Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 38 of 328
Found at i:11163508 original size:20 final size:20
Alignment explanation
Indices: 11163483--11163521 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11163473 TTTTGATTAT
11163483 ATTTTT-TTAAATTTTTATTG
1 ATTTTTATT-AATTTTTATTG
*
11163503 ATTTTTATTATTTTTTATT
1 ATTTTTATTAATTTTTATT
11163522 TTTTTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
ATTTTTATTAATTTTTATTG
Found at i:11168246 original size:3 final size:3
Alignment explanation
Indices: 11168117--11168226 Score: 125
Period size: 3 Copynumber: 36.7 Consensus size: 3
11168107 AAATGGTGAA
11168117 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*** * * * *
11168165 AAT AAT ACA- AAT TCC AAC AACG AA- AAT AAT AAT AGT AAT AAT AGT
1 AAT AAT A-AT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
11168210 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
11168227 CGACGACATG
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
2 3 0.03
3 87 0.94
4 3 0.03
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11170455 original size:13 final size:12
Alignment explanation
Indices: 11170437--11170484 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11170427 TTTGTGTCTG
11170437 TTTCTTTTTCTTT
1 TTTC-TTTTCTTT
* *
11170450 TTTCTTTCCCTT
1 TTTCTTTTCTTT
11170462 TTTCTTTTCTTT
1 TTTCTTTTCTTT
*
11170474 CTTTCCTTTCT
1 -TTTCTTTTCT
11170485 ATTTAGCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 16 0.55
13 13 0.45
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:11170476 original size:21 final size:19
Alignment explanation
Indices: 11170440--11170479 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
11170430 GTGTCTGTTT
11170440 CTTTTTCTTTTTTCTTTCC
1 CTTTTTCTTTTTTCTTTCC
11170459 CTTTTTCTTTTCTTTCTTTCC
1 CTTTTTC-TTT-TTTCTTTCC
11170480 TTTCTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
CTTTTTCTTTTTTCTTTCC
Found at i:11174032 original size:7 final size:7
Alignment explanation
Indices: 11174020--11174052 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
11174010 CATAACTTTT
11174020 AAAATTA
1 AAAATTA
11174027 AAAATTA
1 AAAATTA
*
11174034 AAAATCA
1 AAAATTA
11174041 AAAATTA
1 AAAATTA
11174048 AAAAT
1 AAAAT
11174053 AAAGTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:11174149 original size:14 final size:15
Alignment explanation
Indices: 11174120--11174156 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
11174110 CAAAACTAAT
*
11174120 ATTTTTACGATATTC
1 ATTTTTATGATATTC
11174135 ATTTTTATGAT-TTC
1 ATTTTTATGATATTC
11174149 ATTTTTAT
1 ATTTTTAT
11174157 TTAAATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (15 bp):
ATTTTTATGATATTC
Found at i:11174702 original size:13 final size:13
Alignment explanation
Indices: 11174684--11174710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11174674 TAAACAAAAA
11174684 ATTAAATAAATTC
1 ATTAAATAAATTC
11174697 ATTAAATAAATTC
1 ATTAAATAAATTC
11174710 A
1 A
11174711 CAATTAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTAAATAAATTC
Found at i:11179072 original size:2 final size:2
Alignment explanation
Indices: 11179065--11179092 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11179055 ATATCACATT
11179065 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11179093 GATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11179677 original size:22 final size:20
Alignment explanation
Indices: 11179629--11179685 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
11179619 TAATCATTTG
* *
11179629 ATTAATAAATATCTTTTATA
1 ATTAATAAATATATTTAATA
11179649 ATTAATAAATATATATTAATA
1 ATTAATAAATATAT-TTAATA
*
11179670 ATTAAATACATATATT
1 ATT-AATAAATATATT
11179686 ACAAATGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.41
21 9 0.28
22 10 0.31
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAATAAATATATTTAATA
Found at i:11180199 original size:16 final size:15
Alignment explanation
Indices: 11180176--11180210 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
11180166 ACAATTTAAT
*
11180176 TTATTTATCATATAA
1 TTATTTATAATATAA
11180191 TTATCTTATAATATAA
1 TTAT-TTATAATATAA
11180207 TTAT
1 TTAT
11180211 AATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTATAATATAA
Found at i:11180254 original size:25 final size:22
Alignment explanation
Indices: 11180202--11180256 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 22
11180192 TATCTTATAA
11180202 TATAATTATAATAAATTAATTT
1 TATAATTATAATAAATTAATTT
*
11180224 AATAATTACTAATAAATATATATTT
1 TATAATTA-TAATAAAT-TA-ATTT
11180249 TATAATTA
1 TATAATTA
11180257 AAATCTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 8 0.29
24 2 0.07
25 11 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATAATTATAATAAATTAATTT
Found at i:11192510 original size:17 final size:17
Alignment explanation
Indices: 11192488--11192521 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11192478 TTAAATTTTT
11192488 TTAATTTAATAAAAATA
1 TTAATTTAATAAAAATA
**
11192505 TTAATTTTTTAAAAATA
1 TTAATTTAATAAAAATA
11192522 ATTTTAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATTTAATAAAAATA
Found at i:11192515 original size:20 final size:22
Alignment explanation
Indices: 11192492--11192539 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
11192482 ATTTTTTTAA
11192492 TTTAATAAA-AATATTAAT-TT
1 TTTAATAAATAATATTAATATT
*
11192512 TTTAA-AAATAATTTTAATGATT
1 TTTAATAAATAATATTAAT-ATT
11192534 TTTAAT
1 TTTAAT
11192540 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 3 0.13
20 13 0.57
22 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTAATAAATAATATTAATATT
Found at i:11194131 original size:16 final size:16
Alignment explanation
Indices: 11194082--11194136 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 16
11194072 TGTTAAAATT
*
11194082 TATATT-ATTTTATAA
1 TATATTAATTATATAA
11194097 TATATTTAATTTCATATAA
1 TATA-TTAA-TT-ATATAA
11194116 TATATTAATTATATAA
1 TATATTAATTATATAA
11194132 TATAT
1 TATAT
11194137 ATAAGAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 4 0.11
16 13 0.37
17 3 0.09
18 6 0.17
19 9 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATTAATTATATAA
Found at i:11203299 original size:21 final size:22
Alignment explanation
Indices: 11203273--11203317 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
11203263 TGATATTACA
11203273 TTATTATTATTTT-CTTTCTAT
1 TTATTATTATTTTCCTTTCTAT
* *
11203294 TTATTATTTTTTTCCTTTTTAT
1 TTATTATTATTTTCCTTTCTAT
11203316 TT
1 TT
11203318 CATTTTCGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (22 bp):
TTATTATTATTTTCCTTTCTAT
Found at i:11204011 original size:12 final size:12
Alignment explanation
Indices: 11203994--11204041 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11203984 TATTTATCTC
11203994 TTTATATTTATG
1 TTTATATTTATG
11204006 TTTATATTTTATG
1 TTTATA-TTTATG
** *
11204019 TATTATACCTATC
1 T-TTATATTTATG
11204032 TTTATATTTA
1 TTTATATTTA
11204042 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:11204222 original size:22 final size:22
Alignment explanation
Indices: 11204194--11204235 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11204184 TAACGTGCTA
* *
11204194 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
11204216 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
11204236 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:11206058 original size:29 final size:29
Alignment explanation
Indices: 11206012--11206073 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
11206002 AATTTTTTTT
* *
11206012 GTTATCCAATTATAAAAAGATACAAAATA
1 GTTAACCAACTATAAAAAGATACAAAATA
* *
11206041 GTTAACCAACTATGAAAAGATACAAAATG
1 GTTAACCAACTATAAAAAGATACAAAATA
11206070 GTTA
1 GTTA
11206074 CTCAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (29 bp):
GTTAACCAACTATAAAAAGATACAAAATA
Found at i:11214523 original size:68 final size:68
Alignment explanation
Indices: 11214451--11214578 Score: 150
Period size: 69 Copynumber: 1.9 Consensus size: 68
11214441 TATTTCAGTT
* * * * **
11214451 TTATT-ATTTAATTTGTTATGATTTATGCTTTTAATTTTGTTTAAATTTCGATTTAACCCTATCT
1 TTATTCATTTAATTTATTATAATTTAGGCTTTAAATTTCATTTAAATTTCGATTT-ACCCTATCT
11214515 ATGG
65 ATGG
* * * *
11214519 TTATTCGTTTATTTTATTATAATTTAGGCTTTAAATTTCATTTTAATTTTGATTTACCCT
1 TTATTCATTTAATTTATTATAATTTAGGCTTTAAATTTCATTTAAATTTCGATTTACCCT
11214579 TTTTAATTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
68 10 0.20
69 39 0.80
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (68 bp):
TTATTCATTTAATTTATTATAATTTAGGCTTTAAATTTCATTTAAATTTCGATTTACCCTATCTA
TGG
Found at i:11219947 original size:25 final size:25
Alignment explanation
Indices: 11219919--11220011 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
11219909 TATTTTGTTA
11219919 TTATTATTTATTTTAAGTTTTTTTC
1 TTATTATTTATTTTAAGTTTTTTTC
* ** *
11219944 TTATATTATTTATTTTAAATCGTTTTA
1 -T-TATTATTTATTTTAAGTTTTTTTC
* **
11219971 TTATTATTTGTTTTAAGTTTTTCAC
1 TTATTATTTATTTTAAGTTTTTTTC
* *
11219996 ATATTATGTATTTTAA
1 TTATTATTTATTTTAA
11220012 ACTATTATCA
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
25 30 0.58
26 2 0.04
27 20 0.38
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (25 bp):
TTATTATTTATTTTAAGTTTTTTTC
Found at i:11219950 original size:27 final size:26
Alignment explanation
Indices: 11219911--11219992 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
11219901 TTTAAAACTA
*
11219911 TTTTGTTATTATTATTTATTTTAAGTT
1 TTTTTTTA-TATTATTTATTTTAAGTT
* *
11219938 TTTTTCTTATATTATTTATTTTAAATC
1 TTTTT-TTATATTATTTATTTTAAGTT
* * *
11219965 GTTTTAT-TATTATTTGTTTTAAGTT
1 TTTTTTTATATTATTTATTTTAAGTT
11219990 TTT
1 TTT
11219993 CACATATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
25 17 0.38
26 1 0.02
27 24 0.53
28 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (26 bp):
TTTTTTTATATTATTTATTTTAAGTT
Found at i:11219969 original size:30 final size:28
Alignment explanation
