Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 94 of 216
Found at i:29137838 original size:25 final size:25
Alignment explanation
Indices: 29137810--29137863 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
29137800 TGTAGTGGAA
29137810 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
* *
29137835 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
29137860 AGGT
1 AGGT
29137864 CAGAGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.13, G:0.48, T:0.17
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:29139396 original size:27 final size:27
Alignment explanation
Indices: 29139360--29139503 Score: 184
Period size: 27 Copynumber: 5.3 Consensus size: 27
29139350 AAAGGATGTT
* *
29139360 AAATTACTGAAATACCCTTGATTGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
29139387 AAATTACTGAAATA-CCTCGATGGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
*
29139413 AAATTA-TCGAAATACCCTCAATGGGTA
1 AAATTACT-GAAATACCCTCGATGGGTA
* * *
29139440 AAATTACCGAAATACCCCCGATAGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
* *
29139467 AAATTATTGAAATACCCCCGATGGGTA
1 AAATTACTGAAATACCCTCGATGGGTA
29139494 AAATTGACTG
1 AAATT-ACTG
29139504 TTATGGCCTT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.01
26 22 0.22
27 76 0.75
28 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATGGGTA
Found at i:29141368 original size:23 final size:22
Alignment explanation
Indices: 29141325--29141368 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
29141315 TCCTAAACCT
* **
29141325 TAATTTTTTTTTTCACTTTTCA
1 TAATTTTTTGTTTCAAATTTCA
29141347 TAATTGTTTTGTTTCAAATTTC
1 TAATT-TTTTGTTTCAAATTTC
29141369 TTATTCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.20, C:0.11, G:0.05, T:0.64
Consensus pattern (22 bp):
TAATTTTTTGTTTCAAATTTCA
Found at i:29143923 original size:17 final size:18
Alignment explanation
Indices: 29143891--29143924 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29143881 GATGTGCCCA
*
29143891 AAACTATTTTTTTGCTTG
1 AAACTATTTTTATGCTTG
29143909 AAACTA-TTTTATGCTT
1 AAACTATTTTTATGCTT
29143925 ACTATTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.12, G:0.09, T:0.53
Consensus pattern (18 bp):
AAACTATTTTTATGCTTG
Found at i:29152461 original size:33 final size:29
Alignment explanation
Indices: 29152438--29152493 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
29152428 TACAATGTGA
*
29152438 GCCTTAGCCCAAAACAATAACAGTGC-AG
1 GCCTTAGCCCAAAACAATAACAGTACAAG
*
29152466 GCCTTAGCCCAATACAATAATCAGTACA
1 GCCTTAGCCCAAAACAATAA-CAGTACA
29152494 GTGCAATAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.18
Consensus pattern (29 bp):
GCCTTAGCCCAAAACAATAACAGTACAAG
Found at i:29152766 original size:27 final size:27
Alignment explanation
Indices: 29152735--29152942 Score: 210
Period size: 27 Copynumber: 7.7 Consensus size: 27
29152725 TCCATCTCCT
**
29152735 AGGGGTATAACAGTCATTTTACCCTAT-
1 AGGGGTATTTCAGTCATTTTACCCT-TC
* *
29152762 GGGGGTATTTCAGTCATTTTACCCTTT
1 AGGGGTATTTCAGTCATTTTACCCTTC
29152789 AGGGGTATTTCAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
*
29152816 -GAGGGTATTTTAGTCATTTTACCCTTC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
*
29152843 AGGGGTATTTTAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
* * *
29152870 AAGGGTATTT-TGATCATTTTATCCTTC
1 AGGGGTATTTCAG-TCATTTTACCCTTC
** * *
29152897 AGGATTATTT-TGATTATTTTACCCTTC
1 AGGGGTATTTCAG-TCATTTTACCCTTC
*
29152924 -GAGGGTATTTCTGTCATTT
1 AG-GGGTATTTCAGTCATTT
29152943 GCCCATGAAT
Statistics
Matches: 158, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.03
27 151 0.96
28 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.44
Consensus pattern (27 bp):
AGGGGTATTTCAGTCATTTTACCCTTC
Found at i:29152803 original size:54 final size:54
Alignment explanation
Indices: 29152734--29152942 Score: 235
Period size: 54 Copynumber: 3.9 Consensus size: 54
29152724 TTCCATCTCC
** *
29152734 TAGGGGTATAACAGTCATTTTACCCTAT-GGGGGTATTTCAGTCATTTTACCCTT
1 TAGGGGTATTTCAGTCATTTTACCCT-TCGAGGGTATTTCAGTCATTTTACCCTT
*
29152788 TAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCCTT
1 TAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTT
* * * * *
29152842 CAGGGGTATTTTAGTCATTTTACCCTTCAAGGGTATTT-TGATCATTTTATCCTT
1 TAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAG-TCATTTTACCCTT
* ** * * *
29152896 CAGGATTATTT-TGATTATTTTACCCTTCGAGGGTATTTCTGTCATTT
1 TAGGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCAGTCATTT
29152943 GCCCATGAAT
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 3 0.02
54 132 0.96
55 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.44
Consensus pattern (54 bp):
TAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCAGTCATTTTACCCTT
Found at i:29158025 original size:104 final size:103
Alignment explanation
Indices: 29157845--29158067 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
29157835 TGTATATAAA
** * *
29157845 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
29157910 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
29157949 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
29158013 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
29158052 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
29158068 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 21 0.19
104 90 0.80
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:29158119 original size:70 final size:72
Alignment explanation
Indices: 29157987--29158137 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
29157977 TCATTGGTGG
* *
29157987 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29158051 GAGGGGT
66 GAGGGGT
***
29158058 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29158122 GAGGGGT
66 GAGGGGT
29158129 TGCTAAGTG
1 TGCTAAGTG
29158138 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:29165516 original size:27 final size:27
Alignment explanation
Indices: 29165474--29165525 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
29165464 GAAATGTGAA
*
29165474 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
29165501 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
29165526 GGTTCATTGG
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:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:29165538 original size:103 final size:104
Alignment explanation
Indices: 29165398--29165620 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
29165388 TGTATATAAA
** * *
29165398 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
29165462 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
29165501 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
29165566 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
29165605 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
29165621 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 69 0.62
104 43 0.38
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:29165685 original size:26 final size:26
Alignment explanation
Indices: 29165650--29165701 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
29165640 AAATGAAAAG
* *
29165650 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
29165676 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
29165702 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:29165688 original size:70 final size:72
Alignment explanation
Indices: 29165539--29165689 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
29165529 TCATTGGTGG
* *
29165539 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29165604 GAGGGGT
66 GAGGGGT
***
29165611 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
29165674 GAGGGGT
66 GAGGGGT
29165681 TGCTAAGTG
1 TGCTAAGTG
29165690 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:29170075 original size:27 final size:27
Alignment explanation
Indices: 29170041--29170240 Score: 233
Period size: 27 Copynumber: 7.5 Consensus size: 27
29170031 GGGGTATAAC
* *
29170041 AGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTT
* * **
29170068 GGTTATTTTACCCTTCAAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTT
*
29170095 AGTCATTTTATCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTT
* *
29170122 GGTCATTTTA-CCTTTTAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTT
29170148 AGTCATTTTACCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTT
* * * *
29170175 GGTTATTTTACCCTTCGGGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTT
** *
29170202 AGTCATTTTACCCTTCAAGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTT
*
29170229 GGTCA-TTTACCC
1 AGTCATTTTACCC
29170241 ACGAATCGCA
Statistics
Matches: 147, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 31 0.21
27 116 0.79
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.47
Consensus pattern (27 bp):
AGTCATTTTACCCTTTGAGGGTATTTT
Found at i:29170117 original size:54 final size:54
Alignment explanation
Indices: 29170041--29170240 Score: 278
Period size: 54 Copynumber: 3.7 Consensus size: 54
29170031 GGGGTATAAC
* * *
29170041 AGTCATTTTACCCTATGGGGGTATTTTGGTTATTTTACCCTTCAAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTT
* **
29170095 AGTCATTTTATCCTTTGAGGGTATTTTGGTCATTTTA-CCTTTTAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTT
* **
29170148 AGTCATTTTACCCTTTGAGGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTT
** *
29170202 AGTCATTTTACCCTTCAAGGGTATTTCGGTCA-TTTACCC
1 AGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCC
29170241 ACGAATCGCA
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 56 0.43
54 74 0.57
ACGTcount: A:0.17, C:0.16, G:0.20, T:0.47
Consensus pattern (54 bp):
AGTCATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCAAGGGTATTTT
Found at i:29170223 original size:107 final size:107
Alignment explanation
Indices: 29170041--29170236 Score: 320
Period size: 107 Copynumber: 1.8 Consensus size: 107
29170031 GGGGTATAAC
* *
29170041 AGTCATTTTACCCTATGGGGGTATTTTGGTTATTTTACCCTTCAAGGGTATTTTAGTCATTTTAT
1 AGTCATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTTCAAGGGTATTTTAGTCATTTTAC
** *
29170106 CCTTTGAGGGTATTTTGGTCATTTTACCTTTTAGGGTATTTT
66 CCTTCAAGGGTATTTCGGTCATTTTACCTTTTAGGGTATTTT
* **
29170148 AGTCATTTTACCCTTTGAGGGTATTTTGGTTATTTTACCCTTCGGGGGTATTTTAGTCATTTTAC
1 AGTCATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTTCAAGGGTATTTTAGTCATTTTAC
29170213 CCTTCAAGGGTATTTCGGTCATTT
66 CCTTCAAGGGTATTTCGGTCATTT
29170237 ACCCACGAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 81 1.00
