Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 112 of 253
Found at i:35177531 original size:47 final size:47
Alignment explanation
Indices: 35177463--35177588 Score: 168
Period size: 47 Copynumber: 2.7 Consensus size: 47
35177453 GACGTAAGCT
* * *
35177463 AGTGTAAGA-CATGTATGGGACAT-GCATCGACTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTA-GAGA-CATGAGCC
35177509 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGACATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGACATGAGCC
* *
35177556 AATGTAAGACCGTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
35177589 ACCTTACCTA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 11 0.15
47 51 0.71
48 10 0.14
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTAGAGACATGAGCC
Found at i:35181759 original size:6 final size:6
Alignment explanation
Indices: 35181748--35181880 Score: 121
Period size: 6 Copynumber: 21.8 Consensus size: 6
35181738 AACCAAAATG
* *
35181748 AGAATC AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
35181797 AGAATC AGTAA-C AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * *
35181845 AGAATC AAAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
35181881 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
5 6 0.06
6 88 0.85
7 7 0.07
8 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:35181869 original size:31 final size:30
Alignment explanation
Indices: 35181727--35181880 Score: 127
Period size: 31 Copynumber: 5.5 Consensus size: 30
35181717 AAGAAACATT
** * *
35181727 ATCAGAATTGGAACCAAAATGAG-AATCAGA
1 ATCAGAATCAGAATCAAAATTAGTAA-CAGA
* *
35181757 ATCAGAATCAGAATCAGAATTAGGTGACAGA
1 ATCAGAATCAGAATCAAAATTA-GTAACAGA
35181788 ATCAGAATCAGAATC------AGTAACAGA
1 ATCAGAATCAGAATCAAAATTAGTAACAGA
35181812 ATCAGAATCAG--T----ATTAGTAACAGA
1 ATCAGAATCAGAATCAAAATTAGTAACAGA
*
35181836 ATCAGAATCAGAATCAAAATTAGGTGACAGA
1 ATCAGAATCAGAATCAAAATTA-GTAACAGA
35181867 ATCAGAATCAGAAT
1 ATCAGAATCAGAAT
35181881 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 8, Indels: 23
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.01
24 38 0.37
25 1 0.01
26 1 0.01
30 21 0.20
31 41 0.39
32 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (30 bp):
ATCAGAATCAGAATCAAAATTAGTAACAGA
Found at i:35182035 original size:27 final size:26
Alignment explanation
Indices: 35181998--35182063 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
35181988 AGCATAGCTG
*
35181998 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
35182024 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
35182051 CCAGAATCAGATA
1 CCAGAA-CAGATA
35182064 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:35182068 original size:27 final size:27
Alignment explanation
Indices: 35181998--35182071 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
35181988 AGCATAGCTG
* *
35181998 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
35182024 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
35182051 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
35182072 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:35182078 original size:27 final size:27
Alignment explanation
Indices: 35182022--35182079 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
35182012 GTGACAGAGT
* * *
35182022 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
35182049 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
35182076 CACC
1 CACC
35182080 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:35182284 original size:22 final size:22
Alignment explanation
Indices: 35182236--35182294 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
35182226 GTAAATACGT
*
35182236 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
35182258 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
35182280 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
35182295 TAATAACTGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:35182713 original size:27 final size:27
Alignment explanation
Indices: 35182665--35182859 Score: 187
Period size: 27 Copynumber: 7.2 Consensus size: 27
35182655 GGGCAAAATG
* * ** *
35182665 GTAATTTTACCCCACAAAGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
35182692 GTAATTCTACCTTACACGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
35182719 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
35182745 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
35182773 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
35182800 GTAATTCTACCTTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
35182826 GAAAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
35182854 GTAATT
1 GTAATT
35182860 TCACAATCAA
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 133 0.97
28 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:35182721 original size:54 final size:54
Alignment explanation
Indices: 35182663--35182859 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
35182653 AGGGGCAAAA
* * * *
35182663 TGGTAATTTTACCCCACAAAGGTATCTCAGTAATTCTACCTTACACGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTT
*
35182717 TGGT-ATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTATTTCAG-TAATTCTACCTTACAGGGGTATTT
* * * *
35182771 TGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCTTATAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTT
* ** * *
35182825 CGAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TGGTAATTTTACCCTACAAGGGTATTTCAGTAATT
35182860 TCACAATCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 5 0.04
54 114 0.93
55 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTT
Found at i:35182858 original size:81 final size:81
Alignment explanation
Indices: 35182683--35182859 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 81
35182673 ACCCCACAAA
* ** * *
35182683 GGTATCTCAGTAATTCTACCTTACACGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGAT
1 GGTATTTCAGTAATTCTACCTTACACGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAA
35182748 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
** * * *
35182764 GGTATTTTGGTAATTCTATCCTATA-A-GGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCG
1 GGTATTTCAGTAATTCTA-CCT-TACACGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCG
35182827 AAAATTCTACCCTACAGG
64 AAAATTCTACCCTACAGG
35182845 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
35182860 TCACAATCAA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
81 76 0.93
82 4 0.05
83 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (81 bp):
GGTATTTCAGTAATTCTACCTTACACGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGAA
AATTCTACCCTACAGG
Found at i:35182894 original size:27 final size:27
Alignment explanation
Indices: 35182864--35183327 Score: 567
Period size: 27 Copynumber: 17.2 Consensus size: 27
35182854 GTAATTTCAC
*
35182864 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
35182891 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
35182918 AA-CTGAAGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
35182945 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35182972 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35182999 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
35183026 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35183053 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
35183080 AATCAAGGGTAAAACGGTAACTT-TACA
1 AATCGAGGGTAAAACGGTAA-TTCTGTA
*
35183107 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35183134 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
35183161 AA-CTGTGGGTAAAACAGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
35183188 AATCGAAGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
35183215 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
35183242 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