Indices: 11219911--11219992 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 28
11219901 TTTAAAACTA
*
11219911 TTTTGTTATTATTATTTATTTTAAGTTT
1 TTTTCTTATTATTATTTATTTTAAGTTT
*
11219939 TTTTCTTA-TATTATTTATTTTAA--AT
1 TTTTCTTATTATTATTTATTTTAAGTTT
** *
11219964 CGTT-TTATTATTATTTGTTTTAAGTTT
1 TTTTCTTATTATTATTTATTTTAAGTTT
11219991 TT
1 TT
11219993 CACATATTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
24 3 0.07
25 17 0.40
27 16 0.37
28 7 0.16
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (28 bp):
TTTTCTTATTATTATTTATTTTAAGTTT
Found at i:11220053 original size:25 final size:25
Alignment explanation
Indices: 11220025--11220073 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11220015 ATTATCAATT
*
11220025 TTAAATATTT-TAAATGTTATTTATC
1 TTAAA-ATTTATAAATATTATTTATC
*
11220050 TTAAAATTTATATATATTATTTAT
1 TTAAAATTTATAAATATTATTTAT
11220074 TTTGGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAAAATTTATAAATATTATTTATC
Found at i:11220144 original size:28 final size:27
Alignment explanation
Indices: 11220098--11220163 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
11220088 ATATATATCT
* **
11220098 TTTATTTTTAAATTGTTTTTGTACATTA
1 TTTA-TTTTAAATTCTTTTTACACATTA
*
11220126 TTTATTTTAAATTTCTTTTTACATATTA
1 TTTATTTTAAA-TTCTTTTTACACATTA
*
11220154 TTTATCTTAA
1 TTTATTTTAA
11220164 CTTTTATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 7 0.22
28 25 0.78
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (27 bp):
TTTATTTTAAATTCTTTTTACACATTA
Found at i:11220251 original size:27 final size:24
Alignment explanation
Indices: 11220062--11220297 Score: 113
Period size: 26 Copynumber: 9.2 Consensus size: 24
11220052 AAAATTTATA
** *
11220062 TATATTATTTATTTTGGATTATTTT
1 TATATTATTTATTTTAAATT-GTTT
11220087 TATATATATCTTTTATTTTTAAATTGTTTTT
1 TATAT-TA---TTTA-TTTTAAATTG--TTT
* *
11220118 GTACATTATTTATTTTAAATTTCTTTT
1 -TATATTATTTATTTTAAA-TT-GTTT
* *
11220145 TACATATTATTTATCTT-AA--CTTT
1 T--ATATTATTTATTTTAAATTGTTT
* * *
11220168 TATA-T-GTTATTTTAGAGTGTCTT
1 TATATTATTTATTTTAAATTGT-TT
* *
11220191 ATATAATATTTATTTTAAATTTTTTT
1 -TATATTATTTATTTTAAA-TTGTTT
11220217 GTATATTATTTATTTTAAATTTGTTT
1 -TATATTATTTATTTTAAA-TTGTTT
*
11220243 TACGTATTATTTATTTGAAATTGTTT
1 TA--TATTATTTATTTTAAATTGTTT
* * *
11220269 TATATTATTGACTTCAAATTGTTT
1 TATATTATTTATTTTAAATTGTTT
11220293 TATAT
1 TATAT
11220298 AATATTTTGT
Statistics
Matches: 166, Mismatches: 23, Indels: 45
0.71 0.10 0.19
Matches are distributed among these distances:
19 6 0.04
20 2 0.01
21 3 0.02
22 1 0.01
23 6 0.04
24 28 0.17
25 8 0.05
26 45 0.27
27 29 0.17
28 18 0.11
29 4 0.02
30 7 0.04
31 5 0.03
32 4 0.02
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (24 bp):
TATATTATTTATTTTAAATTGTTT
Found at i:11223107 original size:62 final size:62
Alignment explanation
Indices: 11223010--11223132 Score: 219
Period size: 62 Copynumber: 2.0 Consensus size: 62
11223000 AACCCCTGAG
*
11223010 TATGACTGGTGGTGGCGTAAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACGC
1 TATGACTGGTGGTAGCGTAAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACGC
* *
11223072 TATGACTGGTGGTAGCGTAAAAGAATCAACGACATCTTTCCAATTCCAAGTCAAGAAAACG
1 TATGACTGGTGGTAGCGTAAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACG
11223133 TTCGCCCGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (62 bp):
TATGACTGGTGGTAGCGTAAAAAAATCAACGACATCTTCCCAATTCCAAGTCAAGAAAACGC
Found at i:11224055 original size:19 final size:19
Alignment explanation
Indices: 11224023--11224066 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11224013 TCTCTTTGCA
* *
11224023 TTCATTCATCTGCATGAGAT
1 TTCA-TCATATGCATGAAAT
*
11224043 TTCATCATATGCATTAAAT
1 TTCATCATATGCATGAAAT
11224062 TTCAT
1 TTCAT
11224067 GAAAAGACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (19 bp):
TTCATCATATGCATGAAAT
Found at i:11237255 original size:23 final size:21
Alignment explanation
Indices: 11237203--11237298 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
11237193 CCTGATCAGT
** * *
11237203 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
11237224 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
11237245 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
11237266 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
11237287 AAATACGACACA
1 --ATACGACACA
11237299 TAAAGTGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:11237263 original size:42 final size:43
Alignment explanation
Indices: 11237203--11237308 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
11237193 CCTGATCAGT
*
11237203 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * *
11237245 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
11237289 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
11237309 GATCGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 37 0.69
44 17 0.31
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:11238789 original size:16 final size:17
Alignment explanation
Indices: 11238754--11238789 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11238744 CCTAATTCTC
11238754 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
11238770 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
11238785 CCTTC
1 CCTTC
11238790 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:11238851 original size:7 final size:7
Alignment explanation
Indices: 11238841--11238904 Score: 78
Period size: 7 Copynumber: 8.9 Consensus size: 7
11238831 TTTACTTATT
11238841 TATATAA
1 TATATAA
11238848 TATATAA
1 TATATAA
11238855 TATATAA
1 TATATAA
11238862 TATATAA
1 TATATAA
11238869 TATA-ATA
1 TATATA-A
11238876 TAATATAA
1 T-ATATAA
11238884 TATA-ATA
1 TATATA-A
11238891 TAATATAA
1 T-ATATAA
11238899 TATATA
1 TATATA
11238905 TTTTAACACA
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
6 2 0.04
7 37 0.73
8 10 0.20
9 2 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATATAA
Found at i:11238857 original size:5 final size:5
Alignment explanation
Indices: 11238849--11238902 Score: 85
Period size: 5 Copynumber: 11.0 Consensus size: 5
11238839 TTTATATAAT
11238849 ATATA ATAT- ATA-A TATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA
11238898 ATATA
1 ATATA
11238903 TATTTTAACA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
4 3 0.07
5 42 0.91
6 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:11239474 original size:45 final size:44
Alignment explanation
Indices: 11239352--11239476 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
11239342 CACCATGGCG
* * * *
11239352 AATCTTATTTCCCTGAAATTGCAGTGGAACAGATTAAAGCCACA
1 AATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAAGCAACA
* * * *
11239396 AATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATAACA
1 AATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAAG-CAACA
*
11239441 AATCTTATTTCCCTGAAGTTACAG-ATGAATAGATTA
1 AATCTTATTTCCCTGAAGTTGCAGTA-GAATAGATTA
11239477 CGCTACAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
44 34 0.51
45 33 0.49
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (44 bp):
AATCTTATTTCCCTGAAGTTGCAGTAGAATAGATTAAAGCAACA
Found at i:11239952 original size:96 final size:94
Alignment explanation
Indices: 11239851--11240074 Score: 280
Period size: 89 Copynumber: 2.4 Consensus size: 94
11239841 GAAGATTGCT
* * *
11239851 AATCTTATTTTCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGCTACTAATCTTATATCCCT
1 AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGC--CAAGCCACAAATCTTATATCCCT
* *
11239916 GAAGTTACAGTGGAGTGGATCGTAGATCGTA
64 GAAGTTACAATGGAGTGGATCATAGATCGTA
* * *
11239947 AATCTTA-TGTCGTTGAAGTTGCAGTGGAACAGA-T----CCAAGCCACAAATCTTATCTCCCTG
1 AATCTTATTTTC-CTGAAGTTGCAGTGGAACAGATTAAAGCCAAGCCACAAATCTTATATCCCTG
*
11240006 AAGTTGCAATGGAGTGGATCATAGATCGTA
65 AAGTTACAATGGAGTGGATCATAGATCGTA
* *
11240036 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAG
1 AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAG
11240075 AAACAATTCC
Statistics
Matches: 108, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
89 74 0.69
90 3 0.03
91 1 0.01
95 4 0.04
96 26 0.24
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (94 bp):
AATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCCAAGCCACAAATCTTATATCCCTGA
AGTTACAATGGAGTGGATCATAGATCGTA
Found at i:11239966 original size:45 final size:45
Alignment explanation
Indices: 11239902--11240064 Score: 177
Period size: 45 Copynumber: 3.6 Consensus size: 45
11239892 ACAAGCTACT
* * *
11239902 AATCTTATATCCCTGAAGTTACAGTGGAGTGGATCGTAGATCGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATCATAGATCGTA
* ** *** * **
11239947 AATCTTATGTCGTTGAAGTTGCAGTGGAACAGATCCA-AG-CCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGAT-CATAGATCGTA
*
11239991 AATCTTATCTCCCTGAAGTTGCAATGGAGTGGATCATAGATCGTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATCATAGATCGTA
*
11240036 AATCTTATCTTCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
11240065 CAGATTAAAG
Statistics
Matches: 92, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 2 0.02
44 31 0.34
45 58 0.63
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATCATAGATCGTA
Found at i:11241553 original size:16 final size:15
Alignment explanation
Indices: 11241532--11241561 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11241522 TCTGTCTAAT
11241532 TTATTTATTTGTTTAG
1 TTATTTATTT-TTTAG
11241548 TTATTTATTTTTTA
1 TTATTTATTTTTTA
11241562 AACTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
TTATTTATTTTTTAG
Found at i:11241679 original size:25 final size:26
Alignment explanation
Indices: 11241633--11241689 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
11241623 ACGTATTATG
11241633 TATTTTAAACTATTATCAATTTTAAA
1 TATTTTAAACTATTATCAATTTTAAA
* **
11241659 TATTTTAAA-TGTTATTTATTTTAAA
1 TATTTTAAACTATTATCAATTTTAAA
11241684 -ATTTTA
1 TATTTTA
11241690 TATATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 13 0.46
26 9 0.32
