Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold781
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: 114877
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:2320 original size:113 final size:116
Alignment explanation
Indices: 2100--2338 Score: 288
Period size: 113 Copynumber: 2.1 Consensus size: 116
2090 TCTTAGTTAT
* ** * * *
2100 TTTTCCATGACTCATGGATGTTTATGTTGTTTCATGCATTTTTATGTCATTTTAATCATTTTTCA
1 TTTTCCATGACTCAGGGATGTTTATGTCATCTCAAGCATTTTTATGTCATTTTAATCATTTTCCA
* * *
2165 TGACTCAAGGACTTTTATATTATTTCATTCATACTTATGTCATTTTAATCA
66 TGACTCAAGGACTTTTATATCATTTCATGCATACTAATGTCATTTTAATCA
* *
2216 TTTTCTATGACTCAGGGAT-TTTATGTCATCTCAAGCA-TTTT-TGTCATTTTAGTCATTTTCCA
1 TTTTCCATGACTCAGGGATGTTTATGTCATCTCAAGCATTTTTATGTCATTTTAATCATTTTCCA
* * * **
2278 TGACTTAGGGACTTTTATGTCATTTCATGCATTGTAATGTCA-TTTATATCA
66 TGACTCAAGGACTTTTATATCATTTCATGCATACTAATGTCATTTTA-ATCA
*
2329 CTTTCCATGA
1 TTTTCCATGA
2339 AGTATAGACT
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
112 4 0.04
113 65 0.62
114 4 0.04
115 14 0.13
116 17 0.16
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (116 bp):
TTTTCCATGACTCAGGGATGTTTATGTCATCTCAAGCATTTTTATGTCATTTTAATCATTTTCCA
TGACTCAAGGACTTTTATATCATTTCATGCATACTAATGTCATTTTAATCA
Found at i:2337 original size:58 final size:56
Alignment explanation
Indices: 2100--2338 Score: 257
Period size: 58 Copynumber: 4.2 Consensus size: 56
2090 TCTTAGTTAT
* **
2100 TTTTCCATGACTCATGGATGTTTATGTTGTTTCATGCATTTTTATGTCATTTTAATCA
1 TTTTCCATGACTCAGGGAT-TTTATGTCATTTCATGCA-TTTTATGTCATTTTAATCA
* * * * * *
2158 TTTTTCATGACTCAAGGACTTTTATATTATTTCATTCATACTTATGTCATTTTAATCA
1 TTTTCCATGACTCAGGGA-TTTTATGTCATTTCATGCAT-TTTATGTCATTTTAATCA
* * * *
2216 TTTTCTATGACTCAGGGATTTTATGTCATCTCAAGCATTTT-TGTCATTTTAGTCA
1 TTTTCCATGACTCAGGGATTTTATGTCATTTCATGCATTTTATGTCATTTTAATCA
* *
2271 TTTTCCATGACTTAGGGACTTTTATGTCATTTCATGCATTGTAATGTCA-TTTATATCA
1 TTTTCCATGACTCAGGGA-TTTTATGTCATTTCATGCATT-TTATGTCATTTTA-ATCA
*
2329 CTTTCCATGA
1 TTTTCCATGA
2339 AGTATAGACT
Statistics
Matches: 152, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
55 29 0.19
56 21 0.14
57 21 0.14
58 80 0.53
59 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.49
Consensus pattern (56 bp):
TTTTCCATGACTCAGGGATTTTATGTCATTTCATGCATTTTATGTCATTTTAATCA
Found at i:2349 original size:58 final size:56
Alignment explanation
Indices: 2199--2350 Score: 130
Period size: 55 Copynumber: 2.7 Consensus size: 56
2189 TCATTCATAC
* * * * *
2199 TTATGTCATTTTAATCATTTTCTATG-ACTCAGGGA-TTTTATGTCATCTCAAGCAT
1 TTATGTCATTTTAGTCACTTTCCATGAAGT-AGAGACTTTTATGTCATCTCAAGCAT
* * ** * * *
2254 TTTTGTCATTTTAGTCATTTTCCATGACTTAGGGACTTTTATGTCATTTCATGCAT
1 TTATGTCATTTTAGTCACTTTCCATGAAGTAGAGACTTTTATGTCATCTCAAGCAT
*
2310 TGTAATGTCATTTATA-TCACTTTCCATGAAGTATAGACTTT
1 T-T-ATGTCATTT-TAGTCACTTTCCATGAAGTAGAGACTTT
2351 GATGCAATTT
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
55 28 0.35
56 20 0.25
57 1 0.01
58 28 0.35
59 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (56 bp):
TTATGTCATTTTAGTCACTTTCCATGAAGTAGAGACTTTTATGTCATCTCAAGCAT
Found at i:2378 original size:58 final size:58
Alignment explanation
Indices: 2326--2494 Score: 153
Period size: 58 Copynumber: 2.9 Consensus size: 58
2316 GTCATTTATA
*
2326 TCACTTTCCATGAAGTATAGACTTT-GATGCAATTTTATGAATGTTGGGGTCATCTAAG
1 TCACTTTCCATGAAGTAGAGA-TTTAGATGCAATTTTATGAATGTTGGGGTCATCTAAG
* ** * * * *
2384 TCATTTTCCATGATTTAGGGATTTAGATGCAATTTTATGAATGTTAGGGCCA-CTTAGG
1 TCACTTTCCATGAAGTAGAGATTTAGATGCAATTTTATGAATGTTGGGGTCATC-TAAG
* * ** * ** * *
2442 TTATTTTCCATGATTTAGGGATTTTTATGCAATTTTATAAATGTTAGGGTCAT
1 TCACTTTCCATGAAGTAGAGATTTAGATGCAATTTTATGAATGTTGGGGTCAT
2495 GTAGGTCATT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
57 4 0.04
58 91 0.96
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (58 bp):
TCACTTTCCATGAAGTAGAGATTTAGATGCAATTTTATGAATGTTGGGGTCATCTAAG
Found at i:2418 original size:29 final size:29
Alignment explanation
Indices: 2386--2477 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
2376 CATCTAAGTC
2386 ATTTTCCATGATTTAGGGATTTAGATGCA
1 ATTTTCCATGATTTAGGGATTTAGATGCA
* **
2415 ATTTT--ATGAATGTTAGGGCCACTTAG--GTT
1 ATTTTCCATG-AT-TTAGGG--ATTTAGATGCA
**
2444 ATTTTCCATGATTTAGGGATTTTTATGCA
1 ATTTTCCATGATTTAGGGATTTAGATGCA
2473 ATTTT
1 ATTTT
2478 ATAAATGTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 6 0.13
28 2 0.04
29 29 0.62
30 2 0.04
31 8 0.17
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.46
Consensus pattern (29 bp):
ATTTTCCATGATTTAGGGATTTAGATGCA
Found at i:2500 original size:58 final size:57
Alignment explanation
Indices: 2352--2535 Score: 224
Period size: 58 Copynumber: 3.2 Consensus size: 57
2342 ATAGACTTTG
* * **
2352 ATGCAATTTTATGAATGTTGGGGTCATCTAAGTCATTTTCCATGATTTAGGGATTTAG
1 ATGCAATTTTATGAATGTTAGGGTCAT-TAGGTCATTTTCCATGATTTAGGGATTTTC
* * *
2410 ATGCAATTTTATGAATGTTAGGGCCACTTAGGTTATTTTCCATGATTTAGGGATTTTT
1 ATGCAATTTTATGAATGTTAGGGTCA-TTAGGTCATTTTCCATGATTTAGGGATTTTC
* * * * *
2468 ATGCAATTTTATAAATGTTAGGGTCATGTAGGTCATTTTTTCATGATCTAAGAATTTTC
1 ATGCAATTTTATGAATGTTAGGGTCAT-TAGGTCA-TTTTCCATGATTTAGGGATTTTC
2527 ATGCAATTT
1 ATGCAATTT
2536 CATATATCTT
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.01
58 80 0.73
59 28 0.26
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (57 bp):
ATGCAATTTTATGAATGTTAGGGTCATTAGGTCATTTTCCATGATTTAGGGATTTTC
Found at i:6256 original size:22 final size:23
Alignment explanation
Indices: 6218--6262 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6208 TTATTATTTT
*
6218 ATTTTTTCTTGATAATA-GTTGG
1 ATTTTTTCATGATAATATGTTGG
6240 ATTTTCTTCATGA-AATATGTTGG
1 ATTTT-TTCATGATAATATGTTGG
6263 TTGTGTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (23 bp):
ATTTTTTCATGATAATATGTTGG
Found at i:7265 original size:20 final size:20
Alignment explanation
Indices: 7242--7284 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
7232 ATTGCTTGGA
7242 TTTCTTATTGATTCTTGTTC
1 TTTCTTATTGATTCTTGTTC
*
7262 TTTCTTGTTGATTCTTGTTC
1 TTTCTTATTGATTCTTGTTC
7282 TTT
1 TTT
7285 TCTTTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.14, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTCTTATTGATTCTTGTTC
Found at i:7266 original size:10 final size:10
Alignment explanation
Indices: 7253--7301 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
7243 TTCTTATTGA
7253 TTCTTGTTCT
1 TTCTTGTTCT
**
7263 TTCTTGTTGA
1 TTCTTGTTCT
7273 TTCTTGTTCTT
1 TTCTTGTTC-T
*
7284 TTCTTTTTCT
1 TTCTTGTTCT
7294 TTCTTGTT
1 TTCTTGTT
7302 GTTCTTCAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 24 0.75
11 8 0.25
ACGTcount: A:0.02, C:0.16, G:0.10, T:0.71
Consensus pattern (10 bp):
TTCTTGTTCT
Found at i:7649 original size:20 final size:19
Alignment explanation
Indices: 7586--7652 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 19
7576 GATATAATTC
* *
7586 AATATGTATCAATACCAAG
1 AATATGTATCGATACTAAG
*
7605 AACATGTATCGATAC--AG
1 AATATGTATCGATACTAAG
7622 --TA--TATCGATACTAAG
1 AATATGTATCGATACTAAG
7637 CAATATGTATCGATAC
1 -AATATGTATCGATAC
7653 ATCTAGGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
17 2 0.05
18 2 0.05
19 13 0.34
20 9 0.24
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (19 bp):
AATATGTATCGATACTAAG
Found at i:8317 original size:21 final size:23
Alignment explanation
Indices: 8283--8352 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 23
8273 TGCCATTTTC
8283 AATTTAGTACTCCCCCTTAACAA
1 AATTTAGTACTCCCCCTTAACAA
8306 AATTT-GT-CTCCCCCTTAACGAA
1 AATTTAGTACTCCCCCTTAAC-AA
* *
8328 ACATTTAATACTCTCCCTTAACAA
1 A-ATTTAGTACTCCCCCTTAACAA
8352 A
1 A
8353 TTATCCCCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 12 0.29
22 5 0.12
23 9 0.22
24 4 0.10
25 11 0.27
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTTAGTACTCCCCCTTAACAA
Found at i:12997 original size:43 final size:43
Alignment explanation
Indices: 12949--13034 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
12939 TCAACTTCTT
12949 CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
1 CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
*
12992 CATCATCATCATTTTTATCATCATTGATGGTTGACTTGAAGGC
1 CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
13035 GACACTTGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (43 bp):
CATCATCATCATTTTCATCATCATTGATGGTTGACTTGAAGGC
Found at i:14384 original size:10 final size:10
Alignment explanation
Indices: 14360--14398 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
14350 ATTGCTTGGA
*
14360 TTTCTTGTTG
1 TTTCTTGTTC
*
14370 ATTCTTGTTC
1 TTTCTTGTTC
*
14380 TTTCTTTTTC
1 TTTCTTGTTC
14390 TTTCTTGTT
1 TTTCTTGTT
14399 GTTCTGCAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.03, C:0.15, G:0.10, T:0.72
Consensus pattern (10 bp):
TTTCTTGTTC
Found at i:14683 original size:20 final size:19
Alignment explanation
Indices: 14658--14728 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
