Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 77 of 410
Found at i:22055444 original size:31 final size:30
Alignment explanation
Indices: 22055400--22055498 Score: 109
Period size: 31 Copynumber: 3.4 Consensus size: 30
22055390 AATTAGGTAG
*
22055400 CAGAATCAAAATCAGTATCAGGTAAGAGAAT
1 CAGAATCAGAATCAGTATCAGGTAA-AGAAT
* * *
22055431 CAGAACCAGAATCAGAATTAGGT----AA-
1 CAGAATCAGAATCAGTATCAGGTAAAGAAT
22055456 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAA-AGAAT
22055487 CAGAATCAGAAT
1 CAGAATCAGAAT
22055499 GTGTATGCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
25 20 0.36
26 2 0.04
30 2 0.04
31 31 0.56
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.18
Consensus pattern (30 bp):
CAGAATCAGAATCAGTATCAGGTAAAGAAT
Found at i:22055469 original size:56 final size:56
Alignment explanation
Indices: 22055388--22055498 Score: 186
Period size: 56 Copynumber: 2.0 Consensus size: 56
22055378 AAATCAAAAT
* *
22055388 AGAATTAGGTAGCAGAATCAAAATCAGTATCAGGTAAGAGAATCAGAACCAGAATC
1 AGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAACAGAATCAGAACCAGAATC
* *
22055444 AGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAACAGAATCAGAACCAGAAT
22055499 GTGTATGCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.19
Consensus pattern (56 bp):
AGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAACAGAATCAGAACCAGAATC
Found at i:22056933 original size:71 final size:71
Alignment explanation
Indices: 22056849--22057012 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22056839 CGATTTGTCT
22056849 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22056914 CTTTCA
66 CTTTCA
22056920 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
22056985 CTTTCA
66 CTTTCA
22056991 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
22057013 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:22057050 original size:71 final size:70
Alignment explanation
Indices: 22056849--22057046 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
22056839 CGATTTGTCT
* * * *
22056849 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
22056914 CTTTCA
65 CTTTCA
* * * *
22056920 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
22056985 CTTTCA
65 CTTTCA
* *
22056991 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
22057047 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:22060913 original size:81 final size:80
Alignment explanation
Indices: 22060785--22060968 Score: 255
Period size: 81 Copynumber: 2.3 Consensus size: 80
22060775 TAAAATGGTA
* * * *
22060785 ATTT-TACCCCACAAGGGTATCTCTGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCT-CCCT
*
22060849 ACAGGGGTATTTTGAT
65 ACAGGGGTATTTCGAT
* *
22060865 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTTAGTAATTCTCCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGAGTATTTCAGTAATTCTCCCT
*
22060929 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGAT
*
22060945 ATTTCTACCCTACAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTC
22060969 AGTATTTCGG
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 44 0.48
81 45 0.49
82 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTCCCTA
CAGGGGTATTTCGAT
Found at i:22060976 original size:27 final size:27
Alignment explanation
Indices: 22060782--22060972 Score: 215
Period size: 27 Copynumber: 7.1 Consensus size: 27
22060772 GGGTAAAATG
* * * * *
22060782 GTAATTTTACCCCACAAGGGTATCTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
22060809 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22060836 GTAATTCTACCCTACAGGGGTATTT-T
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
22060862 GATATTTCTACCTTACAAGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
22060890 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22060917 GTAATTCT-CCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
22060943 GTATTTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
22060970 GTA
1 GTA
22060973 TTTCGGTATT
Statistics
Matches: 138, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
26 23 0.17
27 114 0.83
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:22060976 original size:35 final size:35
Alignment explanation
Indices: 22060935--22061002 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
22060925 CCCTACAGGG
22060935 GTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
1 GTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
*
22060970 GTATTTCGGTATTTCTACCCTATAGGGGTATTT
1 GTATTTCGGTATTTCTACCCTACAGGGGTATTT
22061003 TGGTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.43
Consensus pattern (35 bp):
GTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
Found at i:22061001 original size:19 final size:19
Alignment explanation
Indices: 22060942--22061002 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
22060932 GGGGTATTTC
*
22060942 GGTATTTCTACCCTACAGG
1 GGTATTTCTACCCTATAGG
* ***
22060961 GGTATTTC-A--GTATTTC
1 GGTATTTCTACCCTATAGG
22060977 GGTATTTCTACCCTATAGG
1 GGTATTTCTACCCTATAGG
22060996 GGTATTT
1 GGTATTT
22061003 TGGTAATTTT
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
16 10 0.33
17 1 0.03
18 1 0.03
19 18 0.60
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (19 bp):
GGTATTTCTACCCTATAGG
Found at i:22061078 original size:27 final size:26
Alignment explanation
Indices: 22060995--22061307 Score: 168
Period size: 27 Copynumber: 11.7 Consensus size: 26
22060985 TACCCTATAG
22060995 GGGTATTTTGGTAATTTTGTA-AATCGA
1 GGGTATTTTGGTAA-TTT-TACAATCGA
**** *
22061022 GGGTAAAACGGTAATTCTGTA-AATCAA
1 GGGTATTTTGGTAATT-T-TACAATCGA
*
22061049 GGGTACTTTGGTAATTTTACAATTCGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
*** *
22061076 GGGTATTTCAATAA-TTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
** * *
22061102 GGGTATTTCAGTAATTTCACAAAT-TA
1 GGGTATTTTGGTAATTTTAC-AATCGA
* * *
22061128 GGGGTATTTTGGTAATTTCACAAACTA
1 -GGGTATTTTGGTAATTTTACAATCGA
* * *
22061155 GGGGTATTTTGATAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAATCGA
* * *
22061182 GGGGTATTTTGGTAATTTTATAAACAA
1 -GGGTATTTTGGTAATTTTACAATCGA
* * * * *
22061209 TGGGTATATTAGTAATTTTATAAACTA
1 -GGGTATTTTGGTAATTTTACAATCGA
* *
22061236 GGGGTATTTTGGTAATTTTGTA-AACCAA
1 -GGGTATTTTGGTAA-TTT-TACAATCGA
* *
22061264 GGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAATCGA
22061290 GGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTT
22061308 GGTAAACTAA
Statistics
Matches: 235, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.02
26 38 0.16
27 183 0.78
28 8 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:22061314 original size:27 final size:27
Alignment explanation
Indices: 22061127--22061307 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
22061117 TTCACAAATT
* * *
22061127 AGGGGTATTTTGGTAATTTCACAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
22061154 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
22061181 AGGGGTATTTTGGTAATTTTATAAACA
1 AGGGGTATTTTGGTAATTTTATAAACC
* * * *
22061208 ATGGGTATATTAGTAATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
*
22061235 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
22061262 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
22061289 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
22061308 GGTAAACTAA
Statistics
Matches: 135, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACC
Found at i:22061314 original size:54 final size:54
Alignment explanation
Indices: 22061101--22061307 Score: 265
Period size: 54 Copynumber: 3.8 Consensus size: 54
22061091 TTACAGGTCG
* * ** * * *
22061101 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
22061155 GGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAA-CA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* * * *
22061208 ATGGGTATATTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
22061263 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
22061308 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.02
54 126 0.95
55 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:22061314 original size:81 final size:81
Alignment explanation
Indices: 22061101--22061316 Score: 270
Period size: 81 Copynumber: 2.7 Consensus size: 81
22061091 TTACAGGTCG
** * ** *
22061101 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGGTAATTTCATAAACTAGGGGTATTTTG
22061166 ATAATTTTACAAACCA
66 ATAATTTTACAAACCA
* * * * * *
22061182 GGGGTATTTTGGTAATTTTATAAACAATGGGTATATTAGTAATTTTATAAACTAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGGTAATTTCATAAACTAGGGGTATTTTG
* **
22061247 GTAATTTTGTAAACCA
66 ATAATTTTACAAACCA
* **
22061263 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTA
1 AGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGGTAATTTCATAAACTA
22061317 AAGTATTCTA
Statistics
Matches: 112, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGGTAATTTCATAAACTAGGGGTATTTTG
ATAATTTTACAAACCA
Found at i:22061499 original size:17 final size:17
Alignment explanation
Indices: 22061479--22061521 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
22061469 AACTTATCCA
22061479 ATTGGGCCCGTAGGCCT
1 ATTGGGCCCGTAGGCCT
22061496 ATTGGGCCCGTAGGCCT
1 ATTGGGCCCGTAGGCCT
22061513 ATTGGGCCC
1 ATTGGGCCC
22061522 ACATGGCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.30, G:0.35, T:0.23
Consensus pattern (17 bp):
ATTGGGCCCGTAGGCCT
Found at i:22071465 original size:30 final size:30
Alignment explanation
Indices: 22071429--22071529 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
22071419 GACAAGATTG
* * *
22071429 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