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (26 bp):
TATTTTAAACTATTATCAATTTTAAA
Found at i:11241701 original size:24 final size:25
Alignment explanation
Indices: 11241633--11241895 Score: 101
Period size: 26 Copynumber: 10.0 Consensus size: 25
11241623 ACGTATTATG
**
11241633 TATTTTAAACTATTATCAATTTTAAA
1 TATTTTAAA-TATTATTTATTTTAAA
*
11241659 TATTTTAAATGTTATTTATTTTAAA
1 TATTTTAAATATTATTTATTTTAAA
* *
11241684 -ATTTTATATATATATTATTTATTTTGGAT
1 TA-TTT-TA-A-ATATTATTTATTTT-AAA
11241713 TATTTTTATATATATCT-TTTATTTTTAAA
1 TA-TTTTA-A-ATAT-TATTTA-TTTTAAA
** * *
11241742 CTATTTTTTTACATTATTTATTTTAATTT
1 -TA-TTTTAAATATTATTTATTTTAA--A
* *
11241771 TCTTTTTAAATATTATTTATCTT-AA
1 T-ATTTTAAATATTATTTATTTTAAA
* *
11241796 -CTTTT--ATA-T-GTTATTTTAAA
1 TATTTTAAATATTATTTATTTTAAA
* * *
11241816 GTGTCTTATATATTATTTATTTTAAA
1 -TATTTTAAATATTATTTATTTTAAA
**
11241842 TTATTTTGTATATTATTTATTTTAAA
1 -TATTTTAAATATTATTTATTTTAAA
* * *
11241868 TTTGTTTTACATATTATTTATTTGAAA
1 --TATTTTAAATATTATTTATTTTAAA
11241895 T
1 T
11241896 TGTTTTATAT
Statistics
Matches: 184, Mismatches: 32, Indels: 43
0.71 0.12 0.17
Matches are distributed among these distances:
19 6 0.03
20 3 0.02
21 3 0.02
22 3 0.02
23 4 0.02
24 4 0.02
25 18 0.10
26 43 0.23
27 31 0.17
28 37 0.20
29 15 0.08
30 17 0.09
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTTTAAATATTATTTATTTTAAA
Found at i:11241846 original size:14 final size:14
Alignment explanation
Indices: 11241827--11241869 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
11241817 TGTCTTATAT
11241827 ATTATTTATTTTAA
1 ATTATTTATTTTAA
* *
11241841 ATTA-TT-TTGTAT
1 ATTATTTATTTTAA
11241853 ATTATTTATTTTAA
1 ATTATTTATTTTAA
11241867 ATT
1 ATT
11241870 TGTTTTACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATTTATTTTAA
Found at i:11241883 original size:27 final size:26
Alignment explanation
Indices: 11241806--11241936 Score: 149
Period size: 26 Copynumber: 5.1 Consensus size: 26
11241796 CTTTTATATG
* *
11241806 TTATTTTAAAGTGTCTTATATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
* *
11241832 TTATTTTAAATTATTTTGTATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
*
11241858 TTATTTTAAATTTGTTTTACATATTAT
1 TTATTTTAAA-TTGTTTTATATATTAT
*
11241885 TTATTTGAAATTG-TTT-TATATTAT
1 TTATTTTAAATTGTTTTATATATTAT
* * * *
11241909 TGACTTCAAATTGTTTTATATAATAT
1 TTATTTTAAATTGTTTTATATATTAT
11241935 TT
1 TT
11241937 TGTTGCATAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
24 17 0.19
25 6 0.07
26 43 0.49
27 22 0.25
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (26 bp):
TTATTTTAAATTGTTTTATATATTAT
Found at i:11241887 original size:53 final size:50
Alignment explanation
Indices: 11241806--11241936 Score: 154
Period size: 53 Copynumber: 2.6 Consensus size: 50
11241796 CTTTTATATG
* * * *
11241806 TTATTTTAAAGTGTCTTATATATTATTTATTTTAAATTATTTTGTATATTAT
1 TTATTTTAAATTGTTTTATATATTATTTATTTGAAATT-GTTT-TATATTAT
*
11241858 TTATTTTAAATTTGTTTTACATATTATTTATTTGAAATTGTTTTATATTAT
1 TTATTTTAAA-TTGTTTTATATATTATTTATTTGAAATTGTTTTATATTAT
* * * *
11241909 TGACTTCAAATTGTTTTATATAATATTT
1 TTATTTTAAATTGTTTTATATATTATTT
11241937 TGTTGCATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 16 0.24
51 15 0.22
52 13 0.19
53 24 0.35
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (50 bp):
TTATTTTAAATTGTTTTATATATTATTTATTTGAAATTGTTTTATATTAT
Found at i:11241909 original size:99 final size:101
Alignment explanation
Indices: 11241721--11241909 Score: 235
Period size: 99 Copynumber: 1.9 Consensus size: 101
11241711 ATTATTTTTA
* * *
11241721 TATATATCTTTTATTTTTAAACTATTTTTTTACATTATTTATTTTAATTTTCTTTTTAAATATTA
1 TATATATCTTTTATTTTTAAACTATTTTTGTACATTATTTATTTTAAATTTCGTTTTAAATATTA
* *
11241786 TTTATCTTAACTTTTATATGTTATTTTAAAGTGTCT
66 TTTATCTTAAATTTTATATATTATTTTAAAGTGTCT
* * *
11241822 TATATAT-TATTTA-TTTTAAATTA-TTTTGTATATTATTTATTTTAAATTT-GTTTTACATATT
1 TATATATCT-TTTATTTTTAAACTATTTTTGTACATTATTTATTTTAAATTTCGTTTTAAATATT
*
11241883 ATTTAT-TTGAAATTGTTTTATATTATT
65 ATTTATCTT-AAATT-TTATATATTATT
11241910 GACTTCAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
97 2 0.03
98 20 0.26
99 33 0.43
100 10 0.13
101 11 0.14
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (101 bp):
TATATATCTTTTATTTTTAAACTATTTTTGTACATTATTTATTTTAAATTTCGTTTTAAATATTA
TTTATCTTAAATTTTATATATTATTTTAAAGTGTCT
Found at i:11244614 original size:17 final size:18
Alignment explanation
Indices: 11244592--11244626 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11244582 GATATGATAC
*
11244592 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
11244609 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
11244627 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:11244923 original size:23 final size:22
Alignment explanation
Indices: 11244880--11244937 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
11244870 AAAAGGTATC
* *
11244880 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
11244901 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
11244924 TGCATATCATATCT
1 TACAAATCATATCT
11244938 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:11244940 original size:19 final size:19
Alignment explanation
Indices: 11244916--11244952 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11244906 AATCATATCT
11244916 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
11244935 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
11244953 TGAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11244960 original size:17 final size:19
Alignment explanation
Indices: 11244919--11244960 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11244909 CATATCTTCT
*
11244919 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
11244938 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
11244955 AAGATT
1 AAGATT
11244961 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:11245383 original size:44 final size:45
Alignment explanation
Indices: 11245318--11245531 Score: 186
Period size: 44 Copynumber: 4.8 Consensus size: 45
11245308 GCTATCTTTG
* * *
11245318 ATCTGCTCCCCGTTTAATACAGAAATGCCAAATCTGTTATCTTCA
1 ATCTGCTACCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* * *
11245363 ATTTGCT-CCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTACCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* **
11245406 ATCTGCTACCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGG
1 ATCTGCTACCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* * * * * * * *
11245451 ATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCTATGTCTTCG
1 ATCTGCTACCCG-TCTAATACAGA-G-ATGCCAAATCTG-T-TATCTTCA
*
11245498 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTACCCGTCTAATACAGAGATGCCAAATC
11245532 ATCTTGGATC
Statistics
Matches: 133, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
43 18 0.14
44 58 0.44
45 26 0.20
46 1 0.01
47 19 0.14
48 5 0.04
49 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGCTACCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
Found at i:11245600 original size:78 final size:78
Alignment explanation
Indices: 11245471--11245765 Score: 482
Period size: 78 Copynumber: 3.8 Consensus size: 78
11245461 ATGTAAACAC
*
11245471 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11245536 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * *
11245549 ATGAAGGTCCAATATGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
11245614 TGGATCTGTTTCA
66 TGGATCTGCTTCA
11245627 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
11245692 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
11245705 ATGAAGGTCAAATCTGCTATGTCTTCAATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
11245766 TGTTTCTTCG
Statistics
Matches: 200, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 200 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:11245857 original size:44 final size:44
Alignment explanation
Indices: 11245713--11246160 Score: 495
Period size: 44 Copynumber: 10.1 Consensus size: 44
11245703 CAATGAAGGT
* * * ** *
11245713 CAAATCTGCTATGTCTTCAATCTGCTCTCCGTCGAATATGGAGATGC
1 CAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAGACGC
* * * * * *
11245760 CAAATCTG-TTTCTTCGATTTGTTCTCTAACAGTACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
11245803 CAAATTTGCTATCTTTGATCTGCTTTCTGACAATACAGAGACAC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
11245847 CAAATCTGCTATCTTTGATATGCTCTCTGATAATACAGAGACGT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
11245891 CAAATCTCCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
*
11245935 CAAATATGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
** * *
11245979 CAAATCTATTATTTTCGATCTGCTTTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * *
11246023 CAAATCTGCTATTTTCGATCTGCTCTCTGACTATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * *
11246067 CAAATATGCTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGAC-AATACAGAGACGC
* * * * * *
11246112 CAAATTTG-TTTCTTCGATTTGTTTTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
11246155 CAAATC
1 CAAATC
11246161 ATCTTGGATC
Statistics
Matches: 343, Mismatches: 56, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
43 35 0.10
44 280 0.82
45 19 0.06
46 1 0.00
47 8 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
Found at i:11254236 original size:3 final size:3
Alignment explanation
Indices: 11254228--11254434 Score: 168
Period size: 3 Copynumber: 69.3 Consensus size: 3
11254218 TAGCATTTCT
* * * * * *
11254228 TTA TTA TTA CTA TTA TCA TTA TTA TTTG TTGC TTA ATA -TA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA
* ** * *
11254274 TTA TTA TTT TTA TCC TCA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11254322 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
11254370 CTA TTT TTA CTA TTA TT- TGA -TA CTA TCA TTA CTA TTA TTA TTC TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
11254416 TTA CCA TTA TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA T