14648 TGCCAGTTTC
14658 ATGTATCGATA-TAATTCAAT
1 ATGTATCGATACTAA--CAAT
* * * *
14678 ATGTATCAATACCAAGAAC
1 ATGTATCGATACTAACAAT
*
14697 ATGTATCGATAGTAAGCAAT
1 ATGTATCGATACTAA-CAAT
14717 ATGTATCGATAC
1 ATGTATCGATAC
14729 ATCTGGGTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
19 14 0.36
20 23 0.59
21 2 0.05
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACTAACAAT
Found at i:18387 original size:20 final size:20
Alignment explanation
Indices: 18364--18409 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
18354 AAATATATCA
18364 ATACAT-GGCCAAATGTATTG
1 ATACATAGGCC-AATGTATTG
18384 ATACATAGGCCAATGTATTG
1 ATACATAGGCCAATGTATTG
18404 ATACAT
1 ATACAT
18410 TTTAGCCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
ATACATAGGCCAATGTATTG
Found at i:18422 original size:21 final size:22
Alignment explanation
Indices: 18370--18431 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 22
18360 ATCAATACAT
18370 GGCCAAATGTATTGATACA--TA
1 GGCC-AATGTATTGATACATTTA
18391 GGCCAATGTATTGATACATTTTA
1 GGCCAATGTATTGATACA-TTTA
*
18414 -GCC-ATGTATGGATACATT
1 GGCCAATGTATTGATACATT
18432 GAGACATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 16 0.43
21 16 0.43
22 3 0.08
23 2 0.05
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (22 bp):
GGCCAATGTATTGATACATTTA
Found at i:19295 original size:20 final size:19
Alignment explanation
Indices: 19270--19399 Score: 107
Period size: 13 Copynumber: 7.7 Consensus size: 19
19260 TTTCAACGAT
19270 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
19290 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
19304 -TGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
19323 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
19337 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
19355 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
19369 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
19387 TTGTATCGATACA
1 TTGTATCGATACA
19400 ATGTAAGCTA
Statistics
Matches: 91, Mismatches: 0, Indels: 39
0.70 0.00 0.30
Matches are distributed among these distances:
13 33 0.36
15 4 0.04
16 2 0.02
17 6 0.07
19 23 0.25
20 23 0.25
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:19359 original size:32 final size:33
Alignment explanation
Indices: 19271--19404 Score: 245
Period size: 32 Copynumber: 4.1 Consensus size: 33
19261 TTCAACGATT
19271 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
19304 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
19337 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
19369 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
19401 TGTA
1 TGTA
19405 AGCTACTGCC
Statistics
Matches: 100, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 54 0.54
33 46 0.46
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:19425 original size:65 final size:65
Alignment explanation
Indices: 19291--19432 Score: 173
Period size: 65 Copynumber: 2.2 Consensus size: 65
19281 CATAAAGTGT
* ****
19291 TGTATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
1 TGTATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAAAAAA
* *
19356 TGTATCGATACAATGTATCGATACAT-AAGTTTTGTATCGATACAATGTA-AGCTAC-TGCCAAA
1 TGTATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACAT---AAA
19418 AAA
63 AAA
19421 TGTATCGATACA
1 TGTATCGATACA
19433 CTACCCAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 4 0.06
64 22 0.33
65 40 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (65 bp):
TGTATCGATACAATGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAAAAAA
Found at i:19460 original size:13 final size:13
Alignment explanation
Indices: 19442--19466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19432 ACTACCCAAA
19442 TGTATCGATACAT
1 TGTATCGATACAT
19455 TGTATCGATACA
1 TGTATCGATACA
19467 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:19518 original size:52 final size:52
Alignment explanation
Indices: 19475--19603 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
19465 CACTGATCTT
19475 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
19527 TGTATCGATACATGCAGGCAAATTTGTCCAGATGTATCGATAGACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
19579 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
19604 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:26467 original size:9 final size:9
Alignment explanation
Indices: 26434--26479 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
26424 AAATGATGAA
26434 AAAAAAAAC
1 AAAAAAAAC
* *
26443 AACAACAAC
1 AAAAAAAAC
26452 AACAAAAAAC
1 AA-AAAAAAC
26462 AAAAAAAAC
1 AAAAAAAAC
26471 AAAATAAAA
1 AAAA-AAAA
26480 AAGTGCAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 20 0.65
10 11 0.35
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:27119 original size:31 final size:29
Alignment explanation
Indices: 27066--27124 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
27056 TTGTTGGAAA
* *
27066 CAAACCATTATCTTTCTTGTCAAACAAAT
1 CAAACCATTATCTTTATCGTCAAACAAAT
*
27095 CAAACCATATCATCTTTATCGTCAAGCAAA
1 CAAACCAT-T-ATCTTTATCGTCAAACAAA
27125 CCTTTTGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.32
30 1 0.04
31 16 0.64
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (29 bp):
CAAACCATTATCTTTATCGTCAAACAAAT
Found at i:27857 original size:66 final size:64
Alignment explanation
Indices: 27780--27932 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 64
27770 TACCTTCTTA
*
27780 AAGTCCACGACT-TAGTGGCATCCTT-TTCTGCAAAGCCCACAACTCCGTGGCACTCTTTTCCCT
1 AAGTCCACGACTCCA-TGGCA-CCTTCTT-TGCAAAGCCCACAACTCCGTGGCA-TCTTTTCCCT
27843 TTT
62 TTT
* * *
27846 AAGTCCACGACTCCATGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTT
1 AAGTCCACGACTCCATGGCACCTTCTTTGCAAAGCCCACAACTCCGTGGCATC-TTTTCCCTTTT
* * *
27911 AAAGCCCACAACTCCGTGGCAC
1 -AAGTCCACGACTCCATGGCAC
27933 TCTTTTTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
64 2 0.03
65 36 0.47
66 37 0.49
67 1 0.01
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (64 bp):
AAGTCCACGACTCCATGGCACCTTCTTTGCAAAGCCCACAACTCCGTGGCATCTTTTCCCTTTT
Found at i:27923 original size:100 final size:99
Alignment explanation
Indices: 27811--28277 Score: 471
Period size: 100 Copynumber: 4.7 Consensus size: 99
27801 CCTTTTCTGC
*
27811 AAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACGACTCCATGGCACCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTT-CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
*
27876 AAAGCCCACAACTCTGTGGCATCTTTTTCCTTTTT
65 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
* * ** *
27911 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTTGTGGCGCC--CTTTT-
1 AAAGCCCACAACTCCGTGGCACTC-TTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
* *
27973 AAAGCCCACAACTCCGTGGCACTCTTTTCCCCTTTT
65 AAAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTT
* * * * **
28009 AAAGTCCACAAC-CTCGTGGCAC-C--AT--TTTAAAGCCCATAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTC-CGTGGCACTCTTTTCCTTTTAAGTCCACGACTCCGTGGCAC-C---TT--
* * * * *
28068 CTTTT-AAAGTCCACAACCCCGTGGCACCGTGTTCC-TTTT
59 CTTTTCAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
* ** *
28107 -AAGTCCATGACTCTGTGGCAC-C--TT-CTTTTCAAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTT--AAGTCCACGACTCCGTGGCACCTTCTTTT
* *
28167 CAAGGCCCACAACTCTGTGGCATCTTTTTCCTTTTT
64 CAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
28203 AAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTT-CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
28268 AAAGCCCACA
65 AAAGCCCACA
28278 CAAGTCGGTG
Statistics
Matches: 300, Mismatches: 44, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
92 18 0.06
93 1 0.00
94 6 0.02
95 23 0.08
96 6 0.02
97 57 0.19
98 45 0.15
99 6 0.02
100 129 0.43
101 4 0.01
102 5 0.02
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (99 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
AAGCCCACAACTCCGTGGCATCTTTTTCCTTTTT
Found at i:27999 original size:28 final size:28
Alignment explanation
Indices: 27907--28064 Score: 86
Period size: 28 Copynumber: 5.1 Consensus size: 28
27897 TCTTTTTCCT
27907 TTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTAAAGCCCACAACTCCGTGGCACTC
* * ** * *
27935 TTTTTCCTTCTAAGTCCACAACTTTGTGGCGCCC
1 ---TT--TT-AAAGCCCACAACTCCGTGGCACTC
27969 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCC
1 TTTTAAAGCCCACAACTCCGTGGCA--C---T---C
*
28005 TTTTAAAGTCCACAAC-CTCGTGGCAC-C
1 TTTTAAAGCCCACAACTC-CGTGGCACTC
*
28032 ATTTTAAAGCCCATAACTCCGTGGCACTC
1 -TTTTAAAGCCCACAACTCCGTGGCACTC
28061 TTTT
1 TTTT
28065 TCCCTTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
27 1 0.01
28 42 0.43
29 4 0.04
30 1 0.01
31 4 0.04
33 2 0.02
34 19 0.20
35 1 0.01
36 23 0.24
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.32
Consensus pattern (28 bp):
TTTTAAAGCCCACAACTCCGTGGCACTC
