Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 336 of 356
Found at i:107922473 original size:9 final size:9
Alignment explanation
Indices: 107922459--107922500 Score: 75
Period size: 9 Copynumber: 4.6 Consensus size: 9
107922449 GCATGTATAT
107922459 AAAAAAATA
1 AAAAAAATA
107922468 AAAAAAATA
1 AAAAAAATA
107922477 AAAAAAATA
1 AAAAAAATA
107922486 AATAAAAATA
1 AA-AAAAATA
107922496 AAAAA
1 AAAAA
107922501 GGAAAACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:107922482 original size:18 final size:19
Alignment explanation
Indices: 107922459--107922500 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
107922449 GCATGTATAT
107922459 AAAAAAATAAA-AAAAATA
1 AAAAAAATAAATAAAAATA
107922477 AAAAAAATAAATAAAAATA
1 AAAAAAATAAATAAAAATA
107922496 AAAAA
1 AAAAA
107922501 GGAAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (19 bp):
AAAAAAATAAATAAAAATA
Found at i:107923180 original size:20 final size:20
Alignment explanation
Indices: 107923141--107923180 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
107923131 ATTTTCGTTA
*
107923141 TTACTATTATTAGCATATTT
1 TTACTATTATTAGCAAATTT
107923161 TTACTATTATTTAG-AAATTT
1 TTACTATTA-TTAGCAAATTT
107923181 GTTAGTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTACTATTATTAGCAAATTT
Found at i:107923303 original size:22 final size:22
Alignment explanation
Indices: 107923266--107923322 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
107923256 ATATTTTATG
*
107923266 TATACACAT-TTAAATACTATAT
1 TATACACATATT-AATACCATAT
*
107923288 TATACACATATTAATACCATGT
1 TATACACATATTAATACCATAT
* *
107923310 TATATACCTATTA
1 TATACACATATTA
107923323 TTATATCTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (22 bp):
TATACACATATTAATACCATAT
Found at i:107923418 original size:21 final size:20
Alignment explanation
Indices: 107923365--107923418 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 20
107923355 ACTAATATTA
* *
107923365 GTATATGTTTTATTATATAT
1 GTATATATTTAATTATATAT
107923385 GTATATATCTTTAATATATATAT
1 GTATATA--TTTAAT-TATATAT
107923408 GTATATATTTA
1 GTATATATTTA
107923419 TGAAGTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 5 0.17
23 14 0.48
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
GTATATATTTAATTATATAT
Found at i:107923573 original size:12 final size:12
Alignment explanation
Indices: 107923538--107923581 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
107923528 TTACCATTAC
107923538 TATTATTACTAT
1 TATTATTACTAT
**
107923550 TGCTA-TATCTAT
1 TATTATTA-CTAT
107923562 TATTATTACTAT
1 TATTATTACTAT
107923574 TATTATTA
1 TATTATTA
107923582 TTATATTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:107923896 original size:23 final size:23
Alignment explanation
Indices: 107923867--107923912 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
107923857 TACTACCACC
*
107923867 GTTATTTTTATTATCATATTATT
1 GTTATTTTTATTACCATATTATT
*
107923890 GTTATTTTTTTTACCATATTATT
1 GTTATTTTTATTACCATATTATT
107923913 ATTTCCTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.04, T:0.65
Consensus pattern (23 bp):
GTTATTTTTATTACCATATTATT
Found at i:107923994 original size:3 final size:3
Alignment explanation
Indices: 107923986--107924108 Score: 85
Period size: 3 Copynumber: 41.3 Consensus size: 3
107923976 AATTTCACTT
* * *
107923986 TTA TTA TTA TTA ATA -TA TTA TCA TTG TTA TTA TTA TT- TTCCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA
* * * * *
107924031 TTA TTA ATA TTA ATA TTAA TT- TTC TTA TTA TTA CTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
107924076 TCA -TA GGTA TTA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
107924109 CCTTTTATCA
Statistics
Matches: 94, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
2 9 0.10
3 78 0.83
4 5 0.05
5 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:107926405 original size:27 final size:27
Alignment explanation
Indices: 107926375--107926441 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
107926365 TCAAAGACTT
107926375 GGAATTTGCAATTGTATTATACAGTTG
1 GGAATTTGCAATTGTATTATACAGTTG
107926402 GGAATTTGCAATTGTATTATACAGTTG
1 GGAATTTGCAATTGTATTATACAGTTG
*
107926429 AGAATTTGCAATT
1 GGAATTTGCAATT
107926442 TTATAATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
GGAATTTGCAATTGTATTATACAGTTG
Found at i:107927082 original size:112 final size:112
Alignment explanation
Indices: 107926885--107927109 Score: 414
Period size: 112 Copynumber: 2.0 Consensus size: 112
107926875 ATAATAGGCA
*
107926885 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAATATGCCCCTCGTATGAACTTCTGTTTG
1 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
* *
107926950 TCTTAATGAATTGCTGGGGTGGCTGGCTTGTGGAAAACTCTGTTTAT
66 TCTTAACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
107926997 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
1 AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
*
107927062 TCTTGACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
66 TCTTAACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
107927109 A
1 A
107927110 ACTGTCTTAT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (112 bp):
AGTTGATTTTTCCATTGCTTGTATTCTACTTCCCTGAAAATGCCCCTCGTATGAACTTCTGTTTG
TCTTAACGAATTGCTGGGGTGGCTGGCCTGTGGAAAACTCTGTTTAT
Found at i:107930795 original size:11 final size:11
Alignment explanation
Indices: 107930769--107930817 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
107930759 AAACATAATA
107930769 ATAGTAT-TAC
1 ATAGTATATAC
*
107930779 AAAGTATATAC
1 ATAGTATATAC
107930790 ATAGTATA-A-
1 ATAGTATATAC
* *
107930799 AAAATATATAC
1 ATAGTATATAC
107930810 ATAGTATA
1 ATAGTATA
107930818 ATGTTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
9 6 0.20
10 8 0.27
11 16 0.53
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (11 bp):
ATAGTATATAC
Found at i:107930808 original size:20 final size:20
Alignment explanation
Indices: 107930769--107930818 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
107930759 AAACATAATA
* *
107930769 ATAGTATTACAAAGTATATAC
1 ATAGTA-TAAAAAATATATAC
107930790 ATAGTATAAAAAATATATAC
1 ATAGTATAAAAAATATATAC
107930810 ATAGTATAA
1 ATAGTATAA
107930819 TGTTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.32
Consensus pattern (20 bp):
ATAGTATAAAAAATATATAC
Found at i:107930826 original size:25 final size:25
Alignment explanation
Indices: 107930729--107930842 Score: 85
Period size: 27 Copynumber: 4.6 Consensus size: 25
107930719 TAATGTTACC
*
107930729 TATATACATACGTATATATATTTAAAA
1 TATATACATA-GTATA-ATATTAAAAA
* * * *
107930756 TATAAACATAATAATAGTATTACAAAG
1 TATATACATAGT-ATAATATTA-AAAA
107930783 TATATACATAG--T-ATA--AAAAA
1 TATATACATAGTATAATATTAAAAA
*
107930803 TATATACATAGTATAATGTTAAAAA
1 TATATACATAGTATAATATTAAAAA
* *
107930828 TACATACATAATATA
1 TATATACATAGTATA
107930843 TAGTTATTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
20 14 0.21
21 1 0.01
22 1 0.01
23 4 0.06
24 1 0.01
25 18 0.26
26 5 0.07
27 24 0.35
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (25 bp):
TATATACATAGTATAATATTAAAAA
Found at i:107931259 original size:13 final size:13
Alignment explanation
Indices: 107931241--107931322 Score: 80
Period size: 13 Copynumber: 6.4 Consensus size: 13
107931231 ATATTTAAAA
107931241 ATATATACATAAT
1 ATATATACATAAT
* *
107931254 ATATATATATAAA
1 ATATATACATAAT
*
107931267 ATAATATTA-AAAAT
1 AT-ATA-TACATAAT
107931281 ATATATACAT-A-
1 ATATATACATAAT
* *
107931292 ACATATACATAAA
1 ATATATACATAAT
107931305 ATATATACATAAT
1 ATATATACATAAT
107931318 ATATA
1 ATATA
107931323 CATAGAATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
11 9 0.16
12 4 0.07
13 33 0.59
14 8 0.14
15 2 0.04
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:107931308 original size:24 final size:24
Alignment explanation
Indices: 107931243--107931331 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
107931233 ATTTAAAAAT
* *
107931243 ATATACATAATATATATATATAAA
1 ATATACATAAAATATATACATAAA
* * *
107931267 ATAATATTAAAAATATATATACATAAC
1 AT-ATA-CATAAA-ATATATACATAAA
*
107931294 ATATACATAAAATATATACATAAT
1 ATATACATAAAATATATACATAAA
*
107931318 ATATACATAGAATA
1 ATATACATAAAATA
107931332 GTATGAAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
24 27 0.51
25 7 0.13
26 6 0.11
27 13 0.25
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (24 bp):
ATATACATAAAATATATACATAAA
Found at i:107931331 original size:13 final size:11
Alignment explanation
Indices: 107931240--107931326 Score: 76
Period size: 11 Copynumber: 8.1 Consensus size: 11
107931230 GATATTTAAA
107931240 AATATATACAT
1 AATATATACAT
107931251 AATATAT--AT
1 AATATATACAT
*
107931260 -ATATA-AAAT
1 AATATATACAT
* *
107931269 AATAT-TAAAA
1 AATATATACAT
107931279 ATATATATACAT
1 A-ATATATACAT
*
107931291 AACATATACAT
1 AATATATACAT
107931302 AAAATATATACAT
1 --AATATATACAT
107931315 AATATATACAT
1 AATATATACAT
107931326 A
1 A
107931327 GAATAGTATG
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
8 5 0.08
9 4 0.06
10 8 0.13
11 32 0.51
12 4 0.06
13 10 0.16
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (11 bp):
AATATATACAT
Found at i:107931473 original size:3 final size:3
Alignment explanation
Indices: 107931465--107931508 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
107931455 ATATACATAT
107931465 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
107931509 CTAAAAACGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:107936164 original size:12 final size:12
Alignment explanation
Indices: 107936147--107936177 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
107936137 GAAGCAGGGG
107936147 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
107936159 AGAAAAAGGGAA
1 AGAAAAAGAGAA
107936171 AGAAAAA
1 AGAAAAA
107936178 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:107937188 original size:39 final size:38
Alignment explanation
Indices: 107937131--107937218 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 38
107937121 TCGATTAGGT
* *
107937131 ACTGGGTACCAACTTTACTTCG-GCTAGGCCGATGAGAC
1 ACTGGGTGCCAACTTTACTTCGAACTA-GCCGATGAGAC
* * * *
107937169 ACTGGGTGTCAACTATTACTTTGAACTATCCGATGAGGC
1 ACTGGGTGCCAACT-TTACTTCGAACTAGCCGATGAGAC
107937208 ACTGGGTGCCA
1 ACTGGGTGCCA
107937219 TATTGGTGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
38 12 0.29
39 26 0.63
40 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (38 bp):
ACTGGGTGCCAACTTTACTTCGAACTAGCCGATGAGAC
Found at i:107937346 original size:18 final size:18
Alignment explanation
Indices: 107937323--107937362 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
107937313 AAAAAAAAAG
107937323 GAAATT-GAATTATGAATA
1 GAAATTGGAATTATG-ATA
*
107937341 GAAATTGGAATTGTGATA
1 GAAATTGGAATTATGATA
107937359 GAAA
1 GAAA
107937363 GAGAAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
GAAATTGGAATTATGATA
Found at i:107937873 original size:20 final size:20
Alignment explanation