11254435 ATATATACAT
Statistics
Matches: 160, Mismatches: 39, Indels: 10
0.77 0.19 0.05
Matches are distributed among these distances:
2 4 0.03
3 152 0.95
4 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:11254520 original size:87 final size:87
Alignment explanation
Indices: 11254429--11254604 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
11254419 CCATTATTAC
*
11254429 TATTATATATATACATACCTTTTATTATTATTCATGTACATATATTTTAAATATTATTACCATTA
1 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
11254494 TTATTTTTATCACTTACATGGT
66 TTATTTTTATCACTTACATGGT
*
11254516 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTATCATTA
1 TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
11254581 TTATTTTTATCACTTACATGGT
66 TTATTTTTATCACTTACATGGT
11254603 TA
1 TA
11254605 CTATTATTCT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (87 bp):
TATTATATATATACATACCTTTTACTATTATTCATGTACATATATTTTAAATATTATTACCATTA
TTATTTTTATCACTTACATGGT
Found at i:11254741 original size:20 final size:20
Alignment explanation
Indices: 11254718--11254756 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11254708 CTCATTTCAT
*
11254718 ATATATCACGTATATTTTTA
1 ATATATCACATATATTTTTA
*
11254738 ATATATCATATATATTTTT
1 ATATATCACATATATTTTT
11254757 TCGTTTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATATCACATATATTTTTA
Found at i:11265016 original size:70 final size:68
Alignment explanation
Indices: 11264761--11265024 Score: 426
Period size: 68 Copynumber: 3.8 Consensus size: 68
11264751 TGTGTAGACN
11264761 ATTGAAAATTACCTCAGCGTGCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAC
1 ATTG-AAATTACCTCAGCGTGCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAAC
11264826 ATAA
65 ATAA
11264830 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-A
1 ATTGAAATTACCTCAGCGTG-CC-GAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTGAA
11264894 A-A-AA
63 ACATAA
11264898 ATTGAAATTACCTCAGCGTGCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAACA
1 ATTGAAATTACCTCAGCGTGCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAACA
11264963 TAA
66 TAA
* * *
11264966 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTT
1 ATTGAAATTACCTCAGCGTG-C-CGAGGCTCAACTCACTCTCGCAATATGAGTTGATTT
11265025 CTTGGAAAAC
Statistics
Matches: 184, Mismatches: 3, Indels: 15
0.91 0.01 0.07
Matches are distributed among these distances:
65 24 0.13
66 16 0.09
67 3 0.02
68 59 0.32
69 8 0.04
70 50 0.27
71 24 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (68 bp):
ATTGAAATTACCTCAGCGTGCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAACA
TAA
Found at i:11265144 original size:87 final size:86
Alignment explanation
Indices: 11264964--11265127 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 86
11264954 TTTGAAACAT
* * *
11264964 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTTCTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTTCTTG
* *
11265029 GAAAACATGAATTAAAAGCAG
66 AAAAACATAAATTAAAAGCAG
* *
11265050 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT-TT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAC-TCTCGCAATATGAGCTGATTTCTT
11265114 GAAAAAACA-AAATT
65 G-AAAAACATAAATT
11265128 GGAGGACAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 43 0.62
87 26 0.38
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (86 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACTCTCGCAATATGAGCTGATTTCTTG
AAAAACATAAATTAAAAGCAG
Found at i:11277417 original size:14 final size:14
Alignment explanation
Indices: 11277384--11277417 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11277374 AAAAGTATAT
11277384 ATATATGTGTAATA
1 ATATATGTGTAATA
* *
11277398 AAATATGTGTACTA
1 ATATATGTGTAATA
11277412 ATATAT
1 ATATAT
11277418 AATAAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (14 bp):
ATATATGTGTAATA
Found at i:11277648 original size:21 final size:21
Alignment explanation
Indices: 11277611--11277668 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
11277601 ATATAAATAT
*
11277611 ATATAAATA-ATAGTATTAGAA
1 ATATACATATATA-TATTAGAA
*
11277632 ATATACCATATA-ATATTAGAT
1 ATATA-CATATATATATTAGAA
11277653 ATATACATATATATAT
1 ATATACATATATATAT
11277669 ATATAATAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 6 0.19
21 21 0.66
22 4 0.12
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATACATATATATATTAGAA
Found at i:11277664 original size:8 final size:7
Alignment explanation
Indices: 11277639--11277740 Score: 54
Period size: 7 Copynumber: 14.3 Consensus size: 7
11277629 GAAATATACC
11277639 ATATAAT
1 ATATAAT
11277646 AT-TAGAT
1 ATATA-AT
11277653 ATATACAT
1 ATATA-AT
11277661 ATATATAT
1 ATATA-AT
11277669 ATATAAT
1 ATATAAT
11277676 AGTATGAA-
1 A-TAT-AAT
* *
11277684 AGA-AAA
1 ATATAAT
11277690 ATATAACT
1 ATATAA-T
11277698 A-ATAAT
1 ATATAAT
*
11277704 ATTAAAAAT
1 A-T-ATAAT
11277713 ATATAAT
1 ATATAAT
11277720 A-AT-AT
1 ATATAAT
*
11277725 ATATAAA
1 ATATAAT
11277732 ATATAAT
1 ATATAAT
11277739 AT
1 AT
11277741 TAAGGACTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 24
0.69 0.08 0.22
Matches are distributed among these distances:
5 5 0.07
6 10 0.14
7 30 0.41
8 22 0.30
9 7 0.09
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (7 bp):
ATATAAT
Found at i:11277692 original size:58 final size:53
Alignment explanation
Indices: 11277601--11277730 Score: 131
Period size: 58 Copynumber: 2.4 Consensus size: 53
11277591 ACATACACAC
* * * * *
11277601 ATATA-AATATATATAAATAATAGTATTAGAAATAT-ACCATATAATATTAGAT
1 ATATACAATATATATATATAATAGTATAAGAAATATAACTA-ATAATATTAAAA
11277653 ATATACATATATATATATATAATAGTATGAAAGAAAAATATAACTAATAATATTAAAA
1 ATATACA-ATATATATATATAATAGTAT--AAG--AAATATAACTAATAATATTAAAA
*
11277711 ATATATAATA-ATATATATAA
1 ATATACAATATATATATATAA
11277731 AATATAATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
52 5 0.08
53 1 0.02
54 19 0.29
56 12 0.18
57 3 0.05
58 22 0.34
59 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (53 bp):
ATATACAATATATATATATAATAGTATAAGAAATATAACTAATAATATTAAAA
Found at i:11277710 original size:21 final size:21
Alignment explanation
Indices: 11277686--11277739 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
11277676 AGTATGAAAG
11277686 AAAAATATAACTAATAATAT-T
1 AAAAATATAA-TAATAATATAT
11277707 AAAAATAT-ATAATAATATAT
1 AAAAATATAATAATAATATAT
11277727 ATAAAATATAATA
1 A-AAAATATAATA
11277740 TTAAGGACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 15 0.50
22 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATATAATAATAATATAT
Found at i:11277713 original size:9 final size:10
Alignment explanation
Indices: 11277686--11277736 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
11277676 AGTATGAAAG
11277686 AAAAATATAACT
1 AAAAATAT-A-T
*
11277698 AATAATAT-T
1 AAAAATATAT
11277707 AAAAATATAT
1 AAAAATATAT
*
11277717 AATAATATAT
1 AAAAATATAT
11277727 ATAAAATATA
1 A-AAAATATA
11277737 ATATTAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 8 0.24
10 11 0.33
11 7 0.21
12 7 0.21
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATAT
Found at i:11277961 original size:13 final size:14
Alignment explanation
Indices: 11277943--11277973 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11277933 ATGTATGAAT
11277943 ATATACATATA-TA
1 ATATACATATATTA
11277956 ATATACATATATTA
1 ATATACATATATTA
11277970 ATAT
1 ATAT
11277974 TAATAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:11278544 original size:14 final size:14
Alignment explanation
Indices: 11278525--11278552 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11278515 AAAAAAAAAA
11278525 AAAAAGGAGAGGGG
1 AAAAAGGAGAGGGG
11278539 AAAAAGGAGAGGGG
1 AAAAAGGAGAGGGG
11278553 GAGAGGGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (14 bp):
AAAAAGGAGAGGGG
Found at i:11279726 original size:2 final size:2
Alignment explanation
Indices: 11279719--11279744 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11279709 AAATACTATT
11279719 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11279745 CATTTGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11280480 original size:131 final size:130
Alignment explanation
Indices: 11280314--11280630 Score: 430
Period size: 131 Copynumber: 2.4 Consensus size: 130
11280304 CTATTCATTC
* *
11280314 AAAAATTCTTTAAAATGAAGGCAATGTTCGATGTTTAGCAATTTGAGGAATCGTGCCTTATCGTG
1 AAAAATTC-TTAAAA-GAAGGCAATGTTCGATGTTTAGCAATTCGAGGAATCGTGCCCTATCGTG
* * *
11280379 CTAGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTTACTCATG-TCT
64 CTAGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTCT
*
11280443 TT
129 CT
* *
11280445 AAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCG-GGAAATCGTGCCCTATCGT
1 AAAAATTCTT-AAAA-GAAGGCAATGTTCGATGTTTAGCAATTCGAGG-AATCGTGCCCTATCGT
* *
11280509 GCTGGGTTGTAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTC
63 GCTAGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTC
11280574 TCT
128 TCT
* * *
11280577 --AAATTC-TAAAA-AAGGCAATGTTCGATGTCTAGAAATTCGAGGAATCATGCCCTA
1 AAAAATTCTTAAAAGAAGGCAATGTTCGATGTTTAGCAATTCGAGGAATCGTGCCCTA
11280631 CTGTGTTGGG
Statistics
Matches: 166, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
126 35 0.21
127 2 0.01
128 4 0.02
129 1 0.01
130 10 0.06
131 110 0.66
132 4 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (130 bp):
AAAAATTCTTAAAAGAAGGCAATGTTCGATGTTTAGCAATTCGAGGAATCGTGCCCTATCGTGCT
AGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTCTCT
Found at i:11295972 original size:24 final size:24
Alignment explanation
Indices: 11295940--11296011 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
11295930 TCAAAGGTGC
11295940 GTGTTTACAAGTGTTAAGCTTTCT
1 GTGTTTACAAGTGTTAAGCTTTCT
11295964 GTGTTTACAAGTGTTAAGCTTTCT
1 GTGTTTACAAGTGTTAAGCTTTCT
*
11295988 GTGTTTACAAGTGTTAAGTTTTCT
1 GTGTTTACAAGTGTTAAGCTTTCT
11296012 CCTTTAAAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (24 bp):