Found at i:28018 original size:36 final size:35
Alignment explanation
Indices: 27966--28267 Score: 218
Period size: 36 Copynumber: 9.0 Consensus size: 35
27956 CTTTGTGGCG
*
27966 CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACTCTTTT
28001 CCCCTTTTAAAGTCCACAAC-CTCGTGGCA-------
1 -CCCTTTTAAAGTCCACAACTC-CGTGGCACTCTTTT
* * *
28030 CCATTTTAAAGCCCATAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACTC-TTTT
* *
28066 CCCTTTTAAAGTCCACAACCCCGTGGCAC-CGTGTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACTC-TTTT
** *
28101 -CCTTTT-AAGTCCATGACTCTGTGGCAC-C--TT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACTCTTTT
*
28131 --CTTTTCAAAGTCCACGACTCCGTGGCAC-C--TT
1 CCCTTTT-AAAGTCCACAACTCCGTGGCACTCTTTT
* * *
28162 --CTTTTCAAGGCCCACAACTCTGTGGCA-TCTTTTT
1 CCCTTTT-AAAGTCCACAACTCCGTGGCACTC-TTTT
* *
28196 CCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCACTCTTTT
*
28231 CCCTTTT-AAGTCCACGACTCCGTGGCACCTTCTTTT
1 CCCTTTTAAAGTCCACAACTCCGTGGCA-C-TCTTTT
28267 C
1 C
28268 AAAGCCCACA
Statistics
Matches: 219, Mismatches: 26, Indels: 42
0.76 0.09 0.15
Matches are distributed among these distances:
28 23 0.11
29 6 0.03
30 2 0.01
31 46 0.21
33 18 0.08
34 26 0.12
35 35 0.16
36 63 0.29
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.32
Consensus pattern (35 bp):
CCCTTTTAAAGTCCACAACTCCGTGGCACTCTTTT
Found at i:28050 original size:64 final size:63
Alignment explanation
Indices: 27907--28095 Score: 281
Period size: 64 Copynumber: 3.0 Consensus size: 63
27897 TCTTTTTCCT
* * * * * *
27907 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGTCCACAACTTTGTGGCGCCC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAAGTCCACAACCTCGTGGCACCA
27969 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCTCGTGGCACCA
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTT-CCCTTTTAAAGTCCACAACCTCGTGGCACCA
* *
28033 TTTTAAAGCCCATAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACC
1 TTTTAAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAAGTCCACAACCTCGTGGCACC
28096 GTGTTCCTTT
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
62 32 0.28
63 5 0.04
64 75 0.65
65 4 0.03
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (63 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCCTTTTAAAGTCCACAACCTCGTGGCACCA
Found at i:28150 original size:31 final size:31
Alignment explanation
Indices: 28115--28276 Score: 148
Period size: 31 Copynumber: 5.0 Consensus size: 31
28105 TTAAGTCCAT
* *
28115 GACTCTGTGGCACCTTCTTTTCAAAGTCCAC
1 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
*
28146 GACTCCGTGGCACCTTCTTTTCAAGGCCCAC
1 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
* * * *
28177 AACTCTGTGGCATCTTTTTCCTTTTTAAAGCCCAC
1 GACTCCGTGGCA-C--CTT-CTTTTCAAAGCCCAC
* *
28212 AACTCCGTGGCACTCTTTTCCCTTTT--AAGTCCAC
1 GACTCCGTGGCAC-C--TT--CTTTTCAAAGCCCAC
28246 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
1 GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
28277 ACAAGTCGGT
Statistics
Matches: 109, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
29 5 0.05
31 47 0.43
32 1 0.01
33 2 0.02
34 22 0.20
35 26 0.24
36 6 0.06
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.32
Consensus pattern (31 bp):
GACTCCGTGGCACCTTCTTTTCAAAGCCCAC
Found at i:28250 original size:131 final size:128
Alignment explanation
Indices: 27811--28277 Score: 404
Period size: 131 Copynumber: 3.6 Consensus size: 128
27801 CCTTTTCTGC
* * *
27811 AAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAGTCCACGACTCCATGGCACCTTCTTTT
1 AAAGCCCACAACCCCGTGGCAC-CGTGTT-CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
* *
27875 CAAAGCCCACAA-CTCTGTGGCATCTTTTTCCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
64 CAAAGTCCACAACCTC-GTGGCA-------CCATTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
27939 T-CCTTCT
121 TCCCTTTT
* *** * * *
27946 -AAGTCCACAACTTTGTGG---C--G-CCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCCC
1 AAAGCCCACAACCCCGTGGCACCGTGTTCCTTTT-AAGTCCACGACTCCGTGGCAC-C--TT---
*
28004 CTTTT-AAAGTCCACAACCTCGTGGCACCATTTTAAAGCCCATAACTCCGTGGCACTCTTTTTCC
59 CTTTTCAAAGTCCACAACCTCGTGGCACCATTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
28068 CTTTT
124 CTTTT
* * *
28073 AAAGTCCACAACCCCGTGGCACCGTGTTCCTTTTAAGTCCATGACTCTGTGGCACCTTCTTTTCA
1 AAAGCCCACAACCCCGTGGCACCGTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
* * * * *
28138 AAGTCCACGA-CTCCGTGGCACCTTCTTTTCAAGGCCCACAACTCTGTGGCA-TCTTTTTCCTTT
66 AAGTCCACAACCT-CGTGGCACC--ATTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
28201 TT
127 TT
* *
28203 AAAGCCCACAACTCCGTGGCACTC-TTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAAGCCCACAACCCCGTGGCAC-CGTGTT-CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
*
28267 CAAAGCCCACA
64 CAAAGTCCACA
28278 CAAGTCGGTG
Statistics
Matches: 276, Mismatches: 33, Indels: 50
0.77 0.09 0.14
Matches are distributed among these distances:
126 34 0.12
127 18 0.07
128 52 0.19
129 1 0.00
130 43 0.16
131 64 0.23
132 1 0.00
133 34 0.12
134 29 0.11
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.32
Consensus pattern (128 bp):
AAAGCCCACAACCCCGTGGCACCGTGTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCA
AAGTCCACAACCTCGTGGCACCATTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
Found at i:28303 original size:32 final size:33
Alignment explanation
Indices: 28268--28393 Score: 211
Period size: 32 Copynumber: 3.9 Consensus size: 33
28258 CCTTCTTTTC
28268 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC-
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
28300 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
* *
28332 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
*
28365 AAAGCTCACACAAGTCGGTGGCAACCCTT
1 AAAGCCCACACAAGTCGGTGGCAACCCTT
28394 TTAAGCCCAA
Statistics
Matches: 87, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
31 4 0.05
32 52 0.60
33 31 0.36
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.17
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTCT
Found at i:28453 original size:49 final size:49
Alignment explanation
Indices: 28393--28865 Score: 487
Period size: 49 Copynumber: 9.8 Consensus size: 49
28383 TGGCAACCCT
* *
28393 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
28442 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--C-TC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
28487 --TAAGCCCAATATCGCTAGCCTTGAATCATCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
28534 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCA-CTTC--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
28580 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
28626 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----T-ACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
28669 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
28718 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATC
* * * * *
28770 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGTACATTGACATCCTTGTTCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T-TCATC
* * * * *
28825 TTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
28866 TCTTTATCAC
Statistics
Matches: 354, Mismatches: 45, Indels: 44
0.80 0.10 0.10
Matches are distributed among these distances:
43 105 0.30
44 6 0.02
45 2 0.01
46 4 0.01
47 2 0.01
48 6 0.02
49 146 0.41
51 2 0.01
52 41 0.12
53 2 0.01
55 37 0.10
56 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:28762 original size:92 final size:92
Alignment explanation
Indices: 28393--28763 Score: 636
Period size: 92 Copynumber: 4.0 Consensus size: 92
28383 TGGCAACCCT
28393 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
28458 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
28485 TCTAAGCCCAATATCGCTAGCCTTGAATCATCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
28550 CTAGCCTTGAATCAGCACATTGGCA-C
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
28576 TTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 TT-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
*
28641 GCTGGCCTTGAATCAGCACATTGGTACC
65 GCTGGCCTTGAATCAGCACATTGGCACC
* *
28669 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAG
1 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
28734 CTGGCCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
28761 TTT
1 TTT
28764 TCCATCTTTA
Statistics
Matches: 262, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
91 2 0.01
92 257 0.98
93 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:28852 original size:55 final size:53
Alignment explanation
Indices: 28668--29054 Score: 261
Period size: 52 Copynumber: 7.1 Consensus size: 53
28658 ACATTGGTAC
* * * *
28668 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--TT-TCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCAT
* *