Indices: 107937850--107937887 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
107937840 GTTATTAAGT
107937850 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
107937870 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
107937888 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:107938548 original size:20 final size:20
Alignment explanation
Indices: 107938503--107938548 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
107938493 CATCCAAACA
107938503 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
107938523 -CAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
107938542 CCAGAAA
1 CCAGAAA
107938549 TTATTTTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:107954580 original size:20 final size:21
Alignment explanation
Indices: 107954542--107954580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
107954532 ATTTGCCTCC
107954542 CTATCTAAGATCATGTTTCCT
1 CTATCTAAGATCATGTTTCCT
*
107954563 CTATCTAAG-TCATTTTTC
1 CTATCTAAGATCATGTTTC
107954581 AGAGGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (21 bp):
CTATCTAAGATCATGTTTCCT
Found at i:107958365 original size:23 final size:21
Alignment explanation
Indices: 107958337--107958395 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 21
107958327 ATATTTTTTT
107958337 AAAAATCTCAAAAAAAAATTCTA
1 AAAAAT-T-AAAAAAAAATTCTA
* *
107958360 AAAAATATATAAAGAAAATTTTA
1 AAAAAT-TA-AAAAAAAATTCTA
107958383 AAAAATTAAAAAA
1 AAAAATTAAAAAA
107958396 TTTCTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 24 0.77
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAATTAAAAAAAAATTCTA
Found at i:107958802 original size:32 final size:32
Alignment explanation
Indices: 107958761--107958825 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
107958751 CAACTAACAA
107958761 TGGAGGAATCACATATATTGTTTATATTCACT
1 TGGAGGAATCACATATATTGTTTATATTCACT
107958793 TGGAGGAATCACATATATTGTTTATATTCACT
1 TGGAGGAATCACATATATTGTTTATATTCACT
107958825 T
1 T
107958826 TTCTTGCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (32 bp):
TGGAGGAATCACATATATTGTTTATATTCACT
Found at i:107964530 original size:150 final size:151
Alignment explanation
Indices: 107964202--107964547 Score: 491
Period size: 151 Copynumber: 2.3 Consensus size: 151
107964192 ACGTACGTTG
* * ***
107964202 TTTATATTCACTTTTCTTGCAACACTAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTCTC
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAAAATTTTCTC
107964267 CCTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTAAATTCAAGTTAAAG
66 CCTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTAAATTCAAGTTAAAG
*
107964332 AAACCATACTAAATATATATG
131 AAACCATACTAAATATATATA
** * **
107964353 TTTATATTCGTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAAAATTTTCTC
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAAAATTTTCTC
* * * *
107964418 CTTTTTTAAATGGTTTTCTT-ATTTCTTTGTTAGTTTTT-AGA-TCTTCATTTAATTCAAGTTCA
66 CCTTTTTAAATGGTTTTCTTGA-TTCTTTGTT-GTTTTTAAAATTCTTCATTAAATTCAAGTTAA
* *
107964480 AGAAACCATACTACATATATGTA
129 AGAAACCATACTAAATATATATA
*
107964503 TTTATATTCACTTTTCTTGTTACACAAGCAAGCCAAAACCATAAA
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAA
107964548 TAAATACATA
Statistics
Matches: 170, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
150 79 0.46
151 85 0.50
152 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (151 bp):
TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAAAATTTTCTC
CCTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTAAATTCAAGTTAAAG
AAACCATACTAAATATATATA
Found at i:107966727 original size:14 final size:14
Alignment explanation
Indices: 107966682--107966730 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
107966672 TTATAAAAAT
*
107966682 TAATTATATTTTGA
1 TAATTATATTTTAA
* *
107966696 TAATAATA-TTAAA
1 TAATTATATTTTAA
107966709 TTAATTATATTTTAA
1 -TAATTATATTTTAA
107966724 TAATTAT
1 TAATTAT
107966731 GTAATATTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 21 0.75
15 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TAATTATATTTTAA
Found at i:107967807 original size:37 final size:37
Alignment explanation
Indices: 107967750--107967875 Score: 141
Period size: 37 Copynumber: 3.4 Consensus size: 37
107967740 GCAATAATTT
* *
107967750 TCATTCGATTATGAATATACCTTTCTTG-TGAGTATTC
1 TCATTCTATTATGACTATACCTTTCTTGCT-AGTATTC
*
107967787 TCATTCTATT-TCGAAC-ATACCTTTCTTGCTTGTATTC
1 TCATTCTATTAT-G-ACTATACCTTTCTTGCTAGTATTC
**
107967824 TCATTCTATTATGACTATACCTTTCTTGCTTTTATTC
1 TCATTCTATTATGACTATACCTTTCTTGCTAGTATTC
*
107967861 TTATTCTATTGATGA
1 TCATTCTATT-ATGA
107967876 TTAATGTTGC
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
36 3 0.04
37 68 0.87
38 7 0.09
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (37 bp):
TCATTCTATTATGACTATACCTTTCTTGCTAGTATTC
Found at i:107970684 original size:59 final size:60
Alignment explanation
Indices: 107970576--107970696 Score: 226
Period size: 59 Copynumber: 2.0 Consensus size: 60
107970566 TCTTAAGCAC
107970576 TTTCATAATATTCTTTTATATGTTTTTTTCTTAAGAAATATATTAAATAAATTTTATAAT
1 TTTCATAATATTCTTTTATATGTTTTTTTCTTAAGAAATATATTAAATAAATTTTATAAT
*
107970636 TTTCATACTATTCTTTTATATG-TTTTTTCTTAAGAAATATATTAAATAAATTTTATAAT
1 TTTCATAATATTCTTTTATATGTTTTTTTCTTAAGAAATATATTAAATAAATTTTATAAT
107970695 TT
1 TT
107970697 AAATTCAGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 39 0.65
60 21 0.35
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (60 bp):
TTTCATAATATTCTTTTATATGTTTTTTTCTTAAGAAATATATTAAATAAATTTTATAAT
Found at i:107976067 original size:10 final size:10
Alignment explanation
Indices: 107976054--107976103 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
107976044 TAATTTTAAG
107976054 ATTTAT-TTT
1 ATTTATCTTT
107976063 CATTTATCTTT
1 -ATTTATCTTT
*
107976074 AATTATCTTT
1 ATTTATCTTT
107976084 ATTTAT-TTAT
1 ATTTATCTT-T
107976094 ATTTATCTTT
1 ATTTATCTTT
107976104 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:107976417 original size:15 final size:15
Alignment explanation
Indices: 107976394--107976425 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
107976384 TTCATCGCTT
107976394 CTCCACATTACGGGG
1 CTCCACATTACGGGG
*
107976409 CTCCGCATTACGGGG
1 CTCCACATTACGGGG
107976424 CT
1 CT
107976426 GACACTTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.22
Consensus pattern (15 bp):
CTCCACATTACGGGG
Found at i:107980332 original size:25 final size:25
Alignment explanation
Indices: 107980269--107980334 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
107980259 ACTTCTCACC
*
107980269 AAGCTTGCAGCTTTG-ACATTTTGCT
1 AAGCTTGCAGC-TTGCAAATTTTGCT
*
107980294 AAGCTTGCAACTTGCAAATTTTGCT
1 AAGCTTGCAGCTTGCAAATTTTGCT
107980319 GAA-CTTGCAGCTTGCA
1 -AAGCTTGCAGCTTGCA
107980335 CATTGGAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 3 0.08
25 31 0.86
26 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (25 bp):
AAGCTTGCAGCTTGCAAATTTTGCT
Found at i:107985795 original size:3 final size:3
Alignment explanation
Indices: 107985787--107986061 Score: 104
Period size: 3 Copynumber: 92.3 Consensus size: 3
107985777 TTTGGCTACT
* * * * *
107985787 TTA TTA TTA -AA TTAA TTA TTT TTA ATA TTA TTA TTA CTA TTT TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** ** * *
107985832 TTA TTA AAA TTA TTA TTA TTA TTA ACA -TA TTA TTA TTT TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * **
107985879 TTA TTA TTA ACA -TA TTA TTA TTC TTT TTA ATA -TA TTA TTA TT- TCC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
107985924 TT- TT- TTA -TA TTA TTA TTT TTA TTA TTA ACA TGTA TTA TTC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * ** *
107985967 TTAA TGTA TTG TTA TTC TCTA TTA TTA TTG TTA CCA -TA TCA TTA TTA
1 TT-A T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
107986014 TTAA GGTG TTA TT- TTCA TTA TTC TCTA TT- TTA TTA TTA TTC TTA TTA
1 TT-A -TTA TTA TTA TT-A TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
107986061 T
1 T
107986062 CATTTTTTAT
Statistics
Matches: 196, Mismatches: 57, Indels: 38
0.67 0.20 0.13
Matches are distributed among these distances:
2 17 0.09
3 161 0.82
4 16 0.08
5 2 0.01
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:107986058 original size:24 final size:22
Alignment explanation
Indices: 107986022--107986073 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
107986012 TATTAAGGTG
*
107986022 TTATTTTCATTATTCTCTATTTT
1 TTATTTTCATTATTATC-ATTTT
107986045 ATTATTATTC-TTATTATCATTTT
1 -TTATT-TTCATTATTATCATTTT
107986068 TTATTT
1 TTATTT
107986074 GTTTGTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 5 0.19
23 5 0.19
24 12 0.46
25 3 0.12
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (22 bp):
TTATTTTCATTATTATCATTTT
Found at i:107991665 original size:16 final size:15
Alignment explanation
Indices: 107991644--107991691 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
107991634 GATGTGAATA
107991644 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
107991660 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
107991675 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
107991691 A
1 A
107991692 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:107991667 original size:24 final size:24
Alignment explanation
Indices: 107991640--107991695 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
107991630 TAATGATGTG
*
107991640 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
107991664 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
107991688 AATAATAA
1 AATAATAA
107991696 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:107991674 original size:8 final size:8
Alignment explanation
Indices: 107991640--107991691 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
107991630 TAATGATGTG
*
107991640 AATAATAA
1 AATATTAA
107991648 AATATATAA
1 AATAT-TAA
107991657 AATA-TAA
1 AATATTAA
107991664 AATATTAA
1 AATATTAA
*
107991672 AATATCAA
1 AATATTAA
*
107991680 AATATTAG
1 AATATTAA
107991688 AATA
1 AATA
107991692 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:107991907 original size:22 final size:24
Alignment explanation
Indices: 107991844--107991908 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
107991834 CGTGATAATA
*
107991844 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
107991869 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
107991892 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
107991909 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:107991939 original size:36 final size:35
Alignment explanation
Indices: 107991897--107991964 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
107991887 TATAGTTAAG
*
107991897 ATATATACATAAGATAACATGTAAAAATATATATAT
1 ATATATAAATAAGATAACAT-TAAAAATATATATAT
* * *
107991933 ATATATAAATAATATAATATTAAAGATATATA
1 ATATATAAATAAGATAACATTAAAAATATATA
107991965 CATAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (35 bp):