GTGTTTACAAGTGTTAAGCTTTCT
Found at i:11297848 original size:15 final size:15
Alignment explanation
Indices: 11297830--11297858 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11297820 TACTTCTACC
11297830 GGTAGAACTTCCACT
1 GGTAGAACTTCCACT
11297845 GGTAGAACTTCCAC
1 GGTAGAACTTCCAC
11297859 CCAAGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (15 bp):
GGTAGAACTTCCACT
Found at i:11302296 original size:31 final size:31
Alignment explanation
Indices: 11302261--11302341 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
11302251 TTATAAAATG
* *
11302261 GTCATTTAACTATTCAAAAGTTTTCATTTAA
1 GTCATTAAACTATTCAAAAGCTTTCATTTAA
*
11302292 GTCATTGAACTATTCAAAAGCTTTCATTTAA
1 GTCATTAAACTATTCAAAAGCTTTCATTTAA
*
11302323 GTCATTAAACTATTAAAAA
1 GTCATTAAACTATTCAAAA
11302342 AAAAATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (31 bp):
GTCATTAAACTATTCAAAAGCTTTCATTTAA
Found at i:11306404 original size:21 final size:20
Alignment explanation
Indices: 11306380--11306421 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
11306370 TGGTATAATA
11306380 ATAAATTTAATTTTAAATTTT
1 ATAAATTTAATTTT-AATTTT
*
11306401 ATAATTTTAATTTTAATTTT
1 ATAAATTTAATTTTAATTTT
11306421 A
1 A
11306422 AAAAAATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAAATTTAATTTTAATTTT
Found at i:11318025 original size:31 final size:31
Alignment explanation
Indices: 11317987--11318048 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11317977 AATCCATCTC
11317987 ATCATTTATTGCTTCTTTCCAAAAAACAGAG
1 ATCATTTATTGCTTCTTTCCAAAAAACAGAG
*
11318018 ATCATTTATTGCTTCTTTCCAAAAAATAGAG
1 ATCATTTATTGCTTCTTTCCAAAAAACAGAG
11318049 TCCTGAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (31 bp):
ATCATTTATTGCTTCTTTCCAAAAAACAGAG
Found at i:11322201 original size:18 final size:20
Alignment explanation
Indices: 11322160--11322206 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
11322150 TATTCCAAGC
* *
11322160 TCAATATCAGTCAATATTTT
1 TCAATATCAATCAATATTTA
11322180 TCAATATCAATC-A-ATTTA
1 TCAATATCAATCAATATTTA
11322198 TCAATATCA
1 TCAATATCA
11322207 TTTAGCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 1 0.04
20 11 0.44
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (20 bp):
TCAATATCAATCAATATTTA
Found at i:11323573 original size:3 final size:3
Alignment explanation
Indices: 11323567--11323642 Score: 134
Period size: 3 Copynumber: 25.3 Consensus size: 3
11323557 TTTTCTTTAT
11323567 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
11323615 ATA ATA ATA ATA ATT ATA ATT ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11323643 ATATCTATTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:11327461 original size:43 final size:42
Alignment explanation
Indices: 11327314--11327472 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 42
11327304 TATGTGTTAT
* *
11327314 CATGTAAAACCACGTCTGGGACGTTGGCATCGAT-TTGTGATTTA
1 CATGTAAGACCACGTCTGGGAAG-TGGCATCGATATT-TGA-TTA
* * * * * * *
11327358 CATGTTAGACCATGTTTGAGACATTGGCATCG-TATATGATTT
1 CATGTAAGACCACGTCTGGGA-AGTGGCATCGATATTTGATTA
*
11327400 CATGTAAGACC-CTATCTGGGATAGTGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGA-AGTGGCATCGATATTTGATTA
*
11327443 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGAAG-TGGCAT
11327473 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 26 0.29
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGAAGTGGCATCGATATTTGATTA
Found at i:11336548 original size:27 final size:28
Alignment explanation
Indices: 11336518--11336570 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
11336508 ACAAGCATTC
* *
11336518 TTTTTT-TTTTTTTAATTTGCCCTACTG
1 TTTTTTCTTTTGTTAATTTCCCCTACTG
11336545 TTTTTTCTTTTGTTAATTTCCCCTAC
1 TTTTTTCTTTTGTTAATTTCCCCTAC
11336571 CTAAAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.11, C:0.19, G:0.06, T:0.64
Consensus pattern (28 bp):
TTTTTTCTTTTGTTAATTTCCCCTACTG
Found at i:11337659 original size:12 final size:12
Alignment explanation
Indices: 11337642--11337669 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11337632 TATACTTTTT
11337642 TTTAAAACCTTA
1 TTTAAAACCTTA
11337654 TTTAAAACCTTA
1 TTTAAAACCTTA
11337666 TTTA
1 TTTA
11337670 TATAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAAAACCTTA
Found at i:11343927 original size:17 final size:17
Alignment explanation
Indices: 11343905--11343937 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11343895 CATACTTACT
*
11343905 TTTTTTTAAAAATTTCG
1 TTTTTTAAAAAATTTCG
11343922 TTTTTTAAAAAATTTC
1 TTTTTTAAAAAATTTC
11343938 ATGTACTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
TTTTTTAAAAAATTTCG
Found at i:11346060 original size:2 final size:2
Alignment explanation
Indices: 11346053--11346086 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11346043 GAATTACAGA
11346053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11346087 TCATTTTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11348304 original size:31 final size:30
Alignment explanation
Indices: 11348258--11348316 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
11348248 TTTGAGATTG
*
11348258 TTTTATATAAAAAATTCA-ATTAAATTATTT
1 TTTTAAATAAAAAATTCACA-TAAATTATTT
11348288 TTTTAAATGAAAAAATTCACATAAATTAT
1 TTTTAAAT-AAAAAATTCACATAAATTAT
11348317 CACATGAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 18 0.69
32 1 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTTAAATAAAAAATTCACATAAATTATTT
Found at i:11353021 original size:31 final size:31
Alignment explanation
Indices: 11352979--11353051 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
11352969 CGTTTGGGCT
*
11352979 AGGACTGAAATTTCA-CAATTCAAAAAGTACA
1 AGGACTAAAATTTCATCAATTCAAAAAGTA-A
* * *
11353010 AGGACTAAAA-TTGATCAATTTAAAAAGTAT
1 AGGACTAAAATTTCATCAATTCAAAAAGTAA
11353040 AGGTACTAAAAT
1 AGG-ACTAAAAT
11353052 GACTAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (31 bp):
AGGACTAAAATTTCATCAATTCAAAAAGTAA
Found at i:11355477 original size:35 final size:38
Alignment explanation
Indices: 11355409--11355484 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
11355399 GTAAGTGTTC
*
11355409 TAATACTATATCATATATATACACATGCATTTTTCATAT
1 TAATACTATATCATATATATACACATG-ATTTTTAATAT
* *
11355448 TAATA-TATAT-ATATATATATATATG-TTTTTAATAT
1 TAATACTATATCATATATATACACATGATTTTTAATAT
11355483 TA
1 TA
11355485 TATTATTACG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.32
37 13 0.38
38 5 0.15
39 5 0.15
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (38 bp):
TAATACTATATCATATATATACACATGATTTTTAATAT
Found at i:11355688 original size:2 final size:2
Alignment explanation
Indices: 11355645--11355678 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
11355635 ATCATTTCTA
*
11355645 AT AT AA AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
11355679 GGTTTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:11355731 original size:25 final size:21
Alignment explanation
Indices: 11355662--11355725 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
11355652 TATATATATA
* *
11355662 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
11355683 TATATACATATCATACAGGTT
1 TATATACATATCATACAGGTT
*
11355704 TATATACATATCATACATGTT
1 TATATACATATCATACAGGTT
11355725 T
1 T
11355726 CATTATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:11366492 original size:136 final size:136
Alignment explanation
Indices: 11366248--11366532 Score: 534
Period size: 136 Copynumber: 2.1 Consensus size: 136
11366238 CATTGGGCCT
** * *
11366248 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATTATAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
11366313 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
11366378 ATATGC
131 ATATGC
11366384 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
11366449 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
11366514 ATATGC
131 ATATGC
11366520 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11366533 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:11368356 original size:26 final size:26
Alignment explanation
Indices: 11368320--11368481 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
11368310 CATGAAATTC
*
11368320 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
11368346 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
11368372 TTATCATGGAACATTTACCTAAACTA
1 TTATCATGAAACATTTACCTAACCTA
* *
11368398 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
11368424 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11368450 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11368476 TTATCA
1 TTATCA
11368482 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:11372441 original size:28 final size:28
Alignment explanation
Indices: 11372389--11372499 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 28
11372379 CCATTCAGAA
* * *
11372389 ATCAGTGTTAA-CTAGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
*
11372416 ATCAGTATTAATCTGGGCCATAGCCCCT
1 ATCAGTATTAATCTGGGCCATAGCCCAT
* *
11372444 -TACAGTAATAGAGTATACTGAGCC-TAGCCCAT
1 AT-CAGT-AT-TA--AT-CTGGGCCATAGCCCAT
*
11372476 ATCAGTATCAATCTGGGCCATAGC
1 ATCAGTATTAATCTGGGCCATAGC
11372500 TCTATACAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
27 17 0.26
28 23 0.35
29 2 0.03
30 2 0.03
31 2 0.03
32 13 0.20
33 7 0.11
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCATAGCCCAT
Found at i:11375611 original size:14 final size:14
Alignment explanation
Indices: 11375592--11375625 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
11375582 GCTGAGGTAA
*
11375592 TTTCAATTTCTGTT
1 TTTCAATTTCTGCT
11375606 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
11375620 TTTCAA
1 TTTCAA
11375626 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:11375645 original size:89 final size:84
Alignment explanation
Indices: 11375532--11375746 Score: 258
Period size: 89 Copynumber: 2.5 Consensus size: 84
11375522 GTATTTTGAT