35183269 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
35183296 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
35183323 AATCG
1 AATCG
35183328 GGAGTGCTTT
Statistics
Matches: 369, Mismatches: 60, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.01
27 359 0.97
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:35187427 original size:26 final size:26
Alignment explanation
Indices: 35187398--35187478 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
35187388 GTGATCAGGT
35187398 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
* *
35187424 GTGTA-T-C-AAATGGTTAGG-T-C-AC
1 GTGTAGTACTAAGT-G-CAGGCTACTAC
35187446 GTGTGTAGTACTAAGTGCAGGCTACTAC
1 --GTGTAGTACTAAGTGCAGGCTACTAC
35187474 GTGTA
1 GTGTA
35187479 CCGGATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
22 2 0.05
23 4 0.10
24 8 0.20
25 8 0.20
26 13 0.32
27 4 0.10
28 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:35189903 original size:15 final size:15
Alignment explanation
Indices: 35189880--35189918 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
35189870 TATCGTATCT
35189880 TGGGTTTCTTTACTC
1 TGGGTTTCTTTACTC
* *
35189895 TGTGTTTCTTTATTC
1 TGGGTTTCTTTACTC
35189910 TGGGTTTCT
1 TGGGTTTCT
35189919 CTATCTTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.15, G:0.21, T:0.59
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:35191796 original size:49 final size:49
Alignment explanation
Indices: 35191614--35191811 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 49
35191604 TCTATTGTGA
* * * * *
35191614 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * * **
35191665 GATCACGGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 GGTCAC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
35191715 AGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -G-GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
35191766 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCT-TACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATA
35191812 GCTTTGGCTA
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 38 0.31
50 3 0.02
51 44 0.36
52 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:35194172 original size:15 final size:15
Alignment explanation
Indices: 35194152--35194188 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
35194142 TCGTATCTTA
35194152 GGTTTCTTTACTCTG
1 GGTTTCTTTACTCTG
*
35194167 GGTTTCTTTATTCTG
1 GGTTTCTTTACTCTG
35194182 GGTTTCT
1 GGTTTCT
35194189 CTATCTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.22, T:0.57
Consensus pattern (15 bp):
GGTTTCTTTACTCTG
Found at i:35195967 original size:26 final size:26
Alignment explanation
Indices: 35195938--35196017 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
35195928 CTGTGATCAG
35195938 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
*
35195964 GTGTA-T-C-AA-TGGTTAGG-T-C-AC
1 GTGTAGTACTAAGT-G-CAGGCTACTAC
35195985 GTGTGTAGTACTAAGTGCAGGCTACTAC
1 --GTGTAGTACTAAGTGCAGGCTACTAC
35196013 GTGTA
1 GTGTA
35196018 CCGGATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 22
0.63 0.03 0.34
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 9 0.22
24 5 0.12
25 5 0.12
26 14 0.34
27 2 0.05
28 2 0.05
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:35196039 original size:49 final size:48
Alignment explanation
Indices: 35195881--35196060 Score: 184
Period size: 49 Copynumber: 3.7 Consensus size: 48
35195871 TCTATTGTGA
* * * *
35195881 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGATAATT
* * * **
35195930 -GT-GATCAGGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATGGTT
1 GGTCG--CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATT
* *
35195978 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GATAATT
* *
35196028 GGTCGCATGTGTAGTACTATGTGTAGGCTACTA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
35196061 TGCTTACCAG
Statistics
Matches: 105, Mismatches: 20, Indels: 12
0.77 0.15 0.09
Matches are distributed among these distances:
47 1 0.01
48 5 0.05
49 93 0.89
50 6 0.06
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATT
Found at i:35198459 original size:15 final size:16
Alignment explanation
Indices: 35198402--35198462 Score: 76
Period size: 15 Copynumber: 4.1 Consensus size: 16
35198392 CATAGTATCG
35198402 TATCT-TGGGTTTCTT
1 TATCTCTGGGTTTCTT
35198417 TA-CTCTGGGTTTCTT
1 TATCTCTGGGTTTCTT
*
35198432 TAT-TCTGGGTTTCTC
1 TATCTCTGGGTTTCTT
*
35198447 TATCT-TGGATTTCTT
1 TATCTCTGGGTTTCTT
35198462 T
1 T
35198463 TTTCGAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.05
15 37 0.93
16 1 0.03
ACGTcount: A:0.08, C:0.16, G:0.18, T:0.57
Consensus pattern (16 bp):
TATCTCTGGGTTTCTT
Found at i:35200225 original size:26 final size:26
Alignment explanation
Indices: 35200196--35200276 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
35200186 GTGATCAGGT
35200196 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
* *
35200222 GTGTA-T-C-AAATGGTTAGG-T-C-AC
1 GTGTAGTACTAAGT-G-CAGGCTACTAC
35200244 GTGTGTAGTACTAAGTGCAGGCTACTAC
1 --GTGTAGTACTAAGTGCAGGCTACTAC
35200272 GTGTA
1 GTGTA
35200277 CCGGATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
22 2 0.05
23 4 0.10
24 8 0.20
25 8 0.20
26 13 0.32
27 4 0.10
28 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:35203483 original size:47 final size:46
Alignment explanation
Indices: 35203373--35203637 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 46
35203363 ACTTGTGTGT
* * * * *
35203373 GCCAATGTAAGACATGTCTAGGACAT-GCATCAGC-CACATTATGAGA
1 GCCAATGTAAGACATGTCTGGGACATGGCATCGGCTC-GA-GACGAGA
* * * *
35203419 GCCAGTATAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGA
1 GCCAATGTAAGA-CATGTCTGGGACATGGCATCGGC-TCGAGACGAGA
** * *
35203467 GTTAGTGTAAGACATGTCTGGGAAAT-GCATCGGCCTCGAGACGTA-A
1 GCCAATGTAAGACATGTCTGGGACATGGCATCGG-CTCGAGACG-AGA
* * *
35203513 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGATATG-GTA
1 GCCAATGTAAGACATGTCTGGGACATGGCATCGGCT-CGAGACGAG-A
* * * * *
35203559 GTCAATGTAAGACCATGTCTGGGACATGGCACCAGCTTGAGA-TATGA
1 GCCAATGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAGACGA-GA
35203606 GCCAATGTAAGACAGTGTCTGGGACATGGCAT
1 GCCAATGTAAGACA-TGTCTGGGACATGGCAT
35203638 AGGCACTTTA
Statistics
Matches: 176, Mismatches: 29, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.01
46 72 0.41
47 73 0.41
48 28 0.16
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAATGTAAGACATGTCTGGGACATGGCATCGGCTCGAGACGAGA
Found at i:35212087 original size:47 final size:47
Alignment explanation
Indices: 35212016--35212755 Score: 1158
Period size: 47 Copynumber: 15.4 Consensus size: 47
35212006 TATCACAGTT
* * * * *
35212016 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
35212063 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
35212110 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
** *
35212157 ATACACTTTCACATTCATCACATTATCCATTTGGCCTTATCACGTATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
35212206 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
*
35212255 ATACACTGTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
35212302 ATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
35212349 ATACACTTTGACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
* *
35212396 ATATACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
**
35212445 ATACACACACTTTCACATTCATCACATTATCCATTCGGCCTTATCACATATAC
1 AT----ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
35212498 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
35212547 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
35212594 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
35212641 ATACACTTTGACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
*
35212688 ATACACTTTCACATTTATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
35212737 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