22071459 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
22071487 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
22071516 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
22071530 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:22071541 original size:29 final size:28
Alignment explanation
Indices: 22071458--22071533 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
22071448 AAAATTGTAC
* *
22071458 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
22071486 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
22071515 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
22071534 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:22076342 original size:29 final size:29
Alignment explanation
Indices: 22076309--22076411 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
22076299 CCTCCGAACT
** * * *
22076309 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
22076338 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
22076367 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
22076396 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
22076412 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:22084279 original size:29 final size:29
Alignment explanation
Indices: 22084238--22084339 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
22084228 CCCTCCGACT
** * * *
22084238 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
22084267 TGCACACTTAGTG-CAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
22084295 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
22084324 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
22084340 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 23 0.37
29 40 0.63
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:22088058 original size:49 final size:49
Alignment explanation
Indices: 22088002--22088216 Score: 367
Period size: 49 Copynumber: 4.4 Consensus size: 49
22087992 TACATATATG
* * *
22088002 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
22088051 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
22088100 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
22088149 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
22088198 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
22088217 TAATGTAAAA
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 160 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:22088368 original size:37 final size:37
Alignment explanation
Indices: 22088318--22088439 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
22088308 GGAATATGTT
*
22088318 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
22088355 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
22088392 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
22088429 CCGGGTAAGAC
1 CCGGGTAAGAC
22088440 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:22090534 original size:29 final size:29
Alignment explanation
Indices: 22090492--22090655 Score: 301
Period size: 29 Copynumber: 5.7 Consensus size: 29
22090482 GCGAATGATT
22090492 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
22090521 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
22090550 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
22090579 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
22090608 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
22090637 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
22090656 TTTTTCAACA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 133 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:22091237 original size:40 final size:41
Alignment explanation
Indices: 22091139--22091237 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
22091129 TTCGAATGGT
* ** * *
22091139 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
22091180 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
22091221 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
22091238 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:22094015 original size:49 final size:49
Alignment explanation
Indices: 22093959--22094222 Score: 465
Period size: 49 Copynumber: 5.4 Consensus size: 49
22093949 TACATATATG
* * * *
22093959 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
22094008 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
22094057 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
22094106 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
22094155 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
22094204 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
22094223 TAATGTAAAA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:22094374 original size:37 final size:37
Alignment explanation
Indices: 22094324--22094408 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
22094314 GGAATATGTT
*
22094324 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
22094361 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
22094398 CCGGGTAAGAC
1 CCGGGTAAGAC
22094409 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:22096165 original size:27 final size:28
Alignment explanation
Indices: 22096110--22096178 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
22096100 AATTTGTACT
22096110 GCACTAAGTGTGCGAGTTTGATCATATA
1 GCACTAAGTGTGCGAGTTTGATCATATA
*
22096138 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATCATATA
*
22096165 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
22096179 GACTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATCATATA
Found at i:22096189 original size:27 final size:27
Alignment explanation
Indices: 22096110--22096190 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
22096100 AATTTGTACT
* *
22096110 GCACTAAGTGTGCGAGTTTGA-TCATATA
1 GCACTAAGTGTGCGAG-CTCACT-ATATA
* * *
22096138 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCACTATATA
*
22096165 GCACTGAGTGTGCG-GACTCACTATAT
1 GCACTAAGTGTGCGAG-CTCACTATAT
22096191 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCACTATATA
Found at i:22101469 original size:40 final size:40
Alignment explanation
Indices: 22101424--22101627 Score: 239
Period size: 40 Copynumber: 5.1 Consensus size: 40
22101414 CGGAATTTCG
* * * *
22101424 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
22101464 CCGGATTTGGTAACTTGCACAAATACCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
22101504 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
22101544 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
22101584 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
22101624 CCGG
1 CCGG
22101628 GTATCATTCA
Statistics
Matches: 139, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 138 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:22106295 original size:67 final size:65
Alignment explanation
Indices: 22106089--22106271 Score: 180
Period size: 63 Copynumber: 2.8 Consensus size: 65
22106079 ATATAGTTCG
* * * * * * *
22106089 GCTCTCTTGTAC-ACATGGTG-AACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCG
1 GCTCTCTTGT-CTACATGGTGCTACACATAGAACCACGCATGCGACCTAGCTACA-TATATCCCG
22106150 TA
64 TA
* * *
22106152 GCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG--CTACACATAGAACCACGCATGCGACCTAGCTACATATATCCCG
22106217 TA
64 TA
* *
22106219 GCTCTCTTGTCTACATGGTG-TACACATAGTATCAC-CATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACGCATGCGACCTAGCTACAT
22106272 CATAATGTCT
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
62 1 0.01
63 36 0.36
64 10 0.10
66 23 0.23
67 29 0.29
68 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGCTACACATAGAACCACGCATGCGACCTAGCTACATATATCCCGTA
Found at i:22107039 original size:30 final size:30
Alignment explanation
Indices: 22107005--22107065 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22106995 TCCTTAACTC
22107005 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22107035 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22107065 A
1 A
22107066 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22120081 original size:42 final size:42
Alignment explanation
Indices: 22120033--22120146 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
22120023 ACTAAGACTA
*
22120033 TGTGTAAGGCCATATCTGGGATATGGCATC-ATTATGACATTT
1 TGTGTAAGACCATATCTGGGATATGGCATCGA-TATGACATTT
* * *
22120075 TGTGTAAGACCATAGT-TGGGCTATTGCCATCGATATGAGATTT
1 TGTGTAAGACCATA-TCTGGGATA-TGGCATCGATATGACATTT
**
22120118 CATGTAAGACCATATCTGGGATATGGCAT
1 TGTGTAAGACCATATCTGGGATATGGCAT
22120147 TAGTATGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 25 0.42
43 34 0.57
44 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTGTAAGACCATATCTGGGATATGGCATCGATATGACATTT
Found at i:22125941 original size:30 final size:30
Alignment explanation
Indices: 22125907--22125964 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
22125897 CTTGACATTT
22125907 CCACACGGGCTGGCCACACACCCATGTGAG
1 CCACACGGGCTGGCCACACACCCATGTGAG
* *
22125937 CCACACGGGCTGGCCACACGCCTATGTG
1 CCACACGGGCTGGCCACACACCCATGTG
22125965 CCAGCTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.21, C:0.40, G:0.28, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGGCCACACACCCATGTGAG
Found at i:22136187 original size:13 final size:13
Alignment explanation
Indices: 22136169--22136203 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
22136159 AAGGACACGC
*
22136169 CCGTGTATCCAGG
1 CCGTGTAACCAGG
22136182 CCGTGTAACCAGG
1 CCGTGTAACCAGG
22136195 CCGTGTAAC
1 CCGTGTAAC
22136204 ACACTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.20, C:0.31, G:0.29, T:0.20