28717 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCAT
* *
28769 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGTACATTGACATCCTTGTTCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-CCTT-TTCTCAT
* * * * * * *
28824 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A-C---A-C-CTTTTCTCA-----
28889 AT
53 -T
* * * *
28891 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC--TTCATCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTC-TCAT
* * * *
28943 CTTTAAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCA--TATTTCTCAT
1 CTTT-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCT-TTTCTCAT
* * * * * *
28996 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATTCTTTTTCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA--CCTTTTCTCAT
29051 CTTT
1 CTTT
29055 GAACCCAATA
Statistics
Matches: 275, Mismatches: 34, Indels: 52
0.76 0.09 0.14
Matches are distributed among these distances:
49 40 0.15
50 1 0.00
52 79 0.29
53 45 0.16
54 6 0.02
55 43 0.16
56 2 0.01
57 4 0.01
58 4 0.01
59 1 0.00
60 1 0.00
61 10 0.04
62 3 0.01
64 1 0.00
66 1 0.00
67 34 0.12
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (53 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCAT
Found at i:28928 original size:67 final size:68
Alignment explanation
Indices: 28820--28946 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
28810 ATCCTTGTTC
* * *
28820 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
28884 TCT
66 TCT
* * * *
28887 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
28947 AAAATCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:28996 original size:53 final size:52
Alignment explanation
Indices: 28887--29034 Score: 172
Period size: 53 Copynumber: 2.8 Consensus size: 52
28877 TTTCTCATCT
* * *
28887 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAACTTCA
* * *
28939 TCATCTTTAAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATATTTC-
1 TCATCTTT-AAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-ACTTCA
* * * * *
28992 TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTG
29035 ACATTCTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 37 0.46
53 41 0.51
54 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAACTTCA
Found at i:29064 original size:227 final size:224
Alignment explanation
Indices: 28668--29161 Score: 649
Period size: 227 Copynumber: 2.2 Consensus size: 224
28658 ACATTGGTAC
* *
28668 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTCATCTTTAAGTCCAATGT
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAATCCAATGT
* * * *
28732 AGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAA
66 AGCTGGCCTTGAATCAGCACATTGGCA-CTTTTCCATCTTCAAGTTCAATGTAGCTGACCGTGAA
* *
28797 TCAGTACATTGACATCCTTGTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATT
130 TCAGCACATTGACATCCTTGTTCTCATCTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATT
* *
28862 GG-CATCTTTATCACTTTTC-TCATCTTCAT
195 GGTCAT-TTTATCACTCTTCATCATCATCAT
28891 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAATCCAA
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTT--TCATCTTT-AAATCCAA
* * *
28956 TGTTGTTGGCCTTGAATCAGCACATTGGCA-TATTTCTCATCTTCAAG-TCTAATGTCGCTGACC
63 TGTAGCTGGCCTTGAATCAGCACATTGGCACT-TTTC-CATCTTCAAGTTC-AATGTAGCTGACC
* * *
29019 GTGAATCAGCACATTGACATTCTTTTTCTCATCTTTGAA-CCCAATATCGTTGGTCGCGAATCAA
125 GTGAATCAGCACATTGACATCCTTGTTCTCATCTTT-AAGCCCAATATCGTTGGCCGCGAATCAA
* * *
29083 CGTATTGGTCCTTTTATCACTCTTCATCCTCATCAT
189 CATATTGGTCATTTTATCACTCTTCATCATCATCAT
* * * * *
29119 CTTTAAGTCCAGTGTTGCAGGCCTTGAATCTGCATAGTGGCAC
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
29162 ATTGCAATGA
Statistics
Matches: 237, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
223 41 0.17
224 3 0.01
225 1 0.00
226 14 0.06
227 128 0.54
228 50 0.21
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (224 bp):
CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTCATCTTTAAATCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACTTTTCCATCTTCAAGTTCAATGTAGCTGACCGTGAAT
CAGCACATTGACATCCTTGTTCTCATCTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATTG
GTCATTTTATCACTCTTCATCATCATCAT
Found at i:33113 original size:2 final size:2
Alignment explanation
Indices: 33106--33156 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
33096 TGCATTGACT
33106 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
33148 TA TA TA TA T
1 TA TA TA TA T
33157 TTCAATGAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33685 original size:22 final size:22
Alignment explanation
Indices: 33640--33699 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
33630 AGTTTAATTA
33640 AATTATTTTTTAATTATATAATAT
1 AATTATTTTTT-A-TATATAATAT
*
33664 ATATTATTTTTTATAT-TTATAT
1 A-ATTATTTTTTATATATAATAT
*
33686 AATGTAATTTTTAT
1 AAT-TATTTTTTAT
33700 CGTATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.06
22 15 0.47
23 3 0.09
24 2 0.06
25 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
AATTATTTTTTATATATAATAT
Found at i:36480 original size:143 final size:143
Alignment explanation
Indices: 36279--36573 Score: 581
Period size: 143 Copynumber: 2.1 Consensus size: 143
36269 TATAATAATA
*
36279 TATTGCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
1 TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
36344 ATGATTAATTGTTATAAATATTATAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
66 ATGATTAATTGTTATAAATATTATAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
36409 TTCAGATAAATTT
131 TTCAGATAAATTT
36422 TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
1 TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
36487 ATGATTAATTGTTATAAATATTATAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
66 ATGATTAATTGTTATAAATATTATAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
36552 TTCAGATAAATTT
131 TTCAGATAAATTT
36565 TATTTCACA
1 TATTTCACA
36574 ATATAATTTA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 151 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (143 bp):
TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
ATGATTAATTGTTATAAATATTATAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
TTCAGATAAATTT
Found at i:36880 original size:17 final size:17
Alignment explanation
Indices: 36860--36915 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
36850 CAGTTTTGAG
36860 TTTTTTCAAGTTTAGAT
1 TTTTTTCAAGTTTAGAT
* * *
36877 TTTTTTAAAATTTA-AA
1 TTTTTTCAAGTTTAGAT
*
36893 TTTTCTCAAGTTCTAG-T
1 TTTTTTCAAGTT-TAGAT
36910 TTTTTT
1 TTTTTT
36916 TTTTTAATTC
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTTTCAAGTTTAGAT
Found at i:41249 original size:2 final size:2
Alignment explanation
Indices: 41242--41271 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41232 ATGGCAACGC
41242 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
41272 ATGGTAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:43315 original size:359 final size:359
Alignment explanation
Indices: 42656--43376 Score: 1433
Period size: 359 Copynumber: 2.0 Consensus size: 359
42646 AAATGATTCT
*
42656 CCTGTTATTTAAAGCTAGGACTGAATTATATCATATCATTGTATGAAGGAAGAAACTTAGAATAA
1 CCTGTTATTTAAAGCTAGGACTGAATTATATCATATCATTATATGAAGGAAGAAACTTAGAATAA
42721 GAGGATATTGGTTACGATAACACTACTAGAAACCAAATAGCAGCAGTGAGCATTGTTTTTTGTTT
66 GAGGATATTGGTTACGATAACACTACTAGAAACCAAATAGCAGCAGTGAGCATTGTTTTTTGTTT
42786 GTCTCAAATATGATCAATACGCCTAGTTAAAGCAGCAAACAAAGGTTACAATGGGATCTAGATCA
131 GTCTCAAATATGATCAATACGCCTAGTTAAAGCAGCAAACAAAGGTTACAATGGGATCTAGATCA
42851 GATAAATAGAGCTTCATTCCTTTCAAAACTAATACCCAGTAGTATCAAATTGCAAGAGCATTGGT
196 GATAAATAGAGCTTCATTCCTTTCAAAACTAATACCCAGTAGTATCAAATTGCAAGAGCATTGGT
42916 CATTAAATTTGGAAAATGGAAGTTGATAACCTACACAGAAAAGAAGAAAGTAGAGAGATGGAAGT
261 CATTAAATTTGGAAAATGGAAGTTGATAACCTACACAGAAAAGAAGAAAGTAGAGAGATGGAAGT
42981 TGATAAAAATGAAGATTATACATACTGTGCTAGG
326 TGATAAAAATGAAGATTATACATACTGTGCTAGG
43015 CCTGTTATTTAAAGCTAGGACTGAATTATATCATATCATTATATGAAGGAAGAAACTTAGAATAA
1 CCTGTTATTTAAAGCTAGGACTGAATTATATCATATCATTATATGAAGGAAGAAACTTAGAATAA
43080 GAGGATATTGGTTACGATAACACTACTAGAAACCAAATAGCAGCAGTGAGCATTGTTTTTTGTTT
66 GAGGATATTGGTTACGATAACACTACTAGAAACCAAATAGCAGCAGTGAGCATTGTTTTTTGTTT
43145 GTCTCAAATATGATCAATACGCCTAGTTAAAGCAGCAAACAAAGGTTACAATGGGATCTAGATCA
131 GTCTCAAATATGATCAATACGCCTAGTTAAAGCAGCAAACAAAGGTTACAATGGGATCTAGATCA
43210 GATAAATAGAGCTTCATTCCTTTCAAAACTAATACCCAGTAGTATCAAATTGCAAGAGCATTGGT
196 GATAAATAGAGCTTCATTCCTTTCAAAACTAATACCCAGTAGTATCAAATTGCAAGAGCATTGGT
43275 CATTAAATTTGGAAAATGGAAGTTGATAACCTACACAGAAAAGAAGAAAGTAGAGAGATGGAAGT
261 CATTAAATTTGGAAAATGGAAGTTGATAACCTACACAGAAAAGAAGAAAGTAGAGAGATGGAAGT
43340 TGATAAAAATGAAGATTATACATACTGTGCTAGG
326 TGATAAAAATGAAGATTATACATACTGTGCTAGG
43374 CCT
1 CCT
43377 AGGCGAAACC
Statistics
Matches: 361, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