35212756 GTAACAAAAT
Statistics
Matches: 650, Mismatches: 32, Indels: 20
0.93 0.05 0.03
Matches are distributed among these distances:
47 396 0.61
48 2 0.00
49 207 0.32
53 45 0.07
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:35212321 original size:25 final size:25
Alignment explanation
Indices: 35212293--35212371 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
35212283 ATTCGGCCTT
*
35212293 ATCACATACATACACTTTCACATTC
1 ATCACATACATACACTTTGACATTC
**** * *
35212318 ATCACAT-TGGCCA-TTTGGCCTT-
1 ATCACATACATACACTTTGACATTC
35212340 ATCACATACATACACTTTGACATTC
1 ATCACATACATACACTTTGACATTC
35212365 ATCACAT
1 ATCACAT
35212372 TGGCCATTCG
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 7 0.18
23 8 0.21
24 9 0.24
25 14 0.37
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (25 bp):
ATCACATACATACACTTTGACATTC
Found at i:35212346 original size:22 final size:22
Alignment explanation
Indices: 35212318--35212393 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
35212308 TTTCACATTC
35212318 ATCACATTGGCCATTTGGCCTT
1 ATCACATTGGCCATTTGGCCTT
**** * *
35212340 ATCACATACATACACTTTGACATT
1 ATCACAT-TGGCCA-TTTGGCCTT
*
35212364 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
35212387 ATCACAT
1 ATCACAT
35212394 ACATATACTT
Statistics
Matches: 38, Mismatches: 13, Indels: 6
0.67 0.23 0.11
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 9 0.24
25 7 0.18
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:35212517 original size:27 final size:27
Alignment explanation
Indices: 35212487--35212569 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
35212477 ATTCGGCCTT
35212487 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
35212514 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
35212536 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
35212563 ATCACAT
1 ATCACAT
35212570 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:35212553 original size:292 final size:292
Alignment explanation
Indices: 35212016--35212742 Score: 1270
Period size: 292 Copynumber: 2.5 Consensus size: 292
35212006 TATCACAGTT
* * * * * * *
35212016 ATACACTTCCAC-TTCCATCCCATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTGACATTCA
35212080 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
65 TCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35212145 CTTATCAC--ATACAT----ACACTTTCACATTCATCACATTATCCATTTGGCCTTATCACGTAT
130 CTTATCACATATACATACACACACTTTCACATTCATCACATTATCCATTCGGCCTTATCACATAT
35212204 ACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTGTCACAT
195 ACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTGTCACAT
35212269 TCATCACATTGGCCATTCGGCCTTATCACATAC
260 TCATCACATTGGCCATTCGGCCTTATCACATAC
*
35212302 ATACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATACATACACTTTGACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTGACATTCAT
* *
35212367 CACATTGGCCATTCGGCCTTATCACATACATATACTTTCACATTCATCACATTGGCCATTTGGCC
66 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
35212432 TTATCACATATACATACACACACTTTCACATTCATCACATTATCCATTCGGCCTTATCACATATA
131 TTATCACATATACATACACACACTTTCACATTCATCACATTATCCATTCGGCCTTATCACATATA
*
35212497 CATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
196 CATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTGTCACATT
35212562 CATCACATTGGCCATTCGGCCTTATCACATAC
261 CATCACATTGGCCATTCGGCCTTATCACATAC
35212594 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTGACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTGACATTCAT
*
35212659 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTTATCACATTGGCCATTCGGCC
66 CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
35212724 TTATCACATATACATACAC
131 TTATCACATATACATACAC
35212743 TTTCACATTC
Statistics
Matches: 417, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
286 124 0.30
287 2 0.00
288 6 0.01
292 285 0.68
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (292 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTGACATTCAT
CACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCATCACATTGGCCATTCGGCC
TTATCACATATACATACACACACTTTCACATTCATCACATTATCCATTCGGCCTTATCACATATA
CATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTGTCACATT
CATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:35212638 original size:22 final size:22
Alignment explanation
Indices: 35212610--35212685 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
35212600 TTTCACATTC
35212610 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
**** * * *
35212632 ATCACATACATACACTTTGACATT
1 ATCACAT-TGGCCA-TTCGGCCTT
35212656 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
35212679 ATCACAT
1 ATCACAT
35212686 ACATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:35212660 original size:25 final size:25
Alignment explanation
Indices: 35212585--35212663 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
35212575 ATTCGGCCTT
*
35212585 ATCACATACATACACTTTCACATTC
1 ATCACATACATACACTTTGACATTC
**** * * *
35212610 ATCACAT-TGGCCA-TTCGGCCTT-
1 ATCACATACATACACTTTGACATTC
35212632 ATCACATACATACACTTTGACATTC
1 ATCACATACATACACTTTGACATTC
35212657 ATCACAT
1 ATCACAT
35212664 TGGCCATTCG
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 7 0.19
23 7 0.19
24 8 0.22
25 14 0.39
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (25 bp):
ATCACATACATACACTTTGACATTC
Found at i:35218743 original size:51 final size:51
Alignment explanation
Indices: 35218672--35218853 Score: 170
Period size: 51 Copynumber: 3.6 Consensus size: 51
35218662 TGGTTTTAGG
* * * ***
35218672 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGTGTACGCGATAGCTTCGA
1 TCACATGTGTGGTACTAAGTGTAGGCCACTATGTGTAAAAGATAGCTTCGA
* * *
35218723 TCACATGTGTGGTGCTAAGTGTAGGCCACTATGTGTAAAAGATAGCTTTGG
1 TCACATGTGTGGTACTAAGTGTAGGCCACTATGTGTAAAAGATAGCTTCGA
* * * * * *
35218774 TCACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGA
1 TCACATGTGTGGTACTAAGTGTAGGCCACTATGTGTAA-AAGATAGCTTCGA
* * *
35218825 -CTACAAGGGTGGTACTATGTGTAGGCCAC
1 TC-ACATGTGTGGTACTAAGTGTAGGCCAC
35218854 CGGGCATCCG
Statistics
Matches: 111, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.03
51 108 0.97
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (51 bp):
TCACATGTGTGGTACTAAGTGTAGGCCACTATGTGTAAAAGATAGCTTCGA
Found at i:35220708 original size:41 final size:42
Alignment explanation
Indices: 35220663--35220862 Score: 149
Period size: 45 Copynumber: 4.6 Consensus size: 42
35220653 TTTTATCAAA
* * **
35220663 TCACCGGCATTTAGCCTACTAGGTTTTAAACCCGA-ATTCA-T
1 TCACCGGCATTTAGCCTGCTAGGCTCGAAACCCGATA-TCATT
* *
35220704 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTCGAAACCCGATATCATT
*
35220746 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGT-ATC
1 TCACCGGCATT-TAGCCTGCTAGGCTCGAAA--CCCG-ATA-TCATT
* * * * *
35220791 TCACCAGCATTATAGCCTGCTAGGCTTGAAGGCCTGAATAGT-ATC
1 TCACCGGCATT-TAGCCTGCTAGGCTCGAA-ACCCG-ATA-TCATT
*
35220836 TCACCGGCATTATAGCCTGCTAAGCTC
1 TCACCGGCATT-TAGCCTGCTAGGCTC
35220863 AAAGGCCCGA
Statistics
Matches: 134, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
41 32 0.24
42 15 0.11
43 14 0.10
44 4 0.03
45 66 0.49
46 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTCGAAACCCGATATCATT
Found at i:35220804 original size:45 final size:45
Alignment explanation
Indices: 35220704--35220878 Score: 241
Period size: 45 Copynumber: 4.0 Consensus size: 45
35220694 CCGAATTCAT
* * *
35220704 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
35220746 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* ** *
35220791 TCACCAGCATTATAGCCTGCTAGGCTTGAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
35220836 TCACCGGCATTATAGCCTGCTAAGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
35220879 CTGTAAGATA
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
42 11 0.09
43 16 0.14
44 5 0.04
45 84 0.72
