTTCGTTTTTTAA
196 AGTTTAATTGTTGGCCTTATAAATCAGTTTAATTGTTATTTTTTTTCCTAGTTTTCGTTTTTTAA
34767299 ATTTTAAATGATTTGCTTAGAGACGAATTCAATCTTTTTTATAAATTAATGTTTCGATTGACTCC
261 ATTTTAAATGATTTGCTTAGAGACGAATTCAATCTTTTTTATAAATTAATGTTTCGATTGACTCC
34767364 CTTTTTTTAC
326 CTTTTTTTAC
*
34767374 AAAAAAAAAAAAAAAAACCCCCCTCCTTTTTTTTCCCTTTTTTTTTTTTTGAAAAATTATTGTGG
1 AAAAAAAAAAAAAAAAACCCCACTCCTTTTTTTTCCCTTTTTTTTTTTTTGAAAAATTATTGTGG
34767439 CTTTCAGCCTATTTTACATGCAACTAAAATTTCATATAAAATTATTTTTTATAATATTTGACCGA
66 CTTTCAGCCTATTTTACATGCAACTAAAATTTCATATAAAATTATTTTTTATAATATTTGACCGA
34767504 GTACCAATATTTTAAAAATTGGATTAGTGATTAAATCAATTAAATAACTAATTTTTAGTCTAATT
131 GTACCAATATTTTAAAAATTGGATTAGTGATTAAATCAATTAAATAACTAATTTTTAGTCTAATT
34767569 AGTTTAATTGTTGGCCTTATAAATCAGTTTAATTGTTATTTTTTTTCCTAGTTTTCGTTTTTTAA
196 AGTTTAATTGTTGGCCTTATAAATCAGTTTAATTGTTATTTTTTTTCCTAGTTTTCGTTTTTTAA
34767634 ATTTTAAATGATTTGCTTAGAGACGAATTCAATCTTTTTTATAAATTAATGTTTCGATTGACT
261 ATTTTAAATGATTTGCTTAGAGACGAATTCAATCTTTTTTATAAATTAATGTTTCGATTGACT
34767697 TTTGGTCGAA
Statistics
Matches: 322, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
335 322 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (335 bp):
AAAAAAAAAAAAAAAAACCCCACTCCTTTTTTTTCCCTTTTTTTTTTTTTGAAAAATTATTGTGG
CTTTCAGCCTATTTTACATGCAACTAAAATTTCATATAAAATTATTTTTTATAATATTTGACCGA
GTACCAATATTTTAAAAATTGGATTAGTGATTAAATCAATTAAATAACTAATTTTTAGTCTAATT
AGTTTAATTGTTGGCCTTATAAATCAGTTTAATTGTTATTTTTTTTCCTAGTTTTCGTTTTTTAA
ATTTTAAATGATTTGCTTAGAGACGAATTCAATCTTTTTTATAAATTAATGTTTCGATTGACTCC
CTTTTTTTAC
Found at i:34767919 original size:20 final size:20
Alignment explanation
Indices: 34767846--34767921 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 20
34767836 AATATGAAAT
*
34767846 ATATTAATTGAATTGTTAAA
1 ATATTAATTAAATTGTTAAA
**
34767866 ATATT-ATGTCAAATAAAATATAAA
1 ATATTAAT-T-AAAT--TGT-TAAA
34767890 ATATAATAATTAAATTGTTAAA
1 ATAT--TAATTAAATTGTTAAA
34767912 ATATTAATTA
1 ATATTAATTA
34767922 TATAATGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
19 2 0.05
20 12 0.28
21 3 0.07
22 8 0.19
23 2 0.05
24 8 0.19
25 4 0.09
26 2 0.05
27 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (20 bp):
ATATTAATTAAATTGTTAAA
Found at i:34772410 original size:11 final size:11
Alignment explanation
Indices: 34772381--34772414 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
34772371 TATTTGTCTC
*
34772381 TTGTTTTCTGT
1 TTGTTTTCTTT
34772392 TT-TTTTCTTT
1 TTGTTTTCTTT
34772402 TTGTTTTCTTT
1 TTGTTTTCTTT
34772413 TT
1 TT
34772415 ACAGAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (11 bp):
TTGTTTTCTTT
Found at i:34774103 original size:12 final size:13
Alignment explanation
Indices: 34774078--34774107 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
34774068 AGATATCAGC
34774078 CTGATATAAAGAA
1 CTGATATAAAGAA
34774091 CTGATAT-AAGAA
1 CTGATATAAAGAA
34774103 CTGAT
1 CTGAT
34774108 CCTTGAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.27
Consensus pattern (13 bp):
CTGATATAAAGAA
Found at i:34781117 original size:16 final size:17
Alignment explanation
Indices: 34781086--34781119 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
34781076 TTCAGATTGC
34781086 TATTTAATCATTAAAAAA
1 TATTTAAT-ATTAAAAAA
34781104 TATTTAAT-TTAAAAAA
1 TATTTAATATTAAAAAA
34781120 AAATGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TATTTAATATTAAAAAA
Found at i:34785248 original size:20 final size:21
Alignment explanation
Indices: 34785223--34785267 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
34785213 ATTCGTTAGA
* *
34785223 TTTTTTTAAATGTTTATA-AT
1 TTTTTTTAAATATATATATAT
34785243 TTTTTTTAAATATATATATAT
1 TTTTTTTAAATATATATATAT
34785264 TTTT
1 TTTT
34785268 GGATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTTTAAATATATATATAT
Found at i:34785294 original size:20 final size:20
Alignment explanation
Indices: 34785271--34785316 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
34785261 TATTTTTGGA
34785271 TTTTTATAAA-TATTTTAAAT
1 TTTTTA-AAATTATTTTAAAT
*
34785291 TTTTTAAAATTATTTTGAAT
1 TTTTTAAAATTATTTTAAAT
34785311 TATTTT
1 T-TTTT
34785317 GTAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAAAATTATTTTAAAT
Found at i:34785384 original size:121 final size:122
Alignment explanation
Indices: 34785244--34785486 Score: 479
Period size: 121 Copynumber: 2.0 Consensus size: 122
34785234 GTTTATAATT
34785244 TTTTTTAAATATATATATATTTTTGGATTTTTATAAATATTTTAAATTTTTTAAAATTATTTTGA
1 TTTTTTAAATATATATATATTTTTGGATTTTTATAAATATTTTAAATTTTTTAAAATTATTTTGA
34785309 ATTATTTTGTAATTTTTTTAGAGAGAGACTAATTTGTTCATTTTCAAAATTAACATG
66 ATTATTTTGTAATTTTTTTAGAGAGAGACTAATTTGTTCATTTTCAAAATTAACATG
34785366 TTTTTTAAAT-TATATATATTTTTGGATTTTTATAAATATTTTAAATTTTTTAAAATTATTTTGA
1 TTTTTTAAATATATATATATTTTTGGATTTTTATAAATATTTTAAATTTTTTAAAATTATTTTGA
34785430 ATTATTTTGTAATTTTTTTAGAGAGAGACTAATTTGTTCATTTTCAAAATTAACATG
66 ATTATTTTGTAATTTTTTTAGAGAGAGACTAATTTGTTCATTTTCAAAATTAACATG
34785487 ACCAAATGGG
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 111 0.92
122 10 0.08
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (122 bp):
TTTTTTAAATATATATATATTTTTGGATTTTTATAAATATTTTAAATTTTTTAAAATTATTTTGA
ATTATTTTGTAATTTTTTTAGAGAGAGACTAATTTGTTCATTTTCAAAATTAACATG
Found at i:34785415 original size:20 final size:20
Alignment explanation
Indices: 34785392--34785437 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
34785382 TATTTTTGGA
34785392 TTTTTATAAA-TATTTTAAAT
1 TTTTTA-AAATTATTTTAAAT
*
34785412 TTTTTAAAATTATTTTGAAT
1 TTTTTAAAATTATTTTAAAT
34785432 TATTTT
1 T-TTTT
34785438 GTAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTAAAATTATTTTAAAT
Found at i:34789315 original size:9 final size:9
Alignment explanation
Indices: 34789301--34789331 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34789291 GTAGTGATTC
34789301 AATTCGGTT
1 AATTCGGTT
*
34789310 AATTCGGGT
1 AATTCGGTT
34789319 AATTCGGTT
1 AATTCGGTT
34789328 AATT
1 AATT
34789332 TTTAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:34795124 original size:6 final size:6
Alignment explanation
Indices: 34795113--34795151 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
34795103 CCTTCTTCGC
* *
34795113 CCCTTT CCCTTT CCCCTT CCCCTT CCCTTT CCCTTT CCC
1 CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCCTTT CCC
34795152 CTTGGTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
CCCTTT
Found at i:34795140 original size:18 final size:18
Alignment explanation
Indices: 34795112--34795154 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
34795102 CCCTTCTTCG
34795112 CCCCTTTCCCTTTCCCCTT
1 CCCC-TTCCCTTTCCCCTT
*
34795131 CCCCTTCCCTTTCCCTTT
1 CCCCTTCCCTTTCCCCTT
34795149 CCCCTT
1 CCCCTT
34795155 GGTTTGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (18 bp):
CCCCTTCCCTTTCCCCTT
Found at i:34798289 original size:18 final size:17
Alignment explanation
Indices: 34798260--34798318 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
34798250 AGTATTATAT
*
34798260 ATTATA-ATTTTAGTAA
1 ATTATATATTTTATTAA
34798276 ATTCATATATTTTATTAA
1 ATT-ATATATTTTATTAA
34798294 ATTATATATTTTTATTAA
1 ATTATATA-TTTTATTAA
34798312 ATTATAT
1 ATTATAT
34798319 TTAATAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 3 0.08
17 8 0.21
18 28 0.72
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATATATTTTATTAA
Found at i:34798508 original size:21 final size:21
Alignment explanation
Indices: 34798482--34798536 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
34798472 ACCGCTGTTT
*
34798482 CTAATCTCACTGCTACAGTAAC
1 CTAATCTCACCGCTACAGT-AC
34798504 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
34798524 CTAATCTCACCGC
1 CTAATCTCACCGC
34798537 CACCACTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 3 0.10
21 27 0.87
22 1 0.03
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:34802486 original size:3 final size:3
Alignment explanation
Indices: 34802478--34802520 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
34802468 NNNNTGATAT
34802478 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
34802521 CATAAAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34808701 original size:3 final size:3
Alignment explanation
Indices: 34808693--34808783 Score: 114
Period size: 3 Copynumber: 29.7 Consensus size: 3
34808683 TTAAAAGAGA
**
34808693 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AACGT GGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT
34808740 GAGA- AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 -A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34808784 CGTGGTTCAA
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.04
3 74 0.95
5 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34812298 original size:20 final size:20
Alignment explanation
Indices: 34812270--34812307 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34812260 GTGGGATCGC
*
34812270 TTACTCTTAATTTTTAAAGG
1 TTACACTTAATTTTTAAAGG
34812290 TTACACTTAATTTTTAAA
1 TTACACTTAATTTTTAAA
34812308 AATTAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
TTACACTTAATTTTTAAAGG
Found at i:34813471 original size:14 final size:14
Alignment explanation
Indices: 34813443--34813480 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34813433 TGCCAAAAAT
34813443 AATAAAAG-A-AAG
1 AATAAAAGAACAAG
*
34813455 AATAAAATAACAAG
1 AATAAAAGAACAAG
34813469 AATAAAAGAACA
1 AATAAAAGAACA
34813481 CAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 7 0.32
13 1 0.05
14 14 0.64
ACGTcount: A:0.74, C:0.05, G:0.11, T:0.11
Consensus pattern (14 bp):
AATAAAAGAACAAG
Found at i:34814983 original size:21 final size:21
Alignment explanation
Indices: 34814958--34815004 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
34814948 GTGGACTTGG
*
34814958 ATTTTTATTATT-TGTTT-TTT
1 ATTTTTA-TATTCTGTTTCCTT
34814978 ATTTTTATATTCTGTTTCCTT
1 ATTTTTATATTCTGTTTCCTT
34814999 ATTTTT
1 ATTTTT
34815005 GGTTTTGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.15, C:0.06, G:0.04, T:0.74
Consensus pattern (21 bp):
ATTTTTATATTCTGTTTCCTT
Found at i:34815665 original size:20 final size:21
Alignment explanation
Indices: 34815632--34815672 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
34815622 TCAACCCTCA
34815632 AAACTTTTTATTTTC-CCCTT
1 AAACTTTTTATTTTCTCCCTT
34815652 AAAC-TTTTATTTTTCTCCCTT
1 AAACTTTTTA-TTTTCTCCCTT
34815673 TACCCCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (21 bp):
AAACTTTTTATTTTCTCCCTT
Found at i:34837478 original size:25 final size:25
Alignment explanation
Indices: 34837450--34837545 Score: 61
Period size: 25 Copynumber: 3.8 Consensus size: 25
34837440 GCTCATCCTG
* * * *