ATATATAAATAAGATAACATTAAAAATATATATAT
Found at i:107991961 original size:27 final size:27
Alignment explanation
Indices: 107991931--107992000 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 27
107991921 AAATATATAT
* *
107991931 ATATATATAAATAATATAATATTAAAG
1 ATATATATACATAATATAATATAAAAG
* * *
107991958 --ATATATACATAAAATAGTATAAAAT
1 ATATATATACATAATATAATATAAAAG
107991983 ATATATATACATAATATA
1 ATATATATACATAATATA
107992001 GAATTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 20 0.57
27 15 0.43
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (27 bp):
ATATATATACATAATATAATATAAAAG
Found at i:107991969 original size:25 final size:25
Alignment explanation
Indices: 107991933--107992066 Score: 95
Period size: 23 Copynumber: 5.6 Consensus size: 25
107991923 ATATATATAT
*
107991933 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATTAAAG
* * * *
107991958 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAATAT-TAA-AG
*
107991985 ATATATACATAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATATTAAAG
* *
107992009 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATACATAATATAATATTAAAG
*
107992031 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAATATTAAAG
*
107992054 AAATATA-ATAATA
1 ATATATACATAATA
107992067 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 24 0.28
24 7 0.08
25 18 0.21
26 3 0.03
27 18 0.21
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATACATAATATAATATTAAAG
Found at i:107992013 original size:27 final size:27
Alignment explanation
Indices: 107991931--107992014 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
107991921 AAATATATAT
*
107991931 ATATATATAAATAATAT--AATATT-AA
1 ATATATATACATAATATAGAAT-TTAAA
* * * *
107991956 AGATATATACATAAAATAGTA-TAAAA
1 ATATATATACATAATATAGAATTTAAA
107991982 TATATATATACATAATATAGAATTTAAA
1 -ATATATATACATAATATAGAATTTAAA
107992010 ATATA
1 ATATA
107992015 CCTAATATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
25 15 0.33
26 2 0.04
27 24 0.53
28 4 0.09
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (27 bp):
ATATATATACATAATATAGAATTTAAA
Found at i:107992013 original size:61 final size:61
Alignment explanation
Indices: 107991894--107992013 Score: 138
Period size: 61 Copynumber: 2.0 Consensus size: 61
107991884 TAATATAGTT
* * * *
107991894 AAGATATATACATAAGATAACATGTAAAAATATATATATATATATAAATAATATAATATTA
1 AAGATATATACATAAAATAACATATAAAAATATATATACATATATAAATAATAAAATATTA
* *
107991955 AAGATATATACATAAAAT-A-GTATAAAATATATATATACATAATATAGAAT-TTAAAATAT
1 AAGATATATACATAAAATAACATATAAAA-ATATATATACAT-ATATA-AATAATAAAATAT
107992014 ACCTAATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
59 6 0.12
60 12 0.24
61 29 0.58
62 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (61 bp):
AAGATATATACATAAAATAACATATAAAAATATATATACATATATAAATAATAAAATATTA
Found at i:107992064 original size:23 final size:25
Alignment explanation
Indices: 107992021--107992066 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
107992011 TATACCTAAT
107992021 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
107992046 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
107992067 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:107992764 original size:30 final size:30
Alignment explanation
Indices: 107992554--107992788 Score: 296
Period size: 30 Copynumber: 7.8 Consensus size: 30
107992544 TAGGTACAAG
* *
107992554 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
107992584 AGGTAATGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
107992614 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
107992644 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
107992674 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
107992704 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
107992734 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
107992764 TGGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
107992789 TGAGAAAAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 2 0.01
30 189 0.99
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:107993658 original size:77 final size:75
Alignment explanation
Indices: 107993501--107993785 Score: 412
Period size: 77 Copynumber: 3.8 Consensus size: 75
107993491 ATGTAAACCC
* * *
107993501 AAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAA-CGCCTCA
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAATAG-CTCA
** * *
107993565 GCGTGTGACCC
65 GCACGTGAGCA
*
107993576 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAGCAGAAATTGAAAATAGCTC
107993641 AGCACGTGAGCA
64 AGCACGTGAGCA
107993653 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGA-T-TTTTGAAAAGCAGAAATTGAAAATAGCTC
107993718 AGCACGTGAGCA
64 AGCACGTGAGCA
* * *
107993730 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAA
1 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAA
107993786 GGCTCAACTC
Statistics
Matches: 194, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
74 4 0.02
75 47 0.24
76 3 0.02
77 139 0.72
78 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (75 bp):
AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAATAGCTCAG
CACGTGAGCA
Found at i:107993835 original size:54 final size:54
Alignment explanation
Indices: 107993729--107993839 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 54
107993719 GCACGTGAGC
* *
107993729 AAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
* **
107993783 AAAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGAAAAGTAAAAATTA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
107993837 AAA
1 AAA
107993840 ACAGAGTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (54 bp):
AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
Found at i:107993959 original size:16 final size:17
Alignment explanation
Indices: 107993926--107993960 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
107993916 TGATATTTTG
*
107993926 AAAAGCAGAAATTGGAA
1 AAAAACAGAAATTGGAA
107993943 AAAAACAGAAATT-GAA
1 AAAAACAGAAATTGGAA
107993959 AA
1 AA
107993961 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.66, C:0.06, G:0.17, T:0.11
Consensus pattern (17 bp):
AAAAACAGAAATTGGAA
Found at i:107994139 original size:73 final size:73
Alignment explanation
Indices: 107994044--107994344 Score: 331
Period size: 73 Copynumber: 4.0 Consensus size: 73
107994034 AAAAATCGAC
* * * * *
107994044 AATT-CCTCAGCGTGCCCCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAAAACA
1 AATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
107994108 GAAATTGA
66 GAAATTGA
107994116 AATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACA
1 AATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A-A
*
107994180 GAAACAGAAATTTA
61 -AAACAGAAATTGA
* * * * *
107994194 AAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACTTCTTGCAATATGAATTGATTTTTTTG-A
1 AATTACCTCAGCA--TG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA
* * *
107994257 CAATAGAAATTGC
61 AAACAGAAATTGA
*
107994270 AATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
1 AATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
*
107994335 TAAATTGA
66 GAAATTGA
107994343 AA
1 AA
107994345 CACAAAAATT
Statistics
Matches: 189, Mismatches: 25, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
72 15 0.08
73 56 0.30
74 32 0.17
76 21 0.11
77 2 0.01
78 24 0.13
80 32 0.17
81 2 0.01
83 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (73 bp):
AATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
GAAATTGA
Found at i:107994412 original size:87 final size:87
Alignment explanation
Indices: 107994263--107994427 Score: 269
Period size: 87 Copynumber: 1.9 Consensus size: 87
107994253 TTGACAATAG
* * *
107994263 AAATTGCAATTACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGCAATTACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCATTTTTG
*
107994328 AAAAACATAAATTGAAACACAA
66 AAAAACAGAAATTGAAACACAA
*
107994350 AAATTGACAA-TACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCATTTTT
1 AAATTG-CAATTACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCATTTTT
107994414 GAAAAACAGAAATT
65 GAAAAACAGAAATT
107994428 TAAAAATACC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
87 69 0.96
88 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (87 bp):
AAATTGCAATTACCTCAACATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCATTTTTG
AAAAACAGAAATTGAAACACAA
Found at i:107994514 original size:14 final size:14
Alignment explanation
Indices: 107994495--107994523 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
107994485 TTTTTTTACG
107994495 AACAGAAATTGAAA
1 AACAGAAATTGAAA
107994509 AACAGAAATTGAAA
1 AACAGAAATTGAAA
107994523 A
1 A
107994524 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:107994568 original size:92 final size:91
Alignment explanation
Indices: 107994412--107994579 Score: 248
Period size: 92 Copynumber: 1.8 Consensus size: 91
107994402 GAGTTCATTT
* * * *
107994412 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCATGTACTGAGGCTCAACTCACCTCTCGCAATATG
107994477 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTGATTTTTTTTTACGAACAGAAA
* * *
107994503 TTGAAAAACAGAAA-TTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAACTCACTTCTCGCAATA
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCATGT-ACT-GAGGCTCAACTCACCTCTCGCAATA
107994567 TGAGTTGATTTTT
64 TGAGTTGATTTTT
107994580 GACAAACAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 17 0.25
91 15 0.22
92 36 0.53
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCATGTACTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTACGAACAGAAA
Found at i:107994637 original size:73 final size:73
Alignment explanation
Indices: 107994503--107994727 Score: 315
Period size: 75 Copynumber: 3.0 Consensus size: 73
107994493 CGAACAGAAA
* *** *
107994503 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGTCGAGGCTCAACTCACTTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
107994568 GAGTTGATTT
64 GAGTTGATTT
* *
107994578 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
107994643 GTTGATTTT
66 GTTGA-TTT
* * * *
107994652 TTGAAAAATAGAAATTTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
107994717 AGTTGATTT
65 AGTTGATTT
107994726 TT
1 TT
107994728 TTTTACGAAT
Statistics
Matches: 135, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
73 36 0.27
74 20 0.15
75 79 0.59
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:107994755 original size:165 final size:164
Alignment explanation
Indices: 107994584--107994892 Score: 485
Period size: 165 Copynumber: 1.9 Consensus size: 164
107994574 ATTTTTGACA
** *
107994584 AACAGAAATTGAAATTACCTCAGC-GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
107994648 TTTTTTGAAAAATAGAAATTTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAA
66 -TTTTTGAAAAACA-AAAATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAA
107994713 TATGAGTTGATTTTTTTTTACGAATAGAAATTGAAG
129 TATGAGTTGATTTTTTTTTACGAATAGAAATTGAAG
*
107994749 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAAGACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
107994814 ATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
65 ATTTTTGAAAAACAAAAATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
107994879 ATGAGTTGATTTTT
130 ATGAGTTGATTTTT
107994893 GAAAAACAGA
Statistics
Matches: 131, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
165 82 0.63
166 11 0.08
167 38 0.29
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (164 bp):
AACAGAAATTGAAAAGACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAAAAATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTTACGAATAGAAATTGAAG
Found at i:107994875 original size:73 final size:73
Alignment explanation
Indices: 107994780--107995513 Score: 435
Period size: 73 Copynumber: 9.5 Consensus size: 73
107994770 AGCATGTGAG
107994780 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
107994845 AGCGTGTC
66 AGCGTGTC
* * * *
107994853 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACA-AAAATTGAAATTACCT
107994918 CAGCGTGTC
65 CAGCGTGTC
* * * *
107994927 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACTAACAGAAATTGAAGA--A
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGACAAACAAAAATTGAA-ATTA
*** *** *
107994990 CAGAAATTGAAAAGAC
62 C-CTCA--G-CGTGTC
* *
107995006 CTCAGCATGTGAGC-CGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAA
1 C-C-G-A---G-GCTC-A-ACT-----CACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAA
107995070 ATTGAAATTACCTCAGCGTGT-
52 ATTGAAATTACCTCAGCGTGTC
* * * * * *
107995091 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACA-AAAATTGAAATTACCT
107995156 CAGCGTGTC
65 CAGCGTGTC
* * * * * *
107995165 CTGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAA-AAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGACAAACAAAAATTGAAATTAC
*** *** *
107995229 AGAAATTGAAAAGAC
63 -CTCA--G-CGTGTC
* * * * * ** *****
107995244 CTCAGCATGTGAGC-CGAGGCTCAACTCAC-C--TCTCGCAATATGAGTTAATTTTTGACAAACA
1 C-C-G-A---G-GCTC-A-ACTCACCTCTCGCAATAT-G-AGT-TGA-TTTTTGACAAACAA---
107995305 GAAATTGAAATTACCTCAGCGTGTC
50 -AAATTGAAATTACCTCAGCGTGTC
* *
107995330 CCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
107995395 AGCGTGTC
66 AGCGTGTC
* * * * *
107995403 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
*
107995467 AACGTGTC
66 AGCGTGTC
** *
107995475 TTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
107995514 CCTTGAAAAG
Statistics
Matches: 502, Mismatches: 102, Indels: 114
0.70 0.14 0.16
Matches are distributed among these distances:
72 95 0.19
73 126 0.25
74 88 0.18
75 4 0.01
76 15 0.03
77 29 0.06
78 15 0.03
79 14 0.03
80 3 0.01
81 4 0.01
82 3 0.01
83 2 0.00
84 4 0.01
85 14 0.03
86 13 0.03
87 16 0.03
88 1 0.00
89 31 0.06
90 4 0.01
92 21 0.04
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (73 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC
AGCGTGTC
Found at i:107994993 original size:14 final size:14
Alignment explanation
Indices: 107994974--107995000 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107994964 TTTTTTTACT
107994974 AACAGAAATTGAAG
1 AACAGAAATTGAAG
107994988 AACAGAAATTGAA
1 AACAGAAATTGAA
107995001 AAGACCTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
AACAGAAATTGAAG
Found at i:107995047 original size:92 final size:91
Alignment explanation
Indices: 107994891--107995058 Score: 241
Period size: 92 Copynumber: 1.8 Consensus size: 91
107994881 GAGTTGATTT
* * *
107994891 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGACTCAACTCACCTCTCGCAATATG
*
107994956 AGTTGATTTTTTTTTACTAACAGAAA
66 AGTTAATTTTTTTTTACTAACAGAAA
* *
107994982 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGACTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGACTCAACTCACCTCTCGCAAT
107995045 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
107995059 GACAAACAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
90 14 0.21
91 13 0.19
92 39 0.57
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGACTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTTACTAACAGAAA
Found at i:107995114 original size:72 final size:72
Alignment explanation
Indices: 107994982--107995204 Score: 302
Period size: 72 Copynumber: 3.0 Consensus size: 72
107994972 CTAACAGAAA
* * * *
107994982 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
*
107995047 GAGTTAATTT
63 GAGTTGATTT
* * *
107995057 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTTTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
107995122 TTGATTT
66 TTGATTT
* * *
107995129 TTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCTCAATATG
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATG
107995194 AGTTGATTT
64 AGTTGATTT
107995203 TT
1 TT
107995205 TTTTACGAAC
Statistics
Matches: 132, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
72 47 0.36
73 23 0.17
74 36 0.27
75 26 0.20
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (72 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:107995156 original size:238 final size:239
Alignment explanation
Indices: 107993943--107995441 Score: 2058
Period size: 238 Copynumber: 6.3 Consensus size: 239
107993933 GAAATTGGAA
* * *
107993943 AAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCTGAGGCTCAATTCACCTCTCACAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * ** **
107994007 TGATTTATTTTTT------TGAAATT-AAAACACAAAAATCGACAATTCCTCAGC--GTGCCCCG
66 TGATTT-TTTTTTACGAACAGAAATTGAAAA-ACAGAAATTGAAAAGACCTCAGCATGTGAGCCG
* * * *
107994063 AGGCTCAACTCACTTCTTGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGC
129 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGC
* *
107994128 ATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
194 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * *
107994173 ACAAACAGAAACAGAAATTT-AAAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACTTCTTGC
1 ----A-A-AAACAGAAATTTAAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGC
* * * *
107994236 AATATGAATTGA-TTTTTTTGAC-AATAGAAATTG-----C---AATT------ACCTCAACATG
57 AATATGAGTTGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATG
* * *
107994285 T---CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAACA
122 TGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTG-----
* * *
107994347 CAAAAATTGACAATACCTCAGCATGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTCATTT
181 ---AAA-T-----TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
107994412 TTG
237 TTG
*
107994415 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
107994480 TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGTCGAG
66 TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
* *
107994545 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
131 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
107994610 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
196 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
* *
107994655 AAAAATAGAAATTTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
107994720 TGATTTTTTTTTACGAATAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
66 TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
* *
107994785 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGT
131 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
107994850 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
196 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
107994894 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
107994959 TGATTTTTTTTTACTAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
66 TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
*
107995024 ACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
131 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
*
107995089 GT-CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTG
196 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
107995132 AAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCTCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
107995197 TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
66 TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
107995262 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
131 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
*
107995327 GTCCCGAGGCTCAACTTACCTCTCGCAATATGAGTTGATTTTTG
196 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * *
107995371 ACAAACAGAAA-TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
107995435 TGATTTT
66 TGATTTT
107995442 GAAAAACAAA
Statistics
Matches: 1151, Mismatches: 61, Indels: 102
0.88 0.05 0.08
Matches are distributed among these distances:
226 2 0.00
227 56 0.05
229 2 0.00
233 3 0.00
234 3 0.00
235 37 0.03
236 49 0.04
237 27 0.02
238 321 0.28
239 292 0.25
240 231 0.20
241 52 0.05
242 6 0.01
244 1 0.00
245 7 0.01
251 11 0.01
253 50 0.04
254 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (239 bp):
AAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAG
GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGT
GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:107995231 original size:14 final size:14
Alignment explanation
Indices: 107995212--107995240 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
107995202 TTTTTTTACG
107995212 AACAGAAATTGAAA
1 AACAGAAATTGAAA
107995226 AACAGAAATTGAAA
1 AACAGAAATTGAAA
107995240 A
1 A
107995241 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:107995273 original size:92 final size:91
Alignment explanation
Indices: 107995129--107995296 Score: 241
Period size: 92 Copynumber: 1.8 Consensus size: 91
107995119 GAGTTGATTT
* * * *
107995129 TTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCTCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
*
107995194 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTAATTTTTTTTTACGAACAGAAA
*
107995220 TTGAAAAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
107995283 ATGAGTTAATTTTT
63 ATGAGTTAATTTTT
107995297 GACAAACAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
90 14 0.21
91 13 0.19
92 39 0.57
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTTTTTACGAACAGAAA
Found at i:107995495 original size:145 final size:147
Alignment explanation
Indices: 107995220--107995513 Score: 414
Period size: 145 Copynumber: 2.0 Consensus size: 147
107995210 CGAACAGAAA
*
107995220 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTAGCAATAT
* * * * * *
107995285 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTTACCTCT
65 GAGTTAATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCCCGAGGCTCAACTCACCTCT
107995350 CGCAATATGAGTTGATTT
130 CGCAATATGAGTTGATTT
* ** *
107995368 TTGACAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTAGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTAGCAATAT
* ** *
107995431 GAGTTGA-TTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCATCTCT
65 GAGTTAATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCCCGAGGCTCAACTCACCTCT
107995495 CGCAATATGAGTTGATTT
130 CGCAATATGAGTTGATTT
107995513 T
1 T
107995514 CCTTGAAAAG
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
145 69 0.53
146 34 0.26
148 27 0.21
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTAGCAATATG
AGTTAATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTT
Found at i:108003860 original size:12 final size:12
Alignment explanation
Indices: 108003840--108003875 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
108003830 TGGGATATGC
*
108003840 AATGTATGAATG
1 AATGCATGAATG
108003852 AATGCATGAATG
1 AATGCATGAATG
108003864 AATGCATGAATG
1 AATGCATGAATG
108003876 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:108005469 original size:16 final size:15
Alignment explanation
Indices: 108005448--108005495 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
108005438 GATGTGAATA
108005448 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
108005464 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
108005479 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
108005495 A
1 A
108005496 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:108005471 original size:24 final size:24
Alignment explanation
Indices: 108005444--108005499 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108005434 TAATGATGTG
*
108005444 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
108005468 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
108005492 AATAATAA
1 AATAATAA
108005500 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:108005478 original size:8 final size:8
Alignment explanation
Indices: 108005444--108005495 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
108005434 TAATGATGTG
*
108005444 AATAATAA
1 AATATTAA
108005452 AATATATAA
1 AATAT-TAA
108005461 AATA-TAA
1 AATATTAA
108005468 AATATTAA
1 AATATTAA
*
108005476 AATATCAA
1 AATATTAA
*
108005484 AATATTAG
1 AATATTAA
108005492 AATA
1 AATA
108005496 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:108005711 original size:22 final size:24
Alignment explanation
Indices: 108005648--108005712 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
108005638 TGTGATAATA
*
108005648 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
108005673 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
108005696 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
108005713 GGTAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:108005762 original size:25 final size:24
Alignment explanation
Indices: 108005731--108005860 Score: 94
Period size: 23 Copynumber: 5.6 Consensus size: 24
108005721 GTAAAAATAT
*
108005731 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATT-AAG
* * *
108005756 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAATATTAAG
*
108005779 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATA-TTAAG
* * *
108005803 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAATATTAAG
*
108005825 A-ATATATATAATATAATATTAAG
1 ATATATACATAATATAATATTAAG
*
108005848 AAATATA-ATAATA
1 ATATATACATAATA
108005861 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 41 0.49
24 7 0.08
25 19 0.23
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAATATTAAG
Found at i:108006412 original size:30 final size:30
Alignment explanation
Indices: 108006386--108006516 Score: 235
Period size: 30 Copynumber: 4.4 Consensus size: 30
108006376 AATGGAGCAA
* *
108006386 GTGTGGCTAGTGGATTTGGTGGTGGAGAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
108006416 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
*
108006446 GAGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
108006476 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
108006506 GTGTGGCTAGT
1 GTGTGGCTAGT
108006517 TGAGAAAAGT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.27
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:108007143 original size:23 final size:23
Alignment explanation
Indices: 108007113--108007159 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
108007103 TTGCTATCTT
108007113 TGATTACCTTATTCTTTTCAAGA
1 TGATTACCTTATTCTTTTCAAGA
108007136 TGATTACCTTATTCTTTTCAAGA
1 TGATTACCTTATTCTTTTCAAGA
108007159 T
1 T
108007160 ATGTCCCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (23 bp):
TGATTACCTTATTCTTTTCAAGA
Found at i:108008227 original size:89 final size:89
Alignment explanation
Indices: 108008116--108008422 Score: 254
Period size: 89 Copynumber: 3.5 Consensus size: 89
108008106 GGTAGCAAGA
* * *
108008116 GAGCAGGTTGAAGATTGT-AATCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTAAAG
1 GAGCAGATCGAAGATGGTGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTAAAG
108008180 ATCTTATCTCCCTAAGCAATAGTG
66 ATCTTATCTCCCTAAGCAATAGTG
* * * * * * * * **
108008204 GAGCAGATCGAAGATGGTGAATCTCATCTTCCTGAGGTAGGAGGGGAGAAGATTTTAGCCA--CC
1 GAGCAGATCGAAGATGGTGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGA-CTAAG-GATTAA
* *
108008267 A-ACCTTATCTCTCTTAGGTAGC-A-AGT-
64 AGATCTTATCTC-CCTA---AGCAATAGTG
* * * * * * * *
108008293 GAGTAGGTTGAAGAT--TGAAATCTTATCTTTCTAAGGTAGCAAGGAAGCAAACTGAGGATTGAA
1 GAGCAGATCGAAGATGGTG-AATCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTAAA
*
108008356 GATCTTATCTCCCTAAGCAGTAGTG
65 GATCTTATCTCCCTAAGCAATAGTG
* *
108008381 GAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTAGCA
1 GAGCAGATCGAAGATGGTGAATCTTATCTTCCTGAGGTAGCA
108008423 GGGGAGTAGA
Statistics
Matches: 162, Mismatches: 41, Indels: 31
0.69 0.18 0.13
Matches are distributed among these distances:
85 3 0.02
86 1 0.01
87 8 0.05
88 65 0.40
89 73 0.45
90 7 0.04
91 2 0.01
92 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (89 bp):
GAGCAGATCGAAGATGGTGAATCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAGGATTAAAG
ATCTTATCTCCCTAAGCAATAGTG
Found at i:108008388 original size:177 final size:176
Alignment explanation
Indices: 108008092--108008578 Score: 735
Period size: 177 Copynumber: 2.8 Consensus size: 176
108008082 GAATTCATAG
* *
108008092 CCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAATCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAATCTTATCTTCCTGAGGTAGCA
* * *
108008157 AGGAAGCAGACTAAGGATTAAAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGATGGT
66 AGGAAGCAGACTGAGGATT-AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
* *
108008222 GAATCTCATCTTCCTGAGGTAGGAGGGGAGAAGATTTTAGCCACCAA
130 GAATCTCATCTTCCCGAGGTAGCAGGGGAGAAGATTTTAGCCACCAA
* * * * *
108008269 CCTTATCTCTCTTAGGTAGCAAGTGAGTAGGTTGAAGATTGAAATCTTATCTTTCTAAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAATCTTATCTTCCTGAGGTAGCA
*
108008334 AGGAAGCAAACTGAGGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
66 AGGAAGCAGACTGAGGATT-AAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGC
* * *
108008399 GAATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTTAGCCACCAG
130 GAATCTCATCTTCCCGAGGTAGCAGGGGAGAAGATTTTAGCCACCAA
* * *
108008446 CCTTATCTCTCTGAGGTAGAAAGAGAGCAGGTTAAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAATCTTATCTTCCTGAGGTAGCA
* * * *
108008511 AGGAAGCAGATTGAAGA-T-AGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATGGCG
66 AGGAAGCAGACTGAGGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
108008574 AATCT
131 AATCT
108008579 TGTCTCCCTA
Statistics
Matches: 280, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
174 48 0.17
176 1 0.00
177 231 0.82
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (176 bp):
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAATCTTATCTTCCTGAGGTAGCA
AGGAAGCAGACTGAGGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCG
AATCTCATCTTCCCGAGGTAGCAGGGGAGAAGATTTTAGCCACCAA
Found at i:108008568 original size:41 final size:43
Alignment explanation
Indices: 108008515--108008700 Score: 137
Period size: 44 Copynumber: 4.3 Consensus size: 43
108008505 GTAGCAAGGA
* *
108008515 AGCAGATTGAAGAT-AG-ATCTTGTCTCCCTAAGTAGTAGTGG
1 AGCAGATCGAAGATGAGAATCTTGTCTCCCTAAGCAGTAGTGG
*
108008556 AGCAGATCGAAGATGGCGAATCTTGTCTCCCTAAGCAGTAGTGG
1 AGCAGATCGAAGAT-GAGAATCTTGTCTCCCTAAGCAGTAGTGG
** ** ** * * * *
108008600 AGCAGATTTAAG-CCACCATCCTATCTCCCTAAGAAATAGTGG
1 AGCAGATCGAAGATGAGAATCTTGTCTCCCTAAGCAGTAGTGG
* * * * * *
108008642 AGTAG-GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGA
1 AGCAGATC-GAAGATGAGA-ATCTTGTCTCCCTAAGCAGTAGTGG
*
108008686 AGCAGATCAAAGATG
1 AGCAGATCGAAGATG
108008701 GCAAATCTTA
Statistics
Matches: 109, Mismatches: 29, Indels: 11
0.73 0.19 0.07
Matches are distributed among these distances:
41 13 0.12
42 28 0.26
43 3 0.03
44 64 0.59
45 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (43 bp):
AGCAGATCGAAGATGAGAATCTTGTCTCCCTAAGCAGTAGTGG
Found at i:108008939 original size:88 final size:88
Alignment explanation
Indices: 108008828--108009220 Score: 543
Period size: 88 Copynumber: 4.5 Consensus size: 88
108008818 AAGCAGACTG
*
108008828 AAAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCC
108008893 CTAAGCAGTAGGGTAACAGGCTA
66 CTAAGCAGTAGGGTAACAGGCTA
* * * * *
108008916 AAAATTATAGATCTTATCTCCCTAAGTAGTAGCGCAGCAAATCGAAGACGGTGAGCCTTAACCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA-CCC
* * *
108008981 CCTAAGTAGTAGGGTAACGGGCTG
65 CCTAAGCAGTAGGGTAACAGGCTA
* ** *
108009005 GAAATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTGAGCCTTAACTCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCC
108009070 CTAAGCAGTAGGGTAACAGGCTA
66 CTAAGCAGTAGGGTAACAGGCTA
* * * * * * *
108009093 AAAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGATAAGTCTTAACCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCC
* * *
108009158 ATAAGTAGTAGGGAAACAGGCTA
66 CTAAGCAGTAGGGTAACAGGCTA
* * *
108009181 GAAATTACAGACCTTATCTCCCTAAGCAGTACTGGAGCAG
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
108009221 GCTAAAAATT
Statistics
Matches: 266, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 187 0.70
89 79 0.30
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (88 bp):
AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCC
CTAAGCAGTAGGGTAACAGGCTA
Found at i:108009012 original size:177 final size:176
Alignment explanation
Indices: 108008829--108009220 Score: 595
Period size: 177 Copynumber: 2.2 Consensus size: 176
108008819 AGCAGACTGA
*
108008829 AAATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
*
108008894 TAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCTCCCTAAGTAGTAGCGCAGCAAATC
66 TAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCTCCCTAAGCAGTAGCGCAGCAAATC
* * * * * * *
108008959 GAAGACGGTGAGCCTTAACCCCCCTAAGTAGTAGGGTAACGGGCTGG
131 AAAGACGATAAGCCTTAA-CCCCATAAGTAGTAGGGAAACAGGCTAG