11375532 TTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGG-GCATGCTGAGGTAATTT-
1 TTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-AGGTGCATGCTGAGGT-ATTTC
11375595 CAATTTCTGTTTTTCAATTTC-TG
64 CAATTTCTG-TTTT-AA-TTCATG
* * **
11375618 CTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTTATGCTGAGGTATTT
1 -TTTTC--AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTAGGTGCATGCTGAGGTATTT
*
11375683 CCAATTTTTGTTTTAATTCATG
63 CCAATTTCTGTTTTAATTCATG
* *
11375705 TTTTCAAAAATCAACTCATATTACG-AGGAGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAAAG-GTGAGTTGAGCCT
11375747 TTTAATTTCG
Statistics
Matches: 114, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
83 1 0.01
84 32 0.28
86 8 0.07
87 9 0.08
88 10 0.09
89 54 0.47
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (84 bp):
TTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTAGGTGCATGCTGAGGTATTTCCA
ATTTCTGTTTTAATTCATG
Found at i:11375774 original size:54 final size:54
Alignment explanation
Indices: 11375693--11375821 Score: 183
Period size: 54 Copynumber: 2.4 Consensus size: 54
11375683 CCAATTTTTG
11375693 TTTTAAT-TC-ATGTTTTCAAAAATCAACTCATATTACGAG-GAGTGAGTTGAGCC
1 TTTTAATGTCGAT-TTTTCAAAAATCAACTCATATTACGAGAG-GTGAGTTGAGCC
* * *
11375746 TTTTAATTTCGGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATGTCGATTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
*
11375800 TTTTAATGTCTATTTTTCAAAA
1 TTTTAATGTCGATTTTTCAAAA
11375822 TCTACTTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
53 7 0.10
54 59 0.87
55 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (54 bp):
TTTTAATGTCGATTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
Found at i:11375994 original size:89 final size:90
Alignment explanation
Indices: 11375813--11375998 Score: 234
Period size: 89 Copynumber: 2.1 Consensus size: 90
11375803 TAATGTCTAT
* * * *
11375813 TTTTCAAAATCTACTTTTCAATTTATACTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTT
1 TTTTCAAAACCTACTTTTCAAATTATACGTTTCAAAAAATCAACTCATATAGCGAGAAGTGAGTT
* * *
11375878 GAGCCTCGGGTCACATAGCGAGGTA
66 GAGCCTCGGCTCACAGAGCGAGCTA
* *
11375903 TTTTCAAAACCTACTTTTCAAATTA-A-GTTTCAAAAAAATCAACTCATATAGTGAGAGGTGAGT
1 TTTTCAAAACCTACTTTTCAAATTATACGTTTC-AAAAAATCAACTCATATAGCGAGAAGTGAGT
* *
11375966 TGAGCCTTGGCTCAC-GCGCTGAGCTA
65 TGAGCCTCGGCTCACAGAGC-GAGCTA
11375992 TTTTCAA
1 TTTTCAA
11375999 TTTCTGTTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
88 6 0.07
89 54 0.65
90 23 0.28
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (90 bp):
TTTTCAAAACCTACTTTTCAAATTATACGTTTCAAAAAATCAACTCATATAGCGAGAAGTGAGTT
GAGCCTCGGCTCACAGAGCGAGCTA
Found at i:11376313 original size:37 final size:37
Alignment explanation
Indices: 11376262--11376491 Score: 397
Period size: 37 Copynumber: 6.2 Consensus size: 37
11376252 ACATTAGAGA
*
11376262 AGATTGAAGCTACAAGGCGTATATCAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
11376299 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
*
11376336 AGATTGAAGTTACAAGGCGTATATCAGAAGATACAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
11376373 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
* *
11376410 AGATTGAAGTTACAAGGCATATATAAGAAGATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
* *
11376447 AGATTGAAGCTACAAGGCGTATATCAGAATATGCAGT
1 AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
*
11376484 GGATTGAA
1 AGATTGAA
11376492 CCAAAGCTAC
Statistics
Matches: 183, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 183 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (37 bp):
AGATTGAAGTTACAAGGCGTATATCAGAAGATGCAGT
Found at i:11377048 original size:16 final size:17
Alignment explanation
Indices: 11377002--11377039 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11376992 CACTGGCCAC
11377002 CAGCCACCTGCCCACTG
1 CAGCCACCTGCCCACTG
11377019 CAGCCACCTGCCCACTG
1 CAGCCACCTGCCCACTG
11377036 CAGC
1 CAGC
11377040 ACCGCCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.53, G:0.18, T:0.11
Consensus pattern (17 bp):
CAGCCACCTGCCCACTG
Found at i:11378465 original size:21 final size:21
Alignment explanation
Indices: 11378423--11378465 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11378413 TAAATATATA
* *
11378423 TATATATAAATCATATAGGTT
1 TATATACAAATCATACAGGTT
* *
11378444 TATATACATATCATACATGTT
1 TATATACAAATCATACAGGTT
11378465 T
1 T
11378466 CATTATTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (21 bp):
TATATACAAATCATACAGGTT
Found at i:11378762 original size:22 final size:20
Alignment explanation
Indices: 11378711--11378762 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
11378701 ATATATTATG
11378711 TATATATATA-TATTTTTTT
1 TATATATATATTATTTTTTT
11378730 TCA-ATAT-TATTAGTTTTTTT
1 T-ATATATATATTA-TTTTTTT
11378750 TATATATACTATT
1 TATATATA-TATT
11378763 CTATGTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
18 2 0.07
19 8 0.30
20 13 0.48
22 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TATATATATATTATTTTTTT
Found at i:11386028 original size:3 final size:3
Alignment explanation
Indices: 11386020--11386069 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
11386010 AATCCTTCAA
11386020 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11386068 AA
1 AA
11386070 AGAAACAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11388894 original size:2 final size:2
Alignment explanation
Indices: 11388887--11388911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11388877 ACAAATAGTG
11388887 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11388912 GGATGGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11393688 original size:21 final size:21
Alignment explanation
Indices: 11393663--11393705 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11393653 ATAGGTTAAT
* *
11393663 TTTATCTTATTACAGAGCATA
1 TTTATCATATTAAAGAGCATA
*
11393684 TTTATCATATTAAAGATCATA
1 TTTATCATATTAAAGAGCATA
11393705 T
1 T
11393706 ATAGCATGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (21 bp):
TTTATCATATTAAAGAGCATA
Found at i:11394865 original size:18 final size:18
Alignment explanation
Indices: 11394842--11394894 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
11394832 TTATTGCTTT
*
11394842 ATTTAACTTAAGTTTTCA
1 ATTTAAATTAAGTTTTCA
*
11394860 ATTTAAATTTAGTTTT-A
1 ATTTAAATTAAGTTTTCA
*
11394877 ATTTAATTTAAAGTTTTC
1 ATTTAAATT-AAGTTTTC
11394895 GCTTGAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (18 bp):
ATTTAAATTAAGTTTTCA
Found at i:11404547 original size:45 final size:44
Alignment explanation
Indices: 11404481--11404959 Score: 222
Period size: 45 Copynumber: 10.8 Consensus size: 44
11404471 AATGGCGAAT
11404481 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAAA
* *
11404525 CATTATCTCCCTGAA-TTCGCAGTGGAGAAGATTGAAGCCACTAAA
1 C-TTATCTCCCTGAAGTT-GCAGTGGAGCAGATTGAAGCCATTAAA
* * *
11404570 CCTTATCTCCCTAAAGTCT-CAGTGAAGCAGGTTGAAG---TTAAA
1 -CTTATCTCCCTGAAGT-TGCAGTGGAGCAGATTGAAGCCATTAAA
* * ** ** *
11404612 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCGAAT
1 --CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-TTAAA
* * ** * * *
11404659 TTTATTTCCCTG-AGTTGCAGCAGAACAGATTAAAGCTATAAATAAACAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAT---T--A-A-A
* * * * * **
11404709 TCTTATCTCTCTGAAGTTGCAGTAGAACAGA-TCATA-TCA--AGC
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCATTAAA
* * *
11404751 CTTATCTCTCTGAAGTAGCAGTGGAGCAGGTTGAAG---TTAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAAA
* * *
11404792 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGGAG--A-T-AG
1 --CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAAA
* * * *
11404834 CTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCCA-CAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAA-A
* * * *** *
11404878 CTTATCTCTCTGAAGTTGCAGTAGAGCATGA-TAAAAATATACAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGCCAT-TAAA
* *
11404923 CCTTATCTCCCTGAAGTTGCAGTGGTGCAGGTTGAAG
1 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
11404960 TTATCAATTC
Statistics
Matches: 327, Mismatches: 71, Indels: 72
0.70 0.15 0.15
Matches are distributed among these distances:
40 32 0.10
41 28 0.09
42 9 0.03
43 62 0.19
44 51 0.16
45 78 0.24
46 33 0.10
47 3 0.01
48 1 0.00
49 1 0.00
51 12 0.04
52 17 0.05
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAAA
Found at i:11404858 original size:83 final size:84
Alignment explanation
Indices: 11404710--11404905 Score: 213
Period size: 84 Copynumber: 2.3 Consensus size: 84
11404700 ATAAACAGAT
* * * *
11404710 CTTATCTCTCTGAAGTTGCAGTAGAACAGA-T-CATATCAAGCCTTATCTCTCTGAAGTAGCAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGGAGAT--AG-CTTATCTCTCTGAAGTAGCAGT
* * **
11404773 GGAGCAGGTTGAAGTTA-AAGT-
63 GGAACAGATTGAAGCCACAA-TC
* *
11404794 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGGAGATAGCTTATCTC-CATGAAGTTGCAGTGG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGGAGATAGCTTATCTCTC-TGAAGTAGCAGTGG
11404858 AACAGATTGAAGCCACAATC
65 AACAGATTGAAGCCACAATC
*
11404878 CTTATCTCTCTGAAGTTGCAGTAGAGCA
1 CTTATCTCCCTGAAGTTGCAGTAGAGCA
11404906 TGATAAAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
82 1 0.01
83 33 0.35
84 57 0.60
85 1 0.01
86 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (84 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGGAGATAGCTTATCTCTCTGAAGTAGCAGTGGA
ACAGATTGAAGCCACAATC
Found at i:11404958 original size:90 final size:88
Alignment explanation
Indices: 11404710--11405602 Score: 349
Period size: 90 Copynumber: 10.1 Consensus size: 88
11404700 ATAAACAGAT
* * * * *
11404710 CTTATCTCTCTGAAGTTGCAGTAGAACAGAT---CATATCAAGCCTTATCTCTCTGAAGTAGCAG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATAAAAATATCAAACCTTATCTCCCTGAAGTTGCAG
* *
11404772 TGGAGCAGGTTGAAGTTA-AAGT-
66 TGGAGCAGATTGAAGTCACAA-TC
* * ** * * *