34837450 GCTGAATAGTGGGAAGCTCATGTAA
1 GCTGAATAATAGGAAACTCATGCAA
*
34837475 GCTGTATAATAGGAAACTCATGCAA
1 GCTGAATAATAGGAAACTCATGCAA
* * *
34837500 GCT-ATATAACAGGAAGCTCAAG-AGA
1 GCTGA-ATAATAGGAAACTCATGCA-A
* * *
34837525 GTTGAATATTAGGAAGCTCAT
1 GCTGAATAATAGGAAACTCAT
34837546 ACGAGCTGTG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTGAATAATAGGAAACTCATGCAA
Found at i:34847632 original size:25 final size:26
Alignment explanation
Indices: 34847587--34847641 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
34847577 GAATGAAAAC
**
34847587 AAAAATAAATAGGAAAGAAAGGGGAA
1 AAAAATAAATAGGAAAGAAAGAAGAA
*
34847613 AAAAATAAA-GGGAGAA-AAAGAAGAA
1 AAAAATAAATAGGA-AAGAAAGAAGAA
34847638 AAAA
1 AAAA
34847642 GGGGAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (26 bp):
AAAAATAAATAGGAAAGAAAGAAGAA
Found at i:34847644 original size:35 final size:34
Alignment explanation
Indices: 34847599--34847664 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
34847589 AAATAAATAG
*
34847599 GAAAGAAAGGGGAAAAAAATAAAGGGAGAAAAAGAA
1 GAAAGAAAGGGGAAAAAAA-AAAGAG-GAAAAAGAA
34847635 GAAA-AAAGGGGAAAAAAAAAAGAGGAAAAA
1 GAAAGAAAGGGGAAAAAAAAAAGAGGAAAAA
34847665 TCTCCCATGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 5 0.17
35 14 0.48
36 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (34 bp):
GAAAGAAAGGGGAAAAAAAAAAGAGGAAAAAGAA
Found at i:34847655 original size:14 final size:14
Alignment explanation
Indices: 34847604--34847664 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 14
34847594 AATAGGAAAG
34847604 AAAGGGGAAAAAAA
1 AAAGGGGAAAAAAA
34847618 TAAAGGGAGAAAAAGAAGAAA
1 -AAAGGG-G---AA-AA-AAA
34847639 AAAGGGGAAAAAAA
1 AAAGGGGAAAAAAA
*
34847653 AAAGAGGAAAAA
1 AAAGGGGAAAAA
34847665 TCTCCCATGC
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
14 14 0.36
15 8 0.21
16 3 0.08
19 3 0.08
20 8 0.21
21 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (14 bp):
AAAGGGGAAAAAAA
Found at i:34849825 original size:21 final size:20
Alignment explanation
Indices: 34849799--34849851 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
34849789 AAAGTTGTTG
*
34849799 TATATTATAAAATATTATTAA
1 TATATTATAAAAGATTA-TAA
34849820 TATATTATGAAAAGATTATAA
1 TATATTAT-AAAAGATTATAA
*
34849841 -AAATTATAAAA
1 TATATTATAAAA
34849852 AAAGAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 11 0.38
22 8 0.28
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (20 bp):
TATATTATAAAAGATTATAA
Found at i:34849944 original size:20 final size:21
Alignment explanation
Indices: 34849921--34849959 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34849911 AAAACATTAT
*
34849921 AAAATT-TTTAAAATTAAATA
1 AAAATTATTAAAAATTAAATA
34849941 AAAATTATTAAAAATTAAA
1 AAAATTATTAAAAATTAAA
34849960 AAAGTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTATTAAAAATTAAATA
Found at i:34849974 original size:19 final size:19
Alignment explanation
Indices: 34849921--34849982 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
34849911 AAAACATTAT
*
34849921 AAAATTTTTAAAATTAAATA
1 AAAATTATTAAAATT-AATA
34849941 AAAATTATTAAAAATTAA-A
1 AAAATTATT-AAAATTAATA
* *
34849960 AAAGTTATATAAAATTATTA
1 AAAATTAT-TAAAATTAATA
34849980 AAA
1 AAA
34849983 CTAGGATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 15 0.42
20 15 0.42
21 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAATTATTAAAATTAATA
Found at i:34850945 original size:27 final size:27
Alignment explanation
Indices: 34850907--34850967 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
34850897 CCAACATCGT
* * *
34850907 CCGATTTAATATCCACCACTTCAGTTC
1 CCGATCTAATATCCACCACATCAGATC
34850934 CCGATCTAATATCCACCACATCAGATC
1 CCGATCTAATATCCACCACATCAGATC
34850961 CCGATCT
1 CCGATCT
34850968 TACACCCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (27 bp):
CCGATCTAATATCCACCACATCAGATC
Found at i:34868565 original size:44 final size:44
Alignment explanation
Indices: 34868517--34868698 Score: 147
Period size: 44 Copynumber: 4.1 Consensus size: 44
34868507 CTGTAACCAC
* * *
34868517 AGGGAGGTAAAATCCACCATCTTCGATTTACTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
* * * * * *
34868561 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTATTGCCT
1 AGGGAGGTAAAATC-CACAATCTTCAATCTACTCCACTACTGCTT
* * * * * **
34868605 AGGGAAGTAGAAT-TACTATCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCAC--T-ACTGCTT
*
34868649 AGGGAGGTAAAATCCACAATCTTCAATCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
34868693 AGGGAG
1 AGGGAG
34868699 ATAAGATCTG
Statistics
Matches: 102, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
42 3 0.03
43 17 0.17
44 61 0.60
45 20 0.20
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
AGGGAGGTAAAATCCACAATCTTCAATCTACTCCACTACTGCTT
Found at i:34869088 original size:132 final size:132
Alignment explanation
Indices: 34868429--34869076 Score: 944
Period size: 132 Copynumber: 4.9 Consensus size: 132
34868419 CTGCAACTGC
* * *
34868429 AGGGAGATAAGA-CTTAAAATCTTCAACCTATTCCACTGCTG-ACCAGGG-AGATAGGATTACTG
1 AGGGAGATAAGATC-TGAAATCTTCAATCTATTCCACTGCTGCA-CAGGGAAG-TAGAATTACTG
* * ** * *
34868491 ACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATTTACTCCACTAC
63 GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTAC
34868556 TGCTT
128 TGCTT
** **
34868561 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGC-CTAGGGAAGTAGAATTACTATC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCAC-AGGGAAGTAGAATTACTGGC
* ** * *
34868625 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACAATCTTCAATCTGCTCCACTACTG
65 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTG
34868690 CTT
130 CTT
* * * * * *
34868693 AGGGAGATAAGATCTGAAATTTTCAATCTATTCTACTGTTGCCCAGGAAAGTAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTAGAATTACTGGCT
*
34868758 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
34868823 TT
131 TT
34868825 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTAGAATTACTGGCT
* * *
34868890 CCAAGGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
34868955 TT
131 TT
*
34868957 AGGGAGATAATATCTGAAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTAGAATTACTGGCT
* * *
34869022 TCAAGGTACTCCACTATAACCACAGGGAGGTAAAATCTGTCATCTTCGATTTGCT
66 TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
34869077 TCGCTGCTGC
Statistics
Matches: 474, Mismatches: 37, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
131 1 0.00
132 469 0.99
133 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
TT
Found at i:34869193 original size:44 final size:44
Alignment explanation
Indices: 34869109--34869680 Score: 293
Period size: 44 Copynumber: 13.2 Consensus size: 44
34869099 ACTAGATGCG
* * * * *
34869109 ATCTGCTCTA-TGTAACTTCAGAGAGATAAGATCTA-AGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTA
* * * *
34869152 ATCCGCTCCAATGCAACTTCAGGGAGATAGGATTATCGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTA
* * * * ** ** *
34869196 ATCTGCTCCACTGTAATTTTAGGAAGATAAGACTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTA
* * *
34869241 GTCTGCCCCACTGCAACTTCA-GGAGGATAAGACT-T--GCTTACTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGATTATCGGC-T--TTA
* * * ***
34869285 GTCTGCTCCACTGTAACTTCAGGGAGATAAGACTA---GCTGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTA
* *
34869326 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGA--GGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-ATCGGCTTTA
* * ** *
34869369 ATCCGCTCCAATGCAACTTCAATGAGATAGGATTATCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTA
* *
34869413 ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTATCAGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTA
* * ** ** *
34869457 ATCTGCTCTACTGCAACTTTAGGGAGATAAGACTTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTA
* * * * * ***
34869502 GTCTGCCCCACTACAACTTTA-GGAGGATAAGACTT-GCTTATTTA
1 ATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTA
* * * * * *
34869546 GTCTGTTCCAGTGCAACTTCAGGGAGATAAGACTA---GATGTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTA
* * * **
34869587 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGT-GATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTA
* * * *
34869630 ATCCGCTCCACTACAACTTCAAGGAGAT-AGAATTGTCGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTATCGGCTTTA
34869674 ATCTGCT
1 ATCTGCT
34869681 TCCCACTATC
Statistics
Matches: 408, Mismatches: 96, Indels: 49
0.74 0.17 0.09
Matches are distributed among these distances:
40 42 0.10
41 18 0.04
42 3 0.01
43 36 0.09
44 239 0.59
45 70 0.17
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTA
Found at i:34869290 original size:89 final size:90
Alignment explanation
Indices: 34869163--34869579 Score: 319
Period size: 89 Copynumber: 4.8 Consensus size: 90
34869153 TCCGCTCCAA
* * ** * * * * *
34869163 TGCAACTTCAGG-GAGATAGGATTATCGGTTTTAATCTGCTCCACTGTAATTTTAGGAAGATAAG
1 TGCAACTTCAGGAGAGATAAGATTCTTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
34869227 ACTTGCCATCTTCAGTCTGCCCCAC
66 ACTTGCCAGCTTCAGTCTGCCCCAC
* *
34869252 TGCAACTTCAGGAG-GATAAGACTTGCTTA-C-TTAGTCTGCTCCACTGTAACTTCAGGGAGATA
1 TGCAACTTCAGGAGAGATAAGA-TT-CTTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
* * *
34869314 AGAC-T---AGCTGC-GATCTG-CTCTC
64 AGACTTGCCAGCTTCAG-TCTGCCCCAC
* * * ** *
34869336 TGCAACTTCA-GAGAGATAAGA-TCTGAGGCTTTAATCCGCTCCAATGCAACTTCAATGAGATAG
1 TGCAACTTCAGGAGAGATAAGATTCTTA-GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
** * * * *
34869399 GA-TTATCGGCTTTAATCTGCTCCAC
65 GACTTGCCAGCTTCAGTCTGCCCCAC
* * * * *
34869424 TGCAACTTCAGG-GAAATAAGATTATCAGCTTTAATCTGCTCTACTGCAACTTTAGGGAGATAAG
1 TGCAACTTCAGGAGAGATAAGATTCTTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
*
34869488 ACTTGCCATCTTCAGTCTGCCCCAC
66 ACTTGCCAGCTTCAGTCTGCCCCAC
* * * * *
34869513 TACAACTTTAGGAG-GATAAGACTTGCTTA--TTTAGTCTGTTCCAGTGCAACTTCAGGGAGATA
1 TGCAACTTCAGGAGAGATAAGA-TT-CTTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
34869575 AGACT
64 AGACT
34869580 AGATGTAATC
Statistics
Matches: 253, Mismatches: 55, Indels: 40
0.73 0.16 0.11
Matches are distributed among these distances:
81 3 0.01
82 1 0.00
83 4 0.02
84 50 0.20
85 8 0.03
87 7 0.03
88 52 0.21
89 119 0.47
90 6 0.02
91 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (90 bp):
TGCAACTTCAGGAGAGATAAGATTCTTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTTGCCAGCTTCAGTCTGCCCCAC
Found at i:34869459 original size:261 final size:261
Alignment explanation
Indices: 34869148--34869680 Score: 823
Period size: 261 Copynumber: 2.0 Consensus size: 261
34869138 GATCTAAGGT
* * * * * * *
34869148 TTTAATCCGCTCCAATGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTCCACTGTAAT
1 TTTAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTATCAGCTTTAATCTGCTCCACTGCAAC
*
34869213 TTTAGGAAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGC
66 TTTAGGAAGATAAGACTTGCCATCTTCAGTCTGCCCCACTACAACTTCAGGAGGATAAGACTTGC
* * *
34869278 TTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGCTGCGATCTGCTCTCTGCAACT
131 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACT
* * * *
34869343 TCAGAGAGATAAGATCTGAGGCTTTAATCCGCTCCAATGCAACTTCAATGAGATAGGATTATCGG
196 TCAGAGAGATAAGATCTGAGACTTTAATCCGCTCCAATACAACTTCAAGGAGATAGAATTATCGG
34869408 C
261 C
* *
34869409 TTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTATCAGCTTTAATCTGCTCTACTGCAAC
1 TTTAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTATCAGCTTTAATCTGCTCCACTGCAAC
* *
34869474 TTTAGGGAGATAAGACTTGCCATCTTCAGTCTGCCCCACTACAACTTTAGGAGGATAAGACTTGC
66 TTTAGGAAGATAAGACTTGCCATCTTCAGTCTGCCCCACTACAACTTCAGGAGGATAAGACTTGC
* * * *
34869539 TTATTTAGTCTGTTCCAGTGCAACTTCAGGGAGATAAGACTAGATGTAATCTGCTCTCTGCAACT
131 TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACT
* * * *
34869604 TCAGAGAGATAAGATCTGTGATTTTAATCCGCTCCACTACAACTTCAAGGAGATAGAATTGTCGG
196 TCAGAGAGATAAGATCTGAGACTTTAATCCGCTCCAATACAACTTCAAGGAGATAGAATTATCGG
34869669 C
261 C
34869670 TTTAATCTGCT
1 TTTAATCTGCT
34869681 TCCCACTATC
Statistics
Matches: 245, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
261 245 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (261 bp):
TTTAATCTGCTCCAATGCAACTTCAGGGAAATAAGATTATCAGCTTTAATCTGCTCCACTGCAAC
TTTAGGAAGATAAGACTTGCCATCTTCAGTCTGCCCCACTACAACTTCAGGAGGATAAGACTTGC
TTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACT
TCAGAGAGATAAGATCTGAGACTTTAATCCGCTCCAATACAACTTCAAGGAGATAGAATTATCGG
C
Found at i:34869507 original size:217 final size:217
Alignment explanation
Indices: 34869086--34869535 Score: 590
Period size: 217 Copynumber: 2.1 Consensus size: 217
34869076 TTCGCTGCTG
* *
34869086 CTTCAGGAGGAT--GACTAGATGCGATCTGCTCTATGTAACTTCAGAGAGATAAGATCTAAGGTT
1 CTTCAGGAGGATAAGACTAGATGCGATCTGCTCTATGCAACTTCAGAGAGATAAGATCTAAGGCT
* * * *
34869149 TTAATCCGCTCCAATGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTCCACTGTAATT
66 TTAATCCGCTCCAATGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACT
* * * * *
34869214 TTAGGAAGATAAGACTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCT
131 TCAGGAAGATAAGACTTACCAGCTTCAATCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCA
* **
34869279 TACTTAGTCTGCTCCACTGTAA
196 TACTTAGTCTGCCCCACTACAA
* * *
34869301 CTTCAGG-GAGATAAGACTAGCTGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGC
1 CTTCAGGAG-GATAAGACTAGATGCGATCTGCTCTATGCAACTTCAGAGAGATAAGATCTAAGGC
*
34869365 TTTAATCCGCTCCAATGCAACTTCAATGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
65 TTTAATCCGCTCCAATGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAAC
* * * * *
34869430 TTCAGGGAA-ATAAGA-TTATCAGCTTTAATCTGCTCTACTGCAACTTTAGG-GAGATAAGACTT
130 TTCA-GGAAGATAAGACTTACCAGCTTCAATCTGCCCCACTGCAACTTCAGGAG-GATAAGACTT
34869492 GCCAT-CTTCAGTCTGCCCCACTACAA
193 G-CATACTT-AGTCTGCCCCACTACAA
*
34869518 CTTTAGGAGGATAAGACT
1 CTTCAGGAGGATAAGACT
34869536 TGCTTATTTA
Statistics
Matches: 203, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
214 1 0.00
215 11 0.05
216 41 0.20
217 145 0.71
218 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (217 bp):
CTTCAGGAGGATAAGACTAGATGCGATCTGCTCTATGCAACTTCAGAGAGATAAGATCTAAGGCT
TTAATCCGCTCCAATGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACT
TCAGGAAGATAAGACTTACCAGCTTCAATCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCA
TACTTAGTCTGCCCCACTACAA
Found at i:34869603 original size:217 final size:213
Alignment explanation
Indices: 34869098--34869680 Score: 547
Period size: 217 Copynumber: 2.7 Consensus size: 213
34869088 TCAGGAGGAT
* * * * * *
34869098 GACTAGATGCGATCTGCTCTATGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCCAA
1 GACTAGCTGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGATGTAATCCGCTCC-A
* * * *
34869163 TGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTCCACTGTAATTTTAGGAAGATAAGA
65 TGCAACTTCA-AGAGATAGGATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGAA-ATAAGA
* * * * * * *
34869228 CTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTC
128 -TTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTGCCC
**
34869293 CACTGTAACTTCAGGGAGATAA
192 CACTACAACTTCAGGGAGATAA
* *
34869315 GACTAGCTGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGCTTTAATCCGCTCCAA
1 GACTAGCTGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGATGTAATCCGCTCC-A
*
34869380 TGCAACTTCAATGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGA
65 TGCAACTTCAA-GAGATAGGATTATCGGTTTTAATCTGCTCCACTGCAACTTCA-GGAAATAAGA
* * *
34869445 TTATCAGCTTTAATCTGCTCTACTGCAACTTTAGG-GAGATAAGACTTGCCAT-CTTCAGTCTGC
128 TTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTG-CATACTT-AGTCTGC
*
34869508 CCCACTACAACTTTA-GGAGGATAA
190 CCCACTACAACTTCAGGGA-GATAA
* *** * * *
34869532 GACTTGCTTATTTAGTCTGTTC-CAGTGCAACTTCAGGGAGATAAGA-CT-A-GATGTAATCTGC
1 GACTAGC-T-GCGA-TCTGCTCTC--TGCAACTTCAGAGAGATAAGATCTGAGGATGTAATCCGC
* * * * * *
34869593 TCTC-TGCAACTTCAGAGAGATAAGATCTGT-GATTTTAATCCGCTCCACTACAACTTCAAGGAG
61 TC-CATGCAACTTCA-AGAGATAGGAT-TATCGGTTTTAATCTGCTCCACTGCAACTTC-AGGAA
*
34869656 AT-AGAATTGTCGGCTTTAATCTGCT
122 ATAAG-ATTGTCAGCTTTAATCTGCT
34869681 TCCCACTATC
Statistics
Matches: 309, Mismatches: 41, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
215 1 0.00
216 46 0.15
217 210 0.68
218 20 0.06
219 4 0.01
220 8 0.03
221 20 0.06
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (213 bp):
GACTAGCTGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGATGTAATCCGCTCCAT
GCAACTTCAAGAGATAGGATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGAAATAAGATTG
TCAGCTTTAATCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCATACTTAGTCTGCCCCACT
ACAACTTCAGGGAGATAA
Found at i:34869823 original size:132 final size:132
Alignment explanation
Indices: 34869667--34870320 Score: 1056
Period size: 132 Copynumber: 5.0 Consensus size: 132
34869657 TAGAATTGTC
* * * * *
34869667 GGCTTTAATCTGCTTCCCACTATCTTGGAAATATATGATTTACCGTTTTCGATCTGCCCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTAC
* * * * *
34869732 TGCTTAGGGGGATAAGATCTACAATCTTTAACCTACTCCGCTGCTGCTCAGGGAGACAGGGTTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTG
34869797 GT
131 GT
* * *
34869799 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGCCTTTGATCTGCTCAACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTAC
34869864 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTG
34869929 GT
131 GT
* * *
34869931 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACTGTCTTCGATCGGCTCTACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTAC
*
34869996 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCCGCTGCTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTG
34870061 GT
131 GT
* * *
34870063 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACTGTCTTCGATCGGCTCTACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTAC
* *
34870128 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGGTGCTGCTCAAGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTG
34870193 GT
131 GT
**
34870195 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTAC
* * * *
34870260 TGCTTAGGGAGATAAGATCTACAATTTTCAACCTTCTCCACTGCTGCTCAAGGAGGCAAGG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGG
34870321 TTGATGTCTT
Statistics
Matches: 491, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 491 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTG
GT
Found at i:34871620 original size:22 final size:22
Alignment explanation
Indices: 34871590--34871644 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
34871580 CTTGCTTTTC
34871590 TTTTT-CTTTTTTTCATTTTGT-
1 TTTTTGCTTTTTTT-ATTTTGTG
*
34871611 TTTTTGCTTTTTTTATTTTTTG
1 TTTTTGCTTTTTTTATTTTGTG
34871633 TTTTTG-TTTTTT
1 TTTTTGCTTTTTT
34871645 ATATCTGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.04, C:0.05, G:0.07, T:0.84
Consensus pattern (22 bp):
TTTTTGCTTTTTTTATTTTGTG
Found at i:34872417 original size:25 final size:25
Alignment explanation
Indices: 34872363--34872419 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
34872353 AAGAAAATCC
* **
34872363 AAAAGAATGAAAGAATAATTACTTG
1 AAAATAATGAAAGAATAATTACTCA
*
34872388 CAAATAATGAAAGAAT-ATTGACTCA
1 AAAATAATGAAAGAATAATT-ACTCA
34872413 AAAATAA
1 AAAATAA
34872420 ATGCCAAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.58, C:0.07, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAATAATGAAAGAATAATTACTCA
Found at i:34876569 original size:98 final size:98
Alignment explanation
Indices: 34876424--34876654 Score: 419
Period size: 98 Copynumber: 2.4 Consensus size: 98
34876414 ACAATAAAAT
*
34876424 TTTAAAAGAACATCCACTTAATCCAAGA-TTAAGAAATCACACCCAATACGTTAGGGCACGATTC
1 TTTAAAAGAACATCCA-TTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTC
34876488 CTCTAGAATCCCAAACTCGGAATATTTCCTTTAC
65 CTCTAGAATCCCAAACTCGGAATATTTCCTTTAC
*
34876522 TTTAAAAGAACAACCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
34876587 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
66 TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
*
34876620 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAA
1 TTTAAAAGAACATCCATTTATCCAAGATTTAAGAA
34876655 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
97 10 0.08
98 118 0.92
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (98 bp):
TTTAAAAGAACATCCATTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
TCTAGAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:34877397 original size:20 final size:20
Alignment explanation
Indices: 34877374--34877420 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34877364 ATGTGTGTAT
* *
34877374 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
34877394 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
34877414 ATATATA
1 ATATATA
34877421 CGTACATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:34877452 original size:114 final size:114
Alignment explanation
Indices: 34877260--34877467 Score: 285
Period size: 114 Copynumber: 1.8 Consensus size: 114
34877250 AAAGAAAAAA
* * *
34877260 ATATATATAGAAATAATAACATATGGGTAGAAAGTATAATATATATATACGTACATATATATGTA
1 ATATATATAGAAATAATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATATA
* * * *
34877325 AGTTAATAAATATAGACCATAAAGATAATGATTGCATATATGTGTGTAT
66 AGGTAAAAAATATACACCATAAACATAATGATTGCATATATGTGTGTAT
* * *