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:35221740 original size:47 final size:47
Alignment explanation
Indices: 35221682--35221821 Score: 226
Period size: 47 Copynumber: 3.0 Consensus size: 47
35221672 AACATTTTCT
*
35221682 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* * *
35221729 TTAACTGAGTAACTTATCCAGAAATATTAAGAGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
* *
35221776 TTAACTAAGTAGCTTATCTGGAAATATTAAGAGCAAATTTAACAAG
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
35221822 ATTTAAATTC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 84 1.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:35244370 original size:53 final size:53
Alignment explanation
Indices: 35244296--35244771 Score: 375
Period size: 53 Copynumber: 9.0 Consensus size: 53
35244286 AACTTTTTTC
* * * * * *
35244296 CTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTG
1 CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* *
35244349 CTTTATGAACTCACCAATGCCATGCCTTGGCATAGTCTTACATGGGA-CCTTTG
1 CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTG
* * ** * * *
35244402 AC-TTATAGTAACTCATCAATTCCATGTATTGACATGGTCTTACATGATTTCCTTG
1 -CTTTAT-G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* * * *
35244457 CCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT-
1 CTTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* * * ***
35244510 ATCT-T--AC-CA--AATGTCATGTTCC-AAACATGGTCTTACATGGTATCCTTG
1 CTTTATGAACTCACCAATGCCATG--CCTTGGCATGGTCTTACATGGTATCCTTG
* *
35244558 -TCTTATGAACTCACCAATGTCATGCCTTGGCATGGTCTTAAATGGTATCCTTG
1 CT-TTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* *
35244611 -TATTGTGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CT-TTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTG
* * * * * * *
35244664 CCTTATAGTAACTCATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CTTTAT-G-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
* * * * *
35244719 CCTTATAAGACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CTTTATGA-ACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
35244772 ATCTTACCAA
Statistics
Matches: 343, Mismatches: 57, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
46 8 0.02
47 22 0.06
48 4 0.01
49 3 0.01
51 2 0.01
52 9 0.03
53 118 0.34
54 91 0.27
55 82 0.24
56 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTG
Found at i:35244799 original size:262 final size:262
Alignment explanation
Indices: 35244301--35244824 Score: 899
Period size: 262 Copynumber: 2.0 Consensus size: 262
35244291 TTTTCCTTTT
* * * **
35244301 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTATGAACTCACCAA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTAAATGGTATCCTTGCTTTATGAACTCACCAA
35244366 TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAATTCCATGTAT
66 TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAATTCCATGTAT
35244431 TGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCT
131 TGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCT
* *
35244496 TACATGATATCCTTATCTTACCAAATGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCT
196 TACATGATATCCTTATCTTACCAAATGCCATGTTACAAACATGGTCTTACATGGTATCCTTGTCT
35244561 TA
261 TA
* * *
35244563 TGAACTCACCAATGTCATGCCTTGGCATGGTCTTAAATGGTATCCTTG-TATTGTGAACTCACCA
1 TGAACTCACCAATGCCATGCCTTGACATGGTCTTAAATGGTATCCTTGCT-TTATGAACTCACCA
* * *
35244627 ATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATTCCATGTC
65 ATGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAATTCCATGTA
35244692 TTGACATGGTCTTACATGATTTCCTTGCCTTATA-AGACTTATCAATGCCATGCCTTGGCATGGT
130 TTGACATGGTCTTACATGATTTCCTTGCCTTATAGA-ACTTATCAATGCCATGCCTTGGCATGGT
35244756 CTTACATGATATCCTTATCTTACCAAATGCCATGTTACAAACATGGTCTTACATGGTATCCTTGT
194 CTTACATGATATCCTTATCTTACCAAATGCCATGTTACAAACATGGTCTTACATGGTATCCTTGT
35244821 CTTA
259 CTTA
35244825 CCAAATGCCA
Statistics
Matches: 247, Mismatches: 13, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
261 2 0.01
262 245 0.99
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (262 bp):
TGAACTCACCAATGCCATGCCTTGACATGGTCTTAAATGGTATCCTTGCTTTATGAACTCACCAA
TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTGACTTATAGTAACTCATCAATTCCATGTAT
TGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCT
TACATGATATCCTTATCTTACCAAATGCCATGTTACAAACATGGTCTTACATGGTATCCTTGTCT
TA
Found at i:35244805 original size:47 final size:47
Alignment explanation
Indices: 35244750--35244871 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
35244740 CATGCCTTGG
* *
35244750 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTACAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTACAAA
*
35244797 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTACAAA
* *
35244844 CATGGTATTACATGGTATGCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
35244872 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTACAAA
Found at i:35247731 original size:18 final size:20
Alignment explanation
Indices: 35247708--35247748 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35247698 ATGGCAGCCC
*
35247708 ACATTTCT-CCA-TTATTTT
1 ACATTTCTACCACATATTTT
35247726 ACATTTCTACCACATATTTT
1 ACATTTCTACCACATATTTT
35247746 ACA
1 ACA
35247749 CCTTTTGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 3 0.15
20 9 0.45
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (20 bp):
ACATTTCTACCACATATTTT
Found at i:35253039 original size:64 final size:65
Alignment explanation
Indices: 35252959--35253141 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 65
35252949 AGACATTATG
35252959 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATAG-GAT-A
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTA-AGAGATAA
*
35253022 T
65 A
* * * * * * *
35253023 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTAAGAGAT
35253088 AAA
63 AAA
* * * *
35253091 ATG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
35253142 ACGAACTATA
Statistics
Matches: 96, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 17 0.18
67 27 0.28
68 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAAGAGATAAA
Found at i:35270933 original size:19 final size:19
Alignment explanation
Indices: 35270909--35270947 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35270899 TAATTTAGCT
35270909 AAAACTGAACCATCATCGG
1 AAAACTGAACCATCATCGG
35270928 AAAACTGAACCATCATCGG
1 AAAACTGAACCATCATCGG
35270947 A
1 A
35270948 CAGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAACTGAACCATCATCGG
Found at i:35274281 original size:27 final size:26
Alignment explanation
Indices: 35274225--35274281 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
35274215 CAACCTTAGC
* * *
35274225 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
35274251 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
35274278 CCTA
1 CCTA
35274282 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:35279765 original size:47 final size:47
Alignment explanation
Indices: 35279687--35279942 Score: 404
Period size: 47 Copynumber: 5.4 Consensus size: 47
35279677 CCCTTCGGGA
* * * * * * *
35279687 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35279734 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35279781 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35279830 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35279877 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35279924 CTTATCACATATATACACT
1 CTTATCACATATATACACT
35279943 GTCTTGGCTG
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 147 0.76
49 47 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35279849 original size:96 final size:96
Alignment explanation
Indices: 35279687--35279942 Score: 403
Period size: 96 Copynumber: 2.7 Consensus size: 96
35279677 CCCTTCGGGA
* * * * * * * *