** *
108009006 AAATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATCGAAGACGGTGAGCCTTAACTCCC
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
* * * *
108009071 TAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATC
66 TAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCTCCCTAAGCAGTAGCGCAGCAAATC
* *
108009136 AAAGATGATAAGTCTTAACCCCATAAGTAGTAGGGAAACAGGCTAG
131 AAAGACGATAAGCCTTAACCCCATAAGTAGTAGGGAAACAGGCTAG
* *
108009182 AAATTACAGACCTTATCTCCCTAAGCAGTACTGGAGCAG
1 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
108009221 GCTAAAAATT
Statistics
Matches: 193, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
176 59 0.31
177 134 0.69
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (176 bp):
AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCC
TAAGCAGTAGGGTAACAGGCTAAAAATTATAGATCTTATCTCCCTAAGCAGTAGCGCAGCAAATC
AAAGACGATAAGCCTTAACCCCATAAGTAGTAGGGAAACAGGCTAG
Found at i:108009114 original size:44 final size:43
Alignment explanation
Indices: 108009061--108009244 Score: 142
Period size: 44 Copynumber: 4.2 Consensus size: 43
108009051 GACGGTGAGC
*
108009061 CTTAACTCCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAGAT
1 CTTATCTCCCTAAGCAGTAGGG-AACAGGCTAAAAATTATAGAT
* * * * *
108009105 CTTGTCTCCCTAAGCAGTAGTGGAGCA-GATCAAAGATGATA-AGT
1 CTTATCTCCCTAAGCAGTAG-GGAACAGGCT-AAAAATTATAGA-T
* * * * *
108009149 CTTAAC-CCCATAAGTAGTAGGGAAACAGGCTAGAAATTACAGAC
1 CTTATCTCCC-TAAGCAGTAGGG-AACAGGCTAAAAATTATAGAT
* * *
108009193 CTTATCTCCCTAAGCAGTACTGGAGCAGGCTAAAAATTA-CGAGT
1 CTTATCTCCCTAAGCAGTA-GGGAACAGGCTAAAAATTATAGA-T
108009237 CTTATCTC
1 CTTATCTC
108009245 ATTGAAGTTG
Statistics
Matches: 107, Mismatches: 23, Indels: 20
0.71 0.15 0.13
Matches are distributed among these distances:
43 10 0.09
44 87 0.81
45 10 0.09
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (43 bp):
CTTATCTCCCTAAGCAGTAGGGAACAGGCTAAAAATTATAGAT
Found at i:108009492 original size:44 final size:44
Alignment explanation
Indices: 108009374--108009621 Score: 182
Period size: 44 Copynumber: 5.7 Consensus size: 44
108009364 ACCAACAGTG
*
108009374 AATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAGCCACA
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACA
* * ** *
108009418 AATCTTATC-CCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACC
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACA
* * * * *
108009461 AGTCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAAGACAGCA
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCA-CA
* * * * ** * *
108009506 AATCTCATAC-CTCTAAAATTGCAAAGGAACGGATT--A-CCACA
1 AATCTTAT-CTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACA
* * * * * **
108009547 AATCTTATCTCCTTGAAGATGCAGTGGAGTAGATTGAAGTTACA
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACA
* * *
108009591 AACCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AATCTTATCTCCCTAAAGTTGTAGTGGAGCA
108009622 ATGGATCGGA
Statistics
Matches: 153, Mismatches: 44, Indels: 14
0.73 0.21 0.07
Matches are distributed among these distances:
40 1 0.01
41 24 0.16
42 2 0.01
43 38 0.25
44 64 0.42
45 23 0.15
46 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGCCACA
Found at i:108010903 original size:3 final size:3
Alignment explanation
Indices: 108010895--108011083 Score: 90
Period size: 3 Copynumber: 62.3 Consensus size: 3
108010885 TTTGGCTACT
*
108010895 TTA TTA TTA -AA TTAA TTA TTA TTA TTA -TA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
108010938 TCCTA TT- TT- TTA -TA TTA TTA TTA TTG TTA TTA ACA TGTA TTA TTA
1 T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * ** *
108010983 TTAA TGTA TTG TTG TTC TCTA TTA TTA TTA TTG TTA CCA -TA TAA TTA
1 TT-A T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
108011030 TTA TTAA GGTA TTA TT- TTCA TTA TTT TCTA TT- TTA TTA TTA TTA TTC
1 TTA TT-A -TTA TTA TTA TT-A TTA TTA T-TA TTA TTA TTA TTA TTA TTA
108011077 TTA TTA T
1 TTA TTA T
108011084 CATTTTTTAT
Statistics
Matches: 143, Mismatches: 24, Indels: 38
0.70 0.12 0.19
Matches are distributed among these distances:
2 15 0.10
3 107 0.75
4 18 0.13
5 3 0.02
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:108011069 original size:27 final size:25
Alignment explanation
Indices: 108011039--108011094 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
108011029 ATTATTAAGG
*
108011039 TATTATT-TTCATTATTTTCTATTTTAT
1 TATTATTATTC-TTATTATC-ATTTT-T
108011066 TATTATTATTCTTATTATCATTTTT
1 TATTATTATTCTTATTATCATTTTT
108011091 TATT
1 TATT
108011095 TGTTTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 5 0.19
27 14 0.52
28 3 0.11
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (25 bp):
TATTATTATTCTTATTATCATTTTT
Found at i:108011821 original size:23 final size:22
Alignment explanation
Indices: 108011790--108011833 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
108011780 GTTTTCTCAA
*
108011790 TTTTCATAAACCGAAATCATTTG
1 TTTTAATAAACCGAAAT-ATTTG
*
108011813 TTTTAATAAATCGAAATATTT
1 TTTTAATAAACCGAAATATTT
108011834 TATTAAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (22 bp):
TTTTAATAAACCGAAATATTTG
Found at i:108014493 original size:68 final size:67
Alignment explanation
Indices: 108014385--108014511 Score: 220
Period size: 68 Copynumber: 1.9 Consensus size: 67
108014375 AGTATAACCA
*
108014385 TTTAAGAATAAATATCTAAGTTGTTTTCACCTATGAATA-TTCCTAACCTTTCCATGTCATGAAA
1 TTTAAGAATAAATATCTAAGTTGTTTTCACCTATGAATATTTCC-AAACTTTCCATGTCATGAAA
108014449 TAT
65 TAT
108014452 TTTAAGAAATAAATATCTAAGTTGTTTTCACCTATGAATATTTCCAAACTTTCCATGTCA
1 TTTAAG-AATAAATATCTAAGTTGTTTTCACCTATGAATATTTCCAAACTTTCCATGTCA
108014512 AAGATAAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
67 6 0.11
68 47 0.82
69 4 0.07
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (67 bp):
TTTAAGAATAAATATCTAAGTTGTTTTCACCTATGAATATTTCCAAACTTTCCATGTCATGAAAT
AT
Found at i:108016519 original size:174 final size:175
Alignment explanation
Indices: 108016227--108016565 Score: 464
Period size: 174 Copynumber: 1.9 Consensus size: 175
108016217 TGCCTAGTTT
* * * *
108016227 AACGTGGCAAGTTAATTAACCACATTAGCTAATTATTACTTACCACGTCACCTGTCTCGTTAGGC
1 AACGTGGCAAGTTAACTAACCACATCAGCTAATTA-TACTGACCACGTCACCTATCTCGTTAGGC
* * * * * *
108016292 TTGTAACAAAAAATGTTAATGGGTGACTTATTTGTCACTTTTTGATAACGTTAGTGACTGATTTA
65 CTATAACAAAAAATGTGAATAGGCGACTGATTTGTCACTTTTTGATAACGTTAGTGACTGATTTA
** *
108016357 TTATTTTTTTAAAGTTGAGTGATTGAATTGAAACTTTACCTCGTCC
130 TTATTTTTCAAAAGTTGAGTGACTGAATTGAAACTTTACCTCGTCC
** * *
108016403 AACGTGGCAAGTTAACTGGCCACGTCAGCTAATTA-ACTGGCCACGTCACCTATCTCGTTAGGCC
1 AACGTGGCAAGTTAACTAACCACATCAGCTAATTATACTGACCACGTCACCTATCTCGTTAGGCC
* * * * *
108016467 TATAATAGAAAATGTGAATAGGCGACTGATTTGTCGCTTTTTGATAACGTTAGTGACTGTTTTGT
66 TATAACAAAAAATGTGAATAGGCGACTGATTTGTCACTTTTTGATAACGTTAGTGACTGATTTAT
108016532 TATTTTTCAAAAGTTGAGTGACTGAATTGAAACT
131 TATTTTTCAAAAGTTGAGTGACTGAATTGAAACT
108016566 AGAGTGACTA
Statistics
Matches: 141, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
174 111 0.79
176 30 0.21
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (175 bp):
AACGTGGCAAGTTAACTAACCACATCAGCTAATTATACTGACCACGTCACCTATCTCGTTAGGCC
TATAACAAAAAATGTGAATAGGCGACTGATTTGTCACTTTTTGATAACGTTAGTGACTGATTTAT
TATTTTTCAAAAGTTGAGTGACTGAATTGAAACTTTACCTCGTCC
Found at i:108017919 original size:18 final size:18
Alignment explanation
Indices: 108017880--108018012 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
108017870 AATGATATGT
108017880 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
108017897 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
108017915 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
108017932 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
*
108017950 AATCTTAAATATGA-TAC
1 AATCTTAGATATGATTAC
* *
108017967 AATCATAGATATGATTGC
1 AATCTTAGATATGATTAC
108017985 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
108018004 AATCTTAGA
1 AATCTTAGA
108018013 AGATATGATT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
17 43 0.43
18 46 0.46
19 11 0.11
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:108017920 original size:35 final size:35
Alignment explanation
Indices: 108017871--108018012 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
108017861 ATAATCTTCA
* *
108017871 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
108017907 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
* *
108017942 ATGATTGCAATCTTAAATATGATACAATCATAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
108017977 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
108018013 AGATATGATT
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
35 81 0.83
36 5 0.05
37 12 0.12
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:108018520 original size:18 final size:17
Alignment explanation
Indices: 108018496--108018555 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
108018486 CCAATATATT
108018496 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
108018513 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
108018529 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
108018547 TTATATTTT
1 TTATATTTT
108018556 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:108018540 original size:15 final size:16
Alignment explanation
Indices: 108018497--108018555 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
108018487 CAATATATTT
108018497 TATATTTTTTATATAA
1 TATATTTTTTATATAA
108018513 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
108018529 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
108018547 TTATATTTT
1 -TATATTTT
108018556 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:108018580 original size:26 final size:26
Alignment explanation
Indices: 108018532--108018581 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
108018522 TTATAAATAT
* * * *
108018532 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
108018558 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
108018582 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:108022035 original size:22 final size:22
Alignment explanation
Indices: 108022010--108022065 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
108022000 GCATGAATAC
* * *
108022010 ATATATTACAAATACATAAAAA
1 ATATAATACAAAAAAATAAAAA
108022032 ATATAATACAAAAAAAT-AAAA
1 ATATAATACAAAAAAATAAAAA
*
108022053 ATA-AAAACAAAAA
1 ATATAATACAAAAA
108022066 CGTACCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 7 0.23
22 14 0.47
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (22 bp):
ATATAATACAAAAAAATAAAAA
Found at i:108022045 original size:15 final size:16
Alignment explanation
Indices: 108022020--108022049 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
108022010 ATATATTACA
108022020 AATACATAAAAAATAT
1 AATACATAAAAAATAT
108022036 AATACA-AAAAAATA
1 AATACATAAAAAATA
108022050 AAAATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