Consensus pattern (13 bp):
CCGTGTAACCAGG
Found at i:22139740 original size:29 final size:29
Alignment explanation
Indices: 22139701--22139780 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
22139691 CTTAATAATC
*
22139701 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22139731 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
22139760 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
22139781 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22147643 original size:29 final size:29
Alignment explanation
Indices: 22147604--22147683 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
22147594 CTTAATAATC
*
22147604 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
22147634 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
22147663 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
22147684 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:22151807 original size:41 final size:41
Alignment explanation
Indices: 22151762--22151879 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22151752 TGAAAGATAA
22151762 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22151803 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22151833 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22151874 ATGTAG
1 ATGTAG
22151880 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22151818 original size:71 final size:71
Alignment explanation
Indices: 22151730--22151893 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22151720 GAGATGTATC
22151730 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22151795 AGGACA
66 AGGACA
22151801 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22151866 AGGACA
66 AGGACA
22151872 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22151894 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22158919 original size:71 final size:71
Alignment explanation
Indices: 22158831--22158994 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
22158821 GAGATGTATC
22158831 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22158896 AGGACA
66 AGGACA
*
22158902 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCGAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22158967 AGGACA
66 AGGACA
*
22158973 CCATATAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22158995 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22166921 original size:5 final size:5
Alignment explanation
Indices: 22166907--22167025 Score: 52
Period size: 5 Copynumber: 22.8 Consensus size: 5
22166897 ATCACCCCAT
* *
22166907 TTTTA TTTTA CTTTA TTTTA TTTTA TGTTA -TTTA TTATTTA TTTTA CTATTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA -T-TTTA
* * *
22166959 TTTT- TCTT- TTTTA TTTT- TTATTA TTCTTA TACTTATA TTTTAA ATTAA
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA T--TT-TA TTTT-A TTTTA
22167007 TTTTAA TTTT- TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTT
22167026 TTTAACTATT
Statistics
Matches: 89, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
4 18 0.20
5 41 0.46
6 18 0.20
7 8 0.09
8 4 0.04
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:22167139 original size:31 final size:31
Alignment explanation
Indices: 22167074--22167131 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
22167064 TTATTATTTT
**
22167074 TTTTGTTTTATTTTTTTATATTTCTTTTTAA
1 TTTTGTTTTATTGCTTTATATTTCTTTTTAA
22167105 TTTTGTTTTAGTTGCTTTAT-TTT-TTTT
1 TTTTGTTTTA-TTGCTTTATATTTCTTTT
22167132 ATTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.17
31 13 0.54
32 7 0.29
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (31 bp):
TTTTGTTTTATTGCTTTATATTTCTTTTTAA
Found at i:22168089 original size:16 final size:15
Alignment explanation
Indices: 22168068--22168097 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22168058 TTATTCTCAA
22168068 AAAAAAAAGGAAAAAG
1 AAAAAAAA-GAAAAAG
22168084 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
22168098 TATTTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:22170729 original size:25 final size:25
Alignment explanation
Indices: 22170701--22170760 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
22170691 GGTCTTTTTA
*
22170701 TTAAAAATTTCATCAATTTCTACTC
1 TTAAAAATTACATCAATTTCTACTC
22170726 TTAAAAATTACATCAATTTCTACTC
1 TTAAAAATTACATCAATTTCTACTC
*
22170751 GTAAAAATTA
1 TTAAAAATTA
22170761 TTCCATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAAAATTACATCAATTTCTACTC
Found at i:22177269 original size:43 final size:43
Alignment explanation
Indices: 22177186--22177269 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
22177176 AGTAAATTAA
* * * **
22177186 ATAACGATGCCAATGTCCCTGACATGGTCTTACATGTAATCGC
1 ATAACGATGCCAATGTCCCAGACATGGCCGTACACATAATCGC
* *
22177229 ATAATGATGCCAATGTCCCAGTCATGGCCGTACACATAATC
1 ATAACGATGCCAATGTCCCAGACATGGCCGTACACATAATC
22177270 ACATCTTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATAACGATGCCAATGTCCCAGACATGGCCGTACACATAATCGC
Found at i:22185673 original size:68 final size:70
Alignment explanation
Indices: 22185601--22185798 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
22185591 ACACCCTGTA
* * * *
22185601 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22185663 ATAAAT
65 ATAAAT
*
22185669 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
22185734 ATAAAT
65 ATAAAT
*
22185740 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
22185799 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22185712 original size:41 final size:41
Alignment explanation
Indices: 22185667--22185784 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22185657 TGAAAGATAA
22185667 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22185708 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22185738 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22185779 ATGTAG
1 ATGTAG
22185785 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22185724 original size:71 final size:71
Alignment explanation
Indices: 22185635--22185798 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22185625 GAGATGTATC
22185635 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22185700 AGGACA
66 AGGACA
22185706 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22185771 AGGACA
66 AGGACA
22185777 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22185799 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22193244 original size:68 final size:70
Alignment explanation
Indices: 22193172--22193369 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
22193162 ACACCCTGTA
* * * *
22193172 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
22193234 ATAAAT
65 ATAAAT
*
22193240 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
22193305 ATAAAT
65 ATAAAT
*
22193311 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
22193370 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:22193283 original size:41 final size:41
Alignment explanation
Indices: 22193238--22193355 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
22193228 TGAAAGATAA
22193238 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
22193279 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22193309 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
22193350 ATGTAG
1 ATGTAG
22193356 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:22193295 original size:71 final size:71
Alignment explanation
Indices: 22193206--22193369 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
22193196 GAGATGTATC
22193206 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22193271 AGGACA
66 AGGACA
22193277 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
22193342 AGGACA
66 AGGACA
22193348 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
22193370 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:22196641 original size:30 final size:30
Alignment explanation
Indices: 22196605--22196664 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22196595 TTCCCGAGCC
*
22196605 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
22196635 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
22196665 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:22204571 original size:47 final size:45
Alignment explanation
Indices: 22204502--22204619 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 45
22204492 TGAGTTCGAA
* *
22204502 CTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTGATGATGCGAA-T--GC--CCGAG
*
22204549 CTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTGATGATGCGAATGCCCGAG
22204594 CTCGTTGAGTTGAGTCCGAGTTCACT
1 CTCGTTGAGTTGAGTCCGAGTTCACT
22204620 TATGGGCAGG
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
45 31 0.48
47 25 0.38
48 2 0.03
49 5 0.08
50 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTGATGATGCGAATGCCCGAG
Found at i:22208132 original size:18 final size:19
Alignment explanation
Indices: 22208096--22208133 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22208086 AAACGTGATA
* *
22208096 TTTTGAAAAATAATTATTG
1 TTTTGAAAAAGAATAATTG
22208115 TTTTGAAAAAGAA-AATTG
1 TTTTGAAAAAGAATAATTG
22208133 T
1 T
22208134 GTTCTACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
TTTTGAAAAAGAATAATTG
Found at i:22208773 original size:22 final size:22
Alignment explanation
Indices: 22208734--22208802 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
22208724 AAGTTAACAA
* *
22208734 GACAGCTCAACGTTGTAGATAG
1 GACAGCTCAACATCGTAGATAG
*
22208756 GACAGCTCAACAACGTAGATAG
1 GACAGCTCAACATCGTAGATAG
* *
22208778 GAGTAG-TCAACATCGTAGACAG
1 GA-CAGCTCAACATCGTAGATAG
22208800 GAC