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (107 bp):
AGTCATTTTACCCTATGAGGGTATTTTGGTTATTTTACCCTTCAAGGGTATTTTAGTCATTTTAC
CCTTCAAGGGTATTTCGGTCATTTTACCTTTTAGGGTATTTT
Found at i:29177791 original size:18 final size:18
Alignment explanation
Indices: 29177768--29177804 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
29177758 CTGATTTGCT
29177768 TATGTGTGAAGAGACTGC
1 TATGTGTGAAGAGACTGC
29177786 TATGTGTGAAGAGACTGC
1 TATGTGTGAAGAGACTGC
29177804 T
1 T
29177805 CGTAAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.32, T:0.30
Consensus pattern (18 bp):
TATGTGTGAAGAGACTGC
Found at i:29179418 original size:20 final size:20
Alignment explanation
Indices: 29179393--29179519 Score: 121
Period size: 20 Copynumber: 6.3 Consensus size: 20
29179383 TTGTAAAGGA
*
29179393 TTTGCACTTCGGTGCCCTTG
1 TTTGCACTTCGGTGCCCCTG
29179413 TTTGCACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * **
29179433 TATACACTTTGGTGTTCCTG
1 TTTGCACTTCGGTGCCCCTG
* * *
29179453 TTCGCACTACGGTGCCCCTA
1 TTTGCACTTCGGTGCCCCTG
*
29179473 TTTGCACATT-TGTGCCCCTG
1 TTTGCAC-TTCGGTGCCCCTG
* *
29179493 TCTACACTTCGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
29179513 TTATGCA
1 TT-TGCA
29179520 TCTATGATGC
Statistics
Matches: 81, Mismatches: 23, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
19 2 0.02
20 75 0.93
21 4 0.05
ACGTcount: A:0.11, C:0.31, G:0.21, T:0.36
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:29179513 original size:60 final size:60
Alignment explanation
Indices: 29179396--29179514 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
29179386 TAAAGGATTT
* * * * **
29179396 GCACTTCGGTGCCCTTGTTTGCACTTCGGTGCCCCTGTATACACTTTGGTGTTCCTGTTC
1 GCACTACGGTGCCCCTATTTGCACTTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTTC
* *
29179456 GCACTACGGTGCCCCTATTTGCACATT-TGTGCCCCTGTCTACACTTCGGTGCCCCTGTT
1 GCACTACGGTGCCCCTATTTGCAC-TTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTT
29179515 ATGCATCTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
60 48 0.96
61 2 0.04
ACGTcount: A:0.10, C:0.33, G:0.22, T:0.35
Consensus pattern (60 bp):
GCACTACGGTGCCCCTATTTGCACTTCGGTGCCCCTGTATACACTTCGGTGCCCCTGTTC
Found at i:29181863 original size:50 final size:50
Alignment explanation
Indices: 29181752--29181937 Score: 196
Period size: 50 Copynumber: 3.7 Consensus size: 50
29181742 GAGCATGAGG
* * * **
29181752 TCCCATGTAAGACAATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
*** * * *
29181802 TCCCCCATAAGACCATTTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
* * * **
29181852 TCCCATGTAAGACCATATCTTGGATATGGCATTGGCA-ATACATGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
*
29181900 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
29181938 TGTTATTATC
Statistics
Matches: 111, Mismatches: 24, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
48 3 0.03
49 38 0.34
50 70 0.63
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC
Found at i:29184826 original size:25 final size:25
Alignment explanation
Indices: 29184772--29184826 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
29184762 TTGCATGAGT
* *
29184772 TTCCCGTTATTTAGCTCACATGATC
1 TTCCCGTTATTTAGCTCACACGAGC
*
29184797 CTCCCGTTATTTAGAC-CACACGAGC
1 TTCCCGTTATTTAG-CTCACACGAGC
29184822 TTCCC
1 TTCCC
29184827 ATTTACAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.33
Consensus pattern (25 bp):
TTCCCGTTATTTAGCTCACACGAGC
Found at i:29187695 original size:14 final size:14
Alignment explanation
Indices: 29187678--29187706 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29187668 AATTTTTATT
29187678 AATGAATTATTAAA
1 AATGAATTATTAAA
29187692 AATGAATTATTAAA
1 AATGAATTATTAAA
29187706 A
1 A
29187707 TATAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:29196546 original size:25 final size:25
Alignment explanation
Indices: 29196518--29196573 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
29196508 AAGTATTATA
*
29196518 CAGAGAACATAAATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
* * **
29196543 CAGATAGCACCGATGTGCTAATAAT
1 CAGAGAACACAAATGTGCTAATAAT
29196568 CAGAGA
1 CAGAGA
29196574 GCACGCTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (25 bp):
CAGAGAACACAAATGTGCTAATAAT
Found at i:29196576 original size:25 final size:25
Alignment explanation
Indices: 29196530--29196577 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
29196520 GAGAACATAA
*
29196530 ATGTGCTAATAATCAGATAGCACCG
1 ATGTGCTAATAATCAGAGAGCACCG
29196555 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
29196578 GCTAAACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACCG
Found at i:29197661 original size:100 final size:100
Alignment explanation
Indices: 29197552--29197816 Score: 293
Period size: 100 Copynumber: 2.6 Consensus size: 100
29197542 TATCCCAGAT
* * *
29197552 ATGGTCTTACATGGGAGTTCTC-ACATCAGTGCCCATGCTATGTCCCAA-ACATGGTCTTACG-G
1 ATGGTCTTACATGGGACTTCTCAAC-TCAGTGCCAATGCCATGT-CCAAGACATGGTCTTA-GAG
* **
29197614 GAGACTTCTCATCTTGGTGCCAACACCATGTCCCAAAC
63 GAGACCTCTCATCTCAGTGCCAACACCATGTCCCAAAC
* *
29197652 ATGGTCTTACATGAGACTTCTCAACTCAGTGCCAATGCCATGTCCAAGACATGGTCTTAGATGAG
1 ATGGTCTTACATGGGACTTCTCAACTCAGTGCCAATGCCATGTCCAAGACATGGTCTTAGAGGAG
* * *
29197717 ACCTCTCATCTCAGTGCCAACGCTATGTCCCAGAC
66 ACCTCTCATCTCAGTGCCAACACCATGTCCCAAAC
* * * *
29197752 ATGGTCTTACATGGGACCTCTCATAATTTCAATAATGCCAATGCCATGTCCCAGACATGGTCTTA
1 ATGGTCTTACATGGGACTTCTC--AA-CTC---AGTGCCAATGCCATGTCCAAGACATGGTCTTA
29197817 CACTGGCTCA
Statistics
Matches: 140, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
99 5 0.04
100 99 0.71
101 2 0.01
102 2 0.01
103 2 0.01
106 30 0.21
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (100 bp):
ATGGTCTTACATGGGACTTCTCAACTCAGTGCCAATGCCATGTCCAAGACATGGTCTTAGAGGAG
ACCTCTCATCTCAGTGCCAACACCATGTCCCAAAC
Found at i:29197801 original size:56 final size:50
Alignment explanation
Indices: 29197481--29197818 Score: 248
Period size: 50 Copynumber: 6.7 Consensus size: 50
29197471 TCACAATAAC
* * * * ** * * *
29197481 ATGCCAAAGCCATATCCCAGACATTGTCTTACATGGGATGTTTCCTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * * * **
29197530 CTGCTAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCA-CATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATC-TCA
* * * * ** * **
29197580 GTGCCCATGCTATGTCCCAAACATGGTCTTACGGGAGACTTCTCATCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* ** * * *
29197630 GTGCCAACACCATGTCCCAAACATGGTCTTACATGAGACTTCTCAACTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * *
29197680 GTGCCAATGCCATGTCCAAGACATGGTCTTAGATGAGACCTCTCATCTCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
* * * * *
29197730 GTGCCAACGCTATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTC---ATCTC---A
29197786 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACA
29197819 CTGGCTCACA
Statistics
Matches: 232, Mismatches: 48, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
49 37 0.16
50 159 0.69
51 1 0.00
53 4 0.02
56 31 0.13
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCA
Found at i:29201935 original size:50 final size:50
Alignment explanation
Indices: 29201880--29201975 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
29201870 TGTTGGCGTT
** * *
29201880 GGCACCGAGATGATAGGTCCCCCGTAAGACCATGTCTGGGACATGGGATG
1 GGCACCGAGATGATAACTCCCACGTAAGACCATATCTGGGACATGGGATG
* * *
29201930 GGCACCGATATGATAACTCCCATGTAAGACCATATCTGGGATATGG
1 GGCACCGAGATGATAACTCCCACGTAAGACCATATCTGGGACATGG
29201976 CATTGGCAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
GGCACCGAGATGATAACTCCCACGTAAGACCATATCTGGGACATGGGATG
Found at i:29202017 original size:49 final size:49
Alignment explanation
Indices: 29201903--29202023 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 49
29201893 TAGGTCCCCC
* * *
29201903 GTAAGACCATGTCTGGGACATGGGATGGGCACCGATATGATAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-CGACAGGATAACTCCCAT
* * * *
29201953 GTAAGACCATATCTGGGATATGGCATTGGCA-GTACAGGA-AACATCCTAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACG-ACAGGATAAC-TCCCAT
29202002 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
29202024 CCTTTGGCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 4 0.07
49 29 0.48
50 27 0.45
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACGACAGGATAACTCCCAT
Found at i:29202260 original size:20 final size:20
Alignment explanation
Indices: 29202235--29202273 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29202225 TGAGTTATTT
29202235 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
29202255 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
29202274 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:29205672 original size:50 final size:50
Alignment explanation
Indices: 29205618--29205762 Score: 191
Period size: 50 Copynumber: 2.9 Consensus size: 50
29205608 TATTGAGATT
*
29205618 ATGAGAGGTCCCACATAAGACCATGTTTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
* * *
29205668 ATGAGAGGTCCCTCGTAAGACCATGTTTGGGACATGGCATAGGCACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
** * * * * *
29205718 ATGAGAACTCCCATGTAAGACCATATATGGGATATGACATTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA
29205763 GTACTGAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCACCGAG
Found at i:29205852 original size:49 final size:49
Alignment explanation
Indices: 29205726--29205853 Score: 193
Period size: 49 Copynumber: 2.6 Consensus size: 49
29205716 ATATGAGAAC
* * *
29205726 TCCCATGTAAGACCATATATGGGATATGACATTGGCAGTACTGAAAACA
1 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
* * *
29205775 TCCCATGTAAAACCATATCTAGGATATGGCATTGGTAGTACAGAAAACA
1 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
*
29205824 TCCCATGTAAGACCATGTCTGGGATATGGC
1 TCCCATGTAAGACCATATCTGGGATATGGC
29205854 TTTCGCATGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (49 bp):
TCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAGAAAACA
Found at i:29206075 original size:20 final size:20
Alignment explanation
Indices: 29206050--29206089 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
29206040 ATGAGTTATT
29206050 CAAGTAAG-GAAGTAAGTAAA
1 CAAGTAAGAG-AGTAAGTAAA
29206070 CAAGTAAGAGAGTAAGTAAA
1 CAAGTAAGAGAGTAAGTAAA
29206090 GAATAAGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.25, T:0.15
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTAAA
Found at i:29213410 original size:50 final size:50
Alignment explanation
Indices: 29213355--29213497 Score: 160