AATACATAAAAAATAT
Found at i:108022059 original size:15 final size:15
Alignment explanation
Indices: 108022019--108022052 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
108022009 CATATATTAC
108022019 AAATACATAAAAAATA
1 AAATACA-AAAAAATA
*
108022035 TAATACAAAAAAATA
1 AAATACAAAAAAATA
108022050 AAA
1 AAA
108022053 ATAAAAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATACAAAAAAATA
Found at i:108022743 original size:22 final size:22
Alignment explanation
Indices: 108022693--108022743 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
108022683 TTATTCCTTT
*
108022693 TATTATTATTATTTTATTAATA
1 TATTATTATTATTTAATTAATA
*
108022715 TAGTATTATTATTGTAATT-ATA
1 TATTATTATTATT-TAATTAATA
*
108022737 TTTTATT
1 TATTATT
108022744 TTTGTTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTATTATTATTTAATTAATA
Found at i:108022808 original size:17 final size:17
Alignment explanation
Indices: 108022786--108022826 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
108022776 TCATTAATTC
108022786 ATTATTATTAACATATT
1 ATTATTATTAACATATT
* **
108022803 ATTATTCTTAATGTATT
1 ATTATTATTAACATATT
108022820 ATTATTA
1 ATTATTA
108022827 CTAGTTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATTATTAACATATT
Found at i:108022821 original size:31 final size:30
Alignment explanation
Indices: 108022767--108022856 Score: 85
Period size: 31 Copynumber: 2.9 Consensus size: 30
108022757 TTACTGTTTT
108022767 GTTATTAATTCATTAAT-TCATTATTATTAACATA
1 GTTATT-ATTC-TTAATGT-ATTATTATT-AC-TA
108022801 -TTATTATTCTTAATGTATTATTATTACTA
1 GTTATTATTCTTAATGTATTATTATTACTA
* **
108022830 GTTATTATTATTTCTAGTATTATTATT
1 GTTATTATTCTTAAT-GTATTATTATT
108022857 GTGTATGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
29 2 0.04
30 13 0.26
31 25 0.50
32 5 0.10
33 5 0.10
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (30 bp):
GTTATTATTCTTAATGTATTATTATTACTA
Found at i:108022872 original size:3 final size:3
Alignment explanation
Indices: 108022593--108022856 Score: 71
Period size: 3 Copynumber: 86.3 Consensus size: 3
108022583 TTTTATTAAA
* * *
108022593 TAT TAT TAT TAT CAT T-T CTAA TAT TAT TAA TAT TAT TAT T-T ATATT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TA-T
* * * * * * * * * *
108022639 TGT TAT TGT TAC TAT TAT TAA TAT TCT TGT TAT TAA CAT TGT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
108022687 TCCT T-T TAT TAT TAT TAT T-T TAT TAA TA- TAG TAT TAT TAT TGT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
108022730 AAT TA- TAT T-T TAT TTT TGTT TATT TACT TAC TGT T-T TGT TAT TAAT
1 TAT TAT TAT TAT TAT TAT T-AT TA-T TA-T TAT TAT TAT TAT TAT T-AT
* * *
108022776 TCAT TAAT TCAT TAT TAT TAA CA- TAT TAT TAT TCT TAAT GTAT TAT
1 T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT
* *
108022822 TAT TAC TAGT TAT TAT TAT T-T CTAG TAT TAT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT T
108022857 GTGTATGTTT
Statistics
Matches: 190, Mismatches: 50, Indels: 42
0.67 0.18 0.15
Matches are distributed among these distances:
2 16 0.08
3 143 0.75
4 29 0.15
5 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:108023089 original size:144 final size:141
Alignment explanation
Indices: 108022847--108023504 Score: 677
Period size: 144 Copynumber: 4.7 Consensus size: 141
108022837 TTATTTCTAG
*
108022847 TATTATTATT-GTGTATG-TTTTATTATATATGTATATATATA-TTTA-TATATAGTATTA-TTT
1 TATTAATATTAGTGTATGTTTTTATTATATATGTATATATATATTTTATTATATAGTATTATTTT
* *
108022907 TTACTTACTTTATTTTAATATTATGGTTATGTTATATTTACTTTTTTTTGCATTTTAATATTATT
66 TTA-TTACTTTATTTTAATATT-T--TTA--TTATATTTACTTTTTTTTGTATTTCAATATTATT
* *
108022972 ACTATTATTGCTATCAT
125 ATTATTATTACTATCAT
* *
108022989 TATTAATATTAGTGAATGTTTTTATCATATATGTATATATATATTTATATTTATATAGTATTATT
1 TATTAATATTAGTGTATGTTTTTATTATATATGTATATATATATTT-TA-TTATATAGTATTA-T
* *
108023054 TTTTTATTACTTTATTTTAATATTTTTATTGTATTTGCTTTTTTTTGTATTTCAATATTATTATT
63 TTTTTATTACTTTATTTTAATATTTTTATTATATTTACTTTTTTTTGTATTTCAATATTATTATT
108023119 ATTATTA-T-T-A-
128 ATTATTACTATCAT
* * * *
108023129 TA-T-AT-TT--TTTAT-TATATA-TGTATATGTATATATATATATTTA-TATATAGTATTATTT
1 TATTAATATTAGTGTATGTTTTTATTATATATGTATATATATAT-TTTATTATATAGTATTA-TT
*
108023186 TTTTATTACTTTATTTTAATACTTTTATTATATTATA-TTTGCTTTTTGTATTTC-A-A-TATTA
64 TTTTATTACTTTATTTTAATATTTTTATTATATT-TACTTT--TTTTTGTATTTCAATATTATTA
* *
108023247 TTATCA-T-C-ATTAT
126 TTATTATTACTATCAT
* *
108023260 TATTAATATTAGTGTATATTTTTATTATATATGTATGTATATGTATATTTATTTATATATAGTAT
1 TATTAATATTAGTGTATGTTTTTATTATATATGTA--TATA--TATATTT-TAT-TATATAGTAT
* *
108023325 TATTTTTAATTACTTTATTTTAATATTATTATATTATATTTAC--TTTTTTGTATTTCATTATTA
60 TATTTTTTATTACTTTATTTTAATATT-TT-TATTATATTTACTTTTTTTTGTATTTCAATATTA
* * *
108023388 TTGTTAATATTATTATCAT
123 TTATTATTATTACTATCAT
*
108023407 TATTAATATTAGTGTATGTTTTTATTATATGTGTATATATATATCTTTA-TATATAGTATTATTT
1 TATTAATATTAGTGTATGTTTTTATTATATATGTATATATATAT-TTTATTATATAGTATTATTT
*
108023471 TTAATTACTTTATTTTAATATTATTATATTATAT
65 TTTATTACTTTATTTTAATATT-TT-TATTATAT
108023505 GTCTTCCTTT
Statistics
Matches: 441, Mismatches: 35, Indels: 81
0.79 0.06 0.15
Matches are distributed among these distances:
129 2 0.00
130 11 0.02
131 53 0.12
132 3 0.01
133 33 0.07
134 8 0.02
135 3 0.01
136 4 0.01
137 6 0.01
138 11 0.02
139 1 0.00
140 6 0.01
141 64 0.15
142 16 0.04
143 38 0.09
144 87 0.20
145 16 0.04
146 5 0.01
147 37 0.08
148 13 0.03
149 18 0.04
150 6 0.01
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (141 bp):
TATTAATATTAGTGTATGTTTTTATTATATATGTATATATATATTTTATTATATAGTATTATTTT
TTATTACTTTATTTTAATATTTTTATTATATTTACTTTTTTTTGTATTTCAATATTATTATTATT
ATTACTATCAT
Found at i:108023141 original size:271 final size:273
Alignment explanation
Indices: 108022847--108023494 Score: 712
Period size: 274 Copynumber: 2.3 Consensus size: 273
108022837 TTATTTCTAG
* *
108022847 TATTATTATTGTGTATGTTTTATTATATATGTATATATATATTTATATATAGTATTATTTTTACT
1 TATTATTATTATGTATTTTTTATTATATATGTATATATATATTTATATATAGTATTATTTTTA-T
* * *
108022912 TACTTTATTTTAATATTATGGTTATGTTATATTTACTTTTTTTTGCATTTTAATATTATTACTAT
65 TACTTTATTTTAATATTATGATTATATTATATTTAC---TTTTTGCATTTCAATATTA-T--TAT
* *
108022977 TATTGCTATCATTATTAATATTAGTGAATGTTTTTATCATATATGTA-TATA-TATATTTATATT
124 CA-T-C-ATCATTATTAATATTAGTGAATATTTTTATCATATATGTAGTATAGTATATTTAT-TT
* * *
108023040 -TATATAGTATTATTTTTTTATTACTTTATTTTAATATT-TT-TATTGTATTTGC-TT-T-TTT-
185 ATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTGTATTTA
*
108023098 TT-GTATT-TCAATATTATTATTAT
249 TTAGTATTGTCAATATTATTATCAT
108023121 TATTATTATATAT-T-TTTTATTATATATGTATATGTATATATATATATTTATATATAGTATTAT
1 TATTATTAT-TATGTATTTT-TTAT-TA--TATATG--TATATATATATTTATATATAGTATTA-
* * *
108023184 TTTTTTATTACTTTATTTTAATACTT-TTATTATATTATATTTGCTTTTTGTATTTCAATATTAT
58 -TTTTTATTACTTTATTTTAATA-TTATGATTATATTATATTTACTTTTTGCATTTCAATATTAT
* * *
108023248 TATCATCATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATATGTATATTTATT
121 TATCATCATCATTATTAATATTAGTGAATATTTTTATCATATATGTA-GTATA-GTATATTTATT
108023313 TATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTGTAT
184 TATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTAC---TTTGTAT
* *
108023378 TTCATTATTATTGTTAATATTATTATCAT
246 TT-ATTAGTATTGTCAATATTATTATCAT
* *
108023407 TATTAATATTAGTGTATGTTTTTATTATATGTGTATATATATATCTTTATATATAGTATTATTTT
1 TATTATTATTA-TGTAT-TTTTTATTATATATGTATATATATA--TTTATATATAGTATTATTTT
108023472 TAATTACTTTATTTTAATATTAT
62 T-ATTACTTTATTTTAATATTAT
108023495 TATATTATAT
Statistics
Matches: 318, Mismatches: 21, Indels: 60
0.80 0.05 0.15
Matches are distributed among these distances:
271 36 0.11
272 1 0.00
273 8 0.03
274 44 0.14
275 27 0.08
276 11 0.03
277 23 0.07
279 26 0.08
280 32 0.10
281 9 0.03
282 3 0.01
283 17 0.05
284 20 0.06
285 27 0.08
286 23 0.07
287 3 0.01
288 5 0.02
289 3 0.01
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (273 bp):
TATTATTATTATGTATTTTTTATTATATATGTATATATATATTTATATATAGTATTATTTTTATT
ACTTTATTTTAATATTATGATTATATTATATTTACTTTTTGCATTTCAATATTATTATCATCATC
ATTATTAATATTAGTGAATATTTTTATCATATATGTAGTATAGTATATTTATTTATATATAGTAT
TATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTGTATTTATTAGTATTGTCA
ATATTATTATCAT
Found at i:108023142 original size:14 final size:16
Alignment explanation
Indices: 108023109--108023409 Score: 68
Period size: 14 Copynumber: 19.4 Consensus size: 16
108023099 TGTATTTCAA
108023109 TATTAT-TATTATTAT
1 TATTATATATTATTAT
108023124 TATTATATATT-TT-T
1 TATTATATATTATTAT
108023138 TATTATATATGTA-TAT
1 TATTATATAT-TATTAT
108023154 GTA-TATATA-TA-TAT
1 -TATTATATATTATTAT
*
108023168 T-TATATATAGTATTAT
1 TAT-TATATATTATTAT
*
108023184 T-TT-TTTATTACTTTAT
1 TATTATATATTA--TTAT
108023200 T-TTA-ATACTT-TTAT
1 TATTATATA-TTATTAT
**
108023214 TA-TATTATATT-TGCT
1 TATTA-TATATTATTAT
* * *
108023229 TTTTGTAT-TTCAATAT
1 TATTATATATT-ATTAT
108023245 TATTATCATCATTATTAT
1 TATTAT-AT-ATTATTAT
* * *
108023263 TAATATTAGTGTATATTTT
1 TATTA-TA-TAT-TATTAT
108023282 TATTATATATGTATGTA-
1 TATTATATAT-TAT-TAT
108023299 TATGTATAT-TTA-T-T
1 TAT-TATATATTATTAT
*
108023313 TA-TATATAGTATTAT
1 TATTATATATTATTAT
108023328 T-TT-TA-ATTACTTTAT
1 TATTATATATTA--TTAT
108023343 T-TTA-ATATTATTA-
1 TATTATATATTATTAT
108023356 TATTATAT-TTACTT-T
1 TATTATATATTA-TTAT
* *
108023371 TTTGTATTTCATTATTAT
1 TAT-TATAT-ATTATTAT
*
108023389 TGTTA-ATATTATTAT
1 TATTATATATTATTAT
*
108023404 CATTAT
1 TATTAT
108023410 TAATATTAGT
Statistics
Matches: 213, Mismatches: 28, Indels: 89
0.65 0.08 0.27
Matches are distributed among these distances:
12 5 0.02
13 7 0.03
14 51 0.24
15 49 0.23
16 45 0.21
17 19 0.09
18 24 0.11
19 13 0.06
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (16 bp):
TATTATATATTATTAT
Found at i:108023298 original size:23 final size:22
Alignment explanation
Indices: 108023259--108023301 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
108023249 ATCATCATTA
108023259 TTATTAATATTAGTGTATATTT
1 TTATTAATATTAGTGTATATTT
108023281 TTATTATATATGTA-TGTATAT
1 TTATTA-ATAT-TAGTGTATAT
108023302 GTATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 11 0.58
24 2 0.11
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (22 bp):
TTATTAATATTAGTGTATATTT
Found at i:108023308 original size:23 final size:22
Alignment explanation
Indices: 108023260--108023308 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
108023250 TCATCATTAT
* *
108023260 TATTAATATTAGTGTATATTTT
1 TATTAATATTAGTGTATATGTA
108023282 TATTATATATGTA-TGTATATGTA
1 TATTA-ATAT-TAGTGTATATGTA
108023305 TATT
1 TATT
108023309 TATTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 16 0.70
24 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (22 bp):
TATTAATATTAGTGTATATGTA
Found at i:108023412 original size:18 final size:18
Alignment explanation
Indices: 108023381--108023417 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
108023371 TTTGTATTTC
* *
108023381 ATTATTATTGTTAATATT
1 ATTATCATTATTAATATT
108023399 ATTATCATTATTAATATT