1 GAC
22208803 GGCTAAAGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 37 0.95
23 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.17
Consensus pattern (22 bp):
GACAGCTCAACATCGTAGATAG
Found at i:22212016 original size:2 final size:2
Alignment explanation
Indices: 22212009--22212033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22211999 GAGACTAGTC
22212009 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 A
22212034 CATGTCATGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22212982 original size:30 final size:30
Alignment explanation
Indices: 22212946--22213006 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
22212936 GTTTATAACC
22212946 TTACCACATCCTGGTCACTTAATGAACACA
1 TTACCACATCCTGGTCACTTAATGAACACA
22212976 TTACCACATCCTGGTCACTTAATGAACACA
1 TTACCACATCCTGGTCACTTAATGAACACA
22213006 T
1 T
22213007 CATTCACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.28
Consensus pattern (30 bp):
TTACCACATCCTGGTCACTTAATGAACACA
Found at i:22214095 original size:30 final size:30
Alignment explanation
Indices: 22214061--22214121 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
22214051 TCCTTAACTC
22214061 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
22214091 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
22214121 A
1 A
22214122 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:22215142 original size:55 final size:56
Alignment explanation
Indices: 22215077--22215191 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
22215067 AGCATGGCTG
* * *
22215077 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
22215133 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
22215188 CCAG
1 CCAG
22215192 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:22215188 original size:28 final size:27
Alignment explanation
Indices: 22215102--22215191 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
22215092 GTGACAGAGT
*
22215102 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
22215131 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
22215158 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
22215186 CACCAG
1 CACCAG
22215192 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:22215340 original size:28 final size:28
Alignment explanation
Indices: 22215300--22215361 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
22215290 TTAACCCTAG
*
22215300 GGGTATAAAGGTCATTTTGCATACATAC
1 GGGTATAAAGGTCATTTTGCATACACAC
* *
22215328 GGGTATAATGGTCATTTTGCATACACAG
1 GGGTATAAAGGTCATTTTGCATACACAC
22215356 GGGTAT
1 GGGTAT
22215362 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
GGGTATAAAGGTCATTTTGCATACACAC
Found at i:22219953 original size:22 final size:22
Alignment explanation
Indices: 22219925--22219971 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
22219915 ATCTTGGAAA
22219925 CAGTTCTAACCTTATCCACTGT
1 CAGTTCTAACCTTATCCACTGT
22219947 CAGTTCTAACCTTATCCACTGT
1 CAGTTCTAACCTTATCCACTGT
22219969 CAG
1 CAG
22219972 CCCCTCTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (22 bp):
CAGTTCTAACCTTATCCACTGT
Found at i:22223025 original size:27 final size:28
Alignment explanation
Indices: 22222960--22223029 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
22222950 GTGACAGAGT
** *
22222960 CACCAGATACAGATATTTTGTGCCAGTGC
1 CACCAGA-ACAGATATTACGTGCCAGGGC
* *
22222989 CACCATAACAGATA-TACGTGGCAGGGC
1 CACCAGAACAGATATTACGTGCCAGGGC
22223016 CACCAGAACAGATA
1 CACCAGAACAGATA
22223030 ATTTGTGGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 22 0.63
28 7 0.20
29 6 0.17
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATATTACGTGCCAGGGC
Found at i:22223046 original size:28 final size:27
Alignment explanation
Indices: 22222960--22223049 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 27
22222950 GTGACAGAGT
* *
22222960 CACCAGATACAGATATTTTGTGCCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
22222989 CACCATAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
22223016 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
22223044 CACCAG
1 CACCAG
22223050 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 21 0.43
28 22 0.45
29 6 0.12
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:22223202 original size:28 final size:28
Alignment explanation
Indices: 22223158--22223219 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
22223148 TTAACCCTAG
*
22223158 GGGTATAAAGGTCATTTTGCATACATAC
1 GGGTATAAAGGTAATTTTGCATACATAC
* *
22223186 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAC
22223214 GGGTAT
1 GGGTAT
22223220 TCTAGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.34
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCATACATAC
Found at i:22225859 original size:17 final size:18
Alignment explanation
Indices: 22225834--22225867 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22225824 AAATTCATTC
22225834 TCTTGTAAAACATTATTA
1 TCTTGTAAAACATTATTA
*
22225852 TCTT-TAAAACTTTATT
1 TCTTGTAAAACATTATT
22225868 TGTTGTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (18 bp):
TCTTGTAAAACATTATTA
Found at i:22226591 original size:22 final size:22
Alignment explanation
Indices: 22226566--22226622 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
22226556 CAATAGGATG
*
22226566 GCTCAATGCTGTAGACAGGACA
1 GCTCAATGCTGTAGACAAGACA
*
22226588 GCTCAATG-TCGTAGACAAGACG
1 GCTCAATGCT-GTAGACAAGACA
*
22226610 GCTAAATGCTGTA
1 GCTCAATGCTGTA
22226623 AATATTGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
GCTCAATGCTGTAGACAAGACA
Found at i:22228408 original size:43 final size:42
Alignment explanation
Indices: 22228321--22228487 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 42
22228311 AGCTCTTACA
* * * * ** *
22228321 ATGCCATATCCCAGATATAGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACG
*
22228363 ATGCCGATAG-CCCAG-CTATGGTCTTACACGAAATCAAATAACG
1 ATGCC-AT-GTCCCAGAC-ATGGTCTTACACGAAATCACATAACG
**
22228406 ATGCCAGTGTCCCAGACATGGTCTTACAC-ATAATCACATAGTG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGA-AATCACATAACG
22228449 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACAT
1 ATGCC-ATGTCCCAGACATGGTCTTACACGA-AATCACAT
22228488 CTCGTTCATC
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
42 8 0.08
43 96 0.91
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAACG
Found at i:22228484 original size:86 final size:85
Alignment explanation
Indices: 22228321--22228477 Score: 194
Period size: 86 Copynumber: 1.8 Consensus size: 85
22228311 AGCTCTTACA
* ** * *
22228321 ATGCCATATCCCAGATATAGTCTTACATGTTATCACATATCGATGCCGATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGACATAGTCTTACACATAATCACATATCGATGCCAATAGCCCAGCTATGGTC
22228386 TTACACGAAATCAAATAACG
66 TTACACGAAATCAAATAACG
* *
22228406 ATGCCAGTGTCCCAGACATGGTCTTACACATAATCACATAGT-GATGCCAAT-GTCCCAGAC-AT
1 ATGCCA-TATCCCAGACATAGTCTTACACATAATCACATA-TCGATGCCAATAG-CCCAG-CTAT
22228468 GGTCTTACAC
62 GGTCTTACAC
22228478 ATAATCACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
85 7 0.11
86 52 0.85
87 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (85 bp):
ATGCCATATCCCAGACATAGTCTTACACATAATCACATATCGATGCCAATAGCCCAGCTATGGTC
TTACACGAAATCAAATAACG
Found at i:22243443 original size:26 final size:26
Alignment explanation
Indices: 22243414--22243463 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
22243404 CCAGCACACC
*
22243414 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
***
22243440 AATAACGCAGTGTAGCTGCCAGTA
1 AATAACGCAGCAAAGCTGCCAGTA
22243464 GCAGTAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:22245316 original size:6 final size:6
Alignment explanation
Indices: 22245298--22245347 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
22245288 TAATAGGAAA
* *
22245298 TTCGGC TTCGAC TTTGAC TTCGAC TTCGAC TTCGAC TTCGAC TTCGAC
1 TTCGAC TTCGAC TTCGAC TTCGAC TTCGAC TTCGAC TTCGAC TTCGAC
22245346 TT
1 TT
22245348 TGACCTAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.14, C:0.30, G:0.18, T:0.38
Consensus pattern (6 bp):
TTCGAC
Found at i:22245703 original size:17 final size:19
Alignment explanation
Indices: 22245674--22245708 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
22245664 CAACATAGAT
22245674 ATTAATGATACTT-AAATA
1 ATTAATGATACTTCAAATA
22245692 ATTAAT-ATACTTCAAAT
1 ATTAATGATACTTCAAAT
22245709 TTTACATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (19 bp):
ATTAATGATACTTCAAATA
Found at i:22247476 original size:30 final size:30
Alignment explanation
Indices: 22247440--22247500 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
22247430 TTTGAACCTT
22247440 AGGAATAGTTGAGGATACAAGTGACATGTC
1 AGGAATAGTTGAGGATACAAGTGACATGTC
22247470 AGGAATAGTTGAGGATACAAGTGACATGTC
1 AGGAATAGTTGAGGATACAAGTGACATGTC
22247500 A
1 A
22247501 CTAGGATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.30, T:0.23
Consensus pattern (30 bp):
AGGAATAGTTGAGGATACAAGTGACATGTC
Found at i:22262226 original size:38 final size:38
Alignment explanation
Indices: 22262137--22262263 Score: 121
Period size: 38 Copynumber: 3.3 Consensus size: 38
22262127 TCGGTTTGGT
* * * *
22262137 GTGTTTCGGTTGAATCTGCTCTTATGAGCTTCTGCTTG
1 GTGTTTCGGTTGGATCAGCTCTTATGAGCTTTTGTTTG
** ** *
22262175 GCATTTCTATTGGATCAACTCTTATGAGCTTTTGTTTG
1 GTGTTTCGGTTGGATCAGCTCTTATGAGCTTTTGTTTG
* *
22262213 GTGTTTCGGTTGGATCAGCTCCTATGAG-TTTCTGTCTG
1 GTGTTTCGGTTGGATCAGCTCTTATGAGCTTT-TGTTTG
*
22262251 GTGTGTTTGGTTG
1 GTGT-TTCGGTTG
22262264 ATCTAATGAT
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
37 3 0.04
38 60 0.86
39 7 0.10
ACGTcount: A:0.12, C:0.16, G:0.27, T:0.46
Consensus pattern (38 bp):