Period size: 50 Copynumber: 2.9 Consensus size: 50
29213345 TATTGTGATT
* *
29213355 ATGAGAGGTCTCACATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * * * *
29213405 ATGAGAGGTCCCCCAAAAGACAATGTTTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** ** * *
29213455 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATTGG
29213498 AAATACAGAA
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:29213776 original size:20 final size:20
Alignment explanation
Indices: 29213751--29213789 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
29213741 TGAGTTATTT
29213751 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
29213771 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
29213790 GAAGAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:29216776 original size:54 final size:54
Alignment explanation
Indices: 29216713--29216889 Score: 257
Period size: 54 Copynumber: 3.3 Consensus size: 54
29216703 ACATTTAAAT
* * * * *
29216713 TTTAATCCAGCAAC-TAAGTGAACTAAGTTGAACTTAATTAACGAAGATGAGTAA
1 TTTATTCCAGCAACTTAA-TTAACTAAGATGAACTCAATTAACAAAGATGAGTAA
29216767 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACAAAGATGAGTAA
1 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACAAAGATGAGTAA
* * *
29216821 TTTATTCCGGCAACTTAATTAACTAAGATGAACCCAATTAACTAAGATGAGTAA
1 TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACAAAGATGAGTAA
*
29216875 TTTATTCCAGTAACT
1 TTTATTCCAGCAACT
29216890 AAATACTTAT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 109 0.97
55 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (54 bp):
TTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACAAAGATGAGTAA
Found at i:29216805 original size:19 final size:19
Alignment explanation
Indices: 29216778--29216870 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
29216768 TTATTCCAGC
*
29216778 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
*
29216797 AACTCAATTAACAAAGATG
1 AACTCAATTAACTAAGATG
* * * **
29216816 -AGT-AATTTATTCCG--G
1 AACTCAATTAACTAAGATG
*
29216831 CAACTTAATTAACTAAGATG
1 -AACTCAATTAACTAAGATG
*
29216851 AACCCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
29216870 A
1 A
29216871 GTAATTTATT
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
15 1 0.02
17 8 0.15
18 9 0.17
19 35 0.65
20 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:29221811 original size:25 final size:25
Alignment explanation
Indices: 29221698--29221805 Score: 153
Period size: 25 Copynumber: 4.3 Consensus size: 25
29221688 TTCAACTCTT
* *
29221698 ATGAGCTTCCCAATACTCAGCTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
*
29221723 ATGAGCTTCCCATTATTCAGGTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* *
29221748 ATGAGCTTTCCATTATTCAGCTGAC
1 ATGAGCTTCCCATTATTCAGCTCAC
* *
29221773 ATGAGCTTCCCGTTATTCAACTCAC
1 ATGAGCTTCCCATTATTCAGCTCAC
29221798 ATGAGCTT
1 ATGAGCTT
29221806 TTCGTTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCATTATTCAGCTCAC
Found at i:29238250 original size:17 final size:18
Alignment explanation
Indices: 29238228--29238265 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
29238218 TTTGGGCCAA
*
29238228 GTGGG-CCACACGGGTGT
1 GTGGGCCCACACGGGCGT
*
29238245 GTGGGCCCACATGGGCGT
1 GTGGGCCCACACGGGCGT
29238263 GTG
1 GTG
29238266 AGCTTTCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGGGCCCACACGGGCGT
Found at i:29243245 original size:17 final size:19
Alignment explanation
Indices: 29243218--29243258 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
29243208 AAGGCTAATT
29243218 TGGGTCATGTGGG-CCACA
1 TGGGTCATGTGGGACCACA
29243236 TGGG-CATGTGGGACCACA
1 TGGGTCATGTGGGACCACA
*
29243254 CGGGT
1 TGGGT
29243259 GAACATCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.17, C:0.22, G:0.41, T:0.20
Consensus pattern (19 bp):
TGGGTCATGTGGGACCACA
Found at i:29246647 original size:22 final size:21
Alignment explanation
Indices: 29246600--29246647 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
29246590 AATAATATAG
*
29246600 TTTTAATAAATGCAGAAAAATC
1 TTTTAATAAATGAAGAAAAA-C
29246622 TTTTAATAAATGGAAAGAAAAA-
1 TTTTAATAAAT-G-AAGAAAAAC
29246644 TTTT
1 TTTT
29246648 GAACTGCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 1 0.04
24 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (21 bp):
TTTTAATAAATGAAGAAAAAC
Found at i:29252214 original size:23 final size:22
Alignment explanation
Indices: 29252184--29252258 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 22
29252174 TCAGGCAAGT
*
29252184 TATTCTGTGGACCCTTTGGGCCA
1 TATTCTGTGGAGCCTTTGGG-CA
*
29252207 TATTCTGTGGAGCCTTTGTGTCA
1 TATTCTGTGGAGCCTTTG-GGCA
*
29252230 TATACTGTGGAGCCTTTGTGGCA
1 TATTCTGTGGAGCCTTTG-GGCA
29252253 TATTCT
1 TATTCT
29252259 ATAATGCCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 45 0.98
24 1 0.02
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (22 bp):
TATTCTGTGGAGCCTTTGGGCA
Found at i:29259108 original size:20 final size:20
Alignment explanation
Indices: 29259083--29259160 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
29259073 TTGTACGGGA
*
29259083 TTGCACTTCGGTGCCTCTAT
1 TTGCACTTCAGTGCCTCTAT
* * *
29259103 TTGCACTTTAATGCCTCTAA
1 TTGCACTTCAGTGCCTCTAT
*
29259123 TTGCACATT-TGTGCCTCT-T
1 TTGCAC-TTCAGTGCCTCTAT
*
29259142 TCTACACTTCAGTGCCTCT
1 T-TGCACTTCAGTGCCTCT
29259161 GTTACACATT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 3 0.07
20 41 0.89
21 2 0.04
ACGTcount: A:0.15, C:0.29, G:0.14, T:0.41
Consensus pattern (20 bp):
TTGCACTTCAGTGCCTCTAT
Found at i:29266297 original size:24 final size:24
Alignment explanation
Indices: 29266269--29266367 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 24
29266259 AGGCATCATC
* * *
29266269 GAATACGCCACGAAGGCACTTGCA
1 GAATATGCCACAAAGGCACTTACA
29266293 GAATATGCCACAAAGGCACTTACA
1 GAATATGCCACAAAGGCACTTACA
* * *
29266317 AAATATGCCACAAAGACACTTATA
1 GAATATGCCACAAAGGCACTTACA
29266341 GAATATGCCACAAAGGCACTTACA
1 GAATATGCCACAAAGGCACTTACA
29266365 GAA
1 GAA
29266368 CACGTGTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.16
Consensus pattern (24 bp):
GAATATGCCACAAAGGCACTTACA
Found at i:29269349 original size:22 final size:23
Alignment explanation
Indices: 29269308--29269350 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
29269298 AAAATCCTAC
*
29269308 CCATCCAGCCTCTACACTCCACT
1 CCATCCAGCCTCAACACTCCACT
29269331 CCATCCAGCCT-AACACTCCA
1 CCATCCAGCCTCAACACTCCA
29269351 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.19
Consensus pattern (23 bp):
CCATCCAGCCTCAACACTCCACT
Found at i:29269587 original size:27 final size:27
Alignment explanation
Indices: 29269556--29269730 Score: 181
Period size: 27 Copynumber: 6.5 Consensus size: 27
29269546 AAGCATACAT
* **
29269556 TCATTTTATAATATAGACGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* **
29269583 TCATTTTACAACATAGGGGCATAACCG
1 TCATTTTATAACATAGGGGCATAATAG
*
29269610 TCATTTTATAATATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
* * * *
29269637 TTATTTTACAACATAGGGGTATAACCA-
1 TCATTTTATAACATAGGGGCATAA-TAG
29269664 TCATTTTATAACATAGGGGCATAATAG
1 TCATTTTATAACATAGGGGCATAATAG
** * * *
29269691 TCATTTTACCACGTAAGGGCATAACAG
1 TCATTTTATAACATAGGGGCATAATAG
*
29269718 TTATTTTATAACA
1 TCATTTTATAACA
29269731 ATTTGGGGGT
Statistics
Matches: 118, Mismatches: 28, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
26 1 0.01
27 116 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (27 bp):
TCATTTTATAACATAGGGGCATAATAG
Found at i:29269620 original size:54 final size:54
Alignment explanation
Indices: 29269556--29269728 Score: 247
Period size: 54 Copynumber: 3.2 Consensus size: 54
29269546 AAGCATACAT
**
29269556 TCATTTTATAATATAGACGCATAATAGTCATTTTACAACATAGGGGCATAACCG
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
* * *
29269610 TCATTTTATAATATAGGGGCATAATAGTTATTTTACAACATAGGGGTATAACCA
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
* * * * *
29269664 TCATTTTATAACATAGGGGCATAATAGTCATTTTACCACGTAAGGGCATAACAG
1 TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
*
29269718 TTATTTTATAA
1 TCATTTTATAA
29269729 CAATTTGGGG
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (54 bp):
TCATTTTATAATATAGGGGCATAATAGTCATTTTACAACATAGGGGCATAACCG
Found at i:29269868 original size:23 final size:23
Alignment explanation
Indices: 29269832--29269905 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
29269822 TGGGCCCAAC
29269832 GCCCATAATGCGGGCCCATGTGG
1 GCCCATAATGCGGGCCCATGTGG
* *
29269855 GCCTATAATACGGGCCCATGTGG
1 GCCCATAATGCGGGCCCATGTGG
* *
29269878 GCCCATAATGCGAGCCCATGTGA
1 GCCCATAATGCGGGCCCATGTGG
29269901 GCCCA
1 GCCCA
29269906 CATAGCCCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.22, C:0.31, G:0.30, T:0.18
Consensus pattern (23 bp):
GCCCATAATGCGGGCCCATGTGG
Found at i:29271025 original size:32 final size:32
Alignment explanation
Indices: 29270924--29271025 Score: 95
Period size: 32 Copynumber: 3.2 Consensus size: 32
29270914 CCATTTGTAG
*
29270924 CAGTGATATGATCGACACACAGCCATCAATAA
1 CAGTGATGTGATCGACACACAGCCATCAATAA
* * *
29270956 CGGTAACT-TGATCAGTACA-A-AGCGATCAATGAA
1 CAGTGA-TGTGATC-G-ACACACAGCCATCAAT-AA
*
29270989 -AGTGATGTGATCGACACACAGCCATCAGTAA
1 CAGTGATGTGATCGACACACAGCCATCAATAA
29271020 CAGTGA
1 CAGTGA
29271026 AATTATCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
30 3 0.05
31 5 0.09
32 39 0.71
33 5 0.09
34 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (32 bp):
CAGTGATGTGATCGACACACAGCCATCAATAA
Found at i:29271367 original size:27 final size:27
Alignment explanation
Indices: 29271332--29271696 Score: 330
Period size: 27 Copynumber: 13.6 Consensus size: 27
29271322 CCACCAGGGC
*
29271332 ATTACGGTCATTTTACCCTACAGTGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
29271359 ACTACGGTCATTTTACCCTGCAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
29271386 ATTACGGTCATTTTACCCTAAAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* *
29271413 A-TATGGTAATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
29271439 ATTACAGTCATTTTTCCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
*
29271466 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
29271493 ATTACGATCATTTTACCCTATA-GCGT
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
29271519 CTTTACGGTCATTTTATCCTATAGGGGT
1 -ATTACGGTCATTTTACCCTACAGGGGT
* *
29271547 ATTACAGTCATTTTACCCTA-TGGAGGT
1 ATTACGGTCATTTTACCCTACAGG-GGT
* *
29271574 ACTT-CGAT-ATTCTACCCTAC-GGGGTT
1 A-TTACGGTCATTTTACCCTACAGGGG-T
* ** *
29271600 ATTTCGGTCATTTTACCCTATTGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGT
* * *
29271627 ATTTCAGTCATTTTACCC-ATCAAGGGT
1 ATTACGGTCATTTTACCCTA-CAGGGGT
** * * *
29271654 ATTTTGGTCAGTTTACCCTTCAAGGGT
1 ATTACGGTCATTTTACCCTACAGGGGT
*
29271681 ATTTCGGTCATTTTAC
1 ATTACGGTCATTTTAC
29271697 ACATCGAGGG
Statistics
Matches: 278, Mismatches: 48, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
25 4 0.01
26 46 0.17
27 219 0.79
28 9 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGT
Found at i:29271450 original size:80 final size:81
Alignment explanation
Indices: 29271313--29271696 Score: 311
Period size: 80 Copynumber: 4.8 Consensus size: 81
29271303 GGCAAAAATA
* * * * * *
29271313 GTCA-TTTACCC-ACCAGGGCATTACGGTCATTTTACCCTACAGTGGTACTACGGTCATTTTACC
1 GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCCTACAGGGGTATTACGGTCATTTTACC
* *
29271376 CTGCAGAGGTATTACG
66 CTACAGGGGTATTACG
* * * *
29271392 GTCATTTTACCCTA-AAGGGGTA-TATGGTAATTTTACCCTACAGGGGTATTACAGTCATTTTTC
1 GTCATTTTACCCTACAA-GGGTATTACGATAATTTTACCCTACAGGGGTATTACGGTCATTTTAC
*
29271455 CCTACAGGGGCATTACG
65 CCTACAGGGGTATTACG
* * * * *
29271472 GTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTATA-GCGTCTTTACGGTCATTTTAT
1 GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCCTACAGGGGT-ATTACGGTCATTTTAC
* *
29271536 CCTATAGGGGTATTACA
65 CCTACAGGGGTATTACG
** * *
29271553 GTCATTTTACCCTA-TGGAGGTACTT-CGAT-ATTCTACCCTAC-GGGGTTATTTCGGTCATTTT
1 GTCATTTTACCCTACAAG-GGTA-TTACGATAATTTTACCCTACAGGGG-TATTACGGTCATTTT
** * * *
29271614 ACCCTATTGGGGCATTTCA
63 ACCCTACAGGGGTATTACG
** * * * * * *
29271633 GTCATTTTACCC-ATCAAGGGTATTTTGGTCAGTTTACCCTTCAAGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTA-CAAGGGTATTACGATAATTTTACCCTACAGGGGTATTACGGTCATTTTAC
29271697 ACATCGAGGG
Statistics
Matches: 248, Mismatches: 42, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
79 7 0.03
80 137 0.55
81 99 0.40
82 5 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
GTCATTTTACCCTACAAGGGTATTACGATAATTTTACCCTACAGGGGTATTACGGTCATTTTACC
CTACAGGGGTATTACG
Found at i:29271592 original size:134 final size:132
Alignment explanation
Indices: 29271312--29271619 Score: 326
Period size: 134 Copynumber: 2.3 Consensus size: 132
29271302 GGGCAAAAAT
* *
29271312 AGTCATT-TACCC-ACCAGGGCATTACGGTCATTTTACCCTACAGTGGTACTACGGTCATTTTAC
1 AGTCATTCTACCCTA-CGGGGCATTACGGTCATTTTACCCTACAGTGGTACTACGATCATTTTAC
**
29271375 CCTGCAGAGGTATTACGGTCATTTTACCCTAAAGGGGTATATGGTAATTTTACCCTACAGGGGTA
65 CCT-CAGAGGTATTACGGTCATTTTACCCTAAAGGGGTATACAGTAATTTTACCCTACAGGGGTA
29271440 TTAC
129 TTAC
* * *
29271444 AGTCATTTTTCCCTACAGGGGCATTACGGTCATTTTACCCTACAAG-GGTATTACGATCATTTTA
1 AGTCATTCTACCCTAC-GGGGCATTACGGTCATTTTACCCTAC-AGTGGTACTACGATCATTTTA
* * * * * *
29271508 CCCT-ATAGCGTCTTTACGGTCATTTTATCCTATAGGGGTATTACAGTCATTTTACCCTA-TGGA
64 CCCTCAGAG-GT-ATTACGGTCATTTTACCCTAAAGGGGTA-TACAGTAATTTTACCCTACAGG-
29271571 GGTACTT-C
125 GGTA-TTAC
* *
29271579 -GAT-ATTCTACCCTACGGGGTTATTTCGGTCATTTTACCCTA
1 AG-TCATTCTACCCTACGGGG-CATTACGGTCATTTTACCCTA
29271620 TTGGGGCATT
Statistics
Matches: 149, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
132 10 0.07
133 11 0.07
134 103 0.69
135 23 0.15
136 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (132 bp):
AGTCATTCTACCCTACGGGGCATTACGGTCATTTTACCCTACAGTGGTACTACGATCATTTTACC
CTCAGAGGTATTACGGTCATTTTACCCTAAAGGGGTATACAGTAATTTTACCCTACAGGGGTATT
AC
Found at i:29271710 original size:161 final size:161
Alignment explanation
Indices: 29271312--29271695 Score: 374
Period size: 161 Copynumber: 2.4 Consensus size: 161
29271302 GGGCAAAAAT
* * * * * * *
29271312 AGTCA-TTTACCC-ACCAGGGCATTACGGTCATTTTACCCTACAGTGGTA-CTACGGTCATTTTA
1 AGTCATTTTACCCTACAAGGGTATTACGATCAGTTTACCCTATAG-CGTATTTACGGTCATTTTA
* ** * * * *
29271374 CCCTGCAGAGGTATTACGGTCATTTTACCCTAAAGGGGTATATGGTAATTTTACCCTACAGGGGT
65 TCCTATAGGGGTATTACAGTCATTTTACCCTAAAGGGGTATATGATAATTCTACCCTACAGGGGT
*
29271439 ATTACAGTCATTTTTCCCTACAGGGGCATTAC
130 ATTACAGTCATTTTACCCTACAGGGGCATTAC
* * *
29271471 GGTCATTTTACCCTACAAGGGTATTACGATCATTTTACCCTATAGCGTCTTTACGGTCATTTTAT
1 AGTCATTTTACCCTACAAGGGTATTACGATCAGTTTACCCTATAGCGTATTTACGGTCATTTTAT
*
29271536 CCTATAGGGGTATTACAGTCATTTTACCCT-ATGGAGGTACT-TCGAT-ATTCTACCCTAC-GGG
66 CCTATAGGGGTATTACAGTCATTTTACCCTAAAGG-GGTA-TAT-GATAATTCTACCCTACAGGG
* * ** *
29271597 GTTATTTCGGTCATTTTACCCTATTGGGGCATTTC
128 G-TATTACAGTCATTTTACCCTACAGGGGCATTAC
** * *
29271632 AGTCATTTTACCC-ATCAAGGGTATTTTGGTCAGTTTACCCT-TCAAGGGTATTT-CGGTCATTT
1 AGTCATTTTACCCTA-CAAGGGTATTACGATCAGTTTACCCTAT--AGCGTATTTACGGTCATTT
29271694 TA
63 TA
29271696 CACATCGAGG
Statistics
Matches: 186, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
159 4 0.02
160 18 0.10
161 154 0.83
162 10 0.05
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (161 bp):
AGTCATTTTACCCTACAAGGGTATTACGATCAGTTTACCCTATAGCGTATTTACGGTCATTTTAT
CCTATAGGGGTATTACAGTCATTTTACCCTAAAGGGGTATATGATAATTCTACCCTACAGGGGTA
TTACAGTCATTTTACCCTACAGGGGCATTAC
Found at i:29279593 original size:28 final size:28
Alignment explanation
Indices: 29279561--29279623 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
29279551 ACAGTAACAT
* *
29279561 ACAGTGTAGGCCTTAGCCCAATACAGAA
1 ACAGTATAGGCCTAAGCCCAATACAGAA
* * *
29279589 ACAGTATGGGCCTAAGCCCGATACAGTA
1 ACAGTATAGGCCTAAGCCCAATACAGAA
*
29279617 TCAGTAT
1 ACAGTAT
29279624 GGTGCAAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (28 bp):
ACAGTATAGGCCTAAGCCCAATACAGAA
Found at i:29279624 original size:28 final size:28
Alignment explanation
Indices: 29279569--29279625 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
29279559 ATACAGTGTA
*
29279569 GGCCTTAGCCCAATACAGAAACAGTATG
1 GGCCTAAGCCCAATACAGAAACAGTATG
* * *
29279597 GGCCTAAGCCCGATACAGTATCAGTATG
1 GGCCTAAGCCCAATACAGAAACAGTATG
29279625 G
1 G
29279626 TGCAAGTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (28 bp):
GGCCTAAGCCCAATACAGAAACAGTATG
Found at i:29279902 original size:32 final size:32
Alignment explanation
Indices: 29279833--29280098 Score: 196
Period size: 32 Copynumber: 8.3 Consensus size: 32
29279823 AATGGCTACA
* * * *
29279833 AGCCATAAGT-ACAGTAATGTGATTGGCACAA
1 AGCCATCAGTAACAGTAATATGATCGGCACAC
* *
29279864 AGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAC
* * * * *
29279896 ATCCATCAGTAACGGTAACATGATTGGTACGA-
1 AGCCATCAGTAACAGTAATATGATCGGCAC-AC
** * **
29279928 AGCCATCAGTGGCAGTGATATGATCAACACAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAC
* * *
29279960 AGCCATCAGTAACAGTAAAATGATTGGCATAC
1 AGCCATCAGTAACAGTAATATGATCGGCACAC
* * * * *
29279992 AACCA-CTGGTAATAGTAATATGATCGGTACAA
1 AGCCATC-AGTAACAGTAATATGATCGGCACAC
* * * ** *
29280024 AGCCATCAGTAACGGTACTATAATCAACACAA
1 AGCCATCAGTAACAGTAATATGATCGGCACAC
* * *
29280056 AGCCATCAGTAACAGTACTATGATCAGCACAA
1 AGCCATCAGTAACAGTAATATGATCGGCACAC
29280088 AGCCATCAGTA
1 AGCCATCAGTA
29280099 GCATCGTGGC
Statistics
Matches: 179, Mismatches: 51, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
31 11 0.06
32 166 0.93
33 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
AGCCATCAGTAACAGTAATATGATCGGCACAC
Found at i:29280079 original size:96 final size:95
Alignment explanation
Indices: 29279859--29280098 Score: 252
Period size: 96 Copynumber: 2.5 Consensus size: 95
29279849 ATGTGATTGG
* * * *
29279859 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACATCCATCAGTAACGGTAACATGATTGGT
1 CACAAAGCCATCAGTAACAGT-ATATGATCGGCACACAACCATCAGTAACAGTAACATGATCGGT
* ** *
29279924 ACGAAGCCATCAGTGGCAGTGATATGATCAA
65 ACAAAGCCATCAGTAACAGTGATATAATCAA
* * * * * * *
29279955 CACACAGCCATCAGTAACAGTAAAATGATTGGCATACAACCA-CTGGTAATAGTAATATGATCGG
1 CACAAAGCCATCAGTAACAGT-ATATGATCGGCACACAACCATC-AGTAACAGTAACATGATCGG
*
29280019 TACAAAGCCATCAGTAACGGT-ACTATAATCAA
64 TACAAAGCCATCAGTAACAGTGA-TATAATCAA
*
29280051 CACAAAGCCATCAGTAACAGTACTATGATCAGCACA-AAGCCATCAGTA
1 CACAAAGCCATCAGTAACAGTA-TATGATCGGCACACAA-CCATCAGTA
29280099 GCATCGTGGC
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
95 5 0.04
96 110 0.95
97 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (95 bp):
CACAAAGCCATCAGTAACAGTATATGATCGGCACACAACCATCAGTAACAGTAACATGATCGGTA
CAAAGCCATCAGTAACAGTGATATAATCAA
Found at i:29280177 original size:27 final size:27
Alignment explanation
Indices: 29280139--29280302 Score: 122
Period size: 27 Copynumber: 6.1 Consensus size: 27
29280129 CGAGGCAAAG
*
29280139 CCTATAGGGGTATTACGGTCATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* *
29280166 CCTACAGGGGTATTACGATTATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* ** *
29280193 TCTACAGAAGCATTACGGTCATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* * * *
29280220 CCTATAGGAGCATTACGATCATTTTAC
1 CCTACAGGGGTATTACGGTCATTTTAC
* * *
29280247 CC-ATC-GAGGGTATTTCGTTTATTTTA-
1 CCTA-CAG-GGGTATTACGGTCATTTTAC
29280273 CCTA-ACGAGGGTATCT-CGGTCATTTTAC
1 CCTACA-G-GGGTAT-TACGGTCATTTTAC
29280301 CC
1 CC
29280303 ATCGAGGGTA
Statistics
Matches: 109, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.04
27 102 0.94
28 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
CCTACAGGGGTATTACGGTCATTTTAC
Found at i:29280308 original size:27 final size:27
Alignment explanation
Indices: 29280238--29280313 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
29280228 AGCATTACGA
* *
29280238 TCATTTTACCCATCGAGGGTATTTCGT
1 TCATTTTACCCATCGAGGGTATCTCGG
* * *
29280265 TTATTTTACCTAACGAGGGTATCTCGG
1 TCATTTTACCCATCGAGGGTATCTCGG
29280292 TCATTTTACCCATCGAGGGTAT
1 TCATTTTACCCATCGAGGGTAT
29280314 TTTAGTCCAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATCTCGG
Found at i:29281777 original size:17 final size:17
Alignment explanation
Indices: 29281755--29281788 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
29281745 CACAAAACCG
*
29281755 AAATGAAGAGTATACCA
1 AAATGAAGAGCATACCA
*
29281772 AAATGAGGAGCATACCA
1 AAATGAAGAGCATACCA
29281789 CTCTAGCCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.21, T:0.15
Consensus pattern (17 bp):
AAATGAAGAGCATACCA
Found at i:29282645 original size:100 final size:100
Alignment explanation
Indices: 29282472--29282673 Score: 359
Period size: 100 Copynumber: 2.0 Consensus size: 100
29282462 ATTGGTGAGA
* *
29282472 ATGCTAATAGTCTGTTTCAATTGGTGGATTTAGAATTTTGCGATTACTATCATGATTTCAAACGT
1 ATGCTAATAGTCTGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTATCATGATTTAAAACGT
*
29282537 TACTTAACTTACTCTTTGACAGATGTCAAATTTAT
66 TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
* *
29282572 ATGCTAATAGTCTGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTCTCATGATTTAAAATGT
1 ATGCTAATAGTCTGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTATCATGATTTAAAACGT
29282637 TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
66 TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
29282672 AT
1 AT
29282674 TTGATAAGCC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (100 bp):
ATGCTAATAGTCTGTTTCAATTGGTGGATTCAGAATTTTGCGATTACTATCATGATTTAAAACGT
TACTTAACTTACTCTTTGACAAATGTCAAATTTAT
Found at i:29284758 original size:6 final size:6
Alignment explanation
Indices: 29284740--29284777 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
29284730 TATTTACATT
29284740 ATTATC A-TATC ATTATC ATTATC ATTATC ATTATC ATT
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATT
29284778 TGGCATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTATC
Found at i:29292342 original size:28 final size:28
Alignment explanation
Indices: 29292306--29292362 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
29292296 ATTGCACTGT
* * *
29292306 ACTGATACTGCGTTGGGCTAAGGCCCAC
1 ACTGATACTACATTGGGCTAAGACCCAC
* *
29292334 ACTGTTACTATATTGGGCTAAGACCCAC
1 ACTGATACTACATTGGGCTAAGACCCAC
29292362 A
1 A
29292363 TTGTACCGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (28 bp):
ACTGATACTACATTGGGCTAAGACCCAC
Found at i:29302896 original size:6 final size:6
Alignment explanation
Indices: 29302878--29302907 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
29302868 ATGCAATACT
29302878 TATTTA TATTTTA TATTTA TATTTA TATTT
1 TATTTA TA-TTTA TATTTA TATTTA TATTT
29302908 GGTTGGACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TATTTA
Found at i:29303058 original size:3 final size:3
Alignment explanation
Indices: 29303050--29303075 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29303040 GGATTATTCT
29303050 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
29303076 TAAGTGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:29310998 original size:27 final size:27
Alignment explanation
Indices: 29310908--29311005 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
29310898 CACGATAGCT
29310908 AAGGATAGCCTTTGTGGCGAACTCTAA
1 AAGGATAGCCTTTGTGGCGAACTCTAA
* *
29310935 AAGAATAGCCTTTGTGGTGAACTCTGAA
1 AAGGATAGCCTTTGTGGCGAACTCT-AA
* * *
29310963 AGGGAT-GCCTTTGTGGCAAATTCTAA
1 AAGGATAGCCTTTGTGGCGAACTCTAA
* * *
29310989 ATGGATTGCCTTAGTGG
1 AAGGATAGCCTTTGTGG
29311006 TGTGTTCTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.12
27 47 0.78
28 6 0.10
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AAGGATAGCCTTTGTGGCGAACTCTAA
Found at i:29312855 original size:20 final size:21
Alignment explanation
Indices: 29312803--29312856 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
29312793 AGTAGTGCAG
29312803 AGCTGCTAATAATGCAGATAA
1 AGCTGCTAATAATGCAGATAA
* *
29312824 A-CTGCCAGTAATGCAGA-AA
1 AGCTGCTAATAATGCAGATAA
*
29312843 AGCTGCTGATAATG
1 AGCTGCTAATAATG
29312857 TGGACAAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.11
20 23 0.85
21 1 0.04
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (21 bp):
AGCTGCTAATAATGCAGATAA
Found at i:29332697 original size:33 final size:33
Alignment explanation
Indices: 29332641--29332738 Score: 142
Period size: 33 Copynumber: 3.0 Consensus size: 33
29332631 CTTATGGCTT
* *
29332641 AAAGGGGTAAATTATATGAAATACAATTTGGCC
1 AAAGAGGTGAATTATATGAAATACAATTTGGCC
* * *
29332674 AATGAGGTGAATTGTATGAAATACAATTTAGCC
1 AAAGAGGTGAATTATATGAAATACAATTTGGCC
*
29332707 AAAGGGGTGAATTATATGAAATACAATTTGGC
1 AAAGAGGTGAATTATATGAAATACAATTTGGC
29332739 TAAGGGGACG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (33 bp):
AAAGAGGTGAATTATATGAAATACAATTTGGCC
Found at i:29339168 original size:114 final size:114
Alignment explanation
Indices: 29339007--29339296 Score: 313
Period size: 114 Copynumber: 2.6 Consensus size: 114
29338997 GGAATCATTT
* * * * * * * *
29339007 TCACCATCACGAATTCTATCTCTTTCATGCCTTCTATCCCTAAAGGAAGGCTTGTCATCTTCTTC
1 TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAACGCTTGTCATCTTCTTC
* *
29339072 ATCAGAAGATCTTGAACCTTCTTCTCTCC-GCCTATCCTTACCATCATCA
66 ATCAGAAGATCTAGAACCTTCTTCTC-CCTGCCTATCCTTACCACCATCA
* *
29339121 TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAATGCTTGCCATCTTCTTC
1 TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAACGCTTGTCATCTTCTTC
* * * * *
29339186 ATCAGAGGATCTAGGACGTTTTTCTCCCTGCCTATCCTTACCACCATTA
66 ATCAGAAGATCTAGAACCTTCTTCTCCCTGCCTATCCTTACCACCATCA
* * * * *
29339235 TCA--G-CATGAATTCTCTCACTTTCTTCG-CTCCTATCTCTATTA-GCACGCTTGTCTTCTTCT
1 TCACCGTCATGAATTCTCTCTCTTT-TACGCCTTCTATCTCTA-TAGGAACGCTTGTCATCTTCT
29339295 TC
64 TC
29339297 TCCAAAAGAT
Statistics
Matches: 150, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
111 44 0.29
112 6 0.04
113 2 0.01
114 98 0.65
ACGTcount: A:0.20, C:0.32, G:0.11, T:0.38
Consensus pattern (114 bp):
TCACCGTCATGAATTCTCTCTCTTTTACGCCTTCTATCTCTATAGGAACGCTTGTCATCTTCTTC
ATCAGAAGATCTAGAACCTTCTTCTCCCTGCCTATCCTTACCACCATCA
Found at i:29342993 original size:61 final size:61
Alignment explanation
Indices: 29342855--29342993 Score: 167
Period size: 63 Copynumber: 2.2 Consensus size: 61
29342845 ATTTATTCAC
* * *
29342855 ATGTGGTTCGAATGTATGTTCAAATTCTTTGAGCTGAAATTTATGTATGAATCTTATACATAT
1 ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAA-CTTATACA-AT
* *
29342918 ATGTGGTTCGAATATAGGTTACAAATTCCTTGAGCTG-TATTTAATGTTGTGAA-TTATAC-AT
1 ATGTGGTTCGAATATAGGTT-CAAATTCCTTGAGCTGAAATTT-ATG-TATGAACTTATACAAT
29342979 ATGTGGTTCGAATAT
1 ATGTGGTTCGAATAT
29342994 GTGTTTACTA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
61 17 0.25
63 28 0.41
64 18 0.26
65 5 0.07
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (61 bp):
ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAACTTATACAAT
Found at i:29347230 original size:42 final size:42
Alignment explanation
Indices: 29347171--29347253 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
29347161 AAATTCAATA
29347171 GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTTT
*
29347213 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTT
29347254 CACACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAAAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:29351425 original size:61 final size:61
Alignment explanation
Indices: 29351288--29351426 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 61
29351278 ATTTATTCAC
* * *
29351288 ATGTGGTTCGAATGTATGTTCAAATTCTTTGAGCTGAAATTTATGTATGAATCTTATACATAT
1 ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAA-CTTATACA-AT
* * *
29351351 ATGTGGTTTGAATATAGGTTACAAATTCCTTGAGCTG-TATTTAATGTTGTGAA-TTATAC-AT
1 ATGTGGTTCGAATATAGGTT-CAAATTCCTTGAGCTGAAATTT-ATG-TATGAACTTATACAAT
29351412 ATGTGGTTCGAATAT
1 ATGTGGTTCGAATAT
29351427 GTGTTTACTA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
61 16 0.24
63 27 0.41
64 18 0.27
65 5 0.08
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (61 bp):
ATGTGGTTCGAATATAGGTTCAAATTCCTTGAGCTGAAATTTATGTATGAACTTATACAAT
Found at i:29352188 original size:18 final size:18
Alignment explanation
Indices: 29352162--29352215 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
29352152 GAACCGATAT
*
29352162 AAAATCAGGAAA-AATGA
1 AAAAACAGGAAAGAATGA
29352179 AAAAACCAGGAAAGAAT-A
1 AAAAA-CAGGAAAGAATGA
*
29352197 AAAAAAAGGAAAGAATGA
1 AAAAACAGGAAAGAATGA
29352215 A
1 A
29352216 GAAAGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 14 0.44
18 15 0.47
19 3 0.09
ACGTcount: A:0.69, C:0.06, G:0.19, T:0.07
Consensus pattern (18 bp):
AAAAACAGGAAAGAATGA
Found at i:29355915 original size:40 final size:40
Alignment explanation
Indices: 29355871--29356061 Score: 283
Period size: 40 Copynumber: 4.8 Consensus size: 40
29355861 GATCAAAGGC
* * *
29355871 ACCGAAGTGCAAAGAAGGGCACGTAAGTGCAATCAGGGGT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
* *
29355911 ACCGAAGTACAAACAGGGGCACATAAGTGTAATCAGGGGT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
*
29355951 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGTT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
* * ** *
29355991 ACTGAAGTACAAACAAGGGCAAATAAGTGCAATTAGGGGT
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
29356031 ACCGAAGTACAAACAGGGGCACGTAAGTGCA
1 ACCGAAGTACAAACAGGGGCACGTAAGTGCA
29356062 GTCATTCAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.38, C:0.18, G:0.30, T:0.14
Consensus pattern (40 bp):
ACCGAAGTACAAACAGGGGCACGTAAGTGCAATCAGGGGT
Found at i:29356058 original size:20 final size:20
Alignment explanation
Indices: 29355887--29356058 Score: 109
Period size: 20 Copynumber: 8.6 Consensus size: 20
29355877 GTGCAAAGAA
* *
29355887 GGGCACGTAAGTGCAATCAG
1 GGGCACGTAAGTACAAACAG
*
29355907 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTAAGTACAAACAG
* ** *
29355927 GGGCACATAAGTGTAATCAG
1 GGGCACGTAAGTACAAACAG
*
29355947 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTAAGTACAAACAG
* *
29355967 GGGCACGTAAGTGCAATCAG
1 GGGCACGTAAGTACAAACAG
** *
29355987 GGTTAC-TGAAGTACAAACAA
1 GGGCACGT-AAGTACAAACAG
** * **
29356007 GGGCAAATAAGTGCAATTAG
1 GGGCACGTAAGTACAAACAG
*
29356027 GGGTACCG-AAGTACAAACAG
1 GGGCA-CGTAAGTACAAACAG
29356047 GGGCACGTAAGT
1 GGGCACGTAAGT
29356059 GCAGTCATTC
Statistics
Matches: 109, Mismatches: 35, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
19 6 0.06
20 99 0.91
21 4 0.04
ACGTcount: A:0.37, C:0.17, G:0.31, T:0.15
Consensus pattern (20 bp):
GGGCACGTAAGTACAAACAG
Found at i:29357398 original size:43 final size:43
Alignment explanation
Indices: 29357331--29357907 Score: 487
Period size: 43 Copynumber: 13.3 Consensus size: 43
29357321 TTGGCACATG
* * **
29357331 AGTGCATCA-CTGGGTAAACTGAAGCAACTATACTGGCACACGT
1 AGTGCATCATC-GGATAAACCGAAGCAACTATACTGGCACACAC
*
29357374 AGTGCATCATCGGATAATCCGAAGCAACTATACTGGCACAC-C
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * ** * * * * *
29357416 AATGCATTATTAGATAAACAGAAGCAACTATATTAGCGCAC-G
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
** * *
29357458 AGTGCATCATCAAATAAACCGAAGCAATTATACTAGCACACTGGCAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACA----CAC
* * * * *
29357505 ACGCGGCGCATCATCGGATAAACTGAAACAAGTATACTGACACACAC
1 A----GTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * *
29357552 AGTACATCATCAGATAAATCGAAGTAACTATACTGGCACACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* ** * *
29357595 AGTGCATCA-CTAGATAAGTCGAAGCAACTATATTGGCACACAT
1 AGTGCATCATC-GGATAAACCGAAGCAACTATACTGGCACACAC
* * * * *
29357638 AGTGCATCATCGAATAAACCGAAGTAACCATACTAGCATACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * *
29357681 AGTGCATCATCGGATAAACCAAAGGAACTATATTGGCACACAT