35279687 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35279750 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
35279781 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
35279846 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
35279877 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
35279940 ACT
66 ACT
35279943 GTCTTGGCTG
Statistics
Matches: 151, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
94 68 0.45
95 1 0.01
96 82 0.54
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35293688 original size:14 final size:14
Alignment explanation
Indices: 35293669--35293695 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35293659 TATCAAGACA
35293669 AGAATTAAGAACAC
1 AGAATTAAGAACAC
35293683 AGAATTAAGAACA
1 AGAATTAAGAACA
35293696 AGCCACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (14 bp):
AGAATTAAGAACAC
Found at i:35300543 original size:19 final size:20
Alignment explanation
Indices: 35300519--35300556 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35300509 GGTACCACCA
35300519 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
35300538 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
35300557 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:35300897 original size:93 final size:93
Alignment explanation
Indices: 35300786--35300956 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
35300776 GCCCCTATGT
* * *
35300786 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAGGAACTCAGACTCAACTCAA
35300851 CGAGTTCGGATGCCCAGTTACATCTCAC
66 CGAGTTCGGATGCCCAGTTACATCTCAC
* * * *
35300879 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGGGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAGGAACTCAGACTCAACTCAA
35300944 CGAGTTCGGATGC
66 CGAGTTCGGATGC
35300957 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAAGGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCCAGTTACATCTCAC
Found at i:35300946 original size:46 final size:45
Alignment explanation
Indices: 35300786--35300953 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 45
35300776 GCCCCTATGT
* * * * *
35300786 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT-AAC
* * * *
35300832 GAACTCAGACTCAACTCAACGAGTTCGGATGCCCAGTTACAT-C-TCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATAAC
*
35300879 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGG
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA-C
35300925 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
35300954 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 2 0.02
46 54 0.53
47 29 0.29
48 1 0.01
49 1 0.01
50 6 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAC
Found at i:35331170 original size:46 final size:46
Alignment explanation
Indices: 35331065--35331183 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
35331055 TGTCTTCGAC
** * * * *
35331065 ATGGACTTACATGAATTATACCTATCCCCAATGCCATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCCCCAAAGCCATATATATAAT
* *
35331111 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCCCCAAAGCCATATATATAAT
*
35331157 ATGGACTTACATGGCTCATTTCTGTCC
1 ATGGACTTACATGGCTCATTCCTGTCC
35331184 TGTCCTGTCC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCCCCAAAGCCATATATATAAT
Found at i:35340723 original size:28 final size:28
Alignment explanation
Indices: 35340691--35340760 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
35340681 ATATGGCATC
* **
35340691 AGTGTACGAAATATTGAGAATGGGACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
35340719 AGTGTGCGAGATATTGAGCATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
35340747 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
35340761 CGAATGCTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:35342762 original size:25 final size:25
Alignment explanation
Indices: 35342734--35342786 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
35342724 GGAATGAGTG
*
35342734 TGCTGAACCGTGTTTTATACAGTAA
1 TGCTGAACCGCGTTTTATACAGTAA
35342759 TGCTGAACCGCGTTTTATACAGTAA
1 TGCTGAACCGCGTTTTATACAGTAA
35342784 TGC
1 TGC
35342787 CTCATAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (25 bp):
TGCTGAACCGCGTTTTATACAGTAA
Found at i:35345856 original size:28 final size:29
Alignment explanation
Indices: 35345743--35345857 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
35345733 GTGAGCATGA
* *
35345743 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
35345771 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
35345800 ATAT-ACAGGTGATTTGGGCCTAATAGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
35345829 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
35345857 A
1 A
35345858 GATACAAGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:35349841 original size:8 final size:8
Alignment explanation
Indices: 35349824--35349858 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
35349814 ATGTATCGGC
35349824 AAAAGCCA
1 AAAAGCCA
*
35349832 AAATGCCA
1 AAAAGCCA
*
35349840 AAAAGTCA
1 AAAAGCCA
35349848 AAAAGCCA
1 AAAAGCCA
35349856 AAA
1 AAA
35349859 TGTCGAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.63, C:0.20, G:0.11, T:0.06
Consensus pattern (8 bp):
AAAAGCCA
Found at i:35349867 original size:16 final size:16
Alignment explanation
Indices: 35349824--35349870 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
35349814 ATGTATCGGC
* *
35349824 AAAAGCCAAAATGCCA
1 AAAAGTCAAAAAGCCA
35349840 AAAAGTCAAAAAGCCA
1 AAAAGTCAAAAAGCCA
* *
35349856 AAATGTCGAAAAGCC
1 AAAAGTCAAAAAGCC
35349871 GAAAGTTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.55, C:0.21, G:0.15, T:0.09
Consensus pattern (16 bp):
AAAAGTCAAAAAGCCA
Found at i:35350007 original size:19 final size:18
Alignment explanation
Indices: 35349983--35350027 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
35349973 ATTTGGCCAT
35349983 ATGGGCCTCAATGGGCTAA
1 ATGGGCC-CAATGGGCTAA
*
35350002 ATGGGCCCGATGGGCT-A
1 ATGGGCCCAATGGGCTAA
*
35350019 TTGGGCCCA
1 ATGGGCCCA
35350028 TAATAGGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.20, C:0.24, G:0.36, T:0.20
Consensus pattern (18 bp):
ATGGGCCCAATGGGCTAA
Found at i:35350016 original size:18 final size:19
Alignment explanation
Indices: 35349983--35350018 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35349973 ATTTGGCCAT
35349983 ATGGGCCTCAATGGGCTAA
1 ATGGGCCTCAATGGGCTAA
*
35350002 ATGGGCC-CGATGGGCTA
1 ATGGGCCTCAATGGGCTA
35350019 TTGGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.22, G:0.36, T:0.19
Consensus pattern (19 bp):
ATGGGCCTCAATGGGCTAA
Found at i:35350145 original size:29 final size:29
Alignment explanation
Indices: 35350084--35350169 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
35350074 TGTGAGCATG
* * **
35350084 AATATGAATGTGA-CTGGGCCTAACAGGC
1 AATATAAATGTGATTTGGGCCTAATGGGC
*
35350112 CATATAAATGTGATTTGGGCCTAATGGGC
1 AATATAAATGTGATTTGGGCCTAATGGGC
* *
35350141 AATATACAGGTGATTTGGGCCTAATGGGC
1 AATATAAATGTGATTTGGGCCTAATGGGC
35350170 CGTATGAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 11 0.22
29 38 0.78
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
AATATAAATGTGATTTGGGCCTAATGGGC
Found at i:35350183 original size:29 final size:28
Alignment explanation
Indices: 35350085--35350199 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 28
35350075 GTGAGCATGA
* **
35350085 ATATGAATGTGA-CTGGGCCTAACAGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
*
35350113 ATATAAATGTGATTTGGGCCTAATGGGCA
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
*
35350142 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATA-ATGTGATTTGGGCCTAATGGGCC
* * * *
35350171 GTATGAATATGA-TTGGTCTTAATGGGCC
1 ATAT-AATGTGATTTGGGCCTAATGGGCC
35350199 A
1 A
35350200 GATACAAGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 26 0.37
29 44 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAATGGGCC
Found at i:35354160 original size:43 final size:42