GTGTTTCGGTTGGATCAGCTCTTATGAGCTTTTGTTTG
Found at i:22263638 original size:27 final size:27
Alignment explanation
Indices: 22263601--22264188 Score: 471
Period size: 27 Copynumber: 21.8 Consensus size: 27
22263591 ATACCCTCAG
*
22263601 TTGTAAAATTACCAAAATACTCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
*
22263628 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
* * *
22263655 TTATAAAATCACCAAAATAACCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
** *
22263682 TTACAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
* *
22263709 TTGTAAAATTACTAAAATACCCTTTGT
1 TTGTAAAATTACCAAAATACCCTTGGT
* *
22263736 TTATAAAATTACCAAAATATCCC-TAGT
1 TTGTAAAATTACCAAAATA-CCCTTGGT
*
22263763 TTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCTTGGT
22263790 TTGTAAAATTACCAAAATACCCTT-GT
1 TTGTAAAATTACCAAAATACCCTTGGT
* * *
22263816 TTATAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCTTGGT
* **
22263843 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCTTGGT
* *
22263870 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGGT
* ** * **
22263897 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTTGGT
* **** * **
22263924 CTGTAAAATTATTGGAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTTGGT
* *
22263951 TTGTAAAATTACCAAAGTACCCTTGAT
1 TTGTAAAATTACCAAAATACCCTTGGT
* * **** * *
22263978 TTGTAGAATTATCGTTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTTGGT
** * *** * *
22264005 TTACATAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTTGGT
** ** *
22264032 TTACAAAATTACTGAAATACCTTTGGT
1 TTGTAAAATTACCAAAATACCCTTGGT
** * * *
22264059 TTACAAAAGTACCAAAATACCC-TCGA
1 TTGTAAAATTACCAAAATACCCTTGGT
* * *
22264085 TCGATAAAATTACCAAAATACCCCTCGT
1 TTG-TAAAATTACCAAAATACCCTTGGT
* *
22264113 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCTTGGT
* **
22264140 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCTTGGT
* **
22264167 TTGTGAAATTACTGAAATACCC
1 TTGTAAAATTACCAAAATACCC
22264189 CTGTATGGTA
Statistics
Matches: 476, Mismatches: 80, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
26 30 0.06
27 438 0.92
28 8 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTTGGT
Found at i:22264189 original size:54 final size:54
Alignment explanation
Indices: 22264089--22264324 Score: 187
Period size: 54 Copynumber: 4.4 Consensus size: 54
22264079 CCTCGATCGA
** * * *
22264089 TAAAATTACCAAAATACCCCTCGTTTGTAAAATTACCAAAATACCCCTAGT-TTG
1 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACCGAAATACCCCT-GTATAG
* *
22264143 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCCTGTATGG
1 TAAAATTACCAAAATACCCCTAATTTGTGAAATTACCGAAATACCCCTGTATAG
* * * * * *
22264197 TAGAATTATCGAAATACCCTTGTAA--GGTGAAA-TACCGAAATACCCCTGTAGAG
1 TAAAATTACCAAAATACCC--CTAATTTGTGAAATTACCGAAATACCCCTGTATAG
* * * * * **
22264250 TAGAATTACCAAAATACCCCT-A-TAGGGTAGAATTATCGCAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTAATTTGTG-A-AATTACCGAAATACCCCTGTATAG
* *
22264304 TAGAATTACCGAAATACCCCT
1 TAAAATTACCAAAATACCCCT
22264325 GTAGGGTAGA
Statistics
Matches: 152, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
50 1 0.01
51 3 0.02
52 1 0.01
53 39 0.26
54 105 0.69
56 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCTAATTTGTGAAATTACCGAAATACCCCTGTATAG
Found at i:22264293 original size:134 final size:134
Alignment explanation
Indices: 22264092--22264526 Score: 511
Period size: 134 Copynumber: 3.2 Consensus size: 134
22264082 CGATCGATAA
* ** * ** * * *
22264092 AATTACCAAAATACCCCTCGT-TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACCAAAATACCCCTA-TAGGTAGAATTATCGAA
** * *
22264156 ATACCCCTA-ATTTGT-GAAATTACTGAAATACCCCTGTATGGTAGAATTATCGAAATACCCTTG
64 ATACCCCTATA-GGGTAG-AATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTG
*
22264219 TAAGGT-G
127 TAGGGTAG
* * *
22264226 AAATACCGAAATACCCCTGTAGAGTAGAATTACCAAAATACCCCTATAGGGTAGAATTATCGCAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATA-GGTAGAATTATCGAAA
* *
22264291 TACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAG
65 TACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAG
22264356 GGTAG
130 GGTAG
* * * * *
22264361 AATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGAAGAATTATCGAAAT
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGTAGAATTATCGAAAT
* * * *
22264426 ACCCCTATAGGGTAGAATTA-TCGTAATACCCCTGTAGGGTAGAATTACCGAAACACCCCTATAG
66 ACCCCTATAGGGTAGAATTACT-GAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAG
22264490 GGTAG
130 GGTAG
* *
22264495 AATTACTGAAATACCCCTGTAGGGTGGAATTA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTA
22264527 TCGAGATACC
Statistics
Matches: 259, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
133 3 0.01
134 211 0.81
135 45 0.17
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (134 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGTAGAATTATCGAAAT
ACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTGTAGG
GTAG
Found at i:22264432 original size:161 final size:161
Alignment explanation
Indices: 22264173--22264554 Score: 583
Period size: 161 Copynumber: 2.4 Consensus size: 161
22264163 TAATTTGTGA
* * *
22264173 AATTACTGAAATACCCCTGTATGGTAGAATTATCGAAATACCCTTGTAAGGT-GAAATACCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTATCG-AATACCCTTGTAGGGTAGAATTACCGAAA
*
22264237 TACCCCTGTAGAGTAGAATTACCAAAATACCCCTATAGGGTAGAATTATCGCAATACCCCTGTAG
65 TACCCCTGTAGAGAAGAATTACCAAAATACCCCTATAGGGTAGAATTATCGCAATACCCCTGTAG
* *
22264302 GGTAGAATTACCGAAATACCCCTGTAGGGTAG
130 GGTAGAATTACCGAAACACCCCTATAGGGTAG
*
22264334 AATTA-TCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAA
1 AATTACT-GAAATACCCCTGTAGGGTAGAATTATCG-AATACCCTTGTAGGGTAGAATTACCGAA
* * *
22264398 ATACCCCTGTAG-GAAGAATTATCGAAATACCCCTATAGGGTAGAATTATCGTAATACCCCTGTA
64 ATACCCCTGTAGAGAAGAATTACCAAAATACCCCTATAGGGTAGAATTATCGCAATACCCCTGTA
22264462 GGGTAGAATTACCGAAACACCCCTATAGGGTAG
129 GGGTAGAATTACCGAAACACCCCTATAGGGTAG
* * *
22264495 AATTACTGAAATACCCCTGTAGGGTGGAATTATCGAGATA-CCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCCTGTAGGGTAGAATTATCGA-ATACCCTTGTAGGGTAGAATTACC
22264555 ATTTTGCCCT
Statistics
Matches: 202, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
160 19 0.09
161 160 0.79
162 23 0.11
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (161 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTATCGAATACCCTTGTAGGGTAGAATTACCGAAAT
ACCCCTGTAGAGAAGAATTACCAAAATACCCCTATAGGGTAGAATTATCGCAATACCCCTGTAGG
GTAGAATTACCGAAACACCCCTATAGGGTAG
Found at i:22264535 original size:27 final size:27
Alignment explanation
Indices: 22264180--22264536 Score: 495
Period size: 27 Copynumber: 13.3 Consensus size: 27
22264170 TGAAATTACT
*
22264180 GAAATACCCCTGTATGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
22264207 GAAATACCCTTGTAAGGT-GAAATACC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
22264233 GAAATACCCCTGTAGAGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
22264260 AAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
22264287 GCAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
22264314 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
22264341 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
22264368 GCAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
22264395 GAAATACCCCTGTA-GGAAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
22264421 GAAATACCCCTATAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
22264448 GTAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
22264475 GAAACACCCCTATAGGGTAGAATTA-C
1 GAAATACCCCTGTAGGGTAGAATTATC
*
22264501 TGAAATACCCCTGTAGGGTGGAATTATC
1 -GAAATACCCCTGTAGGGTAGAATTATC
*
22264529 GAGATACC
1 GAAATACC
22264537 TTGTGGGGTA
Statistics
Matches: 291, Mismatches: 35, Indels: 8
0.87 0.10 0.02
Matches are distributed among these distances:
26 45 0.15
27 245 0.84
28 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:22265195 original size:26 final size:27
Alignment explanation
Indices: 22265166--22265229 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
22265156 ACTGGCTTTG
* *
22265166 CCACATTATCTGT-TCTGGTGGCTCTA
1 CCACAATATCTGTATCTGGTGACTCTA
*
22265192 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGTATCTGGTGACTCTA
*
22265219 TCACAATATCT
1 CCACAATATCT
22265230 AATAACTGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.36
Consensus pattern (27 bp):
CCACAATATCTGTATCTGGTGACTCTA
Found at i:22265400 original size:19 final size:19
Alignment explanation
Indices: 22265378--22265435 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
22265368 TTCTGATTTT
22265378 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
22265397 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
22265409 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
22265428 TGATTCTG
1 TGATTCTG
22265436 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:22265405 original size:6 final size:6
Alignment explanation
Indices: 22265367--22265486 Score: 95
Period size: 6 Copynumber: 19.3 Consensus size: 6
22265357 TTGCATTCAC
* * *
22265367 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
22265417 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
22265467 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
22265487 AATGTTTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
5 6 0.07
6 68 0.74
7 15 0.16
8 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:22265413 original size:31 final size:31
Alignment explanation
Indices: 22265367--22265477 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
22265357 TTGCATTCAC
*