359 361 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (359 bp):
CCTGTTATTTAAAGCTAGGACTGAATTATATCATATCATTATATGAAGGAAGAAACTTAGAATAA
GAGGATATTGGTTACGATAACACTACTAGAAACCAAATAGCAGCAGTGAGCATTGTTTTTTGTTT
GTCTCAAATATGATCAATACGCCTAGTTAAAGCAGCAAACAAAGGTTACAATGGGATCTAGATCA
GATAAATAGAGCTTCATTCCTTTCAAAACTAATACCCAGTAGTATCAAATTGCAAGAGCATTGGT
CATTAAATTTGGAAAATGGAAGTTGATAACCTACACAGAAAAGAAGAAAGTAGAGAGATGGAAGT
TGATAAAAATGAAGATTATACATACTGTGCTAGG
Found at i:44502 original size:16 final size:16
Alignment explanation
Indices: 44481--44512 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44471 CTTTCAATAA
44481 TTTATTATATTAAAAT
1 TTTATTATATTAAAAT
*
44497 TTTATTTTATTAAAAT
1 TTTATTATATTAAAAT
44513 ATAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTATATTAAAAT
Found at i:45284 original size:21 final size:22
Alignment explanation
Indices: 45247--45289 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
45237 AAATTAAAAT
*
45247 TAAATTATTATAATAAATTAAG
1 TAAAATATTATAATAAATTAAG
45269 TAAAATATTA-AATAAATTAAG
1 TAAAATATTATAATAAATTAAG
45290 ACATGAAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
TAAAATATTATAATAAATTAAG
Found at i:46470 original size:16 final size:16
Alignment explanation
Indices: 46449--46486 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46439 TCAAAAGAAT
46449 CTGAACCTGAAA-AAAC
1 CTGAACCT-AAAGAAAC
*
46465 CTGAACCTAAAGGAAC
1 CTGAACCTAAAGAAAC
46481 CTGAAC
1 CTGAAC
46487 TCGAGACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.45, C:0.26, G:0.16, T:0.13
Consensus pattern (16 bp):
CTGAACCTAAAGAAAC
Found at i:46598 original size:25 final size:23
Alignment explanation
Indices: 46570--46615 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
46560 TTTATATAAA
46570 GTAAAAATTTTAATCATAATTTATT
1 GTAAAAATTTTAA--ATAATTTATT
* *
46595 GTAATATTTTTAAATAATTTA
1 GTAAAAATTTTAAATAATTTA
46616 ACTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
25 11 0.58
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
GTAAAAATTTTAAATAATTTATT
Found at i:53635 original size:12 final size:11
Alignment explanation
Indices: 53616--53691 Score: 79
Period size: 12 Copynumber: 6.9 Consensus size: 11
53606 AGAGAAAGAA
53616 GAGATAGGAGG
1 GAGATAGGAGG
53627 GATGATAGGAGG
1 GA-GATAGGAGG
53639 AGAGATAGGA--
1 -GAGATAGGAGG
*
53649 GAGATAGTA--
1 GAGATAGGAGG
53658 GAGATAGGAGG
1 GAGATAGGAGG
53669 GATGATAGGAGG
1 GA-GATAGGAGG
53681 AGAGATAGGAG
1 -GAGATAGGAG
53692 AGATAATAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
9 16 0.28
11 4 0.07
12 33 0.58
13 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:53650 original size:9 final size:9
Alignment explanation
Indices: 53636--53696 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
53626 GGATGATAGG
53636 AGGAGAGAT
1 AGGAGAGAT
53645 AGGAGAGAT
1 AGGAGAGAT
*
53654 AGTAGAGAT
1 AGGAGAGAT
*
53663 AGGAGGGAT
1 AGGAGAGAT
* *
53672 --GATAG-G
1 AGGAGAGAT
53678 AGGAGAGAT
1 AGGAGAGAT
53687 AGGAGAGAT
1 AGGAGAGAT
53696 A
1 A
53697 ATAGAGAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.43, C:0.00, G:0.44, T:0.13
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:53665 original size:42 final size:42
Alignment explanation
Indices: 53606--53723 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
53596 TAGCCCTCAA
* *
53606 AGAGAAAGAAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
53648 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* * *
53690 AGAGATAATAGAGAGAGGA-GGATGACAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
53724 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
41 14 0.20
42 57 0.80
ACGTcount: A:0.43, C:0.01, G:0.45, T:0.11
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:53700 original size:12 final size:12
Alignment explanation
Indices: 53618--53705 Score: 59
Period size: 12 Copynumber: 7.9 Consensus size: 12
53608 AGAAAGAAGA
*
53618 GATAGGAGGGAT
1 GATAGGAGAGAT
53630 GATAGGAGGAGA-
1 GATAGGA-GAGAT
53642 GATA-G-GAGA-
1 GATAGGAGAGAT
*
53651 GATA-G-TAGA-
1 GATAGGAGAGAT
*
53660 GATAGGAGGGAT
1 GATAGGAGAGAT
53672 GATAGGAGGAGA-
1 GATAGGA-GAGAT
53684 GATAGGAGAGAT
1 GATAGGAGAGAT
*
53696 AATA-GAGAGA
1 GATAGGAGAGA
53706 GGAGGATGAC
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
9 16 0.25
10 1 0.02
11 13 0.20
12 28 0.44
13 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:61680 original size:13 final size:13
Alignment explanation
Indices: 61662--61686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61652 CATAAAGTGT
61662 TGTATCGATACAA
1 TGTATCGATACAA
61675 TGTATCGATACA
1 TGTATCGATACA
61687 TGTTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61767 original size:13 final size:13
Alignment explanation
Indices: 61749--61773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61739 ATCACTTAAA
61749 TGTATCGATACAT
1 TGTATCGATACAT
61762 TGTATCGATACA
1 TGTATCGATACA
61774 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61826 original size:52 final size:52
Alignment explanation
Indices: 61782--61962 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
61772 CACTGATCTT
61782 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
61834 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
61886 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
61938 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
61963 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:66108 original size:10 final size:10
Alignment explanation
Indices: 66093--66119 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
66083 TGCTAACTAA
66093 GTTTTTGTTT
1 GTTTTTGTTT
66103 GTTTTTGTTT
1 GTTTTTGTTT
66113 GTTTTTG
1 GTTTTTG
66120 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:75826 original size:1 final size:1
Alignment explanation
Indices: 75815--75962 Score: 125
Period size: 1 Copynumber: 148.0 Consensus size: 1
75805 GGCGTCCTCC
* ** ** ** ** * *
75815 AAAACAAAAAAAAAAAAAAACGAAAAAAATGAAAAACCAAAAAAAAAAATGAAAAAAAGAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * *
75880 CAAAAAAAAAAAAAAAAAAAAAAAAAAGCAAAAAAAAAAAAAAAAAAAAAACAAAAAACAATAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
75945 AAAACAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAA
75963 GGGGGTCCGG
Statistics
Matches: 117, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 117 1.00
ACGTcount: A:0.87, C:0.07, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:75868 original size:29 final size:27
Alignment explanation
Indices: 75823--75958 Score: 138
Period size: 26 Copynumber: 4.9 Consensus size: 27
75813 CCAAAACAAA
75823 AAAAAAAAAAAACGAAAAAAATGAAAAACC
1 AAAAAAAAAAAA--AAAAAAA-GAAAAACC
*
75853 AAAAAAAAAAATGAAAAAAAGAAAAACC
1 AAAAAAAAAAA-AAAAAAAAGAAAAACC
75881 AAAAAAAAAAAAAAAAAAA-AAAAA--
1 AAAAAAAAAAAAAAAAAAAGAAAAACC
75905 AAGCAAAAAAAAAAAAAAAAA-AAAAA-C
1 AA--AAAAAAAAAAAAAAAAAGAAAAACC
* *
75932 AAAAAACAATAAAAAAACAAACAAAAA
1 AAAAAA-AA-AAAAAAAAAAAGAAAAA
75959 AAAAGGGGGT
Statistics
Matches: 96, Mismatches: 3, Indels: 16
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.02
25 4 0.04
26 29 0.30
27 19 0.20
28 24 0.25
29 7 0.07
30 11 0.11
ACGTcount: A:0.87, C:0.07, G:0.04, T:0.02
Consensus pattern (27 bp):
AAAAAAAAAAAAAAAAAAAGAAAAACC
Found at i:77459 original size:30 final size:29
Alignment explanation
Indices: 77404--77872 Score: 353
Period size: 30 Copynumber: 15.9 Consensus size: 29
77394 TCACCCTTCA
* *
77404 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
77433 AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* *
77463 GAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
77491 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
77521 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
77550 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
77580 TTTTGTAAGCTCACAACTCTA-TAGCA-CTCTTTTC
1 -----AAAGCCCACAAGTC-AGTGGCATCT-TTTTC
* * *
77614 --AGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
77641 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
77671 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
77700 AAAGCCCACAAGTTAGTGGCACCCTGTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
77729 AAAAGCCCACAAGTCAGTGGCATATTTTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * **
77759 AAAAGCCCACAAGTCAGTGGCAACCTTTAA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
77789 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
77816 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * *
77846 GAAGCCCACAAATCGGTGGCACCTTTT
1 AAAGCCCACAAGTCAGTGGCATCTTTT
77873 CCATCTTTAA
Statistics
Matches: 359, Mismatches: 58, Indels: 46
0.78 0.13 0.10
Matches are distributed among these distances:
26 1 0.00
27 59 0.16
28 27 0.08
29 78 0.22
30 151 0.42
31 21 0.06
33 2 0.01
34 5 0.01
35 15 0.04
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:77506 original size:27 final size:27
Alignment explanation