Alignment explanation
Indices: 35354049--35354196 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
35354039 AATGCCAACA
* **
35354049 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATAAAATCAAATATCGATGCCA-TG
*
35354092 TCCCAGACAGGGTCTTACATAAAATCAAATAT-GATGCCGATG
1 TCCCAGACATGGTCTTACATAAAATCAAATATCGATGCC-ATG
* *
35354134 TCCCAGACATGGTCTTATACAT-AAATCATAA-ATCGATGTCAACG
1 TCCCAGACATGGTC-T-TACATAAAATCA-AATATCGATG-CCATG
*
35354178 TCCAAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
35354197 CGAAAACACA
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
42 25 0.27
43 39 0.43
44 26 0.29
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATAAAATCAAATATCGATGCCATG
Found at i:35365325 original size:40 final size:40
Alignment explanation
Indices: 35365281--35365503 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
35365271 GCCAATAGCT
* *
35365281 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
35365321 CAAATGCCTTCGGGACTTAGCCCGGTA-TAATAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
35365360 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
35365400 CAAATG-CTTCAGGACTTAGCCCGGAATTAGTAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
** * *
35365439 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
35365479 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
35365504 TTATCATCCG
Statistics
Matches: 162, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 74 0.46
40 88 0.54
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:35365379 original size:79 final size:79
Alignment explanation
Indices: 35365281--35365504 Score: 308
Period size: 79 Copynumber: 2.8 Consensus size: 79
35365271 GCCAATAGCT
* *
35365281 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATG-CTTCGGGACTTAGCCCG
35365345 GTA-TAATAACTCACA
64 GTATTAATAACTCACA
* * * *
35365360 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCACAAATGCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCTTCGGGACTTAGCCCGGT
* *
35365425 ATTAGTAGCTCACA
66 ATTAATAACTCACA
** *
35365439 CAAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATGCTCTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCT-TCGGGACTTAGCCCGG
35365504 T
65 T
35365505 TATCATCCGA
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
78 18 0.14
79 94 0.73
80 16 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCTTCGGGACTTAGCCCGGT
ATTAATAACTCACA
Found at i:35375417 original size:22 final size:22
Alignment explanation
Indices: 35375389--35375510 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
35375379 TTCCACATCC
35375389 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
35375411 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
35375435 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
35375458 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
35375482 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
35375505 ATCACA
1 ATCACA
35375511 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:35375424 original size:47 final size:47
Alignment explanation
Indices: 35375361--35375861 Score: 731
Period size: 47 Copynumber: 10.6 Consensus size: 47
35375351 CCCTTCGGGA
* * *
35375361 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
35375408 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35375455 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35375502 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35375549 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35375596 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
35375643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
35375690 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
35375739 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
35375786 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
35375835 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35375862 TATTCAAATA
Statistics
Matches: 428, Mismatches: 20, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 334 0.78
48 1 0.00
49 92 0.21
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:35377252 original size:85 final size:85
Alignment explanation
Indices: 35377131--35377301 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
35377121 TGCCCATACC
35377131 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
35377196 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
35377216 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
35377281 ACATCTTGTCCACCCATGCT
66 ACATCTTGTCCACCCATGCT
35377301 C
1 C
35377302 ATGGCCGGCC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
ACATCTTGTCCACCCATGCT
Found at i:35383747 original size:48 final size:48
Alignment explanation
Indices: 35383671--35383786 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
35383661 AATTCATGTA
* *
35383671 ATATCCTAGACATGGTCTTATATAGGATCACATAACGATGCCAATGCC
1 ATATCCCAGACATGGTCTTACATAGGATCACATAACGATGCCAATGCC
* * * * *
35383719 ATGTCCCAGACATGGTCTTACATGGGATCATATATCGATGCCGATGCC
1 ATATCCCAGACATGGTCTTACATAGGATCACATAACGATGCCAATGCC
*
35383767 ATATCCCAGATATGGTCTTA
1 ATATCCCAGACATGGTCTTA
35383787 TACGGGAGCT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (48 bp):
ATATCCCAGACATGGTCTTACATAGGATCACATAACGATGCCAATGCC
Found at i:35383900 original size:250 final size:250
Alignment explanation
Indices: 35383459--35383918 Score: 724
Period size: 250 Copynumber: 1.8 Consensus size: 250
35383449 CATGGTAGGG
* * *
35383459 TGCCAATGCCATATCCCGGATATGGTCTTATATGGGACCACTTATCAATGCCAATGCCATATCCC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACTTATCAATGCCAATGCCATATCCC
* * * *
35383524 AAATTTTGTCATAAACGGGATCTCAACAACCCGAATATCATGATATGTAAGCCCTAAGTATTCCT
66 AAATATGGTCATAAACGGGAGCTCAACAACCCAAATATCATGATATGTAAGCCCTAAGTATTCCT
* * * *
35383589 AACGTTCAATCGGCTTTCATCTCCTCAAATCTTCGTCGGACAACATCAATAATACTCACGAAGAC
131 AAAGTTCAACCGGCTTTCATCTCCTCAAATCTTCGTCAGACAACATCAATAATACTCACGAAGAA
35383654 AATGTACAATTCATGTAATATCCTAGACATGGTCTTATATAGGATCACATAACGA
196 AATGTACAATTCATGTAATATCCTAGACATGGTCTTATATAGGATCACATAACGA
* * * *
35383709 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA-TATATCGATGCCGATGCCATATCC
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACT-TATCAATGCCAATGCCATATCC
* * * * *
35383773 CAGATATGGTCTTATACGGGAGCTTAACAACCCAAATATCATGATATGTATGCCCTAAGTATTCC
65 CAAATATGGTCATAAACGGGAGCTCAACAACCCAAATATCATGATATGTAAGCCCTAAGTATTCC
35383838 TAAAGTTCAACCGGCTTTCATCTCCTCAAATCTTCGTCAGACAACATCAATAATACTCACGAAGA
130 TAAAGTTCAACCGGCTTTCATCTCCTCAAATCTTCGTCAGACAACATCAATAATACTCACGAAGA
35383903 AAATGTACAATTCATG
195 AAATGTACAATTCATG
35383919 CAACATTAAG
Statistics
Matches: 189, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
249 1 0.01
250 188 0.99
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (250 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCACTTATCAATGCCAATGCCATATCCC
AAATATGGTCATAAACGGGAGCTCAACAACCCAAATATCATGATATGTAAGCCCTAAGTATTCCT
AAAGTTCAACCGGCTTTCATCTCCTCAAATCTTCGTCAGACAACATCAATAATACTCACGAAGAA
AATGTACAATTCATGTAATATCCTAGACATGGTCTTATATAGGATCACATAACGA
Found at i:35393099 original size:19 final size:20
Alignment explanation
Indices: 35393075--35393112 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35393065 GGTACCACCA
35393075 AAACAT-ATATCAT-ATCTTT
1 AAACATCAT-TCATCATCTTT
35393094 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
35393113 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:35393456 original size:46 final size:46
Alignment explanation
Indices: 35393336--35393463 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
35393326 TAACCCGCCC
35393336 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * * *
35393384 CTCA-CGAACTCAGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
35393427 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35393464 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.41