22265367 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
*
22265399 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
22265430 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
22265461 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
22265478 AGTTCTGATA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
31 69 0.91
32 7 0.09
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:22267488 original size:27 final size:27
Alignment explanation
Indices: 22267452--22268070 Score: 487
Period size: 27 Copynumber: 22.9 Consensus size: 27
22267442 AAATACCCCC
22267452 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
22267479 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
22267506 TTATAAAATCACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
22267533 TTGTAAAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
22267560 TTACAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * *
22267587 TTGTAAAATTACTAAAATACCCTTTGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
22267614 TTATTAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
22267641 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
22267668 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* **
22267695 TTGTAAAATTACCAAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
22267722 TTGTAAAATTACCAAAATACCCTTGAT
1 TTGTAAAATTACCAAAATACCCCTGGT
* ** **
22267749 TTGTGAAATTACTGAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GGT
* *** **
22267776 CTGTAAAATTATTGAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GGT
* * * *
22267803 TTGTAAAATTACCTAAGTACCCTTGAT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * **** * *
22267830 TTGTAGAATTATCGTCTTA-CCTTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GGT
** *** * *
22267857 TTACAAAATTACCATTTTA-CCCTCGA
1 TTGTAAAATTACCAAAATACCCCTGGT
*** *
22267883 TT-TACAGAATTACCATTTTA-CCCTCGAT
1 TTGTA-A-AATTACCAAAATACCCCT-GGT
* ** **
22267911 TTATAAAATTACTTAAATACCTTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
** **
22267938 TTACAAAATTACCAAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-GGT
*** *
22267965 CAATAAAATTTCCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
22267992 TTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
22268019 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
22268046 TTGTAAAATTACCGAAATACCCCTG
1 TTGTAAAATTACCAAAATACCCCTG
22268071 TAGGGTAGAA
Statistics
Matches: 488, Mismatches: 94, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
25 1 0.00
26 12 0.02
27 461 0.94
28 12 0.02
29 2 0.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:22268082 original size:27 final size:27
Alignment explanation
Indices: 22268052--22268326 Score: 374
Period size: 27 Copynumber: 10.3 Consensus size: 27
22268042 TAATTTGTAA
22268052 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
22268079 AATTACCGAAATACCCTTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22268105 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
22268132 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
22268159 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
22268186 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22268213 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
22268240 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
22268267 AATTACTAAAATACCCTTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
22268294 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
22268320 AATTACC
1 AATTACC
22268327 ATTTTGCCCC
Statistics
Matches: 221, Mismatches: 26, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
26 42 0.19
27 179 0.81
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:22268083 original size:81 final size:81
Alignment explanation
Indices: 22267452--22268258 Score: 455
Period size: 81 Copynumber: 10.0 Consensus size: 81
22267442 AAATACCCCC
* * * * *
22267452 TTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGT-TTATAAAATC
1 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-GTATTGTAAAATT
* * *
22267516 ACCAAAATACCCCTGGT
65 ACCGAAATACCCTTAGT
* * **
22267533 TTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGT-TTGTAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-GTATTGTAAAATT
** *
22267597 ACTAAAATACCCTTTGT
65 ACCGAAATACCCTTAGT
* * *
22267614 TTATTAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGT-TTGTAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-GTATTGTAAAATT
* *
22267678 ACCAAAATACCCCTAGT
65 ACCGAAATACCCTTAGT
* * * *
22267695 TTGTAAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCTTG-ATTTGTGAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGTA-TTGTAAAATT
* * *
22267759 ACTGAAATACCC-TCGAC
65 ACCGAAATACCCTTAG-T
* *** * * * * *
22267776 CTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCTAAGTACCCTTG-ATTTGTAGAAT
1 TTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCTGTA-TTGTAAAAT
* *** *
22267839 TATCGTCTTA-CCTTCGAT
64 TACCGAAATACCCTTAG-T
** *** ** * *** *
22267857 TTACAAAATTACCATTTTA-CCCTCGATTTACAGAATTACCATTTTA-CCCTCG-ATTTATAAAA
1 TTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCT-GTA-TTGTAAAA
** * *
22267919 TTACTTAAATACCTTTGGT
63 TTACCGAAATACCCTTAGT
** * *** *
22267938 TTACAAAATTACCAAAATA-CCCTCAATCAATAAAATTTCCAAAATACCCCTGGT-TTGTAAAAT
1 TTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCT-GTATTGTAAAAT
*
22268001 TACCAAAATACCCTTAGT
64 TACCGAAATACCCTTAGT
* * ** *
22268019 TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGTATTGTAAAATTA
22268084 CCGAAATACCCTT-GT
66 CCGAAATACCCTTAGT
** * * * ** * * ** *
22268099 AGGGTGAAA-TACCGAAATACCCTTG-TAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
1 -TTGTAAAATTACCAAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCCTGTATTGTAAAAT
**
22268162 TATTGAAATACCCCTGTAG-
64 TACCGAAATA-CCCT-TAGT
* * * ** * * ** ** *
22268181 -GGTAGAATTACCGAAATACCCCT-ATAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATT
1 TTGTAAAATTACCAAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCCTGTATTGTAAAATT
22268244 ACCGAAATACCCTTA
65 ACCGAAATACCCTTA
22268259 TAGGGTAGAA
Statistics
Matches: 586, Mismatches: 122, Indels: 38
0.79 0.16 0.05
Matches are distributed among these distances:
79 3 0.01
80 78 0.13
81 490 0.84
82 14 0.02
83 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGTATTGTAAAATTA
CCGAAATACCCTTAGT
Found at i:22268263 original size:81 final size:81
Alignment explanation
Indices: 22267998--22268326 Score: 369
Period size: 81 Copynumber: 4.1 Consensus size: 81
22267988 TGGTTTGTAA
* ** * ** *
22267998 AATTACCAAAATACCCTTAGT-TTGTAAAATTACCAAAATACCCCTA-ATTTGTAAAATTACCGA
1 AATTACCGAAATACCCTTA-TAGGGTAGAATTACCAAAATACCCCTATA-GGGTAGAATTACCGA
22268061 AATACCCCTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* * * * *
22268079 AATTACCGAAATACCCTTGTAGGGT-GAAATACCGAAATACCCTTGTAGGGTAGAATTACCGAAA
1 AATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
22268143 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
** * * * * *
22268159 AATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATCGCAA
1 AATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
22268224 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
22268240 AATTACCGAAATACCCTTATAGGGTAGAATTACTAAAATACCCTTGTAGGGTGGAATTACCGAGA
1 AATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
* * *
22268305 TA-CCTTGTGGGGTAA
66 TACCCCTGTAGGGTAG
22268320 AATTACC
1 AATTACC
22268327 ATTTTGCCCC
Statistics
Matches: 210, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
80 85 0.40
81 125 0.60
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCTTATAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:22268986 original size:26 final size:27
Alignment explanation
Indices: 22268955--22269021 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
22268945 TTAGTAGCTT
* *
22268955 TGCCACATTATCTGT-TCTGGTGGCTC
1 TGCCACAATATCTGTATCTGGTGACTC
22268981 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGACTC
*
22269008 TGTCACAATATCTG
1 TGCCACAATATCTG
22269022 ATAACTGAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 14 0.38
27 23 0.62
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGACTC
Found at i:22269196 original size:6 final size:6
Alignment explanation
Indices: 22269181--22269345 Score: 133
Period size: 6 Copynumber: 26.8 Consensus size: 6
22269171 ATTATGTTAC
* * *
22269181 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
22269230 TTGATT CTG-TT ACCTGATA CTGATT CTGATT TTGATT CTG-TT ACTTGATA
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGATT -C-TGATT
* *
22269280 CTGATT CTGATT CTGATT TTG-TCAC CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
22269329 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
22269346 AATGTTCTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.06
6 104 0.81
7 12 0.09
8 4 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:22269213 original size:31 final size:31
Alignment explanation
Indices: 22269158--22269331 Score: 267
Period size: 31 Copynumber: 5.6 Consensus size: 31
22269148 TTGCATTCAC
* *
22269158 ATTCTGATTTTTTATTATGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
22269190 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
22269221 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
22269252 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
22269283 ATTCTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
22269314 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
22269332 ATTCTAGTTC
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 126 0.95
32 7 0.05