1 ATTATCATTATTAATATT
108023417 A
1 A
108023418 GTGTATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTATCATTATTAATATT
Found at i:108023448 original size:141 final size:137
Alignment explanation
Indices: 108023110--108023504 Score: 501
Period size: 141 Copynumber: 2.8 Consensus size: 137
108023100 GTATTTCAAT
* * *
108023110 ATTATTATTATTATTATTATATATTTTTTATTATATATGTATATGTATATATATATATTTATATA
1 ATTATTATTAATATTAGTGTATA-TTTTTATTATATATG---ATGTATATATATATATTTATATA
* *
108023175 TAGTATTATTTTTTTATTACTTTATTTTAATACTTTTATTATATTATATTTGCTTTTTGTATTTC
62 TAGTATTA-TTTTTAATTACTTTATTTTAATA---TTATTATATTATATTTACTTTTTGTATTTC
108023240 AATATTATTATCATC
123 AATATTATTATCATC
*
108023255 ATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATATGTATATTTATTTATATAT
1 ATTATTATTAATATTAGTGTATATTTTTATTATATATG-ATGTATA--TATATATATTTATATAT
108023320 AGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTTGTATTTCATTA
63 AGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTAC-TTTTTGTATTTCA--A
* *
108023385 TTATTGTTAAT-ATT
125 -TATTATT-ATCATC
* *
108023399 ATTATCATTATTAATATTAGTGTATGTTTTTA-T-TATATG-TGTATATATATATCTTTATATAT
1 A-T-T-ATTATTAATATTAGTGTATATTTTTATTATATATGATGTATATATATATATTTATATAT
108023461 AGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATAT
63 AGTATTATTTTTAATTACTTTATTTTAATATTATTATATTATAT
108023505 GTCTTCCTTT
Statistics
Matches: 229, Mismatches: 11, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
140 17 0.07
141 72 0.31
142 8 0.03
143 29 0.13
144 47 0.21
145 29 0.13
146 2 0.01
147 25 0.11
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.61
Consensus pattern (137 bp):
ATTATTATTAATATTAGTGTATATTTTTATTATATATGATGTATATATATATATTTATATATAGT
ATTATTTTTAATTACTTTATTTTAATATTATTATATTATATTTACTTTTTGTATTTCAATATTAT
TATCATC
Found at i:108026000 original size:18 final size:18
Alignment explanation
Indices: 108025969--108026009 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
108025959 CACAGTTGGG
* *
108025969 GTTGATAACGAAGAGAAA
1 GTTGAGAACAAAGAGAAA
*
108025987 GTTGAGAACAAAGAGGAA
1 GTTGAGAACAAAGAGAAA
108026005 GTTGA
1 GTTGA
108026010 AACCAATGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.32, T:0.17
Consensus pattern (18 bp):
GTTGAGAACAAAGAGAAA
Found at i:108028780 original size:13 final size:13
Alignment explanation
Indices: 108028748--108028787 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
108028738 TTTTAAATTC
*
108028748 TTTCATTTTTATT
1 TTTCATTTTTCTT
*
108028761 TTT-ATTTGTCTT
1 TTTCATTTTTCTT
108028773 TTTCATTTTTCTT
1 TTTCATTTTTCTT
108028786 TT
1 TT
108028788 ACGCCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTCATTTTTCTT
Found at i:108029675 original size:8 final size:8
Alignment explanation
Indices: 108029662--108029686 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
108029652 TTTTCTACTA
108029662 TTAATAAT
1 TTAATAAT
108029670 TTAATAAT
1 TTAATAAT
108029678 TTAATAAT
1 TTAATAAT
108029686 T
1 T
108029687 ATATTTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAATAAT
Found at i:108029929 original size:19 final size:19
Alignment explanation
Indices: 108029893--108029930 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
108029883 ATTTAACGAT
*
108029893 TTAATTGTTAAAATATATA
1 TTAATTGTTAAAAAATATA
108029912 TTAATTG-TACAAAAATATA
1 TTAATTGTTA-AAAAATATA
108029931 CAAAAAGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAATTGTTAAAAAATATA
Found at i:108030756 original size:30 final size:31
Alignment explanation
Indices: 108030702--108030764 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
108030692 ACAAAAAGTA
*
108030702 ACCAAAATAGAAACAATTTAAAACGTGAGTG
1 ACCAAAATAGAAACAATCTAAAACGTGAGTG
** *
108030733 ACCAAAATAG-AATGATCTAAAACGTTAGTG
1 ACCAAAATAGAAACAATCTAAAACGTGAGTG
108030763 AC
1 AC
108030765 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (31 bp):
ACCAAAATAGAAACAATCTAAAACGTGAGTG
Found at i:108031905 original size:9 final size:9
Alignment explanation
Indices: 108031891--108031959 Score: 84
Period size: 9 Copynumber: 7.7 Consensus size: 9
108031881 TTTATACAAA
108031891 TAATTTGGT
1 TAATTTGGT
108031900 TAATTTGGT
1 TAATTTGGT
*
108031909 TAATTTGGG
1 TAATTTGGT
* *
108031918 TAATTCGTT
1 TAATTTGGT
108031927 TAATTTGGT
1 TAATTTGGT
* *
108031936 TAATTCGAT
1 TAATTTGGT
*
108031945 TAATTCGGT
1 TAATTTGGT
108031954 TAATTT
1 TAATTT
108031960 TATACTTATT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.52
Consensus pattern (9 bp):
TAATTTGGT
Found at i:108031929 original size:27 final size:27
Alignment explanation
Indices: 108031891--108031959 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
108031881 TTTATACAAA
* * *
108031891 TAATTTGGTTAATTTGGTTAATTTGGG
1 TAATTCGGTTAATTTGGTTAATTCGAG
* *
108031918 TAATTCGTTTAATTTGGTTAATTCGAT
1 TAATTCGGTTAATTTGGTTAATTCGAG
108031945 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
108031960 TATACTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.52
Consensus pattern (27 bp):
TAATTCGGTTAATTTGGTTAATTCGAG
Found at i:108035133 original size:13 final size:13
Alignment explanation
Indices: 108035115--108035139 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108035105 ACGAATTTAT
108035115 ATGAAAATAATAA
1 ATGAAAATAATAA
108035128 ATGAAAATAATA
1 ATGAAAATAATA
108035140 TATATACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATGAAAATAATAA
Found at i:108039271 original size:10 final size:9
Alignment explanation
Indices: 108039252--108039317 Score: 53
Period size: 10 Copynumber: 7.0 Consensus size: 9
108039242 ATAAATTATT
108039252 TTTTATAAA
1 TTTTATAAA
108039261 TTTTATAAAA
1 TTTTAT-AAA
*
108039271 TTTTATGAA
1 TTTTATAAA
*
108039280 TTTTAATTAA
1 TTTT-ATAAA
**
108039290 TTTCTATTACT
1 TTT-TA-TAAA
108039301 TTTTATAAA
1 TTTTATAAA
108039310 TTTT-TAAA
1 TTTTATAAA
108039318 ACAAATCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
8 4 0.09
9 18 0.39
10 19 0.41
11 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTATAAA
Found at i:108041838 original size:37 final size:37
Alignment explanation
Indices: 108041797--108041879 Score: 150
Period size: 37 Copynumber: 2.2 Consensus size: 37
108041787 TGATAATCTT
108041797 GCACTTGGATTGCAACAA-AAACTGTAAATAATAAACA
1 GCACTTGGATTGCAA-AATAAACTGTAAATAATAAACA
108041834 GCACTTGGATTGCAAAATAAACTGTAAATAATAAACA
1 GCACTTGGATTGCAAAATAAACTGTAAATAATAAACA
108041871 GCACTTGGA
1 GCACTTGGA
108041880 ATTTGTGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 2 0.04
37 43 0.96
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.23
Consensus pattern (37 bp):
GCACTTGGATTGCAAAATAAACTGTAAATAATAAACA
Found at i:108042597 original size:24 final size:24
Alignment explanation
Indices: 108042550--108042599 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
108042540 GAGAAAAATG
*
108042550 ATTTTTTTGTTAAAATTTTAATTC
1 ATTTTTTTGTTAAAATATTAATTC
*
108042574 ATTTTTATTGTTAAAA-ATTGATTC
1 ATTTTT-TTGTTAAAATATTAATTC
108042598 AT
1 AT
108042600 GTATGTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTTTTTGTTAAAATATTAATTC
Found at i:108043016 original size:21 final size:22
Alignment explanation
Indices: 108042992--108043058 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
108042982 AGTATATATG
*
108042992 TAAATTGAT-ATAATAA-TTAAT
1 TAAATTAATAATAA-AACTTAAT
108043013 TAAA-TAATAATAAAACTTAAT
1 TAAATTAATAATAAAACTTAAT
* *
108043034 TAAATTAATTAATTAAAGTTAAT
1 TAAATTAA-TAATAAAACTTAAT
108043057 TA
1 TA
108043059 TCATATAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.13
21 17 0.44
22 3 0.08
23 14 0.36
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.40
Consensus pattern (22 bp):
TAAATTAATAATAAAACTTAAT
Found at i:108045900 original size:21 final size:23
Alignment explanation
Indices: 108045871--108045924 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
108045861 CAAATGTGTT
*
108045871 AAAATTATTAATT-AAA-AATAA
1 AAAAGTATTAATTAAAATAATAA
**
108045892 AAAAGTATTTTTTAAAATAATAA
1 AAAAGTATTAATTAAAATAATAA
*
108045915 AAATGTATTA
1 AAAAGTATTA
108045925 CAATCTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.38
22 3 0.12
23 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
AAAAGTATTAATTAAAATAATAA
Found at i:108046013 original size:16 final size:17
Alignment explanation
Indices: 108045992--108046024 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
108045982 ATTCTAATTA
108045992 AAATTTATAA-ATTTAT
1 AAATTTATAATATTTAT
*
108046008 AAATTTTTAATATTTAT
1 AAATTTATAATATTTAT
108046025 TGCTTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AAATTTATAATATTTAT
Found at i:108046638 original size:45 final size:45
Alignment explanation
Indices: 108046573--108046684 Score: 113
Period size: 45 Copynumber: 2.5 Consensus size: 45
108046563 ATTAAAAATT
* * * *
108046573 ATAAAAATA-ATAAATAATAAATTTTA-GAAAATTTATTAAATTTTA
1 ATAAAAATATAAAAAT-ATAAAATTTATGAAAAATTA-GAAATTTTA
* * *
108046618 ATAAAAATATAAAAATATAAAATTTATTAAAAATTAGAATTTTTT
1 ATAAAAATATAAAAATATAAAATTTATGAAAAATTAGAAATTTTA
108046663 ATAAAAATAGTAAAAA-ATAAAA
1 ATAAAAATA-TAAAAATATAAAA
108046685 AAAAATTGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
45 39 0.68
46 18 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (45 bp):
ATAAAAATATAAAAATATAAAATTTATGAAAAATTAGAAATTTTA
Found at i:108047036 original size:19 final size:19
Alignment explanation
Indices: 108047014--108047056 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
108047004 TTTCTATATG
*
108047014 TTTTATACTTTTTTATGAT
1 TTTTATAATTTTTTATGAT
*
108047033 TTTTATAATTTTTTCTGAT
1 TTTTATAATTTTTTATGAT
108047052 TTTTA
1 TTTTA
108047057 ATAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATAATTTTTTATGAT
Found at i:108047073 original size:27 final size:28
Alignment explanation
Indices: 108047049--108047103 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
108047039 AATTTTTTCT
108047049 GATTTTTAATAAAATTTAA-AATTTTTA
1 GATTTTTAATAAAATTTAATAATTTTTA
* **
108047076 TATTTTTTCTAAAATTTAATAATTTTTA
1 GATTTTTAATAAAATTTAATAATTTTTA
108047104 TAGCTTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
GATTTTTAATAAAATTTAATAATTTTTA
Found at i:108047111 original size:28 final size:27
Alignment explanation
Indices: 108047058--108047111 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
108047048 TGATTTTTAA
**
108047058 TAAAATTTAAAATTTTTATATTTTTTC
1 TAAAATTTAAAATTTTTATAGCTTTTC
108047085 TAAAATTTAATAATTTTTATAGCTTTT
1 TAAAATTTAA-AATTTTTATAGCTTTT
108047112 ACTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TAAAATTTAAAATTTTTATAGCTTTTC
Found at i:108048751 original size:9 final size:9
Alignment explanation
Indices: 108048737--108048770 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
108048727 ATTCATGCTT
108048737 TTATAGATA
1 TTATAGATA
108048746 TTATAGATAGA
1 TTATAGAT--A
108048757 TTATAGATA
1 TTATAGATA
108048766 TTATA
1 TTATA
108048771 CAAGGGATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (9 bp):
TTATAGATA
Done.