47 28 0.41
48 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:35393482 original size:46 final size:45
Alignment explanation
Indices: 35393339--35393482 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
35393329 CCCGCCCCTA
35393339 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
35393386 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
35393432 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
35393478 AGTGA
1 AGTGA
35393483 CATGCCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 30 0.39
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:35397455 original size:37 final size:37
Alignment explanation
Indices: 35397405--35397483 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
35397395 TTATTACGAA
* * * *
35397405 GTCTTACCTGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
35397442 GTCTTACCCGGACAAAATCCCCACACGTAGTCATTGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
35397479 GTCTT
1 GTCTT
35397484 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:35397680 original size:47 final size:47
Alignment explanation
Indices: 35397602--35398153 Score: 935
Period size: 47 Copynumber: 11.7 Consensus size: 47
35397592 CCCTTCGGGA
* * * * * *
35397602 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35397649 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35397696 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35397743 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35397790 CTTATCACATATATGCACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35397837 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35397884 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35397931 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35397978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35398025 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35398072 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35398119 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
35398154 AGAATCCTAA
Statistics
Matches: 481, Mismatches: 23, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
46 1 0.00
47 480 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35409916 original size:77 final size:71
Alignment explanation
Indices: 35409729--35409917 Score: 229
Period size: 71 Copynumber: 2.6 Consensus size: 71
35409719 GGGGAATCAT
* *
35409729 CACTTAGCAACCCCT-CGAGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCCG-GGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATG
35409793 GATATCG
65 GATATCG
* ***
35409800 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
35409865 GATATCG
65 GATATCG
*
35409872 CACTTAGC-ACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCC
1 CACTTAGCAACC-CC--T---CCGGGGAATCAGCACATAGCAACCCC
35409918 TCGGGGGAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
71 45 0.44
72 32 0.31
74 1 0.01
77 24 0.24
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (71 bp):
CACTTAGCAACCCCTCCGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:35409976 original size:175 final size:175
Alignment explanation
Indices: 35409685--35410134 Score: 819
Period size: 175 Copynumber: 2.6 Consensus size: 175
35409675 TAACCGTTAT
* * * * *
35409685 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCATCACTTAGCAACCCCTCGAGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
35409750 AATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCT
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCT
*
35409815 CGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
131 CGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
35409860 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
35409925 AATCAGTACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCT
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCT
35409990 CGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
131 CGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
35410035 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
35410100 AATCAGCACATAGCAACCCCCTTTCACATTTCAAA
66 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAA
35410135 GATATGGTGG
Statistics
Matches: 265, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
175 256 0.97
176 9 0.03
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (175 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGGATATCGCACTTAGCAACCCCT
CGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:35409983 original size:71 final size:72
Alignment explanation
Indices: 35409903--35410055 Score: 236
Period size: 71 Copynumber: 2.1 Consensus size: 72
35409893 CGGGGAATCA
* * * *
35409903 GCACTTAGCAACCCCTCGGGGGAATCAGTACATAGCAACCCCCTTT-TCATTTCAAATATACAAT
1 GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
35409967 GGATATC
66 GGATATC
***
35409974 GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
35410039 GGATATC
66 GGATATC
35410046 GCACTTAGCA
1 GCACTTAGCA
35410056 CCACCAATGA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (72 bp):
GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAAT
GGATATC
Found at i:35410096 original size:104 final size:104
Alignment explanation
Indices: 35409974--35410197 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
35409964 AATGGATATC
35409974 GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
35410039 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
*
35410078 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
35410143 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
35410182 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
35410198 TTTATATACA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGAAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:35410559 original size:29 final size:29
Alignment explanation
Indices: 35410526--35410589 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
35410516 TAATCCACCA
35410526 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
35410555 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
35410585 CCCAA
1 CCCAA
35410590 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:35410563 original size:30 final size:30
Alignment explanation
Indices: 35410533--35410589 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35410523 CCACCCAACT
35410533 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
35410562 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
35410590 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:35411564 original size:48 final size:48
Alignment explanation
Indices: 35411402--35411671 Score: 219
Period size: 48 Copynumber: 5.6 Consensus size: 48
35411392 GGCTGTTACA
* * ** * *
35411402 GTAAGACCATGTCTGGGACATGGCGTCGGCCA-CAATATGACAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCAG-CATCGTTATGAGAGCTAGT
* * * *
35411450 ATAAGACCATGTTTGGAACATGGCATCGGCAAT-GTTATGAGAG-TAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGC-ATCGTTATGAGAGCTAGT
* * * * * * *
35411497 GTAAGACCGTATCCGGGACATGGCATCAGCATTGTTAGGTGCGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGAGAGCTAGT
* * * *
35411545 GTAAGACCATGTCTAGGACATGGCAACGACCA-CATTATGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATC-AGCATCGTTATGAGAGCTAGT
* * ** *
35411593 GTAAGACCATGTCTGGGATATGGCATCGGGC-TCGACATGTA-AGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATC-AGCATCGTTATG-AGAGCTAGT
35411641 GTAAGACCATGTCTGGGACATGGCATCAGCA
1 GTAAGACCATGTCTGGGACATGGCATCAGCA
35411672 ATTTACCTTA
Statistics
Matches: 174, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
46 2 0.01
47 36 0.21
48 132 0.76
49 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCAGCATCGTTATGAGAGCTAGT
Found at i:35441528 original size:48 final size:48
Alignment explanation
Indices: 35441454--35441790 Score: 548
Period size: 48 Copynumber: 7.0 Consensus size: 48
35441444 TACAAGATAA