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * * *
29357724 AATGCATCGTTGGATAAACCGAAGTAACTATATTGGCACACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* * * * * ** *
29357767 AATGCATCATCGAATAAATCGAGGTAACTATACTAACACACAT
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
*
29357810 AGTGCATCATCGGATAAACAGAAGCAACTATACTGGCACACAC
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
* ** * * *
29357853 AGTGCATCATCGAATAAACTAAAGTAACTGTACTGGCACACAT
1 AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
29357896 AGTGCATCATCG
1 AGTGCATCATCG
29357908 AAGATACCAA
Statistics
Matches: 429, Mismatches: 93, Indels: 24
0.79 0.17 0.04
Matches are distributed among these distances:
42 65 0.15
43 325 0.76
44 2 0.00
46 1 0.00
47 5 0.01
51 31 0.07
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (43 bp):
AGTGCATCATCGGATAAACCGAAGCAACTATACTGGCACACAC
Found at i:29360212 original size:116 final size:117
Alignment explanation
Indices: 29359990--29360225 Score: 465
Period size: 116 Copynumber: 2.0 Consensus size: 117
29359980 ATTTTCTGTT
29359990 GAATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAAACAAATTGAA
1 GAATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAAACAAATTGAA
29360055 CGTTGAGCAATCAAATCAGTGGCTTTTTTATAACTAATATTATAACATAACA
66 CGTTGAGCAATCAAATCAGTGGCTTTTTTATAACTAATATTATAACATAACA
29360107 GAATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACC-AAAAAAAAACAAATTGAA
1 GAATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAAACAAATTGAA
29360171 CGTTGAGCAATCAAATCAGTGGCTTTTTTATAACTAATATTATAACATAACA
66 CGTTGAGCAATCAAATCAGTGGCTTTTTTATAACTAATATTATAACATAACA
29360223 GAA
1 GAA
29360226 ATTATGTAGG
Statistics
Matches: 119, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
116 73 0.61
117 46 0.39
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (117 bp):
GAATGCTAATAACAATGGGTGCACACGACTGAACTTAACCTGCACCAAAAAAAAAACAAATTGAA
CGTTGAGCAATCAAATCAGTGGCTTTTTTATAACTAATATTATAACATAACA
Found at i:29362449 original size:23 final size:23
Alignment explanation
Indices: 29362423--29362555 Score: 185
Period size: 23 Copynumber: 5.8 Consensus size: 23
29362413 ACTAATATGA
* *
29362423 AGCCGAAGCTACCACTGACACGT
1 AGCCGAAGCTACCACTGAAATGT
*
29362446 AGCCGTAGCTACCACTGAAATGT
1 AGCCGAAGCTACCACTGAAATGT
*
29362469 AGCTGAAGCTACCACTGAAATGT
1 AGCCGAAGCTACCACTGAAATGT
*
29362492 AGCCGAAGCTACCACTGATATGT
1 AGCCGAAGCTACCACTGAAATGT
*
29362515 AGCCGTAGCTACCACTGAAATGT
1 AGCCGAAGCTACCACTGAAATGT
* * *
29362538 AACCGAAACTGCCACTGA
1 AGCCGAAGCTACCACTGA
29362556 TCAATAACAC
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 97 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (23 bp):
AGCCGAAGCTACCACTGAAATGT
Found at i:29362553 original size:69 final size:69
Alignment explanation
Indices: 29362423--29362555 Score: 212
Period size: 69 Copynumber: 1.9 Consensus size: 69
29362413 ACTAATATGA
* * *
29362423 AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAGCTGAAGCTACCACTGAA
1 AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAACCGAAACTACCACTGAA
29362488 ATGT
66 ATGT
* * *
29362492 AGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAACCGAAACTGCCACTGA
1 AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAACCGAAACTACCACTGA
29362556 TCAATAACAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (69 bp):
AGCCGAAGCTACCACTGACACGTAGCCGTAGCTACCACTGAAATGTAACCGAAACTACCACTGAA
ATGT
Found at i:29364397 original size:38 final size:38
Alignment explanation
Indices: 29364346--29364425 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
29364336 TTCTAACAGC
*
29364346 TTAATTAACTAAATAAAACAACATAAATGACAAAATGT
1 TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
29364384 TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
1 TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
29364422 TTAA
1 TTAA
29364426 ACAATCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.59, C:0.10, G:0.04, T:0.28
Consensus pattern (38 bp):
TTAATTAACTAAATAAAACAACATAAATGACAAAATAT
Found at i:29369722 original size:24 final size:26
Alignment explanation
Indices: 29369675--29369732 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
29369665 TGTAGCTACA
*
29369675 ATGTATTATTAGCATTATAAATTTCTC
1 ATGTATTATTAGCA-TATAAATTTATC
* *
29369702 ATGTATTATTAGC-T-TAGATTTATT
1 ATGTATTATTAGCATATAAATTTATC
29369726 ATGTATT
1 ATGTATT
29369733 TGTTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.50
25 1 0.04
27 13 0.46
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (26 bp):
ATGTATTATTAGCATATAAATTTATC
Found at i:29374860 original size:9 final size:9
Alignment explanation
Indices: 29374842--29374878 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
29374832 TCAGTTTTTG
*
29374842 AATTCAAAT
1 AATTCGAAT
29374851 AATTCGAAT
1 AATTCGAAT
29374860 AATTCGAAT
1 AATTCGAAT
29374869 AATTCGAAT
1 AATTCGAAT
29374878 A
1 A
29374879 TCAAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:29375517 original size:18 final size:18
Alignment explanation
Indices: 29375494--29375563 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
29375484 TAATTTCACA
29375494 TTTTATTTTTAAAATAAT
1 TTTTATTTTTAAAATAAT
**
29375512 TTTTA-TTAAAAAATCATAT
1 TTTTATTTTTAAAAT-A-AT
* * *
29375531 TTTTATATTTAATATATT
1 TTTTATTTTTAAAATAAT
* *
29375549 TTTTAATTCTAAAAT
1 TTTTATTTTTAAAAT
29375564 GCATAAGCAA
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
17 7 0.18
18 18 0.47
19 8 0.21
20 5 0.13
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTATTTTTAAAATAAT
Found at i:29376690 original size:11 final size:11
Alignment explanation
Indices: 29376674--29376726 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
29376664 TGTTAAAAAA
29376674 TATTATTAAAT
1 TATTATTAAAT
29376685 TATTATT-AA-
1 TATTATTAAAT
*
29376694 -ATTGTTAAAT
1 TATTATTAAAT
29376704 TATTATT--AT
1 TATTATTAAAT
*
29376713 TATTATTATAT
1 TATTATTAAAT
29376724 TAT
1 TAT
29376727 AAAATAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
8 5 0.14
9 11 0.31
10 2 0.06
11 17 0.49
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
TATTATTAAAT
Found at i:29376848 original size:25 final size:24
Alignment explanation
Indices: 29376818--29376878 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 24
29376808 TTGTAATTAC
29376818 TTATTATATAAGAAAATATTATAT
1 TTATTATATAAGAAAATATTATAT
** *
29376842 TATATTATATTATTAAAGTATTATAT
1 T-TATTATA-TAAGAAAATATTATAT
*
29376868 TTATTAAATAA
1 TTATTATATAA
29376879 TAAACAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.10
25 13 0.43
26 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (24 bp):
TTATTATATAAGAAAATATTATAT
Found at i:29376865 original size:16 final size:17
Alignment explanation
Indices: 29376844--29376875 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29376834 TATTATATTA
29376844 TATTATA-TTATTAAAG
1 TATTATATTTATTAAAG
29376860 TATTATATTTATTAAA
1 TATTATATTTATTAAA
29376876 TAATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTATATTTATTAAAG
Found at i:29376940 original size:17 final size:17
Alignment explanation
Indices: 29376891--29376930 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
29376881 AACAAAACAT
*
29376891 AAACTAAAAGAATAAAAG
1 AAAC-AAAAGAAGAAAAG
29376909 AAACAAAAGAAGAAAAG
1 AAACAAAAGAAGAAAAG
29376926 AAACA
1 AAACA
29376931 GAATAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.05
Consensus pattern (17 bp):
AAACAAAAGAAGAAAAG
Found at i:29377361 original size:24 final size:23
Alignment explanation
Indices: 29377328--29377374 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
29377318 ATTTGAATAG
29377328 AAATAGAGTGTGAATTGAGTTAGGA
1 AAATAGA--GTGAATTGAGTTAGGA
*
29377353 AAATA-AGTGAATTTAGTTAGGA
1 AAATAGAGTGAATTGAGTTAGGA
29377375 TTAAATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.71
24 1 0.05
25 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.30
Consensus pattern (23 bp):
AAATAGAGTGAATTGAGTTAGGA
Found at i:29379346 original size:22 final size:22
Alignment explanation
Indices: 29379301--29379356 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
29379291 GACGGAAAGC
* * *
29379301 AAAAACAAGATAAAAACTTTAA
1 AAAAACAAGAGAAAAACCTAAA
*
29379323 AAAAACAAGAGAAAACCCTAAA
1 AAAAACAAGAGAAAAACCTAAA
**
29379345 AACTACAAGAGA
1 AAAAACAAGAGA
29379357 GCGTAGACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.66, C:0.14, G:0.09, T:0.11
Consensus pattern (22 bp):
AAAAACAAGAGAAAAACCTAAA
Found at i:29392266 original size:26 final size:26
Alignment explanation
Indices: 29392237--29392287 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
29392227 CACAAAGTAA
*
29392237 CCATTGTAAAAGTGAAGATATAGAAG
1 CCATTGTAAAAGTGAAGATACAGAAG
29392263 CCATTGTAAAAGTGAAGATACAGAA
1 CCATTGTAAAAGTGAAGATACAGAA
29392288 AGATGGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.22
Consensus pattern (26 bp):
CCATTGTAAAAGTGAAGATACAGAAG
Found at i:29397759 original size:12 final size:12
Alignment explanation
Indices: 29397742--29397769 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29397732 TATATGATCT
29397742 TCATACTTGAGA
1 TCATACTTGAGA
29397754 TCATACTTGAGA
1 TCATACTTGAGA
29397766 TCAT
1 TCAT
29397770 CATTGTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (12 bp):
TCATACTTGAGA
Found at i:29398591 original size:138 final size:139
Alignment explanation
Indices: 29398419--29398703 Score: 464
Period size: 139 Copynumber: 2.1 Consensus size: 139
29398409 GAGAACATAG
*
29398419 ATATAATTAATATATGATTTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAA-TTTAT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTTAT
* * * *
29398483 TAATATAAAAATTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAGTATCCTT
66 TAATATAAAAAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGAAAATTAATATCCTT
29398548 TTGAAAAGA
131 TTGAAAAGA
* *
29398557 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTTGT
1 ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTTAT
* * *
29398622 TAATATAAATAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAAAAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGAAAATTAATATCCTT
*
29398687 TTGGAAAGA
131 TTGAAAAGA
29398696 ATATAATT
1 ATATAATT
29398704 TCTTTTTCTA
Statistics
Matches: 135, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
138 57 0.42
139 78 0.58
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (139 bp):
ATATAATTAATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTTAT
TAATATAAAAAGTTATATTAATTAATCTCGGTCAAAATATAAAAGACATGAAAATTAATATCCTT