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:22269222 original size:19 final size:19
Alignment explanation
Indices: 22269200--22269257 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
22269190 ATTCTGATTT
22269200 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
22269219 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
22269231 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
22269250 TGATTCTG
1 TGATTCTG
22269258 ATTTTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:22274925 original size:20 final size:20
Alignment explanation
Indices: 22274900--22274944 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
22274890 GCTATGCCTA
*
22274900 TTGGAAATTTTGGCTAACAC
1 TTGGAAATTTCGGCTAACAC
22274920 TTGGAAATTTCGGCTAACAC
1 TTGGAAATTTCGGCTAACAC
22274940 TTGGA
1 TTGGA
22274945 GAAGATGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
TTGGAAATTTCGGCTAACAC
Found at i:22275717 original size:44 final size:44
Alignment explanation
Indices: 22275654--22275744 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
22275644 TTCTAACTCA
*
22275654 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCGGT
1 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCAGT
22275698 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCAGT
1 AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCAGT
22275742 AAT
1 AAT
22275745 CTCATATGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (44 bp):
AATGGTAAAGGCAATCGATAAGCAACAGGCCCTATCCTTTCAGT
Found at i:22281283 original size:18 final size:16
Alignment explanation
Indices: 22281244--22281304 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
22281234 ATTATGTAGG
* *
22281244 AAGAATAAAGAAATGAA
1 AAGAA-AAAAAAAAGAA
*
22281261 AA-AAAAAAAAGAGAA
1 AAGAAAAAAAAAAGAA
*
22281276 TATGAAAAAAACAAAGAA
1 -AAGAAAAAAA-AAAGAA
22281294 AAGAAAAAAAA
1 AAGAAAAAAAA
22281305 GTGTTCATTC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.23
16 4 0.11
17 18 0.51
18 5 0.14
ACGTcount: A:0.79, C:0.02, G:0.13, T:0.07
Consensus pattern (16 bp):
AAGAAAAAAAAAAGAA
Found at i:22281283 original size:20 final size:17
Alignment explanation
Indices: 22281250--22281304 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 17
22281240 TAGGAAGAAT
*
22281250 AAAGAAATGAAAAAAAAA
1 AAAGAAAAG-AAAAAAAA
*
22281268 AAAGAGAATATGAAAAAAAC
1 AAAGA-AA-A-GAAAAAAAA
22281288 AAAGAAAAGAAAAAAAA
1 AAAGAAAAGAAAAAAAA
22281305 GTGTTCATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 8 0.26
18 6 0.19
19 4 0.13
20 12 0.39
21 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (17 bp):
AAAGAAAAGAAAAAAAA
Found at i:22282495 original size:29 final size:29
Alignment explanation
Indices: 22282462--22282593 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
22282452 GTGACGAGAT
22282462 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
22282491 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
22282520 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
22282549 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
22282578 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
22282594 GGCTTAAATC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:22290389 original size:29 final size:29
Alignment explanation
Indices: 22290356--22290515 Score: 160
Period size: 29 Copynumber: 5.6 Consensus size: 29
22290346 GTGACGAGAT
22290356 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
22290385 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
22290414 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
22290443 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * ***
22290472 TGGCACTATGTGTGCGGGCT-TAAATGCG
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
22290500 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
22290516 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 18 0.16
29 92 0.84
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:22304610 original size:23 final size:23
Alignment explanation
Indices: 22304584--22304628 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22304574 TGGGTATGTG
*
22304584 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
22304607 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
22304629 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:22307070 original size:22 final size:21
Alignment explanation
Indices: 22307043--22307096 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
22307033 TTTTATATAA
*
22307043 TTGATAAATTTTTATGATAAAT
1 TTGATAAACTTTTA-GATAAAT
* *
22307065 TTGATAACACTTTTAGTTTAAT
1 TTGATAA-ACTTTTAGATAAAT
22307087 TTGATAAACT
1 TTGATAAACT
22307097 AATACAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 19 0.68
23 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (21 bp):
TTGATAAACTTTTAGATAAAT
Found at i:22307779 original size:91 final size:94
Alignment explanation
Indices: 22307637--22307814 Score: 290
Period size: 91 Copynumber: 1.9 Consensus size: 94
22307627 AGTTTTTACA
22307637 AGGAAAAACTTCGTTTATTTTACTGGAACAATCATTTTATCATTTTAATTTCCTTTAG-TT-TTT
1 AGGAAAAACTTCGTTTATTTTACTGGAACAATCATTTTATCATTTTAATTTCCTTTAGTTTATTT
22307700 TTTTAGAAACAATTTTAGTTGATTTCCCC
66 TTTTAGAAACAATTTTAGTTGATTTCCCC
* *
22307729 AGGAAAAACTTGGTTTATTTTAC-GGAACAATCATTTTATCGTTTTAATTTCCTTTAGTTTTTAT
1 AGGAAAAACTTCGTTTATTTTACTGGAACAATCATTTTATCATTTTAATTTCCTTTAG--TTTAT
*
22307793 TTTTTTAGAAATAATTTTAGTT
64 TTTTTTAGAAACAATTTTAGTT
22307815 TTTTTTCCAA
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
91 33 0.42
92 22 0.28
94 2 0.03
95 22 0.28
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (94 bp):
AGGAAAAACTTCGTTTATTTTACTGGAACAATCATTTTATCATTTTAATTTCCTTTAGTTTATTT
TTTTAGAAACAATTTTAGTTGATTTCCCC
Found at i:22308626 original size:13 final size:13
Alignment explanation
Indices: 22308596--22308629 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22308586 TTTGAATTTC
22308596 AATTT-ATTTAAT
1 AATTTAATTTAAT
22308608 ATATTTAATTTAAT
1 A-ATTTAATTTAAT
22308622 AATTTAAT
1 AATTTAAT
22308630 CCAAGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 1 0.05
13 11 0.55
14 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:22311105 original size:21 final size:22
Alignment explanation
Indices: 22311079--22311120 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
22311069 GTTTCATGTT
22311079 TCATTTACACATAC-TCACATC
1 TCATTTACACATACATCACATC
* *
22311100 TCATTTCCATATACATCACAT
1 TCATTTACACATACATCACAT
22311121 AACATTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
TCATTTACACATACATCACATC
Found at i:22311396 original size:42 final size:44
Alignment explanation
Indices: 22311345--22311445 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
22311335 TCTCAGATAG
* * * **
22311345 GGTCTTACACA-AAATCATATA-CGGTGCCAATGTCCCAGACAT
1 GGTCTTACACATAAATCACAAATCGATGCCAACATCCCAGACAT
*
22311387 GGTCTTACACATAAATCACAAATCGATGCCAACATCCCAGACGT
1 GGTCTTACACATAAATCACAAATCGATGCCAACATCCCAGACAT
22311431 GGTCTTACACGATAA
1 GGTCTTACAC-ATAA
22311446 CACATATCGG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 11 0.22
43 8 0.16
44 27 0.54
45 4 0.08
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (44 bp):
GGTCTTACACATAAATCACAAATCGATGCCAACATCCCAGACAT
Found at i:22315740 original size:12 final size:12
Alignment explanation
Indices: 22315723--22315748 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22315713 ATAAACTAAG
22315723 TTTTAATTTAGT
1 TTTTAATTTAGT
22315735 TTTTAATTTAGT
1 TTTTAATTTAGT
22315747 TT
1 TT
22315749 GCTACAGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTAATTTAGT
Found at i:22318096 original size:17 final size:18
Alignment explanation
Indices: 22318053--22318107 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 18
22318043 TCAATTGAGA
22318053 GAAAAAGAAAAGAATGAATGT
1 GAAAAAGAAAAGAA--AA-GT
22318074 GAAAAAAGAAAAGAAAA-T
1 G-AAAAAGAAAAGAAAAGT
22318092 GAAAAAGAAAAGAAAA
1 GAAAAAGAAAAGAAAA
22318108 ACGAGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 15 0.45
18 2 0.06
20 2 0.06
21 1 0.03
22 13 0.39
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (18 bp):
GAAAAAGAAAAGAAAAGT
Found at i:22325817 original size:46 final size:45
Alignment explanation
Indices: 22325763--22325938 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
22325753 TGGTTGAGCA
22325763 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-G
* *** * *
22325809 TCCAAACTCGTTGAGTTGAG-TCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTTC-GAGTTC-ACTTATG-GA-T-GCGAAG
* *
22325856 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-G
* * **
22325902 CCCGAGCTAATTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGG
22325939 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 62 0.60
47 28 0.27
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAAG
Found at i:22325919 original size:93 final size:93
Alignment explanation
Indices: 22325760--22325930 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
22325750 GGATGGTTGA
* * * **
22325760 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAATTGAGT
22325825 TGAG-TCTGAGTTCGAGAGATGTAACTAG
66 TGAGTTC-GAGTTCGAGAGATGTAACTAG
* * *
22325853 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAATTGAGT
22325918 TGAGTTCGAGTTC
66 TGAGTTCGAGTTC
22325931 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 67 0.97
94 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTAATTGAGT
TGAGTTCGAGTTCGAGAGATGTAACTAG
Found at i:22328859 original size:15 final size:15
Alignment explanation
Indices: 22328839--22328894 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
22328829 GTATCTTGGG