11404794 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT--GGAGAT---AGCTTATCTCCATGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TAAAAATATCAAACCTTATCTCCCTGAAGTTGCA
* *
11404854 GTGGAACAGATTGAAGCCACAATC
65 GTGGAGCAGATTGAAGTCACAATC
11404878 CTTATCTCTCTGAAGTTGCAGTAGAGCATGATAAAAATATACAAACCTTATCTCCCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATAAAAATAT-CAAACCTTATCTCCCTGAAGTTGC
* * * *
11404943 AGTGGTGCAGGTTGAAGTTATCAATT
64 AGTGGAGCAGATTGAAGTCA-CAATC
* * * *** * ** * * * ** *
11404969 CTTATTTCCTTTG-AGTTTCAACGGAGTAGAATAAAGCTAT-GAATCTCT-TCTCCTTGAAACTA
1 CTTATCT-CTCTGAAGTTGCAGTAGAGCAG-ATAAAAATATCAAACCT-TATCTCCCTGAAGTTG
* * * * * *
11405031 CATTGGAGTAAATCGAAATCGCAATC
63 CAGTGGAGCAGATTGAAGTCACAATC
* * * * *
11405057 CTTATCTCTCTGAAGTTGAAATAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATAAAAATA-TCAAACCTTATCTCCCTGAAGTTGC
** * *
11405122 AGTGGAGCAGATCAAAGCCACAATA
64 AGTGGAGCAGATTGAAGTCACAATC
* * * * * * *
11405147 TTTATCTCTTTTAAGTTGCAGTAGAGTAGGATAAAAATACGCAAACTTTATTTCCCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATAAAAATA-TCAAACCTTATCTCCCTGAAGTTGC
* *
11405212 AGTGGAACA-AGTTGAAGTTACCAAT-
64 AGTGGAGCAGA-TTGAAGTCA-CAATC
* * * * * ** * * * **
11405237 TTTATCTCCTTTG-AGTTTCAGCT-GAGTAGAATGAAGCTA-CGAATCTCT-TCTCCTTGAAACT
1 CTTATCT-CTCTGAAGTTGCAG-TAGAGCAG-ATAAAAATATCAAACCT-TATCTCCCTGAAGTT
* * * * * **
11405298 ACATTGGAGTAAATTGAAATTGCAATC
62 GCAGTGGAGCAGATTGAAGTCACAATC
* * * *
11405325 CTTATCTCTCTGAAGTTGCAGTAGAGTAGGACAAAAATACACAAACCTTATCTCCTTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATAAAAATA-TCAAACCTTATCTCCCTGAAGTTGC
* * * * *
11405390 AGTGGAGTAGGTTAAAGTTACCAATT
64 AGTGGAGCAGATTGAAGTCA-CAATC
* ** * * * * * *
11405416 CTTATCTC-CTTGAAGTTCCAGCGGAGTAAATCGAAACTA-CAAATCTCT-TCTCCTTG-AGATT
1 CTTATCTCTC-TGAAGTTGCAGTAGAGCAGAT-AAAAATATCAAACCT-TATCTCCCTGAAG-TT
* * ** *
11405477 ACATTGGAGCAGACCGAAGCCACAATC
62 GCAGTGGAGCAGATTGAAGTCACAATC
* * * * *
11405504 CTTATCTCTCTAAAGTTACATTAGAGCAGGATAAAAATA-CATAAACGTTCTCTCCCTGAAGTTG
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATAAAAATATC--AAACCTTATCTCCCTGAAGTTG
* * * * * *
11405568 TAGTGGAGTAGGTTAAAGTTACCAATT
63 CAGTGGAGCAGATTGAAGTCA-CAATC
11405595 CTTATCTC
1 CTTATCTC
11405603 CTTTAAGTTC
Statistics
Matches: 595, Mismatches: 168, Indels: 85
0.70 0.20 0.10
Matches are distributed among these distances:
83 33 0.06
84 56 0.09
85 3 0.01
86 6 0.01
87 13 0.02
88 110 0.18
89 67 0.11
90 220 0.37
91 83 0.14
92 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (88 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGATAAAAATATCAAACCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGTCACAATC
Found at i:11405214 original size:46 final size:46
Alignment explanation
Indices: 11405058--11405214 Score: 149
Period size: 46 Copynumber: 3.5 Consensus size: 46
11405048 ATCGCAATCC
* * * *
11405058 TTATCTCTCTGAAGTTGAAATAGAGTAGGATAAAAATACACAAACC
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAATACACAAACT
* * * * **
11405104 TTATCTCCCTGAAGTTGTAGTGGAGCA-GAT-CAAAGCCACAATA-T
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAATACACAA-ACT
** * *
11405148 TTATCTCTTTTAAGTTGCAGTAGAGTAGGATAAAAATACGCAAACT
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAATACACAAACT
*
11405194 TTATTTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGT
11405215 GGAACAAGTT
Statistics
Matches: 84, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
44 29 0.35
45 8 0.10
46 47 0.56
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (46 bp):
TTATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAATACACAAACT
Found at i:11405352 original size:268 final size:269
Alignment explanation
Indices: 11404834--11405396 Score: 849
Period size: 268 Copynumber: 2.1 Consensus size: 269
11404824 CTGGAGATAG
* ** *
11404834 CTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCCACAATCCTTATCTCTCTGAAGTTGCAG
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGATCAAAGCCACAATACTTATCTCTCTGAAGTTGCAG
* * ** * *
11404899 TAGAGCATGATAAAAATATACAAACCTTATCTCCCTGAAGTTGCAGTGGTGCAGGTTGAAGTTAT
66 TAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTGAAGTTAC
* *
11404964 CAATTCTTATTTCCTTTGAGTTTCAACGGAGTAGAATAAAGCTATGAATCTCTTCTCCTTGAAAC
131 CAATTCTTATCTCCTTTGAGTTTCAACGGAGTAGAATAAAGCTACGAATCTCTTCTCCTTGAAAC
*
11405029 TACATTGGAGTAAATCGAAATCGCAATCCTTATCTCTCTGAAGTTGAAATAGAGTAGGATAAAAA
196 TACATTGGAGTAAATCGAAATCGCAATCCTTATCTCTCTGAAGTTGAAATAGAGTAGGACAAAAA
11405094 TACACAAAC
261 TACACAAAC
* * * * *
11405103 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATCAAAGCCACAATATTTATCTCTTTTAAGTTGCAG
1 CTTATCTCCATGAAGTTGCAGTGGAGCAGATCAAAGCCACAATACTTATCTCTCTGAAGTTGCAG
* * * *
11405168 TAGAGTAGGATAAAAATACGCAAACTTTATTTCCCTGAAGTTGCAGTGGAACAAGTTGAAGTTAC
66 TAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTGAAGTTAC
* * *
11405233 CAATT-TTATCTCCTTTGAGTTTCAGCTGAGTAGAATGAAGCTACGAATCTCTTCTCCTTGAAAC
131 CAATTCTTATCTCCTTTGAGTTTCAACGGAGTAGAATAAAGCTACGAATCTCTTCTCCTTGAAAC
* * * *
11405297 TACATTGGAGTAAATTGAAATTGCAATCCTTATCTCTCTGAAGTTGCAGTAGAGTAGGACAAAAA
196 TACATTGGAGTAAATCGAAATCGCAATCCTTATCTCTCTGAAGTTGAAATAGAGTAGGACAAAAA
11405362 TACACAAAC
261 TACACAAAC
*
11405371 CTTATCTCCTTGAAGTTGCAGTGGAG
1 CTTATCTCCATGAAGTTGCAGTGGAG
11405397 TAGGTTAAAG
Statistics
Matches: 263, Mismatches: 31, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
268 147 0.56
269 116 0.44
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (269 bp):
CTTATCTCCATGAAGTTGCAGTGGAGCAGATCAAAGCCACAATACTTATCTCTCTGAAGTTGCAG
TAGAGCAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTGAAGTTAC
CAATTCTTATCTCCTTTGAGTTTCAACGGAGTAGAATAAAGCTACGAATCTCTTCTCCTTGAAAC
TACATTGGAGTAAATCGAAATCGCAATCCTTATCTCTCTGAAGTTGAAATAGAGTAGGACAAAAA
TACACAAAC
Found at i:11405542 original size:179 final size:178
Alignment explanation
Indices: 11405124--11405664 Score: 654
Period size: 179 Copynumber: 3.0 Consensus size: 178
11405114 GAAGTTGTAG
* ** * * *
11405124 TGGAGCAGATCAAAGCCACAATATTTATCTCTTTTAAGTTGCAGTAGAGTAGGATAAAAATACGC
1 TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGTAGGATAAAAATACAC
* * ** * *
11405189 AAACTTTATTTCCCTGAAGTTGCAGTGGAACAAGTTGAAGTTACCAATT-TTATCTCCTTTG-AG
66 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCC-TTGAAG
* * *
11405252 TTTCAGCTGAGTAGAATGAAGCTACGAATCTCTTCTCCTTGAAACTACAT
130 TTCCAGCGGAGTA-AATGAAGCTACAAATCTCTTCTCCTTGAAACTACAT
* * * **** * *
11405302 TGGAGTAAATTGAAATTGCAATCCTTATCTCTCTGAAGTTGCAGTAGAGTAGGACAAAAATACAC
1 TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGTAGGATAAAAATACAC
*
11405367 AAACCTTATCTCCTTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
66 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
* * *
11405432 TCCAGCGGAGTAAATCGAAACTACAAATCTCTTCTCCTTGAGATTACAT
131 TCCAGCGGAGTAAAT-GAAGCTACAAATCTCTTCTCCTTGAAACTACAT
* * * * *
11405481 TGGAGCAGACCGAAGCCACAATCCTTATCTCTCTAAAGTTACATTAGAGCAGGATAAAAATACAT
1 TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGTAGGATAAAAATACAC
* * * *
11405546 AAACGTTCTCTCCCTGAAGTTGTAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTTAAGT
66 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
* * ** *
11405611 TCCAACGGAGTAGATTGAAGCTACAAATCTCTTCTAATTGAAACTATAT
131 TCCAGCGGAGTA-AATGAAGCTACAAATCTCTTCTCCTTGAAACTACAT
11405660 TGGAG
1 TGGAG
11405665 TAAATCAAAG
Statistics
Matches: 305, Mismatches: 54, Indels: 7
0.83 0.15 0.02
Matches are distributed among these distances:
178 99 0.32
179 204 0.67
180 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (178 bp):
TGGAGCAGATCGAAGCCACAATCCTTATCTCTCTAAAGTTGCAGTAGAGTAGGATAAAAATACAC
AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAGTTACCAATTCTTATCTCCTTGAAGT
TCCAGCGGAGTAAATGAAGCTACAAATCTCTTCTCCTTGAAACTACAT
Found at i:11407117 original size:15 final size:16
Alignment explanation
Indices: 11407093--11407127 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
11407083 TTTTCTCATG
11407093 TTTAAAATTTT-TTTA
1 TTTAAAATTTTATTTA
*
11407108 TTTAATATTTTATTTA
1 TTTAAAATTTTATTTA
11407124 TTTA
1 TTTA
11407128 TTTATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAAAATTTTATTTA
Found at i:11407326 original size:18 final size:17
Alignment explanation
Indices: 11407303--11407350 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
11407293 GATTTCATCA
11407303 TTATTATTATTTATTACC
1 TTATTATTA-TTATTACC
11407321 TTATTATTATTATTACCC
1 TTATTATTATTATTA-CC
11407339 TT-TTATT-TTATT
1 TTATTATTATTATT
11407351 TTATTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.17
17 11 0.38
18 13 0.45
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATTATTATTACC
Found at i:11408528 original size:2 final size:2
Alignment explanation
Indices: 11408521--11408554 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11408511 ATTTATAATA
11408521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11408555 GACAGTGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11411349 original size:27 final size:28
Alignment explanation
Indices: 11411319--11411373 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
11411309 CATTTTTTAA
* *
11411319 GGAATGAACTATATACATA-ATAGATTT
1 GGAAAGAAATATATACATAGATAGATTT
*
11411346 GGAAAGAAATATATACTTAGATAGATTT
1 GGAAAGAAATATATACATAGATAGATTT
11411374 ATATATATAT
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:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (28 bp):
GGAAAGAAATATATACATAGATAGATTT
Found at i:11411378 original size:2 final size:2
Alignment explanation
Indices: 11411373--11411430 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
11411363 TAGATAGATT
11411373 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11411415 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
11411431 CATAAAACAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11416191 original size:2 final size:2
Alignment explanation
Indices: 11416184--11416216 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11416174 AACTATAAGA