34877374 ATATATATATAAATTATAAAATATGTATAGAAAGTAT-A-ATATATATACGTACATATATATATA
1 ATATATATAGAAATAATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATATA
*
34877437 AGGTAACAAATATATACATCATAAACATAAT
66 AGGTAA-AAA-ATATACACCATAAACATAAT
34877468 AATTACACAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
112 29 0.36
113 3 0.04
114 49 0.60
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.34
Consensus pattern (114 bp):
ATATATATAGAAATAATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATATA
AGGTAAAAAATATACACCATAAACATAATGATTGCATATATGTGTGTAT
Found at i:34881565 original size:24 final size:23
Alignment explanation
Indices: 34881517--34881573 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 23
34881507 ATATAAGAAG
*
34881517 TAAATTAAAATACATATAAATTT
1 TAAATAAAAATACATATAAATTT
*
34881540 TAAATAAATAATACATGTTAAATTT
1 TAAATAAA-AATACAT-ATAAATTT
*
34881565 AAAATAAAA
1 TAAATAAAA
34881574 GAAATGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.24
24 8 0.28
25 14 0.48
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAATAAAAATACATATAAATTT
Found at i:34888551 original size:25 final size:25
Alignment explanation
Indices: 34888523--34888571 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
34888513 CTATCTTTGA
*
34888523 TAGTATATCCTGAA-ACTACTATAGG
1 TAGTATATACT-AAGACTACTATAGG
34888548 TAGTATATACTAAGACTACTATAG
1 TAGTATATACTAAGACTACTATAG
34888572 ATAGACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (25 bp):
TAGTATATACTAAGACTACTATAGG
Found at i:34896543 original size:29 final size:29
Alignment explanation
Indices: 34896475--34896543 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
34896465 TTGAGTTTTA
** *
34896475 AAATTTAAAAGTGGAAGGATTAAATTTCT
1 AAATTTAAAAGTACAAAGATTAAATTTCT
**
34896504 AAAAATAAAAGTACAAAGATTAAA-TTCT
1 AAATTTAAAAGTACAAAGATTAAATTTCT
34896532 AAATTTACAAAG
1 AAATTTA-AAAG
34896544 AGCATAGAGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.29
Consensus pattern (29 bp):
AAATTTAAAAGTACAAAGATTAAATTTCT
Found at i:34897378 original size:8 final size:8
Alignment explanation
Indices: 34897365--34897400 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
34897355 TTTTAGTTCT
34897365 TTTATATA
1 TTTATATA
34897373 TTTATATA
1 TTTATATA
*
34897381 TTATAAATA
1 TT-TATATA
34897390 TTTATATA
1 TTTATATA
34897398 TTT
1 TTT
34897401 TAAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTATATA
Found at i:34897390 original size:19 final size:17
Alignment explanation
Indices: 34897341--34897404 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
34897331 TTAAATCTTC
*
34897341 TATATATTATAAATTTT
1 TATATATTATAAATATT
* * *
34897358 TAGT-TCTTTTATATATT
1 TA-TATATTATAAATATT
34897375 TATATATTATAAATATT
1 TATATATTATAAATATT
*
34897392 TATATATTTTAAA
1 TATATATTATAAA
34897405 AATATTGTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 1 0.03
17 35 0.95
18 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATATATTATAAATATT
Found at i:34897407 original size:19 final size:17
Alignment explanation
Indices: 34897370--34897410 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
34897360 GTTCTTTTAT
*
34897370 ATATTTATATATTATAA
1 ATATTTATATATTAAAA
34897387 ATATTTATATATTTTAAAA
1 ATATTTATATA--TTAAAA
34897406 ATATT
1 ATATT
34897411 GTAAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTATATATTAAAA
Found at i:34898298 original size:129 final size:130
Alignment explanation
Indices: 34898135--34898393 Score: 502
Period size: 129 Copynumber: 2.0 Consensus size: 130
34898125 TTGTTGTTAT
34898135 GTCGCAGGAGTGAAGGAAGTGGGCATTTCCCTTCATACATTGCAATAACTTCAAATATTTCAATA
1 GTCGCAGGAGTGAAGGAAGTGGGCATTTCCCTTCATACATTGCAATAACTTCAAATATTTCAATA
34898200 TTTTATATATTTTAATTGCATATATTTTTATAAATTTATATTATATATAATAGTAATAACCTAGA
66 TTTTATATATTTTAATTGCATATATTTTTATAAATTTATATTATATATAATAGTAATAACCTAGA
34898265 GTCGCAGGAG-GAAGGAAGTGGGCATTTCCCTTCATACATTGCAATAACTTCAAATATTTCAATA
1 GTCGCAGGAGTGAAGGAAGTGGGCATTTCCCTTCATACATTGCAATAACTTCAAATATTTCAATA
*
34898329 TTTTATATATTTTAATTGCATATATTTTTATTAATTTATATTATATATAATAGTAATAACCTAGA
66 TTTTATATATTTTAATTGCATATATTTTTATAAATTTATATTATATATAATAGTAATAACCTAGA
34898394 AGCTGATATT
Statistics
Matches: 128, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
129 118 0.92
130 10 0.08
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (130 bp):
GTCGCAGGAGTGAAGGAAGTGGGCATTTCCCTTCATACATTGCAATAACTTCAAATATTTCAATA
TTTTATATATTTTAATTGCATATATTTTTATAAATTTATATTATATATAATAGTAATAACCTAGA
Found at i:34899417 original size:6 final size:6
Alignment explanation
Indices: 34899406--34899432 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34899396 CATACATAAA
34899406 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
34899433 CAATTGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:34899616 original size:29 final size:30
Alignment explanation
Indices: 34899562--34899618 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
34899552 AAATTGAATC
34899562 AAATCAAAATTTCATGTATAAAATTACATA
1 AAATCAAAATTTCATGTATAAAATTACATA
* * *
34899592 AAATCAAAGTTT-ATGTATTATATTACA
1 AAATCAAAATTTCATGTATAAAATTACA
34899619 CATTGAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACATA
Found at i:34900190 original size:22 final size:22
Alignment explanation
Indices: 34900160--34900202 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34900150 ACAGCAGAAC
* *
34900160 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
34900182 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
34900203 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:34900348 original size:43 final size:42
Alignment explanation
Indices: 34900274--34900669 Score: 609
Period size: 42 Copynumber: 9.4 Consensus size: 42
34900264 ACGTCACTAA
* *
34900274 CTTTTGCGGCGCTTACGTAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA--TAAAAAAACGCCGCTAAAGATCATGCT
*
34900318 CTTTAGCGGCGCTTAAAAAACAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTATAAAA-AAACGCCGCTAAAGATCATGCT
* *
34900361 CTTTAGCGGCGCTTAGAAAACAAACGCC-CTAAAGATCACGCT
1 CTTTAGCGGCGCTTATAAAA-AAACGCCGCTAAAGATCATGCT
* *
34900403 CTTTAGCGGCGC-T-TAGAAAAACGCCCCTAAAGATCATGCT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGCT
*
34900443 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGCT
*
34900485 CTTTAGCGGCGCTTAAAAAACAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTATAAAA-AAACGCCGCTAAAGATCATGCT
*
34900528 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGCT
*
34900570 CTTTAGCGGCGCTTAAAAAACAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTATAAAA-AAACGCCGCTAAAGATCATGCT
*
34900613 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGCT
34900655 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
34900670 NNNNNNNNNN
Statistics
Matches: 327, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
39 7 0.02
40 28 0.09
41 2 0.01
42 148 0.45
43 128 0.39
44 14 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGCT
Found at i:34900406 original size:85 final size:85
Alignment explanation
Indices: 34900274--34900669 Score: 683
Period size: 85 Copynumber: 4.7 Consensus size: 85
34900264 ACGTCACTAA
*
34900274 CTTTTGCGGCGCTTACGTAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAC
1 CTTTAGCGGCGCTTA--TAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAC
34900339 AAACGCCGCTAAAGATCATGCT
64 AAACGCCGCTAAAGATCATGCT
* * * *
34900361 CTTTAGCGGCGCTTAGAAAACAAACGCC-CTAAAGATCACGCTCTTTAGCGGCGCTT--AGAA-A
1 CTTTAGCGGCGCTTATAAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAACA
*
34900422 AACGCCCCTAAAGATCATGCT
65 AACGCCGCTAAAGATCATGCT
34900443 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAACAA
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAACAA
34900508 ACGCCGCTAAAGATCATGCT
66 ACGCCGCTAAAGATCATGCT
34900528 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAACAA
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAACAA
34900593 ACGCCGCTAAAGATCATGCT
66 ACGCCGCTAAAGATCATGCT
34900613 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
34900670 NNNNNNNNNN
Statistics
Matches: 293, Mismatches: 11, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
81 7 0.02
82 66 0.23
83 3 0.01
84 3 0.01
85 193 0.66
86 7 0.02
87 14 0.05
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (85 bp):
CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAACAA
ACGCCGCTAAAGATCATGCT
Found at i:34901770 original size:8 final size:8
Alignment explanation
Indices: 34901757--34901792 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
34901747 TTTTAGTTCT
34901757 TTTATATA
1 TTTATATA
34901765 TTTATATA
1 TTTATATA
*
34901773 TTATAAATA
1 TT-TATATA
34901782 TTTATATA
1 TTTATATA
34901790 TTT
1 TTT
34901793 TAAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTATATA
Found at i:34901782 original size:19 final size:17
Alignment explanation
Indices: 34901733--34901796 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
34901723 TTAAATCTTC
*
34901733 TATATATTATAAATTTT
1 TATATATTATAAATATT
* * *
34901750 TAGT-TCTTTTATATATT
1 TA-TATATTATAAATATT
34901767 TATATATTATAAATATT
1 TATATATTATAAATATT
*
34901784 TATATATTTTAAA
1 TATATATTATAAA
34901797 AATATTGTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
16 1 0.03
17 35 0.95
18 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TATATATTATAAATATT
Found at i:34901799 original size:19 final size:17
Alignment explanation
Indices: 34901762--34901802 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
34901752 GTTCTTTTAT
*
34901762 ATATTTATATATTATAA
1 ATATTTATATATTAAAA
34901779 ATATTTATATATTTTAAAA
1 ATATTTATATA--TTAAAA
34901798 ATATT
1 ATATT
34901803 GTAAGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
19 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTATATATTAAAA
Found at i:34903680 original size:6 final size:6
Alignment explanation
Indices: 34903669--34903695 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34903659 CATACATAAA
34903669 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
34903696 CAATTGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:34903879 original size:29 final size:30
Alignment explanation
Indices: 34903825--34903881 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
34903815 AAATTGAATC
34903825 AAATCAAAATTTCATGTATAAAATTACATA
1 AAATCAAAATTTCATGTATAAAATTACATA
* * *
34903855 AAATCAAAGTTT-ATGTATTATATTACA
1 AAATCAAAATTTCATGTATAAAATTACA
34903882 CATTGAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACATA
Found at i:34904453 original size:22 final size:22
Alignment explanation
Indices: 34904423--34904465 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34904413 ACAGCAGAAC