Indices: 77464--77516 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
77454 TTTTTTTTCG
*
77464 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
77491 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
77517 TTCCGAAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:77507 original size:58 final size:57
Alignment explanation
Indices: 77400--77841 Score: 277
Period size: 58 Copynumber: 7.5 Consensus size: 57
77390 TTCATCACCC
* *** *
77400 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--ACCTTCAAAGCCCACAAGTCAGTGGCA-TATTT
* * ***
77460 TTCGAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCATATTT
** * * * * * * *
77517 TTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CTT-CAAAGCCCACAAGTCAGTGGCA-TATTT
** * * * *** * ***
77577 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTCAAAGCCCACAAGTCAGTGGCATATTT
** **
77638 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCT
1 TTCAAAAGCCCACAAGTCAGTGGCA-A-CCTTC-AAAGCCCACAAGTCAGTGGCATATTT
* *
77697 TT-AAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAGTCAGTGGCATATTT
* **
77756 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCA-A-CC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TT-CAAAGCCCACAAGTCAGTGGCATATTT
* *
77813 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTT
77842 TTTCGAAGCC
Statistics
Matches: 301, Mismatches: 63, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
55 2 0.01
56 23 0.08
57 42 0.14
58 72 0.24
59 53 0.18
60 70 0.23
61 6 0.02
62 15 0.05
63 4 0.01
64 14 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCATATTT
Found at i:77719 original size:88 final size:88
Alignment explanation
Indices: 77400--77871 Score: 392
Period size: 88 Copynumber: 5.4 Consensus size: 88
77390 TTCATCACCC
* *** * *** *
77400 TTCAAAAGTCCACAAGTCAGTGGCATTTTTTTCAAAGCCCACAAGTCAGTGGCATTTTTTTTCGA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAAAGCCCACAAGTCAGTGGCA-CCCTTTTCAA
**
77465 AAGCCCACAAGTCAGTGGCA-A-CC
64 AAGCCCACAAGTCAGTGGCATATTT
* * ** * * *
77488 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCA-TCTTTTCCA
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAA
* * * *
77551 AAGTCCACAACTCCGTGGCACTCTTT
64 AAGCCCACAAGTCAGTGGCA-TATTT
** * * * ** *
77577 TTCTTTTGTAAGCTCACAACTCTA-TAGC-ACTCTTT-TCAGCCCACAAGTTAGTGGCACCCTTT
1 TTC----AAAAGCCCACAAGTC-AGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTGGCACCCTTT
77639 TCAAAAGCCCACAAGTCAGTGGCATATTT
60 TCAAAAGCCCACAAGTCAGTGGCATATTT
* *
77668 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTTAGTGGCACCCTGTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
77733 GCCCACAAGTCAGTGGCATATTT
66 GCCCACAAGTCAGTGGCATATTT
*
77756 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAAGCCCACAAGTCAGTGGCAACC--TTC-AA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCACCCTTTTCAAA
* **
77818 AGCCCACAAATCAGTGGCACCCTTT
65 AGCCCACAAGTCAGTGGCA-TATTT
* * *
77843 TTC-GAAGCCCACAAATCGGTGGC-ACCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTT
77872 TCCATCTTTA
Statistics
Matches: 320, Mismatches: 46, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
85 6 0.02
86 62 0.19
87 49 0.15
88 109 0.34
89 26 0.08
91 24 0.08
92 24 0.08
93 4 0.01
94 15 0.05
95 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAA
GCCCACAAGTCAGTGGCATATTT
Found at i:77945 original size:43 final size:43
Alignment explanation
Indices: 77877--77966 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
77867 CCTTTTCCAT
*
77877 CTTTAAGTCCAATGTAGCCGACCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
* * *
77920 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
77963 CTTT
1 CTTT
77967 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCCGACCTTGAATCAGCACATTGGCAC
Found at i:77998 original size:52 final size:53
Alignment explanation
Indices: 77920--78057 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 53
77910 ACATTGGCAC
* *
77920 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* * *
77972 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCC-TTTTC-CAT
* * * * *
78027 CTTTAAGCCCCATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
78058 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 38 0.54
53 2 0.03
54 5 0.07
55 26 0.37
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:78923 original size:13 final size:13
Alignment explanation
Indices: 78905--78929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78895 CATAAAGTGT
78905 TGTATCGATACAA
1 TGTATCGATACAA
78918 TGTATCGATACA
1 TGTATCGATACA
78930 TGTTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:79010 original size:13 final size:13
Alignment explanation
Indices: 78992--79016 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78982 ATCACTTAAA
78992 TGTATCGATACAT
1 TGTATCGATACAT
79005 TGTATCGATACA
1 TGTATCGATACA
79017 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:79069 original size:52 final size:52
Alignment explanation
Indices: 79025--79205 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
79015 CACTGATCTT
79025 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
79077 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
79129 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
79181 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
79206 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:86808 original size:1 final size:1
Alignment explanation
Indices: 86802--86860 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
86792 TCCCACCTTT
** * * * * *
86802 AAAAAAAAACCAAAAAAAACAAAAAAAAACAAAAAAAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
86861 GGAGATAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:86818 original size:10 final size:9
Alignment explanation
Indices: 86803--86860 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
86793 CCCACCTTTA
86803 AAAAAAAACC
1 AAAAAAAA-C
86813 AAAAAAAAC
1 AAAAAAAAC
86822 AAAAAAAA-
1 AAAAAAAAC
*
86830 ACAAAAAA-
1 AAAAAAAAC
86838 AAAAAAAAC
1 AAAAAAAAC
* *
86847 AAAACAAAG
1 AAAAAAAAC
86856 AAAAA
1 AAAAA
86861 GGAGATAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
8 14 0.33
9 20 0.48
10 8 0.19
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:86825 original size:20 final size:18
Alignment explanation
Indices: 86802--86860 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 18
86792 TCCCACCTTT
*
86802 AAAAAAAAACCAAAAAAA
1 AAAAAAAAAACAAAAAAA
86820 ACAAAAAAAAACAAAAAAAA
1 A-AAAAAAAAAC-AAAAAAA
86840 AAAAAACAAAACAAAGAAAA
1 AAAAAA-AAAACAAA-AAAA
86860 A
1 A
86861 GGAGATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 1 0.03
19 17 0.47
20 18 0.50
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAAAAA
Found at i:86827 original size:19 final size:19
Alignment explanation
Indices: 86802--86860 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
86792 TCCCACCTTT
*
86802 AAAAAAAAACCAAAAAAAA
1 AAAAAAAAAACAAAAAAAA
*
86821 CAAAAAAAAACAAAAAAAA
1 AAAAAAAAAACAAAAAAAA
86840 AAAAAACAAAACAAAGAAAAA
1 AAAAAA-AAAACAAA-AAAAA
86861 GGAGATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 22 0.63
20 8 0.23
21 5 0.14
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAA
Found at i:86837 original size:30 final size:30
Alignment explanation
Indices: 86802--86860 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
86792 TCCCACCTTT
*
86802 AAAAAAAAACCAAAA-AAAACAAAAAAAAAC
1 AAAAAAAAA-AAAAACAAAACAAAAAAAAAC
*
86832 AAAAAAAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAACAAAACAAAAAAAAA
86861 GGAGATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (30 bp):
AAAAAAAAAAAAAACAAAACAAAAAAAAAC
Found at i:88116 original size:62 final size:62
Alignment explanation
Indices: 87937--88980 Score: 1180
Period size: 61 Copynumber: 17.1 Consensus size: 62
87927 GAGTAGGACG
* * * *
87937 CCTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTCCAGTCCTCATAGAGCAGGACGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
87997 -C----AAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
88052 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTATT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
88114 CCTTTTAAAGCCCACAGAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCCGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * ** *
88176 CTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGTGGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
88237 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTATTCCTCAAAGAGCGGGACGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * ** *
88298 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTTCTAAAAAATAAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
88360 GCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCT-TAAGAAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG-AGCAGGACGCCTTTT
* * * *