11416184 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11416217 AGTATTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11422996 original size:25 final size:26
Alignment explanation
Indices: 11422936--11422984 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
11422926 ATTTGTTTTA
*
11422936 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
11422960 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
11422985 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:11424308 original size:41 final size:41
Alignment explanation
Indices: 11424230--11424310 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
11424220 GCCGTGTAGC
* **
11424230 TCACACAACCTACCACACGGCCTGGTACACGGTCATGTGGT
1 TCACACAACCTACCACACGGCCTGGCACACGACCATGTGGT
* *
11424271 TCACACAACCTACCATACGGCCTGGCACATGACCATGTGG
1 TCACACAACCTACCACACGGCCTGGCACACGACCATGTGG
11424311 CATCGACAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.19
Consensus pattern (41 bp):
TCACACAACCTACCACACGGCCTGGCACACGACCATGTGGT
Found at i:11431364 original size:35 final size:34
Alignment explanation
Indices: 11431292--11431364 Score: 78
Period size: 35 Copynumber: 2.1 Consensus size: 34
11431282 ATGTATATGC
* *
11431292 TTTTAATATTATTATATACTTATTTTATTTTTATT
1 TTTTAATATTATTATATAC-TATTTTAATTGTATT
11431327 TTTTAATATATATTATATGA-TATTATTAATTGT-TT
1 TTTTAATAT-TATTATAT-ACTATT-TTAATTGTATT
11431362 TTT
1 TTT
11431365 CTTTTCTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
35 18 0.55
36 14 0.42
37 1 0.03
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (34 bp):
TTTTAATATTATTATATACTATTTTAATTGTATT
Found at i:11438962 original size:16 final size:15
Alignment explanation
Indices: 11438921--11438962 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
11438911 TATATTTCCC
11438921 TTATTTAT-TTTTTA
1 TTATTTATGTTTTTA
11438935 TTAGTTATATGTTTTTA
1 TTA-TT-TATGTTTTTA
11438952 TTATTTCATGT
1 TTATTT-ATGT
11438963 ACATATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.12
15 3 0.12
16 9 0.38
17 9 0.38
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (15 bp):
TTATTTATGTTTTTA
Found at i:11438997 original size:27 final size:26
Alignment explanation
Indices: 11438967--11439071 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 26
11438957 TCATGTACAT
* *
11438967 ATCTTTATATCATCTTTATCATTATTA
1 ATCTTAATA-CATCTTTATTATTATTA
*
11438994 ATCTTAATACATGTTTTATATATGTATATATA
1 ATCTTAATACAT-CTTTAT-TA--T-TAT-TA
*
11439026 TATCTTTATATCATCTTTATTATTATTA
1 -ATCTTAATA-CATCTTTATTATTATTA
*
11439054 ATCTTAATACATGTTTAT
1 ATCTTAATACATCTTTAT
11439072 ATATGTATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
26 11 0.17
27 21 0.33
28 3 0.05
29 3 0.05
30 2 0.03
31 3 0.05
32 4 0.06
33 13 0.21
34 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.03, T:0.54
Consensus pattern (26 bp):
ATCTTAATACATCTTTATTATTATTA
Found at i:11439030 original size:60 final size:59
Alignment explanation
Indices: 11438965--11439083 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 59
11438955 TTTCATGTAC
11438965 ATATCTTTATATCATCTTTATCATTATTAATCTTAATACATGTTTTATATATGTATATAT
1 ATATCTTTATATCATCTTTATCATTATTAATCTTAATACATG-TTTATATATGTATATAT
*
11439025 ATATCTTTATATCATCTTTATTATTATTAATCTTAATACATGTTTATATATGTATATAT
1 ATATCTTTATATCATCTTTATCATTATTAATCTTAATACATGTTTATATATGTATATAT
11439084 TATGTATATT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 17 0.29
60 41 0.71
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (59 bp):
ATATCTTTATATCATCTTTATCATTATTAATCTTAATACATGTTTATATATGTATATAT
Found at i:11439107 original size:60 final size:60
Alignment explanation
Indices: 11438965--11439108 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 60
11438955 TTTCATGTAC
* * * *
11438965 ATATCTTTATATCATCTTTATCATTATTAATCTTAATACATGTTTTATATATGTATATAT
1 ATATCTATATATAATATTTATTATTATTAATCTTAATACATGTTTTATATATGTATATAT
* * *
11439025 ATATCTTTATATCATCTTTATTATTATTAATCTTAATACATG-TTTATATATGTATATAT
1 ATATCTATATATAATATTTATTATTATTAATCTTAATACATGTTTTATATATGTATATAT
* *
11439084 -TATGTATATTTTAATATTATATTAT
1 ATATCTATA-TATAATATT-TATTAT
11439109 ATGTACGTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
58 6 0.08
59 23 0.30
60 47 0.62
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (60 bp):
ATATCTATATATAATATTTATTATTATTAATCTTAATACATGTTTTATATATGTATATAT
Found at i:11439191 original size:21 final size:20
Alignment explanation
Indices: 11439157--11439195 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11439147 TTTTGTACTA
*
11439157 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
11439177 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
11439196 AGTTTCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:11450556 original size:3 final size:3
Alignment explanation
Indices: 11450550--11450575 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11450540 AAAAAAAAAG
11450550 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
11450576 GGGGAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11451747 original size:176 final size:175
Alignment explanation
Indices: 11451403--11451816 Score: 507
Period size: 176 Copynumber: 2.4 Consensus size: 175
11451393 TATTTTGATG
* * *
11451403 TTTC-ATTTCTGTCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACAC
1 TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC
* * * * * *
11451467 TGAGGTATTTTCAAAATTCTATCTTTAATTTTTACCTTTCCAAATCAACTCATATTGCAAGAGGT
66 TGAGGTATCTTCAAAATTCCATCTTTAAGTTATACCTTTCAAAATCAACTCATATTGCAAGAGAT
* *
11451532 GAGTTGAGCCTTAGAGCACACTGAGGTATTCTCAATTTCTG-CT-
131 GAGTTGAACCTCAGAGCACACTGAGGTATTCTCAATTTCTGTCTC
*
11451575 TTTCAATTTCTATTTTTCAAAAAGATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTCTATTTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * * * *
11451640 GCTGAGGTATCTTC-AATTTCCGTTTTTCAAGTTATGCTTTTCAAAAATCAACTCATATTGCGAA
64 ACTGAGGTATCTTCAAAATTCCATCTTT-AAGTTATACCTTTC-AAAATCAACTCATATTGC-AA
* * * *
11451704 -AGATGAGTTGAACCTCAGGGCACGCTGAGGTATTTTCAATTTCTGTTTC
126 GAGATGAGTTGAACCTCAGAGCACACTGAGGTATTCTCAATTTCTGTCTC
* * *
11451753 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGC-ATGAGGTGAGTTGAGCGTCAGGTCACA
1 TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCAGGACACA
11451817 TGCCAAGGTA
Statistics
Matches: 206, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
172 4 0.02
173 11 0.05
174 13 0.06
175 62 0.30
176 92 0.45
177 7 0.03
178 17 0.08
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (175 bp):
TTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACAC
TGAGGTATCTTCAAAATTCCATCTTTAAGTTATACCTTTCAAAATCAACTCATATTGCAAGAGAT
GAGTTGAACCTCAGAGCACACTGAGGTATTCTCAATTTCTGTCTC
Found at i:11451811 original size:89 final size:87
Alignment explanation
Indices: 11451416--11452018 Score: 490
Period size: 89 Copynumber: 6.7 Consensus size: 87
11451406 CATTTCTGTC
* *
11451416 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAACACACTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC-A
* * * * *
11451481 AATTCTATCTTT-AATTTTTACC
65 ATTTCTGTTTTTCAATTTATACT
* * * * *
11451503 TTTC-CAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTA-GAGCACACTGAGGTATTCTCA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCA
* * *
11451566 ATTTCTGCTTTTCAATTTCTATT
65 ATTTCTGTTTTTCAATTTATACT
* *
11451589 TTTCAAAAAGATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAGGACACGCTGAGGTATCTTC
1 TTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
* * *
11451654 AATTTCCGTTTTTCAAGTTATGCT
64 AATTTCTGTTTTTCAATTTATACT
* * * *
11451678 TTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAACCTCAGGGCACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
*
11451743 TTTCTGTTTCTTTCAATTTATATT
66 TTTCTG-TT-TTTCAATTTATACT
* * **
11451767 TTTCAAAAATCAACTCATATTGC-ATGAGGTGAGTTGAGCGTCAGGTCACATGCCAAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTT
* ** * *
11451831 CAAATTCTGACTTTCAAATTCTGTTTTTAAT
63 CAATTTCTG--TTT----TTCAATTTATACT
* * **
11451862 TTCTACTTGAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGTGCTGAGCC
1 TT-T-C---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGT
* * *
11451926 ACTTTCAATTTCTGTTTTT-AA--TGTCCGT
58 ATTTTCAATTTCTGTTTTTCAATTTATAC-T
* * *
11451954 TTT--TAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGGTCACAC-CTCGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTT
11452016 CAA
63 CAA
11452019 AATCTGCTTT
Statistics
Matches: 417, Mismatches: 71, Indels: 58
0.76 0.13 0.11
Matches are distributed among these distances:
84 2 0.00
85 54 0.13
86 64 0.15
87 64 0.15
88 9 0.02
89 118 0.28
90 2 0.00
91 25 0.06
92 5 0.01
94 2 0.00
95 11 0.03
96 1 0.00
97 1 0.00
98 6 0.01
99 2 0.00
100 50 0.12
101 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
TTTCTGTTTTTCAATTTATACT
Found at i:11452111 original size:81 final size:80
Alignment explanation
Indices: 11451872--11452115 Score: 222
Period size: 85 Copynumber: 3.0 Consensus size: 80
11451862 TTCTACTTGA
* * * * *
11451872 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCCACTTTCAATTT
1 AAAAGCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAATTT
*
11451937 CTGTTTTTAATGTCCGTTTT
66 CTGTTTTTAA-----GTTTC
* * * * *** * * **
11451957 TAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCGGGTCACACCTCGAGGTATTTTCAAAA
1 AAAAGCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTGGCTCACGTGTTGAGCTATTTTCAATT
*
11452021 TCTGCTTTTAAGTTTC
65 TCTGTTTTTAAGTTTC
* *
11452037 AAAAGCTAACTCATATTGCGAGAGGTGAGTTAAGCTTTGGCTCATGTGTTGAGCTATTTTCAATT
1 AAAAGC-AACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAATT
*
11452102 TCT-TTTTTTAGTTT
65 TCTGTTTTTAAGTTT
11452116 ATGTTTTTGA
Statistics
Matches: 125, Mismatches: 31, Indels: 11
0.75 0.19 0.07
Matches are distributed among these distances:
80 19 0.15
81 47 0.38
85 58 0.46
86 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (80 bp):
AAAAGCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGCTATTTTCAATTT
CTGTTTTTAAGTTTC
Done.