* *
34904423 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
34904445 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
34904466 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:34904609 original size:43 final size:41
Alignment explanation
Indices: 34904555--34904720 Score: 230
Period size: 43 Copynumber: 4.0 Consensus size: 41
34904545 GTGCTTACGT
*
34904555 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
1 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTT-A
34904597 AAAACAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTA
1 AAAA-AAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTA
*
34904639 GAAAACAAACGCAC-CTAAAGATCACGCTCTTTAGCGGCGCTT-
1 -AAAA-AAACGC-CGCTAAAGATCATGCTCTTTAGCGGCGCTTA
* *
34904681 -AGAAAACGCCCCTAAAGATCATGCTCTTTAGCGGCGCTTA
1 AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTA
34904721 TAANTAAAAT
Statistics
Matches: 115, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
38 1 0.01
39 33 0.29
40 2 0.02
42 5 0.04
43 73 0.63
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTA
Found at i:34904709 original size:82 final size:85
Alignment explanation
Indices: 34904537--34904720 Score: 243
Period size: 82 Copynumber: 2.2 Consensus size: 85
34904527 ACGTCACTAA
* * * *
34904537 CTTTTGCGGTGCTTACGTAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAC
1 CTTTAGCGGCGCTTACGTAAAAAAACGCCGCTAAAGATCACGCTCTTTAGCGGCGCTT--AAAAC
*
34904602 AAACGCCGCTAAAGATCATGCT
64 AAACGCCCCTAAAGATCATGCT
*
34904624 CTTTAGCGGCGCTTA-G-AAAACAAACGCAC-CTAAAGATCACGCTCTTTAGCGGCGCTT-AGA-
1 CTTTAGCGGCGCTTACGTAAAA-AAACGC-CGCTAAAGATCACGCTCTTTAGCGGCGCTTAAAAC
34904684 AAACGCCCCTAAAGATCATGCT
64 AAACGCCCCTAAAGATCATGCT
34904706 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
34904721 TAANTAAAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
82 36 0.40
83 2 0.02
85 4 0.04
86 33 0.37
87 14 0.16
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (85 bp):
CTTTAGCGGCGCTTACGTAAAAAAACGCCGCTAAAGATCACGCTCTTTAGCGGCGCTTAAAACAA
ACGCCCCTAAAGATCATGCT
Found at i:34905084 original size:12 final size:12
Alignment explanation
Indices: 34905067--34905112 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
34905057 TTTTGAACCT
*
34905067 CTGCTTCTATTG
1 CTGCTTCTCTTG
*
34905079 CTGCTTCTCTCG
1 CTGCTTCTCTTG
*
34905091 CCGCTTCTCTTG
1 CTGCTTCTCTTG
*
34905103 TTGCTTCTCT
1 CTGCTTCTCT
34905113 CACTGTGGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.02, C:0.35, G:0.15, T:0.48
Consensus pattern (12 bp):
CTGCTTCTCTTG
Found at i:34913025 original size:40 final size:39
Alignment explanation
Indices: 34912972--34913065 Score: 98
Period size: 40 Copynumber: 2.4 Consensus size: 39
34912962 AATTATGTTC
* * *
34912972 TTTTACGGCGTTTTGCTTGAAGCGCCGCTAATGCTAGAT
1 TTTTGCGGCGTTTTACTTGAAGCGCCGCTAATGCTACAT
* *** *
34913011 ATTTTGCGGCGTTTTATTTTTTGCGCCGCTAATGCTCCAT
1 -TTTTGCGGCGTTTTACTTGAAGCGCCGCTAATGCTACAT
34913051 TTTTAGCGGCGTTTT
1 TTTT-GCGGCGTTTT
34913066 CCGTCCAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
39 4 0.09
40 41 0.91
ACGTcount: A:0.14, C:0.20, G:0.23, T:0.43
Consensus pattern (39 bp):
TTTTGCGGCGTTTTACTTGAAGCGCCGCTAATGCTACAT
Found at i:34914821 original size:17 final size:18
Alignment explanation
Indices: 34914782--34914823 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
34914772 ACATTATAAA
* *
34914782 AGTAAAAAAAATCAAGTT
1 AGTATAAAAAATAAAGTT
34914800 A-TATAAAAAATAAAG-T
1 AGTATAAAAAATAAAGTT
34914816 AGTATAAA
1 AGTATAAA
34914824 GATCGAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.86
18 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (18 bp):
AGTATAAAAAATAAAGTT
Found at i:34914909 original size:7 final size:7
Alignment explanation
Indices: 34914892--34914921 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
34914882 TATAATGTAC
34914892 AAAAAAG
1 AAAAAAG
34914899 -AAAAAG
1 AAAAAAG
34914905 AAAAAAG
1 AAAAAAG
34914912 AAAAAAG
1 AAAAAAG
34914919 AAA
1 AAA
34914922 GCCTAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:34924927 original size:35 final size:35
Alignment explanation
Indices: 34924861--34924926 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
34924851 ATAAATAAAT
*
34924861 AAATAATAAAAAGAATAAAAAGAAAAGAAAAATTG
1 AAATAAAAAAAAGAATAAAAAGAAAAGAAAAATTG
*
34924896 AAATAAAAAAAAGCAAT-GAAA-AAAAGAAAAA
1 AAATAAAAAAAAG-AATAAAAAGAAAAGAAAAA
34924927 AGAAAGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 10 0.36
35 15 0.54
36 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (35 bp):
AAATAAAAAAAAGAATAAAAAGAAAAGAAAAATTG
Found at i:34924959 original size:16 final size:16
Alignment explanation
Indices: 34924940--34925003 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
34924930 AAGGAAAAAG
* *
34924940 AAAAATTAAAAATTAA
1 AAAAAATAAAAATCAA
*
34924956 AAAAAATCAAAATCAA
1 AAAAAATAAAAATCAA
* *
34924972 AAACAA-AAAAA-GAA
1 AAAAAATAAAAATCAA
* *
34924986 GAAAAATCAAAATCAA
1 AAAAAATAAAAATCAA
34925002 AA
1 AA
34925004 TCAAAATCAA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
14 6 0.17
15 8 0.23
16 21 0.60
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAAATCAA
Found at i:34924967 original size:6 final size:6
Alignment explanation
Indices: 34924958--34925028 Score: 72
Period size: 6 Copynumber: 11.8 Consensus size: 6
34924948 AAAATTAAAA
* * **
34924958 AAAATC AAAATC AAAAAC AAAA-A AAGAAGA AAAATC AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AA-AATC AAAATC AAAATC AAAATC
* *
34925006 AAAATC AAAGTC AAAATG AAAAT
1 AAAATC AAAATC AAAATC AAAAT
34925029 TAAAGAAGAG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
5 2 0.04
6 51 0.91
7 3 0.05
ACGTcount: A:0.70, C:0.11, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:34925028 original size:18 final size:18
Alignment explanation
Indices: 34924988--34925033 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
34924978 AAAAAGAAGA
*
34924988 AAAATCAAAATCAAAATC
1 AAAATCAAAGTCAAAATC
*
34925006 AAAATCAAAGTCAAAATG
1 AAAATCAAAGTCAAAATC
*
34925024 AAAATTAAAG
1 AAAATCAAAG
34925034 AAGAGAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.11, G:0.07, T:0.17
Consensus pattern (18 bp):
AAAATCAAAGTCAAAATC
Found at i:34925929 original size:7 final size:7
Alignment explanation
Indices: 34925919--34925959 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
34925909 GACAAATGAA
34925919 AAAAATG
1 AAAAATG
34925926 -AAAATG
1 AAAAATG
34925932 AAAAATG
1 AAAAATG
34925939 AAAAATG
1 AAAAATG
*
34925946 AGAAA-G
1 AAAAATG
34925952 TAAAAATG
1 -AAAAATG
34925960 GGGAGGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
6 7 0.24
7 21 0.72
8 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:34925932 original size:15 final size:16
Alignment explanation
Indices: 34925907--34925936 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34925897 GTCAGAATAT
34925907 ATGACAAATGAAAAAA
1 ATGACAAATGAAAAAA
34925923 ATGA-AAATGAAAAA
1 ATGACAAATGAAAAA
34925937 TGAAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.03, G:0.13, T:0.13
Consensus pattern (16 bp):
ATGACAAATGAAAAAA
Found at i:34927340 original size:100 final size:100
Alignment explanation
Indices: 34927167--34927674 Score: 667
Period size: 100 Copynumber: 5.1 Consensus size: 100
34927157 ATACCAGTTT
* **
34927167 TACTTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTTGACATT
1 TACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT
* * *
34927232 GCAGTTAAAAAGATTAAAGCCACAGCGGTGAATCC
66 GCAGTTAAAAATATTAAAGCCACAACGGCGAATCC
* * *
34927267 TACTTCCCAGGCGATGCAGTGGAACAGTTTAAAGCCACATTGGTGAATCTTGCTTCCCCGACATT
1 TACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT
*
34927332 GCAGTTAAAAATATTAAAGCCACAGCGGCGAATCC
66 GCAGTTAAAAATATTAAAGCCACAACGGCGAATCC
* * * *
34927367 TACTTCCCTGGCGGTGCAGTAGAACAGATTAAACCCATATCGGTGAATCTTGCTTCCCCGACATT
1 TACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT
*
34927432 GCAGTTAAAAAGATTAAAGCCACAACGGCGAATCC
66 GCAGTTAAAAATATTAAAGCCACAACGGCGAATCC
* ** * *
34927467 TACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACAAT-GGCAAACCTTGCTTCCCCGCCAT
1 TACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACAT
* ** *
34927531 TGCAGTTAAAAATATTAAAGCTACAACAACGAATCT
65 TGCAGTTAAAAATATTAAAGCCACAACGGCGAATCC
* * * * * * *
34927567 TACTTCTCAAGTGGTGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGATATT
1 TACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT
* * * * * *
34927632 GCAGTTAGAAATATTAAAGCTAAAACAGTGAATCT
66 GCAGTTAAAAATATTAAAGCCACAACGGCGAATCC
34927667 TACTTCCC
1 TACTTCCC
34927675 GTTCAGTGGA
Statistics
Matches: 364, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 361 0.99
101 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (100 bp):
TACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATT
GCAGTTAAAAATATTAAAGCCACAACGGCGAATCC
Found at i:34927635 original size:50 final size:50
Alignment explanation
Indices: 34927181--34927743 Score: 329
Period size: 50 Copynumber: 11.4 Consensus size: 50
34927171 TCCCAGGCGA
* * **
34927181 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCTTGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
** * * * * * * *
34927231 TGCAGTTAAAAAGATTAAAGCCACAGCGGTGAATCCTACTTCCCAGGCGA-
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGAC-AT
* ** *
34927281 TGCAGTGGAACAGTTTAAAGCCACATTGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
** * * * * * * * **
34927331 TGCAGTTAAAAATATTAAAGCCACAGCGGCGAATCCTACTTCCCTGGCGG
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * *
34927381 TGCAGTAGAACAGATTAAACCCATATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
** * * * * **
34927431 TGCAGTTAAAAAGATTAAAGCCACAACGGCGAATCCTACTT-CCCAAGCGG
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA-CAT
* * * *
34927481 TGCAGTGGAACAGATTAAAGCCACAATGGCAAACCTTGCTTCCCCGCCAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
** * * * ** * *
34927531 TGCAGTTAAAAATATTAAAGCTACAACAACGAATCTTACTT-CTC-A-AGT
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACA-T
* *
34927579 GGTGCAGTGGAACAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGATAT
1 --TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * *
34927631 TGCAGTTAGAA-ATATTAAAGCTAAAACAGTGAATCTTACTT-CCCG---T
1 TGCAG-TGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
* * * * * * *
34927677 T-CAGTGGAATAGATTGAAGCTACAACAGCGGATATTGCTTCCTCGACAT
1 TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
** **
34927726 CACAGTTAAACAGATTAA
1 TGCAGTGGAACAGATTAA
34927744 GGTTACGAGT
Statistics
Matches: 380, Mismatches: 116, Indels: 34
0.72 0.22 0.06