88421 CCTTTTGAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTCAAAGAGCAGGATGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
88483 CCTTTCAAAGCCTACACAAGTTGGTGGCAC-CTTCTAGTCCTTAAAGAGTAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * ** * *
88544 CCTTTTAAAGCCAACAGAAGTTGGTGGCACCCTT-TAATCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
88605 CCTTTTAAAGCCCACACGAGCTGGTGGCACCTTTT-TAGTCCTCAAAGAGTAGGACGCCGTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
88667 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCACAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * ** ** *
88729 -TTTTTCAAAGCCCACACAAGCTAATGGCACCCTT-TAGTCCTAAAAGAGCAGGACGCCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
88790 -TTTTTCGAAGCCTACATAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
88852 TCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTT-TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
88914 -CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTTCTCAAAGAGCATGATGCCATTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCC-TTTT
88976 -CTTTT
1 CCTTTT
88981 CTCCTTTGCC
Statistics
Matches: 842, Mismatches: 120, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
54 21 0.02
55 27 0.03
56 1 0.00
59 1 0.00
60 24 0.03
61 371 0.44
62 366 0.43
63 31 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:88221 original size:61 final size:61
Alignment explanation
Indices: 87912--88980 Score: 1156
Period size: 62 Copynumber: 17.6 Consensus size: 61
87902 CTCCTTTCAC
* *
87912 CCTT-TAGTCCTCAAAGAGTAGGACGCC-TTT-C----AAAGCCCACACAAGTCGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
87966 TTTTCCAGTCCTCATAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGCTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
88021 CCTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAATTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
88081 CTTTTCTAGTCCTCAAAGAGCAGGACGCCTATTCCTTTTAAAGCCCACAGAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
88143 TTTTTCTAGTCCTCAAAGAGCCGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
88205 CCTTCTAGTCCTCAAAGAGTGGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
88266 CCTTCTATTCCTCAAAGAGCGGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * ** * *
88327 CTTTTTTAGTTCTAAAAAATAAGGACGCTTTTTGCTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
88389 -CTTTTCAGTCCT-TAAGAAGCAAGACGCCTTTTCCTTTTGAAGCCCACACAAGTTGGTGGCA
1 CCTTCT-AGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
88450 CTTTTCTAGTCTTCAAAGAGCAGGATGCTTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
88512 CCTTCTAGTCCTTAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCAACAGAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
88573 CCCTT-TAATCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGCTGGTGGCA
1 -CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
88634 CCTTTTTAGTCCTCAAAGAGTAGGACGCCGTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * **
88696 CCTTTCTAGTCCACAAAGAGCAGGACACCTTTT-TTTTTCAAAGCCCACACAAGCTAATGGCA
1 CC-TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * *
88758 CCCTT-TAGTCCTAAAAGAGCAGGACGCCTTTT-TTTTTCGAAGCCTACATAAGTTGGTGGCA
1 -CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
88819 CCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CC-TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * *
88882 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * * * *
88943 CTTTTTAGTTCTCAAAGAGCATGATGCCATTTT-CTTTT
1 CCTTCTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTT
88981 CTCCTTTGCC
Statistics
Matches: 863, Mismatches: 125, Indels: 46
0.83 0.12 0.04
Matches are distributed among these distances:
54 23 0.03
55 51 0.06
56 1 0.00
60 32 0.04
61 360 0.42
62 363 0.42
63 33 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:88260 original size:123 final size:123
Alignment explanation
Indices: 87909--88963 Score: 1143
Period size: 123 Copynumber: 8.7 Consensus size: 123
87899 TATCTCCTTT
* * *
87909 CACCCTT-TAGTCCTCAAAGAGTAGGACGCC-TTT-C----AAAGCCCACACAAGTCGGTGGCAT
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * *
87967 TTTCCAGTCCTCATAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGCTGGTGG
66 CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*
88019 CA-CCTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAATTGGTGGCAC
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * *
88082 TTTTCTAGTCCTCAAAGAGCAGGACGCCTATTCCTTTTAAAGCCCACAGAAGTTGGTGG
66 -CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
*** * * *
88141 CATTTTTCTAGTCCTCAAAGAGCCGGACGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
**
88206 CTTCTAGTCCTCAAAGAGTGGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
66 CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
88264 CA-CCTTCTATTCCTCAAAGAGCGGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * * * ** * * *
88328 TTTTTTAGTTCTAAAAAATAAGGACGCTTTTTGCTTTTAAAGCCCACACAAGTTGGTGG
66 -CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
** * * *
88387 CACTTTTC-AGTCCT-TAAGAAGCAAGACGCCTTTTCCTTTTGAAGCCCACACAAGTTGGTGGCA
1 CACCCTTCTAGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** * * *
88450 CTTTTCTAGTCTTCAAAGAGCAGGATGCTTTTTCCTTTCAAAGCCTACACAAGTTGGTGG
65 C-CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
88510 CA-CCTTCTAGTCCTTAAAGAGTAAGACGCCTTTTCCTTTTAAAGCCAACAGAAGTTGGTGGCAC
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-
* * *
88574 CCTT-TAATCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGCTGGTGG
65 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
88632 CACCTTTTTAGTCCTCAAAGAGTAGGACGCCGTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
* * * **
88697 CTTTCTAGTCCACAAAGAGCAGGACACCTTTT-TTTTTCAAAGCCCACACAAGCTAATGG
66 C-TTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGG
* * * * *
88756 CACCCTT-TAGTCCTAAAAGAGCAGGACGCCTTTT-TTTTTCGAAGCCTACATAAGTTGGTGGCA
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
88819 CCTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTGCAAAGCCCACACAAGTTGGTGG
65 CC-TTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTT-TAAAGCCCACACAAGTTGGTGG
* * *
88880 CA-CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
88943 CTTTTTAGTTCTCAAAGAGCA
65 CCTTCTAGTCCTCAAAGAGCA
88964 TGATGCCATT
Statistics
Matches: 801, Mismatches: 114, Indels: 47
0.83 0.12 0.05
Matches are distributed among these distances:
109 25 0.03
110 5 0.01
111 1 0.00
115 21 0.03
116 25 0.03
117 2 0.00
118 1 0.00
122 134 0.17
123 406 0.51
124 181 0.23
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (123 bp):
CACCCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC
CTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:89207 original size:42 final size:41
Alignment explanation
Indices: 89093--89235 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 41
89083 TAAAATGCTT
* * * * *
89093 TTTTTTCCTTTGTCCTTAAAGAGCAGGACGCATTTCATTTCC
1 TTTTTTCCTTTGTCCTAAAAAAGCAAGACACATTTAATTT-C
* * *
89135 TTCTTTTCCCTTTTAGTTCTCAAATAGCAAGACACACTTT-ATTCTC
1 TT-TTTT-CC-TTT-GTCCTAAAAAAGCAAGACACA-TTTAATT-TC
89181 TTTTTTCCTTTGTCCTAAAAAAGCAAGACACATTTAATTTC
1 TTTTTTCCTTTGTCCTAAAAAAGCAAGACACATTTAATTTC
* *
89222 ATTTTTCCATTGTC
1 TTTTTTCCTTTGTC
89236 TTCAAAGGGC
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
41 17 0.20
42 23 0.27
43 7 0.08
44 4 0.05
45 7 0.08
46 22 0.26
47 4 0.05
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (41 bp):
TTTTTTCCTTTGTCCTAAAAAAGCAAGACACATTTAATTTC
Found at i:89941 original size:20 final size:20
Alignment explanation
Indices: 89916--89967 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
89906 TCACAATTTG
*
89916 TATCGATACATTATTCATTA
1 TATCGATACATTATCCATTA
* *
89936 TATCGATACATTGTCCATTG
1 TATCGATACATTATCCATTA
89956 TATCGATACATT
1 TATCGATACATT
89968 CTGGGTTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (20 bp):
TATCGATACATTATCCATTA
Found at i:92366 original size:50 final size:49
Alignment explanation
Indices: 92306--92479 Score: 226
Period size: 50 Copynumber: 3.5 Consensus size: 49
92296 TAAATTTCTA
*
92306 GATTTTTCATCTTGGGGATACTCCAATACCGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTTGGGGATACTCCAA-ACCGGTTTTATTTCTAAAATATT
*
92356 GATTTTTCATCTTGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATT
1 GATTTTTCATCTTGGGGATACTCCAA-ACCGGTTTTATTTCTAAAATATT
* *
92406 GATTTTTCATCTCGAGGATACTCC-AACCTTGGTTTTATTT-TCAAAATATT
1 GATTTTTCATCTTGGGGATACTCCAAACC--GGTTTTATTTCT-AAAATATT
* *
92456 AATTTTTCATAATTGGGGATACTC
1 GATTTTTCAT-CTTGGGGATACTC
92480 TAATCTCGTT
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
48 2 0.02
49 2 0.02
50 96 0.87
51 10 0.09
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (49 bp):
GATTTTTCATCTTGGGGATACTCCAAACCGGTTTTATTTCTAAAATATT
Found at i:92513 original size:79 final size:79
Alignment explanation