TTGAAAAGA
Found at i:29398805 original size:74 final size:75
Alignment explanation
Indices: 29398679--29398827 Score: 239
Period size: 74 Copynumber: 2.0 Consensus size: 75
29398669 ATGGAAATTA
* * *
29398679 ATATTCTTTTGGAAAGAATATAATTTCTTTTTCTAACTTTCCATTTGTCTTCTTTATTAATAAGG
1 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
29398744 GAATAATCCT
66 GAATAATCCT
*
29398754 ATATT-TTTTTGAAAGAATATAATTCCTTTTTC-AGACTTTCCATTTGCCTTCTCTATTAATAAG
1 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTA-ACTTTCCATTTGCCTTCTCTATTAATAAG
29398817 GGAATAATCCT
65 GGAATAATCCT
29398828 GGTTTTCCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
73 1 0.01
74 63 0.91
75 5 0.07
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
GAATAATCCT
Found at i:29399469 original size:27 final size:27
Alignment explanation
Indices: 29399439--29399496 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
29399429 CGTGCCACTA
29399439 CATTCAACATTAGGATACCAATTCTTT
1 CATTCAACATTAGGATACCAATTCTTT
29399466 CATTCAACATTAGGATACCAATTCTTT
1 CATTCAACATTAGGATACCAATTCTTT
29399493 CATT
1 CATT
29399497 TATAGCCTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
CATTCAACATTAGGATACCAATTCTTT
Found at i:29404575 original size:17 final size:17
Alignment explanation
Indices: 29404553--29404586 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29404543 ATATATGATT
29404553 AATTGAAGATGA-AATGA
1 AATTGAA-ATGAGAATGA
29404570 AATTGAAATGAGAATGA
1 AATTGAAATGAGAATGA
29404587 TATGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
AATTGAAATGAGAATGA
Found at i:29408123 original size:10 final size:10
Alignment explanation
Indices: 29408105--29408134 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29408095 ATCTAGGCAA
29408105 TGGTATGTTT
1 TGGTATGTTT
*
29408115 TGTTATGTTT
1 TGGTATGTTT
29408125 TGGTATGTTT
1 TGGTATGTTT
29408135 GAGTAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (10 bp):
TGGTATGTTT
Found at i:29408413 original size:20 final size:20
Alignment explanation
Indices: 29408388--29408425 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
29408378 GTATCGGTGC
*
29408388 TTTTTATAAATATCGATAAA
1 TTTTTACAAATATCGATAAA
29408408 TTTTTACAAATATCGATA
1 TTTTTACAAATATCGATA
29408426 CCTCCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTTTACAAATATCGATAAA
Found at i:29412363 original size:41 final size:39
Alignment explanation
Indices: 29412318--29412450 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 39
29412308 CTTTGAGTCA
* *
29412318 ATGAGACACTAGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-ATCCG
* * * *
29412359 ATGAGGCACTGGGTGCCAA-TT-TACTTCGGTTTAGCCG
1 ATGAGACACTGGGTGTCAATTTATACTTCGGATTATCCG
* * *
29412396 ATGAGACAATGTGTGTCAATTTATTACTTCGAATTATCCG
1 ATGAGACACTGGGTGTCAATTTA-TACTTCGGATTATCCG
*
29412436 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
29412451 CCAAACTGGT
Statistics
Matches: 73, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 18 0.25
38 12 0.16
40 27 0.37
41 16 0.22
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAATTTATACTTCGGATTATCCG
Found at i:29418520 original size:10 final size:10
Alignment explanation
Indices: 29418502--29418531 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
29418492 ATCTAGGAAA
29418502 TGGTATGTTT
1 TGGTATGTTT
*
29418512 TGTTATGTTT
1 TGGTATGTTT
29418522 TGGTATGTTT
1 TGGTATGTTT
29418532 GAGTAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.27, T:0.63
Consensus pattern (10 bp):
TGGTATGTTT
Found at i:29421608 original size:53 final size:54
Alignment explanation
Indices: 29421534--29421784 Score: 357
Period size: 53 Copynumber: 4.7 Consensus size: 54
29421524 TATAACAGTT
* * *
29421534 ATTTTACCCTAT-GGGGTATTTCGGTCATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
* *
29421586 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
*
29421639 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
* * * *
29421693 ATTTTACCCAACGAGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
* * *
29421747 ATTTTATCCTA-CGGGGTATTTCGATCATTTTACCCTAT
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTAT
29421785 TTTAGGGACT
Statistics
Matches: 182, Mismatches: 15, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
52 12 0.07
53 100 0.55
54 70 0.38
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTAGTC
Found at i:29421612 original size:27 final size:26
Alignment explanation
Indices: 29421534--29421784 Score: 313
Period size: 27 Copynumber: 9.5 Consensus size: 26
29421524 TATAACAGTT
29421534 ATTTTACCCTATGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGTATTTCGGTC
* *
29421560 ATTTTATCCTATGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGTATTTCGGTC
29421586 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
*
29421613 ATTTTACCCTATGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGTATTTCGGTC
*
29421639 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* **
29421666 ATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* * *
29421693 ATTTTACCCAACGAGGGTATTTCAGTC
1 ATTTTACCCTATG-GGGTATTTCGGTC
* **
29421720 ATTTTACCCTATAAGGGTATTTTAGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* * *
29421747 ATTTTATCCTACGGGGTATTTCGATC
1 ATTTTACCCTATGGGGTATTTCGGTC
29421773 ATTTTACCCTAT
1 ATTTTACCCTAT
29421785 TTTAGGGACT
Statistics
Matches: 193, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
26 80 0.41
27 113 0.59
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.43
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTCGGTC
Found at i:29425585 original size:17 final size:19
Alignment explanation
Indices: 29425539--29425587 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
29425529 TAAGTATTAA
29425539 ATTAAATATAATATTAAATTT
1 ATTAAA-ATAATATT-AATTT
29425560 ATTAAAATAATATT-ATTT
1 ATTAAAATAATATTAATTT
*
29425578 -TTAGAATAAT
1 ATTAAAATAAT
29425588 TAACTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
20 8 0.30
21 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTAAAATAATATTAATTT
Found at i:29427476 original size:20 final size:21
Alignment explanation
Indices: 29427439--29427477 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
29427429 AGTTCGATCA
* *
29427439 GTTTTTAGGTCTCGATTTTGG
1 GTTTTTAGGGCTCAATTTTGG
29427460 GTTTTT-GGGCTCAATTTT
1 GTTTTTAGGGCTCAATTTT
29427478 CAATCTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.10, G:0.26, T:0.54
Consensus pattern (21 bp):
GTTTTTAGGGCTCAATTTTGG
Found at i:29427845 original size:20 final size:21
Alignment explanation
Indices: 29427808--29427846 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
29427798 AGTTCGATCA
* *
29427808 GTTTTTAGGTCTCGATTTTGG
1 GTTTTTAGGGCTCAATTTTGG
29427829 GTTTTT-GGGCTCAATTTT
1 GTTTTTAGGGCTCAATTTT
29427847 CAATCTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.10, G:0.26, T:0.54
Consensus pattern (21 bp):
GTTTTTAGGGCTCAATTTTGG
Found at i:29428013 original size:369 final size:369
Alignment explanation
Indices: 29427334--29428075 Score: 1412
Period size: 369 Copynumber: 2.0 Consensus size: 369
29427324 GTATTAATTT
* *
29427334 TTCCTGCACCATGGGGGTGTCGGCGTTCCGACAGACTCGACCAGCCTAGTCCTACCATCGGTTGG
1 TTCCTGCACCATGGGGGTGTCGGCGTTCCGACAGACTCAACCAGCCTAGTCCTACCACCGGTTGG
29427399 ACTATTAACCCAGTTTCACATACCAGGTCCAGTTCGATCAGTTTTTAGGTCTCGATTTTGGGTTT
66 ACTATTAACCCAGTTTCACATACCAGGTCCAGTTCGATCAGTTTTTAGGTCTCGATTTTGGGTTT
*
29427464 TTGGGCTCAATTTTCAATCTTAGGTCTAATTTTCAAGTTTAATTACCCATTAGGCAAATTTTCTG
131 TTGGGCTCAATTTTCAATCTTAGGTCTAATTTTCAAGTTCAATTACCCATTAGGCAAATTTTCTG
29427529 ACTTGAAAATTAATTTCCAAAAATATCATATTAATTTTGATTAATTTGATTAATTTCATTTTACG
196 ACTTGAAAATTAATTTCCAAAAATATCATATTAATTTTGATTAATTTGATTAATTTCATTTTACG
29427594 TAATCAAAATTAATTTTCTCAAAAATCACTTAGATTTTTTAAATTAATTTTCAAGAAAAATTTTA
261 TAATCAAAATTAATTTTCTCAAAAATCACTTAGATTTTTTAAATTAATTTTCAAGAAAAATTTTA
*
29427659 ATCAAATTCTCTAGTTGAACAAATCTCACGACTGCCTAATTTAA
326 ATCAAATTCTCTAGTTGAACAAATCTCACAACTGCCTAATTTAA
* *
29427703 TTCCTGCGCCATGGGGGTGTCGGCGTTCCGACAGACTCAACCAGTCTAGTCCTACCACCGGTTGG
1 TTCCTGCACCATGGGGGTGTCGGCGTTCCGACAGACTCAACCAGCCTAGTCCTACCACCGGTTGG
*
29427768 ACTATTGACCCAGTTTCACATACCAGGTCCAGTTCGATCAGTTTTTAGGTCTCGATTTTGGGTTT
66 ACTATTAACCCAGTTTCACATACCAGGTCCAGTTCGATCAGTTTTTAGGTCTCGATTTTGGGTTT
29427833 TTGGGCTCAATTTTCAATCTTAGGTCTAATTTTCAAGTTCAATTACCCATTAGGCAAATTTTCTG
131 TTGGGCTCAATTTTCAATCTTAGGTCTAATTTTCAAGTTCAATTACCCATTAGGCAAATTTTCTG
29427898 ACTTGAAAATTAATTTCCAAAAATATCATATTAATTTTGATTAATTTGATTAATTTCATTTTACG
196 ACTTGAAAATTAATTTCCAAAAATATCATATTAATTTTGATTAATTTGATTAATTTCATTTTACG
*
29427963 TAATCAAAATTAATTTTCTCAAAAATCACTTAGATTTTTTAAATTAATTTTCAAGAAAATTTTTA
261 TAATCAAAATTAATTTTCTCAAAAATCACTTAGATTTTTTAAATTAATTTTCAAGAAAAATTTTA
29428028 ATCAAATTCTCTAGTTGAACAAATCTCACAACTGCCTAATTTAA
326 ATCAAATTCTCTAGTTGAACAAATCTCACAACTGCCTAATTTAA
29428072 TTCC
1 TTCC
29428076 AAATCGAATA
Statistics
Matches: 365, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
369 365 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (369 bp):
TTCCTGCACCATGGGGGTGTCGGCGTTCCGACAGACTCAACCAGCCTAGTCCTACCACCGGTTGG
ACTATTAACCCAGTTTCACATACCAGGTCCAGTTCGATCAGTTTTTAGGTCTCGATTTTGGGTTT
TTGGGCTCAATTTTCAATCTTAGGTCTAATTTTCAAGTTCAATTACCCATTAGGCAAATTTTCTG
ACTTGAAAATTAATTTCCAAAAATATCATATTAATTTTGATTAATTTGATTAATTTCATTTTACG
TAATCAAAATTAATTTTCTCAAAAATCACTTAGATTTTTTAAATTAATTTTCAAGAAAAATTTTA
ATCAAATTCTCTAGTTGAACAAATCTCACAACTGCCTAATTTAA
Found at i:29428513 original size:12 final size:13
Alignment explanation
Indices: 29428489--29428517 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
29428479 GGGCTATAAC
29428489 TATTGCATTTATT
1 TATTGCATTTATT
29428502 TATTGC-TTTATT
1 TATTGCATTTATT
29428514 TATT
1 TATT
29428518 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:29442971 original size:41 final size:42
Alignment explanation
Indices: 29442869--29443022 Score: 141
Period size: 43 Copynumber: 3.7 Consensus size: 42
29442859 TGTGGTTTCG
* * * * **
29442869 TGTAAGACCATGTCTGGAACATTGGCATCGATATAAGATTGTG
1 TGTAAGACCATATCTGGGACATTGGCACCGATATATGATT-CA
* *
29442912 TGTAAGACCATGTTTGGGACATTGGCACCG-TATATGATTCA
1 TGTAAGACCATATCTGGGACATTGGCACCGATATATGATTCA
* ** * * *
29442953 TGTAAGACCCTATCTGGGACAGAGGCATCGATATGTGATAACA
1 TGTAAGACCATATCTGGGACATTGGCACCGATATATGAT-TCA
*
29442996 TGTAAGACCATATCTGGGATA-TGGCAC
1 TGTAAGACCATATCTGGGACATTGGCAC
29443023 TGTATGTGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
41 24 0.26
42 19 0.21
43 48 0.53
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGACATTGGCACCGATATATGATTCA
Found at i:29445437 original size:23 final size:23
Alignment explanation
Indices: 29445400--29445453 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
29445390 AGATTAAGCA
*
29445400 CAAACATTATCTGCATTCAACAC
1 CAAACACTATCTGCATTCAACAC
* *
29445423 CAAACACTATTTGCATTCATCAC
1 CAAACACTATCTGCATTCAACAC
29445446 CAAACACT
1 CAAACACT
29445454 TCCACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.31, G:0.04, T:0.26
Consensus pattern (23 bp):
CAAACACTATCTGCATTCAACAC
Found at i:29453145 original size:22 final size:24
Alignment explanation
Indices: 29453120--29453169 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
29453110 AGACCATCGG
29453120 ATAATTTA-C-AAT-TAATATACAA
1 ATAATTTATCAAATATAATATA-AA
29453142 ATAA-TTATCAAATATAATATAAA
1 ATAATTTATCAAATATAATATAAA
29453165 ATAAT
1 ATAAT
29453170 CTTAAAGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 9 0.38
24 7 0.29
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAATTTATCAAATATAATATAAA
Found at i:29454562 original size:31 final size:31
Alignment explanation
Indices: 29454520--29454817 Score: 406
Period size: 31 Copynumber: 9.7 Consensus size: 31
29454510 ATCTAATGCT
* *
29454520 CAAATC-AATTCGGCAATATATATTCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
29454550 CGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
29454581 AAAATC-AATTCGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
29454611 CAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
29454642 CAAATC-AACTCGGCAATGTATATTCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
29454672 AAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
29454703 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
29454733 CAAATCAAATTTGACAATGTATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
29454764 CAAATCAAATTCGACAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
29454795 CAATTCAAATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
29454818 AAACATATAC
Statistics
Matches: 235, Mismatches: 29, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
30 87 0.37
31 148 0.63
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:29454617 original size:61 final size:61
Alignment explanation
Indices: 29454520--29454828 Score: 447
Period size: 61 Copynumber: 5.0 Consensus size: 61
29454510 ATCTAATGCT
* * * * *
29454520 CAAATCAATTCGGCAATATATATTCATATACGAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* *
29454581 AAAATCAATTCGGCAATGAATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* * *
29454642 CAAATCAACTCGGCAATGTATATTCATATAAAAATCAAATTCGGCAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* *
29454703 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTTGACAATGTATAACCATATA
1 CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
* * * * *
29454764 CAAATCAAATTCGACAATGTATATCTATAAACAATTCAAATTCGGCAATGTATAAAACATATA
1 CAAATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTAT-AACCATATA
29454827 CA
1 CA
29454829 TTTAAATTCA
Statistics
Matches: 222, Mismatches: 24, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
61 172 0.77
62 40 0.18
63 10 0.05
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (61 bp):
CAAATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATA
Found at i:29462084 original size:31 final size:31
Alignment explanation
Indices: 29462049--29462463 Score: 599
Period size: 31 Copynumber: 13.5 Consensus size: 31
29462039 TGCTCATATC
* *
29462049 AATTCGGCAATATATATCCATATACGAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
29462080 AATTCGGCAATGTATATCTATATACAAATC-
1 AATTCGGCAATGTATATCCATATACAAATCA
* *
29462110 AATTCAGCAATGAATATCCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
29462141 AATTCGGCAATGTATAACCATATACAAATC-
1 AATTCGGCAATGTATATCCATATACAAATCA
*
29462171 AATTCGGCAATGTATATCCATATACAAATAA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
29462202 AATTCGGCAATGTATAACCATATACAAATC-
1 AATTCGGCAATGTATATCCATATACAAATCA
29462232 AATTCGGCAATGTATATCCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * *
29462263 AATTTC-GCGATTTATAACCATATACAAATC-
1 AA-TTCGGCAATGTATATCCATATACAAATCA
29462293 AATTCGGCAATGTATATCCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* *
29462324 AATTCGGCAATGTATAACCATATAAAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* *
29462355 AATTCGACAATGTATAACCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
29462386 AATTCGGCAATGTATAACCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * *
29462417 AATTTGGCAATGTATATCTATA-AAAAATTCA
1 AATTCGGCAATGTATATCCATATACAAA-TCA
29462448 AATTCGGCAATGTATA
1 AATTCGGCAATGTATA
29462464 AAACATATAC
Statistics
Matches: 347, Mismatches: 30, Indels: 14
0.89 0.08 0.04
Matches are distributed among these distances:
29 3 0.01
30 111 0.32
31 230 0.66
32 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (31 bp):
AATTCGGCAATGTATATCCATATACAAATCA
Found at i:29462141 original size:61 final size:61
Alignment explanation
Indices: 29462046--29462474 Score: 655
Period size: 61 Copynumber: 7.0 Consensus size: 61
29462036 CAATGCTCAT
* * * *
29462046 ATCAATTCGGCAATATATATCCATATACGAATCAAATTCGGCAATGTATATCTATATACAA
1 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* *
29462107 ATCAATTCAGCAATGAATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
1 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
*
29462168 ATCAATTCGGCAATGTATATCCATATACAAATAAAATTCGGCAATGTATAACCATATACAA
1 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* *
29462229 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTTC-GCGATTTATAACCATATACAA
1 ATCAATTCGGCAATGTATATCCATATACAAATCAAA-TTCGGCAATGTATAACCATATACAA
*
29462290 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATAAAA
1 ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* *
29462351 ATCAAATTCGACAATGTATAACCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
1 ATC-AATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* * * *
29462413 ATCAAATTTGGCAATGTATATCTATA-AAAAATTCAAATTCGGCAATGTATAAAACATATACA
1 ATC-AATTCGGCAATGTATATCCATATACAAA-TCAAATTCGGCAATGTAT-AACCATATACA
29462475 TTTAAATTCA
Statistics
Matches: 339, Mismatches: 24, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
60 3 0.01
61 228 0.67
62 98 0.29
63 10 0.03
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (61 bp):
ATCAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
Found at i:29464801 original size:42 final size:43
Alignment explanation
Indices: 29464744--29464845 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
29464734 TGAGATTTAT
* * *
29464744 GTGTAAGACCATGTCTTGGACATTGGCGTCG-TATATGATTAC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGTTATATGATTAC
* * *
29464786 GTGTAAGACCCTGTCTGGGACAATGGTATCGTTATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGTTATATGATTAC
* *
29464829 ATGTAAGACCACGTCTG
1 GTGTAAGACCATGTCTG
29464846 AGACGTTGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAATGGCATCGTTATATGATTAC
Found at i:29469707 original size:14 final size:14
Alignment explanation
Indices: 29469688--29469727 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
29469678 TTGTTTGGCA
29469688 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
29469702 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
29469716 GGAAAATGTTTT
1 GTAAAATGTTTT
29469728 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:29469736 original size:20 final size:20
Alignment explanation
Indices: 29469711--29469750 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
29469701 CGTAAAATGA
*
29469711 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
29469731 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
29469751 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:29469740 original size:34 final size:35
Alignment explanation
Indices: 29469696--29469762 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
29469686 CAGTAAAATG
*
29469696 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
29469730 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
29469763 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:29469766 original size:14 final size:15
Alignment explanation
Indices: 29469690--29469766 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
29469680 GTTTGGCAGT
* *
29469690 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
29469704 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
29469718 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
29469738 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
29469753 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
29469767 TGTTTGGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:29469878 original size:14 final size:14
Alignment explanation
Indices: 29469859--29469886 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29469849 ATTTTACATA
29469859 TATTAATATATATT
1 TATTAATATATATT
29469873 TATTAATATATATT
1 TATTAATATATATT
29469887 AATAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTAATATATATT
Found at i:29470148 original size:39 final size:39
Alignment explanation
Indices: 29470099--29470220 Score: 116
Period size: 39 Copynumber: 3.3 Consensus size: 39
29470089 TAATTAATGG
29470099 TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
1 TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
* * * **
29470138 TACACCACATA-TATCCAA-A---TAC-A-T-AATTAATGG
1 TACACCACATAGTA-ACAACATTGTCCAAGTGCA-TAATAT
*
29470171 TACACCACATAGTAAGAACATTGTCCAAGTGCATAATAT
1 TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
29470210 TACACCACATA
1 TACACCACATA
29470221 AATGTATCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 20
0.67 0.12 0.22
Matches are distributed among these distances:
32 1 0.02
33 18 0.29
34 4 0.06
35 2 0.03
37 2 0.03
38 4 0.06
39 30 0.48
40 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.25
Consensus pattern (39 bp):
TACACCACATAGTAACAACATTGTCCAAGTGCATAATAT
Found at i:29470194 original size:72 final size:72
Alignment explanation
Indices: 29470077--29470220 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
29470067 ATAATAATAT
29470077 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
29470142 CCACATA
66 CCACATA
*
29470149 TATCCAAATACATAATTAATGGTACACCACATAGTAAGAACATTGTCCAAGTGCATAATATTACA
1 TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
29470214 CCACATA
66 CCACATA
29470221 AATGTATCAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (72 bp):
TATCCAAATACATAATTAATGGTACACCACATAGTAACAACATTGTCCAAGTGCATAATATTACA
CCACATA
Done.