22328839 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22328854 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
22328869 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
22328884 TTTCTTTATTC
1 TTTCTTTATTC
22328895 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22331318 original size:46 final size:48
Alignment explanation
Indices: 22331267--22331396 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 48
22331257 ATGGTTGAGC
22331267 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
22331314 -TCCGAACTCGTTGAGTTGAGTTCGAGTT--C-GA-GGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
*
22331358 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22331397 GCGGGTTACA
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
41 2 0.03
42 6 0.09
43 1 0.01
44 2 0.03
46 53 0.78
48 1 0.01
49 1 0.01
50 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:22336431 original size:56 final size:56
Alignment explanation
Indices: 22336345--22336452 Score: 198
Period size: 56 Copynumber: 1.9 Consensus size: 56
22336335 AATGCCGGTC
22336345 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACATATAGAGCCTTGGTT
1 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACATATAGAGCCTTGGTT
* *
22336401 GGATCTGTTGAAGTGTCAGAATGACTTGGCCAACATTCACGTATAGAGCCTT
1 GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACATATAGAGCCTT
22336453 CGCCTATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (56 bp):
GGATCTGTTGAAGCGTCAGAATGACTTGGCCAACATTCACATATAGAGCCTTGGTT
Found at i:22337604 original size:27 final size:27
Alignment explanation
Indices: 22337563--22337614 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22337553 ACCAACAAGC
22337563 TGCTGACACTAAGATCATCCATAAAGT
1 TGCTGACACTAAGATCATCCATAAAGT
*
22337590 TGCTGACACTGAGATCATCCATAAA
1 TGCTGACACTAAGATCATCCATAAA
22337615 CTTTTTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (27 bp):
TGCTGACACTAAGATCATCCATAAAGT
Found at i:22340546 original size:40 final size:40
Alignment explanation
Indices: 22340496--22340712 Score: 348
Period size: 40 Copynumber: 5.5 Consensus size: 40
22340486 TGGATGATAA
*
22340496 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
22340536 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
22340576 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
22340616 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
22340656 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
22340696 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
22340713 TACTTGGCTT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 15 0.09
40 153 0.91
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:22348583 original size:40 final size:40
Alignment explanation
Indices: 22348532--22348749 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
22348522 TGGATGATAA
*
22348532 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
22348572 CCGGGCTAAGTCCCGAAGGCATTTGTACGACTCACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
22348612 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
22348652 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
22348692 CTGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
22348732 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
22348750 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
39 15 0.10
40 141 0.90
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:22354488 original size:29 final size:29
Alignment explanation
Indices: 22354429--22354502 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
22354419 TAATCAGCCG
* *
22354429 CGCACACTTAGTGTCATATACTTTAAACT
1 CGCACACTTAGTGCCATACACTTTAAACT
* *
22354458 CGCACACTTAGTGCCATGCA-TTTCAAGCT
1 CGCACACTTAGTGCCATACACTTT-AAACT
*
22354487 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
22354503 ATCTCTCAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACACTTTAAACT
Found at i:22362912 original size:17 final size:17
Alignment explanation
Indices: 22362887--22362923 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
22362877 TTTGAAAAGG
22362887 AAACAAATGAATCTTAA
1 AAACAAATGAATCTTAA
*
22362904 AAACGAATGAATCTTAA
1 AAACAAATGAATCTTAA
22362921 AAA
1 AAA
22362924 TGTAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.22
Consensus pattern (17 bp):
AAACAAATGAATCTTAA
Found at i:22363754 original size:17 final size:17
Alignment explanation
Indices: 22363734--22363766 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22363724 TTTGGCGTAA
22363734 TTTT-AGTTTATCGTGTG
1 TTTTCAGTTTAT-GTGTG
22363751 TTTTCAGTTTATGTGT
1 TTTTCAGTTTATGTGT
22363767 TCGCCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (17 bp):
TTTTCAGTTTATGTGTG
Found at i:22367418 original size:39 final size:39
Alignment explanation
Indices: 22367364--22367555 Score: 303
Period size: 39 Copynumber: 4.9 Consensus size: 39
22367354 GAATGTTCGA
**
22367364 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
22367403 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* *
22367442 ATGATATCCGGGCTAAGCCCGAAGGAAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* *
22367481 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
* *
22367520 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
22367556 GGTTACCATA
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
Found at i:22369272 original size:30 final size:30
Alignment explanation
Indices: 22369217--22369347 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
22369207 ATAGTGAATC
*
22369217 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
22369246 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
22369276 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
22369304 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
22369334 CGCACACTTAGTGC
1 CGCACACTTAGTGC
22369348 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:22369327 original size:58 final size:58
Alignment explanation
Indices: 22369216--22369347 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
22369206 TATAGTGAAT
* * * * *
22369216 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
22369275 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
22369333 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
22369348 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:22374353 original size:6 final size:6
Alignment explanation
Indices: 22374334--22374379 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
22374324 GAAGTAAAGA
* * *
22374334 AAGCTC AAGATC AAGTTC AAACTC AAGCTC AAGCTC AAGCTAC AAG
1 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AAGCT-C AAG
22374380 GGTAAGAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.17
Consensus pattern (6 bp):
AAGCTC
Found at i:22377936 original size:22 final size:19
Alignment explanation
Indices: 22377911--22377958 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
22377901 TACCGTTTCG
22377911 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
22377933 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
22377951 ATTAAATT
1 ATTAAATT
22377959 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:22380281 original size:55 final size:55
Alignment explanation
Indices: 22380151--22380337 Score: 195
Period size: 55 Copynumber: 3.5 Consensus size: 55
22380141 CTTACCATTA
* * * * * *
22380151 CCATGTCTTGACATGGTCTTACGTGGTATCTTTGCTTTAT-GT-ACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGGGATCTTTTCCTTATAGTAACTCATCAATG
* * *
22380204 CCATGCCTTGGCATGTTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGGGATCTTTTCCTTATAGTAACTCATCAATG
* * * *
22380259 GCATGTCTTGACATGGTCTTACAT--GATTTTCTTGCCTTATAG-AACTCATTAATG
1 CCATGCCTTGACATGGTCTTACATGGGATCTT-TT-CCTTATAGTAACTCATCAATG
*
22380313 CCATGCCTTGGCATGGTCTTACATG
1 CCATGCCTTGACATGGTCTTACATG
22380338 ATATCCTTAT
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
53 36 0.33
54 36 0.33
55 38 0.35
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (55 bp):
CCATGCCTTGACATGGTCTTACATGGGATCTTTTCCTTATAGTAACTCATCAATG
Found at i:22380332 original size:54 final size:53
Alignment explanation
Indices: 22380151--22380339 Score: 186
Period size: 54 Copynumber: 3.5 Consensus size: 53
22380141 CTTACCATTA
* * * * * *
22380151 CCATGTCTTGACATGGTCTTACGTGGTATCTTTGCTTTAT-GT-ACTCACCAATG
1 CCATGCCTTGGCATGGTCTTACAT-G-ATCTTTTCCTTATAGTAACTCATCAATG
* *
22380204 CCATGCCTTGGCATGTTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGGCATGGTCTTACAT--GATCTTTTCCTTATAGTAACTCATCAATG
* * * * *
22380259 GCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATAG-AACTCATTAATG
1 CCATGCCTTGGCATGGTCTTACATGATCTT-TT-CCTTATAGTAACTCATCAATG
22380313 CCATGCCTTGGCATGGTCTTACATGAT
1 CCATGCCTTGGCATGGTCTTACATGAT
22380340 ATCCTTATCT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 34 0.30
54 41 0.36
55 38 0.34
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGCCTTGGCATGGTCTTACATGATCTTTTCCTTATAGTAACTCATCAATG
Found at i:22380376 original size:47 final size:47
Alignment explanation
Indices: 22380324--22380445 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
22380314 CATGCCTTGG
*
22380324 CATGGTCTTACATGATATCCTTATCTTACCAAATACCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGTTCCAAA
* *
22380371 CATGGTCTTACATGGTATCCTTGA-CTTACCAAATGCCATGTTCCAAG
1 CATGGTCTTACATGGTATCCTT-ATCTTACCAAATACCATGTTCCAAA
* * * *
22380418 CATGCTCTTATATGGTGTCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
22380446 GTGCCAATGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 65 0.98
48 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATACCATGTTCCAAA
Done.