Indices: 92421--92796 Score: 330
Period size: 79 Copynumber: 4.7 Consensus size: 79
92411 TTCATCTCGA
* * * * *
92421 GGATACTCCAACCTTGGTTTTATTT-TCAAAATATTAATTTTTCATAATTGGGGATACTCTAATC
1 GGATACTCCAACCTTGATTTTATTTCT-AAAATATTGATTTTTCACAATCGGGGATACTCCAATC
* *
92485 TCGTTATTTTTGAAG
65 CCGTTATTTTCGAAG
* * * * * *
92500 GGATACTCAAACCTCGATTTTATTTCTAAGATATTGATTTCTCACAATCGGAGATACTCCAACCC
1 GGATACTCCAACCTTGATTTTATTTCTAAAATATTGATTTTTCACAATCGGGGATACTCCAATCC
* *
92565 CGTTATTTTGGTAG
66 CGTTATTTTCGAAG
** ** *
92579 GGATACTCCAACCTT-AGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAATC
1 GGATACTCCAACCTTGA-TTTTATTTCTAAAATATTGATTTTTCACAATCGGGGATACTCCAATC
* *
92643 CCGTTATCTTCGAGG
65 CCGTTATTTTCGAAG
* * * * * *
92658 GGATACTCCAACCCTGATTTTATTT-TCAAAACATCGA-TTTTCTATAATCAGGGATGCTCCAA-
1 GGATACTCCAACCTTGATTTTATTTCT-AAAATATTGATTTTTC-ACAATCGGGGATACTCCAAT
* *
92720 CCCTATTATTTTCGAGG
64 CCC-GTTATTTTCGAAG
* * * ** * *
92737 GGATACTCCAACCCTGATTTTATTTCTAGAACACCGACTTTCCACAATCAGGGGATACTC
1 GGATACTCCAACCTTGATTTTATTTCTAAAATATTGATTTTTCACAATC-GGGGATACTC
92797 TAGCCTCATT
Statistics
Matches: 244, Mismatches: 44, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
78 10 0.04
79 219 0.90
80 15 0.06
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (79 bp):
GGATACTCCAACCTTGATTTTATTTCTAAAATATTGATTTTTCACAATCGGGGATACTCCAATCC
CGTTATTTTCGAAG
Found at i:92760 original size:158 final size:157
Alignment explanation
Indices: 92421--92796 Score: 368
Period size: 158 Copynumber: 2.4 Consensus size: 157
92411 TTCATCTCGA
* * * * ** * * * *
92421 GGATACTCCAACCTTGGTTTTATTTTCAAAATATTAATTTTTCATAATTGGGGATACTCTAATCT
1 GGATACTCCAACCCTGATTTTA-TTTCTAAACATCGATTTTTCACAATCGGGGATACTCCAATCC
* * * * *
92486 CGTTATTTTTGAAGGGATACTCAAACCTCGATTTTATTTCTAAGATATTGATTTCTCACAATCGG
65 CGTTATCTTCGAAGGGATACTCAAACCTCGATTTTATTTCTAAAACATCGATTTCTCACAATCGG
* *
92551 AGATACTCCAACCCCGTTATTTTGGTAG
130 AGATACTCCAACCCCATTATTTTCGTAG
* **
92579 GGATACTCCAA-CCTTAGCCTTATTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAATC
1 GGATACTCCAACCCTGA-TTTTATTTCTAAA-CATCGATTTTTCACAATCGGGGATACTCCAATC
* * *
92643 CCGTTATCTTCGAGGGGATACTCCAACC-CTGATTTTATTT-TCAAAACATCGATTT-TCTATAA
64 CCGTTATCTTCGAAGGGATACTCAAACCTC-GATTTTATTTCT-AAAACATCGATTTCTC-ACAA
* *
92705 TCAGG-GATGCTCCAACCCTATTATTTTCG-AGG
126 TC-GGAGATACTCCAACCCCATTATTTTCGTA-G
* * *
92737 GGATACTCCAACCCTGATTTTATTTCTAGAACACCGACTTTCCACAATCAGGGGATACTC
1 GGATACTCCAACCCTGATTTTATTTCTA-AACATCGATTTTTCACAATC-GGGGATACTC
92797 TAGCCTCATT
Statistics
Matches: 177, Mismatches: 31, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
157 14 0.08
158 145 0.82
159 18 0.10
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (157 bp):
GGATACTCCAACCCTGATTTTATTTCTAAACATCGATTTTTCACAATCGGGGATACTCCAATCCC
GTTATCTTCGAAGGGATACTCAAACCTCGATTTTATTTCTAAAACATCGATTTCTCACAATCGGA
GATACTCCAACCCCATTATTTTCGTAG
Found at i:96649 original size:13 final size:13
Alignment explanation
Indices: 96631--96661 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
96621 ACATTTCTTC
96631 ATGTATCGATACA
1 ATGTATCGATACA
96644 ATGTATCGATACA
1 ATGTATCGATACA
*
96657 TTGTA
1 ATGTA
96662 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:96649 original size:33 final size:33
Alignment explanation
Indices: 96611--96677 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
96601 GTTACAAGCT
96611 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
96644 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
96677 A
1 A
96678 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:97314 original size:17 final size:17
Alignment explanation
Indices: 97292--97366 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 17
97282 GTTTTCATTT
97292 TTCTCCC-CTTAAAAGAA
1 TTCTCCCTCTTAAAA-AA
97309 TTCTCCCTCTTAAACAATTA
1 TTCTCCCTCTTAAA-AA--A
97329 TCTTCTCCC-CTTTAAAAAA
1 --TTCTCCCTC-TTAAAAAA
*
97348 TTCTCCCTCTTAAACAA
1 TTCTCCCTCTTAAAAAA
97365 TT
1 TT
97367 ATCTTCTCCC
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
17 23 0.47
18 8 0.16
19 2 0.04
20 1 0.02
21 3 0.06
22 12 0.24
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.37
Consensus pattern (17 bp):
TTCTCCCTCTTAAAAAA
Found at i:97337 original size:22 final size:22
Alignment explanation
Indices: 97309--97376 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
97299 CTTAAAAGAA
97309 TTCTCCCTCTTAAACAATTATC
1 TTCTCCCTCTTAAACAATTATC
97331 TTCTCCC-CTTTAAA-AA--A--
1 TTCTCCCTC-TTAAACAATTATC
97348 TTCTCCCTCTTAAACAATTATC
1 TTCTCCCTCTTAAACAATTATC
97370 TTCTCCC
1 TTCTCCC
97377 CCTTTTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
17 12 0.31
18 3 0.08
19 1 0.03
20 1 0.03
21 3 0.08
22 19 0.49
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCTCCCTCTTAAACAATTATC
Found at i:97350 original size:39 final size:39
Alignment explanation
Indices: 97292--97377 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
97282 GTTTTCATTT
97292 TTCTCCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
1 TTCTCCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
97331 TTCTCCCCTTTAAAA-AATTCTCCCTCTTAAACAATTATC
1 TTCTCCCC-TTAAAAGAATTCTCCCTCTTAAACAATTATC
97370 TTCTCCCC
1 TTCTCCCC
97378 CTTTTGTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 40 0.87
40 6 0.13
ACGTcount: A:0.28, C:0.34, G:0.01, T:0.37
Consensus pattern (39 bp):
TTCTCCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
Found at i:99147 original size:13 final size:13
Alignment explanation
Indices: 99129--99157 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
99119 AAATAGTACC
99129 CAATGTATCGATA
1 CAATGTATCGATA
99142 CAATGTATCGATA
1 CAATGTATCGATA
99155 CAA
1 CAA
99158 GGAATATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:105400 original size:21 final size:20
Alignment explanation
Indices: 105374--105429 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
105364 CTACCAGTTT
**
105374 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
105395 CATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
105414 CATGTATCGATACAAT
1 CATGTATCGATACAAT
105430 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:105433 original size:13 final size:13
Alignment explanation
Indices: 105415--105441 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
105405 TACAATGAAC
105415 ATGTATCGATACA
1 ATGTATCGATACA
105428 ATGTATCGATACA
1 ATGTATCGATACA
105441 A
1 A
105442 AGCAGCATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:105456 original size:33 final size:32
Alignment explanation
Indices: 105396--105460 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
105386 CAATTTGTCC
*
105396 ATGTATCAATACAATGAACATGTATCGATACA
1 ATGTATCAATACAAAGAACATGTATCGATACA
* *
105428 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCAATACAAAG-AACATGTATCGATACA
105461 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (32 bp):
ATGTATCAATACAAAGAACATGTATCGATACA
Found at i:109180 original size:20 final size:20
Alignment explanation
Indices: 109155--109367 Score: 113
Period size: 20 Copynumber: 9.7 Consensus size: 20
109145 TTTTAACTAG
109155 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
109175 ATGTATCGATACATTTGGAAAAAAAAGA
1 ATGTATCGATACA-TT-G-----AAA-A
* *
109203 ATGCATCGATACATT-ACAGA
1 ATGTATCGATACATTGA-AAA
* * * *
109223 ATGTATCGATACAGTCATAC
1 ATGTATCGATACATTGAAAA
109243 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* *
109263 ATATATCGATGCATCTGGGTAAAAAGATAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
109294 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
109314 ATGTATCGATGCATTCATAC
1 ATGTATCGATACATTGAAAA
*
109334 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
109354 ATGTATCGATACAT
1 ATGTATCGATACAT
109368 CTGGGTAAAA
Statistics
Matches: 145, Mismatches: 27, Indels: 42
0.68 0.13 0.20
Matches are distributed among these distances:
20 100 0.69
21 5 0.03
22 2 0.01
23 2 0.01
27 5 0.03
28 15 0.10
29 1 0.01
30 2 0.01
31 13 0.09
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:109332 original size:91 final size:90
Alignment explanation
Indices: 109155--109378 Score: 337
Period size: 91 Copynumber: 2.5 Consensus size: 90
109145 TTTTAACTAG
*
109155 ATGTATCGATACATTGAAAAATGTATCGATACAT-TTGG-AAAAAAAAGAATGCATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAAGAATGCATCGATACATT
109218 ACAGAATGTATCGATACAGTCATAC
66 ACAGAATGTATCGATACAGTCATAC
* * * *
109243 ATGTATCGATACATTGAAAAATATATCGATGCATCTGGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA-AAAGAATGCATCGATACAT
* *
109308 TGA-AGAATGTATCGATGCATTCATAC
65 T-ACAGAATGTATCGATACAGTCATAC
*
109334 ATGTATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
109379 TGTGGCTTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
88 32 0.26
89 3 0.02
90 5 0.04
91 81 0.66
92 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAAGAATGCATCGATACATT
ACAGAATGTATCGATACAGTCATAC
Done.