Matches are distributed among these distances:
44 4 0.01
45 26 0.07
46 5 0.01
47 1 0.00
48 1 0.00
49 12 0.03
50 318 0.84
51 10 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACAT
Found at i:34933770 original size:3 final size:3
Alignment explanation
Indices: 34933713--34933757 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
34933703 TATATATATA
34933713 AAT AAT AAT AAT AAT AA- AAGTT AA- AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT
34933757 A
1 A
34933758 TATGTTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 6 0.16
3 29 0.78
5 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34934171 original size:254 final size:254
Alignment explanation
Indices: 34933722--34934229 Score: 964
Period size: 254 Copynumber: 2.0 Consensus size: 254
34933712 AAATAATAAT
34933722 AATAATAAAAGTTAAAATAATAATAATATAATAATATATGTTATAATAAAACAAAACATTAAAAA
1 AATAATAAAAGTTAAAATAATAATAATATAATAATATATGTTATAATAAAACAAAACATTAAAAA
34933787 ATACCACCATTTTATGTTCATCTTTCTTCACCGAATGTAGAAAAGAAAAACAAGGTTTGAAAGCT
66 ATACCACCATTTTATGTTCATCTTTCTTCACCGAATGTAGAAAAGAAAAACAAGGTTTGAAAGCT
*
34933852 TGAAACATTCGGCCATTTTGAAGCTTAATTCAAGGTTGGTTTTTGTTCGGTTTTTGATAATTTTT
131 TGAAACATTCGGCCATTTTGAAGCTTAATTCAAGGTTAGTTTTTGTTCGGTTTTTGATAATTTTT
34933917 ACGTTTTTGAGATCGTTGCTTTGAATACTTCAAAACCCATATCTTAATTTTGTGAATTG
196 ACGTTTTTGAGATCGTTGCTTTGAATACTTCAAAACCCATATCTTAATTTTGTGAATTG
34933976 AATAATAAAAGTTAAAATAATAATTAATATAAT-ATATATGTTATAATAAAACAAAACATTAAAA
1 AATAATAAAAGTTAAAATAATAA-TAATATAATAATATATGTTATAATAAAACAAAACATTAAAA
34934040 AATACCACCATTTTATGTTCATCTTTCTTCACCGAATGTAGAAAAGAAAAACAAGGTTTGAAAGC
65 AATACCACCATTTTATGTTCATCTTTCTTCACCGAATGTAGAAAAGAAAAACAAGGTTTGAAAGC
*
34934105 TTGAAACATTCGGCCATTTTGAAGCTTAATTTAAGGTTAGTTTTTGTTCGGTTTTTGATAATTTT
130 TTGAAACATTCGGCCATTTTGAAGCTTAATTCAAGGTTAGTTTTTGTTCGGTTTTTGATAATTTT
* *
34934170 TACGTTTTTGAGATCGTTGCTTTGAATACTTCAAAAGCCATGTCTTAATTTTGTGAATTG
195 TACGTTTTTGAGATCGTTGCTTTGAATACTTCAAAACCCATATCTTAATTTTGTGAATTG
34934230 TTGATGATTT
Statistics
Matches: 249, Mismatches: 4, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
254 240 0.96
255 9 0.04
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (254 bp):
AATAATAAAAGTTAAAATAATAATAATATAATAATATATGTTATAATAAAACAAAACATTAAAAA
ATACCACCATTTTATGTTCATCTTTCTTCACCGAATGTAGAAAAGAAAAACAAGGTTTGAAAGCT
TGAAACATTCGGCCATTTTGAAGCTTAATTCAAGGTTAGTTTTTGTTCGGTTTTTGATAATTTTT
ACGTTTTTGAGATCGTTGCTTTGAATACTTCAAAACCCATATCTTAATTTTGTGAATTG
Found at i:34934944 original size:43 final size:43
Alignment explanation
Indices: 34934877--34935004 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 43
34934867 CATAGGATTT
*
34934877 TCGATATGTG-TTATCGTGAAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCA
* *
34934920 TC-AGTTTGTGTTTACGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
34934963 TCGATATATGTTTACATGTAAGACCACGTCTGGGACGTTGGC
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGC
34935005 GTTGTACGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
42 3 0.04
43 62 0.87
44 6 0.08
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:34936304 original size:4 final size:4
Alignment explanation
Indices: 34936295--34936321 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34936285 ATGTTTTGCT
34936295 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
34936322 GACTCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:34945052 original size:11 final size:11
Alignment explanation
Indices: 34945036--34945164 Score: 91
Period size: 11 Copynumber: 12.4 Consensus size: 11
34945026 TATTTTTTAA
34945036 TTTTAAAATAT
1 TTTTAAAATAT
34945047 TTTTAAAATACT
1 TTTTAAAATA-T
* *
34945059 TTTT---TTAA
1 TTTTAAAATAT
34945067 TTTTAAAATAT
1 TTTTAAAATAT
34945078 TTTTAAAATAT
1 TTTTAAAATAT
34945089 TTTTAAAATACT
1 TTTTAAAATA-T
*
34945101 TTTT-TAAT-T
1 TTTTAAAATAT
*
34945110 TTTT----TAA
1 TTTTAAAATAT
34945117 TTTTAAAATAT
1 TTTTAAAATAT
34945128 TTTTAAAATACT
1 TTTTAAAATA-T
**
34945140 TTTT-TTA-AT
1 TTTTAAAATAT
34945149 TTTTAAAATAAT
1 TTTTAAAAT-AT
34945161 TTTT
1 TTTT
34945165 TGGTATTTAT
Statistics
Matches: 93, Mismatches: 11, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
6 1 0.01
7 4 0.04
8 4 0.04
9 12 0.13
10 2 0.02
11 49 0.53
12 21 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:34945065 original size:31 final size:30
Alignment explanation
Indices: 34945028--34945092 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 30
34945018 NNNNNATTTA
34945028 TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTAAAATATTTTTAAAATA-T
34945059 TTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTTTAATTTTAAAATATTTTTAAAATAT
34945089 TTTT
1 TTTT
34945093 AAAATACTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.15
31 29 0.85
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAT
Found at i:34945164 original size:50 final size:49
Alignment explanation
Indices: 34945035--34945165 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 49
34945025 TTATTTTTTA
*
34945035 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTAAAATATTTTTAAAAT
1 ATTTTTAAA-ATTTTTAAAATA--TTTTTTAATTTTAAAATATTTTTAAAAT
**
34945087 ATTTTTAAAATACTTTTTTAAT-TTTTTTAATTTTAAAATATTTTTAAAAT
1 ATTTTTAAAAT--TTTTAAAATATTTTTTAATTTTAAAATATTTTTAAAAT
**
34945137 ACTTTTTTTAATTTTTAAAATAATTTTTT
1 A-TTTTTAAAATTTTTAAAAT-ATTTTTT
34945166 GGTATTTATT
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
49 7 0.10
50 29 0.43
51 16 0.24
52 8 0.12
53 7 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (49 bp):
ATTTTTAAAATTTTTAAAATATTTTTTAATTTTAAAATATTTTTAAAAT
Found at i:34953319 original size:6 final size:6
Alignment explanation
Indices: 34953308--34953348 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
34953298 GCAAGAAGGC
* *
34953308 GCGTGG GCGTGG GCGTGA GCGTGA GCGTGA GCGTGA GCGTG
1 GCGTGA GCGTGA GCGTGA GCGTGA GCGTGA GCGTGA GCGTG
34953349 GGTATAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.10, C:0.17, G:0.56, T:0.17
Consensus pattern (6 bp):
GCGTGA
Found at i:34953805 original size:27 final size:27
Alignment explanation
Indices: 34953767--34953841 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
34953757 TATTGGCGCT
*
34953767 TATCTCAGAGGCGCCAATGGTGGTGCC
1 TATCTAAGAGGCGCCAATGGTGGTGCC
* * *
34953794 TATCTGAGAGGCGCCAATAGTGGTGTC
1 TATCTAAGAGGCGCCAATGGTGGTGCC
*
34953821 -ATGTTAAGAGGCGCCAATGGT
1 TAT-CTAAGAGGCGCCAATGGT
34953842 CTGATTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (27 bp):
TATCTAAGAGGCGCCAATGGTGGTGCC
Found at i:34959203 original size:4 final size:4
Alignment explanation
Indices: 34959194--34959219 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
34959184 TACATTACAT
34959194 TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TT
34959220 CTTCTTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:34959223 original size:3 final size:3
Alignment explanation
Indices: 34959215--34959249 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
34959205 CTTTCTTTCT
34959215 TTC TTC TTC TTC -TC TTC TTC TTC TT- TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
34959250 CCTTTCTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:34959230 original size:11 final size:11
Alignment explanation
Indices: 34959211--34959250 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
34959201 CTTTCTTTCT
34959211 TTCTT-TCTTC
1 TTCTTCTCTTC
34959221 TTCTTCTCTTC
1 TTCTTCTCTTC
*
34959232 TTCTTCTTTTC
1 TTCTTCTCTTC
34959243 TTCTTCTC
1 TTCTTCTC
34959251 CTTTCTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 5 0.19
11 22 0.81
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (11 bp):
TTCTTCTCTTC
Found at i:34959254 original size:14 final size:14
Alignment explanation
Indices: 34959210--34959254 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
34959200 TCTTTCTTTC
34959210 TTTCTTTCTTCTTCT
1 TTTC-TTCTTCTTCT
*
34959225 TCTCTTCTTCTTCT
1 TTTCTTCTTCTTCT
*
34959239 TTTCTTCTTCTCCT
1 TTTCTTCTTCTTCT
34959253 TT
1 TT
34959255 CTCTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 24 0.89
15 3 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTCTTCTTCTTCT
Found at i:34959261 original size:14 final size:14
Alignment explanation
Indices: 34959195--34959261 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
34959185 ACATTACATT
*
34959195 TTCTTTCTTTC-T-
1 TTCTTTCTCTCTTC
*
34959207 TTCTTTCTTTCTTC
1 TTCTTTCTCTCTTC
34959221 TTC-TTCTCTTCTTC
1 TTCTTTCTC-TCTTC
34959235 TTCTTT-TCTTCTTC
1 TTCTTTCTC-TCTTC
*
34959249 TCCTTTCTCTCTT
1 TTCTTTCTCTCTT
34959262 TTTTTTCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
12 11 0.23
13 5 0.10
14 28 0.58
15 4 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTCTTTCTCTCTTC
Found at i:34959405 original size:27 final size:27
Alignment explanation
Indices: 34959375--34959439 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
34959365 AGAAGGCCAC
34959375 CATTGGCGCCTCCCTAAGAGGCAAATT
1 CATTGGCGCCTCCCTAAGAGGCAAATT
** * **
34959402 CATTGGCGCCTCTTTATGAGGCACCTT
1 CATTGGCGCCTCCCTAAGAGGCAAATT
34959429 CATTGGCGCCT
1 CATTGGCGCCT
34959440 ACCTGATAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.28
Consensus pattern (27 bp):
CATTGGCGCCTCCCTAAGAGGCAAATT
Found at i:34959450 original size:27 final size:26
Alignment explanation
Indices: 34959375--34959450 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
34959365 AGAAGGCCAC
*
34959375 CATTGGCGCCTCCCTAAGAGGCAAATT
1 CATTGGCGCCT-CCTAATAGGCAAATT
* * **
34959402 CATTGGCGCCTCTTTATGAGGCACCTT
1 CATTGGCGCCTCCTAAT-AGGCAAATT
*
34959429 CATTGGCGCCTACCTGATAGGC
1 CATTGGCGCCT-CCTAATAGGC
34959451 GCCACCCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.08
27 33 0.82
28 4 0.10
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (26 bp):
CATTGGCGCCTCCTAATAGGCAAATT
Found at i:34975308 original size:315 final size:315
Alignment explanation
Indices: 34974729--34975676 Score: 1673
Period size: 315 Copynumber: 3.0 Consensus size: 315
34974719 ACTTTCTCAG
*
34974729 CTTGATCAGCATCAAAGAGGGATCTAACTCTTCCTTCATTCCAAGTACAAGAGTCTGAATTGAAC
1 CTTGATCAGCATCAAAGAGGGATCTAACTCTTCCTTCATTCCAAGTACAAGAGTCTGAATTGATC
* * * *
34974794 AAATGCGCAACAGCAACAAATCTAACATCAATATTCTGGTGTATAATTATCTCATTCCTAAGTTC
66 AAATGTGCAACAGCAAAAAATCTGACATCAATATTCTGGTGTATAATTCTCTCATTCCTAAGTTC
34974859 AGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTGTACCAATTTGCCAACCAGATCCCC
131 AGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTGTACCAATTTGCCAACCAGATCCCC
* *
34974924 TCTCTATTAATCCCTTGACACTTAAAATAGTTCTCTAGGTAATTTAAGGGTAAACACCATAACAT
196 TCTCTATTAATCCCTTGACACTCAAAATAGTTCTCTAGGTAATTTAAGGGTAAACACCATAGCAT
*
34974989 AATCAACATAAAATGACAAGAAAAAGTCAGGTTCAGAGGCTCACTAAAGACCTAC
261 AATCAACATAAAATGACAAGCAAAAGTCAGGTTCAGAGGCTCACTAAAGACCTAC
* * *
34975044 CTTGATCAGCATCAAAAAGTGATCTAACTCTTCATTCATTCCAAGTACAAGAGTCTGAATTGATC
1 CTTGATCAGCATCAAAGAGGGATCTAACTCTTCCTTCATTCCAAGTACAAGAGTCTGAATTGATC
34975109 AAATGTGCAACAGCAAAAAATCTGACATCAATATTCTGGTGTATAATTCTCTCATTCCTAAGTTC
66 AAATGTGCAACAGCAAAAAATCTGACATCAATATTCTGGTGTATAATTCTCTCATTCCTAAGTTC
* *
34975174 AGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTATACCAATTTGCCAACTAGATCCCC
131 AGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTGTACCAATTTGCCAACCAGATCCCC
* * *
34975239 TATCTATTAATCCCTTGACACTCAAAATACTTCTCTAGGTAATTTAAGGGTAAACACCATAGTAT
196 TCTCTATTAATCCCTTGACACTCAAAATAGTTCTCTAGGTAATTTAAGGGTAAACACCATAGCAT
* *
34975304 AATCAACATAAAATGACAAGCAAAAGTCAGGTTTAGAGGCTCACTGAAGACCTAC
261 AATCAACATAAAATGACAAGCAAAAGTCAGGTTCAGAGGCTCACTAAAGACCTAC
34975359 CTTGATCAGCATCAAAGAGGGATCTAACTCTTCCTTCATTCCAAGTACAAGAGTCTGAATTGATC
1 CTTGATCAGCATCAAAGAGGGATCTAACTCTTCCTTCATTCCAAGTACAAGAGTCTGAATTGATC
* *
34975424 AAATGTGCAACAGCAAAAAATCCGACATCAATATTCTGGTGTATAATTCTCTCATAT-TTAAGTT
66 AAATGTGCAACAGCAAAAAATCTGACATCAATATTCTGGTGTATAATTCTCTCAT-TCCTAAGTT
34975488 CAGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTGTACCAATTTGCCAACCAGATCCC
130 CAGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTGTACCAATTTGCCAACCAGATCCC
* * *
34975553 CTCTCTATTAATCCCTTCACACTCAGAATAGTTCTCTAGGTAATTTAAGGGTAAACGCCATAGCA
195 CTCTCTATTAATCCCTTGACACTCAAAATAGTTCTCTAGGTAATTTAAGGGTAAACACCATAGCA
34975618 TAATCAACATAAAATGACAAGCAAAAGTCAGGTTCAGAGGCTCACTAAAGACCTAC
260 TAATCAACATAAAATGACAAGCAAAAGTCAGGTTCAGAGGCTCACTAAAGACCTAC
34975674 CTT
1 CTT
34975677 TACTTTGACC
Statistics
Matches: 599, Mismatches: 33, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
315 598 1.00
316 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (315 bp):
CTTGATCAGCATCAAAGAGGGATCTAACTCTTCCTTCATTCCAAGTACAAGAGTCTGAATTGATC
AAATGTGCAACAGCAAAAAATCTGACATCAATATTCTGGTGTATAATTCTCTCATTCCTAAGTTC
AGGAATACACGAGTCATTCTAGATGTTCACCCTTTCTCCTGTACCAATTTGCCAACCAGATCCCC
TCTCTATTAATCCCTTGACACTCAAAATAGTTCTCTAGGTAATTTAAGGGTAAACACCATAGCAT
AATCAACATAAAATGACAAGCAAAAGTCAGGTTCAGAGGCTCACTAAAGACCTAC
Found at i:34979174 original size:51 final size:51
Alignment explanation
Indices: 34979089--34979296 Score: 295
Period size: 51 Copynumber: 4.2 Consensus size: 51
34979079 CTGATCAGTA
*
34979089 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* * *
34979140 ACAATTGATAACTGGTAGCTTTAGCTACATTTATCTG---A-T--C-AGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* *
34979184 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATTACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
**
34979235 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGATGAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
34979286 ACAAGTGATAA
1 ACAAGTGATAA
34979297 ATGTGATCAG
Statistics
Matches: 139, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
44 38 0.27
45 1 0.01
47 2 0.01
48 2 0.01
50 1 0.01
51 95 0.68
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:34979186 original size:44 final size:44
Alignment explanation
Indices: 34979136--34979279 Score: 198
Period size: 44 Copynumber: 3.1 Consensus size: 44
34979126 ATCAGTGACA
* * *
34979136 AGTGACAATTGATAACTGGTAGCTTTAGCTACATTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
34979180 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATTAC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG----A-T-C
34979230 AAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 -AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
34979275 AGTGA
1 AGTGA
34979280 TGAGTGACAA
Statistics
Matches: 90, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
44 43 0.48
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 41 0.46
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:34979292 original size:95 final size:95
Alignment explanation
Indices: 34979078--34979279 Score: 341
Period size: 95 Copynumber: 2.1 Consensus size: 95
34979068 TTTGAGTACT
* *
34979078 TCTGATCAGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTGACA
* *
34979143 ATTGATAACTGGTAGCTTTAGCTACATTTA
66 AGTGATAACTGGTAGCTTTAGCTACACTTA
* *
34979173 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATTACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTGACA
*
34979238 AGTGATAAGTGGTAGCTTTAGCTACACTTA
66 AGTGATAACTGGTAGCTTTAGCTACACTTA
34979268 TCTGATCAGTGA
1 TCTGATCAGTGA
34979280 TGAGTGACAA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 100 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (95 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAATGACAAGTGACA
AGTGATAACTGGTAGCTTTAGCTACACTTA
Found at i:34979410 original size:49 final size:47
Alignment explanation
Indices: 34979310--34979415 Score: 115
Period size: 49 Copynumber: 2.2 Consensus size: 47
34979300 TGATCAGTGT
* **** *
34979310 AAGACCATATCTGGGATATGGCATTGGTGTGATATGTGTTTCTGTGT
1 AAGACCATAGCTGGGATATGGCATTGGTGTGATATGTGACGATGTGC
*
34979357 AAGACCATAGCTGGGCTATGGC-TTCGGTGTGTGATATGTGACGATGTGC
1 AAGACCATAGCTGGGATATGGCATT--G-GTGTGATATGTGACGATGTGC
34979406 AAGACCATAG
1 AAGACCATAG
34979416 TTATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
46 2 0.04
47 20 0.41
48 1 0.02
49 26 0.53
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (47 bp):
AAGACCATAGCTGGGATATGGCATTGGTGTGATATGTGACGATGTGC
Found at i:34980646 original size:42 final size:42
Alignment explanation
Indices: 34980592--34980706 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
34980582 GTGCTAAATA
* * * *
34980592 GAAACCCGTAAAGGTTGAACGGAAGTTCATAAGAGCTGAACG
1 GAAACCCATAAAGGTTGAACGGAAGCTCAAAAGAGATGAACG
* * *
34980634 GAATCCCATAAAGGTTAAACAGAAGCTCAAAAGAGATGAACG
1 GAAACCCATAAAGGTTGAACGGAAGCTCAAAAGAGATGAACG
* * * *
34980676 GAAACCCATTAGGGTTGAACGAAAACTCAAA
1 GAAACCCATAAAGGTTGAACGGAAGCTCAAA
34980707 TGAGTTAAAC
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.16
Consensus pattern (42 bp):
GAAACCCATAAAGGTTGAACGGAAGCTCAAAAGAGATGAACG
Found at i:34983627 original size:36 final size:37
Alignment explanation
Indices: 34983586--34983765 Score: 280
Period size: 36 Copynumber: 5.0 Consensus size: 37
34983576 GTAGCTTTAG
34983586 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGT-T
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
34983622 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGT
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
34983659 -TACACTTATCTGATCAAGTGAAAAAGTGATAAGTG-
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
*
34983694 CTACACTTATCTGATCAAGAGACAAAA-TGATAAGTGT
1 CTACACTTATCTGATCAAGTGA-AAAAGTGATAAGTGT
*
34983731 -TATACTTATCTGATCAAGTGAAAAAGTGATAAGTG
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
34983766 NNNNNNNNNN
Statistics
Matches: 132, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
35 4 0.03
36 123 0.93
37 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (37 bp):
CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Found at i:34983704 original size:72 final size:72
Alignment explanation
Indices: 34983587--34983765 Score: 331
Period size: 72 Copynumber: 2.5 Consensus size: 72
34983577 TAGCTTTAGC
* *
34983587 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTTCTACACTTATCTGATCAAGAGACAAAGTGA
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAATGA
34983652 TAAGTGT
66 TAAGTGT
34983659 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAATGA
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAATGA
34983724 TAAGTGT
66 TAAGTGT
*
34983731 TATACTTATCTGATCAAGTGAAAAAGTGATAAGTG
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTG
34983766 NNNNNNNNNN
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 104 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (72 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAATGA
TAAGTGT
Found at i:34984239 original size:39 final size:39
Alignment explanation
Indices: 34984196--34984273 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
34984186 TATGAACTTT
34984196 ACTAAGCTTTTCTATAAGCTTACATGTGTGTGTTTATTG
1 ACTAAGCTTTTCTATAAGCTTACATGTGTGTGTTTATTG
34984235 ACTAAGCTTTTCTATAAGCTTACATGTGTGTGTTTATTG
1 ACTAAGCTTTTCTATAAGCTTACATGTGTGTGTTTATTG
34984274 TTTTTGTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (39 bp):
ACTAAGCTTTTCTATAAGCTTACATGTGTGTGTTTATTG
Found at i:34989652 original size:19 final size:19
Alignment explanation
Indices: 34989630--34989670 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
34989620 TTATTTAATA
34989630 TTAACATAATTATAATTGT
1 TTAACATAATTATAATTGT
* * *
34989649 TTAATATTATTATAATTTT
1 TTAACATAATTATAATTGT
34989668 TTA
1 TTA
34989671 TTTAACTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAACATAATTATAATTGT
Found at i:34993923 original size:371 final size:371
Alignment explanation
Indices: 34993240--34993983 Score: 1371
Period size: 371 Copynumber: 2.0 Consensus size: 371
34993230 TACCTTTTAA
34993240 CAAAATGAGAGCTCCACAAGATACTTTAGTGCCACTCGACTCGATGTTGATTCTGCATCATTTCA
1 CAAAATGAGAGCTCCACAAGATACTTTAGTGCCACTCGACTCGATGTTGATTCTGCATCATTTCA
*
34993305 AGTCTAAAATACTCAATGAGATGAGATTTTTTCGTAAATCAGCTACATACCTAACATCTTAGAGT
66 AGTCTAAAATACTCAATGAGATAAGATTTTTTCGTAAATCAGCTACATACCTAACATCTTAGAGT
* *
34993370 GTCCTAATTGTTCCATCGTGTATTTTAATTTTAACAGTACCAATACCAATTACCTTATTGGATGA
131 GTCCTAATTGTCCCATCGTGTATTTTAATTTTAACAGTACCAATACCAAATACCTTATTGGATGA
*
34993435 ATCGTTTCTCATGCGCACAACTCCACATTCAACCGAATTGTATGTGGAGAACCATTCTCTATTGG
196 ATCGTTTCCCATGCGCACAACTCCACATTCAACCGAATTGTATGTGGAGAACCATTCTCTATTGG
34993500 GACATATATGGAAAGAACATCTCGAATGCAGGACCCACTCGGATGTAAGCTTGGAGTTATCACTT
261 GACATATATGGAAAGAACATCTCGAATGCAGGACCCACTCGGATGTAAGCTTGGAGTTATCACTT
*
34993565 GTTGACACTAACAAGAAATCATCACCGCTTTCATCGGCCAAATTAG
326 GTTGACACTAACAAGAAATCATCACCACTTTCATCGGCCAAATTAG
* *
34993611 CAAAATGAGAGCTCCACGAGATACTTTAGTGCCACTCGACTCGATGTTGATTTTGCATCATTTCA
1 CAAAATGAGAGCTCCACAAGATACTTTAGTGCCACTCGACTCGATGTTGATTCTGCATCATTTCA
*
34993676 AGTCTAAAATACTCAATGAGATAAGATTTTTTTGTAAATCAGCTACATACCTAACATCTTAGAGT
66 AGTCTAAAATACTCAATGAGATAAGATTTTTTCGTAAATCAGCTACATACCTAACATCTTAGAGT
* *
34993741 GTCCTAATTGTCCCATCGTGTATTTTAATTTTAACATTGCCAATACCAAATACCTTATTGGATGA
131 GTCCTAATTGTCCCATCGTGTATTTTAATTTTAACAGTACCAATACCAAATACCTTATTGGATGA
* *
34993806 ATCGTTTCCCATGCGCACAACTCCATATTCAATCGAATTGTATGTGGAGAACCATTCTCTATTGG
196 ATCGTTTCCCATGCGCACAACTCCACATTCAACCGAATTGTATGTGGAGAACCATTCTCTATTGG
*
34993871 GACATATATGGAAAGAACATCTCGAATGTAGGACCCACTCGGATGTAAGCTTGGAGTTATCACTT
261 GACATATATGGAAAGAACATCTCGAATGCAGGACCCACTCGGATGTAAGCTTGGAGTTATCACTT
34993936 GTTGACACTAACAAGAAATCATCACCACTTTCATCGGCCAAATTAG
326 GTTGACACTAACAAGAAATCATCACCACTTTCATCGGCCAAATTAG
34993982 CA
1 CA
34993984 CCAGCTATAT
Statistics
Matches: 360, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
371 360 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (371 bp):
CAAAATGAGAGCTCCACAAGATACTTTAGTGCCACTCGACTCGATGTTGATTCTGCATCATTTCA
AGTCTAAAATACTCAATGAGATAAGATTTTTTCGTAAATCAGCTACATACCTAACATCTTAGAGT
GTCCTAATTGTCCCATCGTGTATTTTAATTTTAACAGTACCAATACCAAATACCTTATTGGATGA
ATCGTTTCCCATGCGCACAACTCCACATTCAACCGAATTGTATGTGGAGAACCATTCTCTATTGG
GACATATATGGAAAGAACATCTCGAATGCAGGACCCACTCGGATGTAAGCTTGGAGTTATCACTT
GTTGACACTAACAAGAAATCATCACCACTTTCATCGGCCAAATTAG
Found at i:35002986 original size:26 final size:26
Alignment explanation
Indices: 35002938--35003000 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
35002928 GCTTTTTAAT
* *
35002938 TTTTTAAAAATAGAAAATGGAAATTA
1 TTTTTAAAAATAGAAAATAGAAAATA
*
35002964 TTATTTGAAAATA-AAAATAGAAAATA
1 TT-TTTAAAAATAGAAAATAGAAAATA
35002990 TTTTTAAAAAT
1 TTTTTAAAAAT
35003001 CAGATCTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 8 0.25
26 15 0.47
27 9 0.28
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.37
Consensus pattern (26 bp):
TTTTTAAAAATAGAAAATAGAAAATA
Found at i:35006192 original size:15 final size:15
Alignment explanation
Indices: 35006172--35006201 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35006162 GTCAAAAATT
35006172 TTATACATAAATATG
1 TTATACATAAATATG
*
35006187 TTATACATATATATG
1 TTATACATAAATATG
35006202 ATGGCATGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
TTATACATAAATATG
Found at i:35006874 original size:16 final size:16
Alignment explanation
Indices: 35006853--35006885 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35006843 GTTATTTTTT
35006853 TCAAATTTATATACTC
1 TCAAATTTATATACTC
*
35006869 TCAAATTTATTTACTC
1 TCAAATTTATATACTC
35006885 T
1 T
35006886 AGTATTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (16 bp):
TCAAATTTATATACTC
Found at i:35014225 original size:107 final size:108
Alignment explanation
Indices: 35013905--35014561 Score: 791
Period size: 107 Copynumber: 6.2 Consensus size: 108
35013895 ACCCAGTACA
* *
35013905 AAAAAAAGTAAAAAAAAAAATTGGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAGTAAAAA
1 AAAAAAAGT-AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGT-AAAA
* * *
35013970 AAAATTTTGACTTTTTTTCGTGTCA-CATCAGGTATTAGTATACG
64 AAAATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTATACG
35014014 AAAAAAAGTAAAAAAAAAATTTTGGGTGCTGGCC---C-A------GCACCCAGTACAGTAAAAA
1 AAAAAAAGTAAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGT-AAAA
* *
35014069 AACAATTTTGACTTTTTTT-GTATCAGTATCAGGTATCAGTATACG
64 AA-AATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTATACG
*
35014114 AAAAAAAAGT-AAAAAAAAATTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGTACAGTAAAAA
1 -AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAA
* * *
35014178 AGA-TTTGACTTTTTTTCATGTCCGTATCAGGTATCAGTATACT
65 AAATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTATACG
* * *
35014221 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGTCTGTCAATGGTCGACACCCAGTACAGTAAAAAA
1 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAA
* * ** * ** * ** *
35014286 AA-TTCGAGTTTTGGT-ATGTCAATGGCCGACACCAG-AGTACG
66 AATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTA-TACG
* * *
35014327 AAAAAAAGTAAAAAAAAAAAATTTTGGGTGCGGGCCTGTCAATGGCCGGCACCCAATACAGCAAA
1 AAAAAAAGT--AAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAA
**
35014392 AAAAA-TTTGAC-TTTTTTCATGTTGGTATCAGGTATCAGTATACG
63 AAAAATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTATACG
35014436 AAAAAAAGT-AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAA
1 AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAA
*
35014500 AATTTTGACTTTTTTTCATGTCTGTATCAGGTATCAGTATAC-
66 AATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTATACG
35014542 -AAAAAAGTAAAAAAAAAATT
1 AAAAAAAGTAAAAAAAAAATT
35014562 ATATCTATAA
Statistics
Matches: 470, Mismatches: 53, Indels: 53
0.82 0.09 0.09
Matches are distributed among these distances:
99 38 0.08
100 42 0.09
101 9 0.02
102 1 0.00
103 1 0.00
105 55 0.12
106 73 0.16
107 114 0.24
108 30 0.06
109 106 0.23
110 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (108 bp):
AAAAAAAGTAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAGTAAAAAA
AATTTTGACTTTTTTTCATGTCAGTATCAGGTATCAGTATACG
Found at i:35014332 original size:48 final size:48
Alignment explanation
Indices: 35014231--35014333 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
35014221 AAAAAAAGTA
* * * *
35014231 AAAAAAAAATTTGGGTGCTGGTCTGTCAATGGTCGACACCCAGTACAG
1 AAAAAAAAATTCGAGTGCTGGTATGTCAATGGCCGACACCCAGTACAG
* ** *
35014279 TAAAAAAAATTCGAGTTTTGGTATGTCAATGGCCGACACCAGAGTAC-G
1 AAAAAAAAATTCGAGTGCTGGTATGTCAATGGCCGACACC-CAGTACAG
35014327 AAAAAAA
1 AAAAAAA
35014334 GTAAAAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 40 0.89
49 5 0.11
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (48 bp):
AAAAAAAAATTCGAGTGCTGGTATGTCAATGGCCGACACCCAGTACAG
Found at i:35014921 original size:94 final size:94
Alignment explanation
Indices: 35014812--35015090 Score: 292
Period size: 106 Copynumber: 2.8 Consensus size: 94
35014802 ATAGATATAA
* *
35014812 TTTTTTTTACTTTTTTT-GTATACTGATACCTAATACTGACACGAAAAAAAGTCAAAAAAAATTT
1 TTTTTTTTACTTTTTTTCGTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAA--T
35014876 TTACTGTACTGGGTGGCCGACACTCAAAAAT
64 TTACTGTACTGGGTGGCCGACACTCAAAAAT
* *
35014907 TTTTTTTTACTTTTTTTCTTATACTAATACCTGATACTGACACGAAAAAAAATCAAAAAAAATTT
1 TTTTTTTTACTTTTTTTCGTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAATTT
*
35014972 ACTGTACTGGGTGCCGGCCATTGACAGGC-CAGCACCCAAAA
66 ACTGTACTGGGT---GGCC---GACA--CTCA--A---AAAT
* * * * * * *
35015013 TTTTTTTTACTTTTTTTCGTATATTGATACTTGATACTAACACGAAAAAAAGTTAAAAAAAATTT
1 TTTTTTTTACTTTTTTTCGTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAATTT
*
35015078 ACTGTGCTGGGTG
66 ACTGTACTGGGTG
35015091 CCAACCATTA
Statistics
Matches: 157, Mismatches: 13, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
94 15 0.10
95 17 0.11
96 40 0.25
97 4 0.03
100 4 0.03
101 2 0.01
102 1 0.01
103 2 0.01
106 72 0.46
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (94 bp):
TTTTTTTTACTTTTTTTCGTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAATTT
ACTGTACTGGGTGGCCGACACTCAAAAAT
Found at i:35014937 original size:96 final size:93
Alignment explanation
Indices: 35014812--35014984 Score: 283
Period size: 96 Copynumber: 1.8 Consensus size: 93
35014802 ATAGATATAA
* *
35014812 TTTTTTTTACTTTTTTTGTATACTGATACCTAATACTGACACGAAAAAAAGTCAAAAAAAATTTT
1 TTTTTTTTACTTTTTTTGTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAA--TT
35014877 TACTGTACTGGGTGGCCGACACTCAAAAAT
64 TACTGTACTGGGTGGCCGACACTCAAAAAT
* *
35014907 TTTTTTTTACTTTTTTTCTTATACTAATACCTGATACTGACACGAAAAAAAATCAAAAAAAATTT
1 TTTTTTTTACTTTTTTT-GTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAATTT
35014972 ACTGTACTGGGTG
65 ACTGTACTGGGTG
35014985 CCGGCCATTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
94 16 0.22
95 17 0.23
96 40 0.55
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (93 bp):
TTTTTTTTACTTTTTTTGTATACTAATACCTAATACTGACACGAAAAAAAATCAAAAAAAATTTA
CTGTACTGGGTGGCCGACACTCAAAAAT
Found at i:35015023 original size:106 final size:105
Alignment explanation
Indices: 35014900--35015218 Score: 382
Period size: 106 Copynumber: 3.0 Consensus size: 105
35014890 GGCCGACACT
*
35014900 CAAAAATTTTTTTTTACTTTTTTTCTTATACTAATACCTGATACTGACACGAAAAAAAATCAAAA
1 CAAAAA-TTTTTTTTACTTTTTTTCTTATACT-ATACCTGATACTGACACGAAAAAAAGTCAAAA
35014965 AAAATTTACTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
64 AAAATTTACTGTACTGGGTGCCGGCCATTGACAGG-CAGCACC
* * * * *
35015008 C-AAAATTTTTTTTACTTTTTTTCGTATATTGATACTTGATACTAACACGAAAAAAAGTTAAAAA
1 CAAAAATTTTTTTTACTTTTTTTCTTATACT-ATACCTGATACTGACACGAAAAAAAGTCAAAAA
* ** *
35015072 AAATTTACTGTGCTGGGTGCCAACCATTAACAGGCAGCACC
65 AAATTTACTGTACTGGGTGCCGGCCATTGACAGGCAGCACC
* *
35015113 CAAAAAAAATTGTTTTTAC--TTTTT-TT-T-CGTATA-CTGATACTGACATGAAAAAAAGTCAA
1 C---AAAAATTTTTTTTACTTTTTTTCTTATAC-TATACCTGATACTGACACGAAAAAAAGTC--
35015172 AAAAAAAATTTACTGTACTGGGTGCCGGCCATTGACAGGTCAGCACC
60 AAAAAAAATTTACTGTACTGGGTGCCGGCCATTGACAGG-CAGCACC
35015219 TAAACAAAGC
Statistics
Matches: 181, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
103 20 0.11
104 3 0.02
105 45 0.25
106 90 0.50
107 9 0.05
108 1 0.01
109 13 0.07
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (105 bp):
CAAAAATTTTTTTTACTTTTTTTCTTATACTATACCTGATACTGACACGAAAAAAAGTCAAAAAA
AATTTACTGTACTGGGTGCCGGCCATTGACAGGCAGCACC
Found at i:35018109 original size:7 final size:6
Alignment explanation
Indices: 35018064--35018108 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
35018054 TTTTAGGTTT
* *
35018064 TTAGGG TTAGGG TTAGAG TTACGG TTAGGG TTAGGG TTTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TT
35018109 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.18, C:0.02, G:0.42, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:35018523 original size:125 final size:125
Alignment explanation
Indices: 35018294--35018577 Score: 426
Period size: 125 Copynumber: 2.3 Consensus size: 125
35018284 ATTTATTAAG
*
35018294 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTCCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTCCGAGTTGAC
* * * *
35018359 GTTTCTGAGCAAATAGTATAAAAACCACTTCAAGTAGGATGCTTTATTAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAACCACTTCAAGCAGGATGCTTTATGAGAAGAAATACT
*
35018419 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTCCGAGTTGAC
* * ** *
35018484 GTTTCTGAGCAAATAGTGTGTAAAA-TGCTTTAAGCAGGATGCTTTATGAGAAGAAATACT
66 GTTTCTGAGCAAATAGTAT-AAAAACCACTTCAAGCAGGATGCTTTATGAGAAGAAATACT
* * *
35018544 AAAATCGCTCCCACGTGGACACGTTTTTGCTACA
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACA
35018578 GTATCATGTT
Statistics
Matches: 144, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 140 0.97
126 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTCCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAACCACTTCAAGCAGGATGCTTTATGAGAAGAAATACT
Found at i:35020061 original size:18 final size:18
Alignment explanation
Indices: 35020035--35020074 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
35020025 GACTAGAAAA
*
35020035 AGGAAATATATAAGGGTT
1 AGGAAATATATAAGGGCT
*
35020053 AGGACATATATAAGGGCT
1 AGGAAATATATAAGGGCT
35020071 AGGA
1 AGGA
35020075 TACACACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGAAATATATAAGGGCT
Done.