* *
35441454 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
35441502 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
35441550 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
35441598 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
35441646 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
35441694 ATATGTATATGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* ** * *
35441742 ATATGTATATTTGGTAAAGCTTAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
35441790 A
1 A
35441791 GGTGTGTATA
Statistics
Matches: 270, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 270 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:35441982 original size:37 final size:37
Alignment explanation
Indices: 35441932--35442034 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
35441922 GGAAATATAT
35441932 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35441969 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35442006 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35442035 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35444822 original size:93 final size:93
Alignment explanation
Indices: 35444714--35444884 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
35444704 ACCCATAAGT
* * * * *
35444714 GAACTCGGACTCAACTCAACGAGCTCGACCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
35444779 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
35444807 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
*
35444872 CGAGTTCGGATGC
66 CGAGCTCGGATGC
35444885 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACCCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:35444879 original size:46 final size:45
Alignment explanation
Indices: 35444706--35444875 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 45
35444696 TGTAACCCAC
*
35444706 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACC-ATTGCAT
*
35444752 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA--CC-A-TTGCAT
* * * * *
35444802 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACCATT-GCAT
*
35444845 CCATAAGTGAACTCGGACTCAACCCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
35444876 TTCGGATGCT
Statistics
Matches: 103, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 2 0.02
49 3 0.03
50 5 0.05
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGACCATTGCAT
Found at i:35445472 original size:20 final size:18
Alignment explanation
Indices: 35445438--35445474 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
35445428 GAAACTCATA
35445438 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
35445456 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
35445475 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:35449494 original size:37 final size:37
Alignment explanation
Indices: 35449435--35449543 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
35449425 AGCTCAGACG
* *
35449435 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
35449472 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
35449509 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
35449544 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:35449798 original size:48 final size:48
Alignment explanation
Indices: 35449746--35449975 Score: 356
Period size: 48 Copynumber: 4.8 Consensus size: 48
35449736 ATATATATAT
*
35449746 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAC
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATAC
* *
35449794 ATATTTCACATTGGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTC--ATAC
*
35449844 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAC
1 ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATAC
35449892 ATATTTCACATT-AGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATACATATCTCATAC
* *
35449940 ACATTTCACATT-AGTCATTCGGCTTTACCACATATA
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATA
35449976 TGCATGTTCA
Statistics
Matches: 170, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 1 0.01
48 124 0.73
50 45 0.26
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATACATATCTCATAC
Found at i:35449887 original size:98 final size:98
Alignment explanation
Indices: 35449689--35449974 Score: 452
Period size: 98 Copynumber: 2.9 Consensus size: 98
35449679 GCACATCGCC
* *
35449689 TACATATTTTACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATATTTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATATATATATTTCA
35449754 CATTGACCATTCGGCTTTACCACATATGCATATCTCA
62 CATTGACCATTCGGCTTTACCACATATGCATATCTCA
*
35449791 TACATATTTCACATTGGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
35449856 GACCATTCGGCTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATGCATATCTCA
* *
35449889 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACACATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
*
35449952 -AGTCATTCGGCTTTACCACATAT
66 GA-CCATTCGGCTTTACCACATAT
35449975 ATGCATGTTC
Statistics
Matches: 176, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.19
98 97 0.55
102 44 0.25
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:35449926 original size:146 final size:147
Alignment explanation
Indices: 35449706--35449975 Score: 418
Period size: 146 Copynumber: 1.8 Consensus size: 147
35449696 TTTACACTAG
*
35449706 CCATTCGGCTTTACCACATATACATATCTCATATATATATATATTTCACATTGACCATTCGGCTT
1 CCATTCGGCTTTACCACATATACATATCTC----A-ATACATATTTCACATTGACCATTCGGCTT
* * *
35449771 TACCACATATGCATATCTCATACATATTTCACATTGGCCATTCGGCTTTACCACATATACATATC
61 TACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATC
35449836 TCATATATATATTTCACATTGA
126 TCATATATATATTTCACATTGA
*
35449858 CCATTCGGCTTTACCACATATGCATATCTC-ATACATATTTCACATT-AGCCATTCGGCTTTACC
1 CCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTGA-CCATTCGGCTTTACC
*
35449921 ACATATACATATCTCATACACATTTCACATTAGTCATTCGGCTTTACCACATATA
65 ACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATA
35449976 TGCATGTTCA
Statistics
Matches: 111, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
145 1 0.01
146 81 0.73
152 29 0.26
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (147 bp):
CCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTGACCATTCGGCTTTACCA
CATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
TATATATTTCACATTGA
Found at i:35450024 original size:47 final size:47
Alignment explanation
Indices: 35449945--35450232 Score: 459
Period size: 47 Copynumber: 6.1 Consensus size: 47
35449935 CATACACATT
* * * * *
35449945 TCACATTAGTCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
35449992 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35450039 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35450086 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35450133 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
35450180 TCACATTGGCCATTCGGCCTTATCTCATACATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
35450227 TCACAT
1 TCACAT
35450233 AAAATCCTAA
Statistics
Matches: 225, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:35450113 original size:141 final size:141
Alignment explanation
Indices: 35449850--35450232 Score: 470
Period size: 141 Copynumber: 2.7 Consensus size: 141
35449840 ATATATATTT
* * * * *
35449850 CACATTGACCATTCGGCTTTA-C-CACATATGCATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC--ACAT-TCATCACATTGGCCATTC
* * * * * *
35449912 GGCTTTACCACATATACATATCTCATACACATT--TCACATTAGTCATTCGGCTTTACCACATAT
62 GGCCTTATCAC--ATACATA-CACATTCACATTCATCACATTAGCCATTCGGCCTTACCACATAT
*
35449975 ATGCATGTTCATATTCAC
124 ATGCATGTTCACATTCAC
35449993 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
* * ** * *
35450058 TTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATG
66 TTATCACATACATACACATTCACATTCATCACATTAGCCATTCGGCCTTACCACATATATGCATG
*
35450123 TTCACATTCAT
131 TTCACATTCAC
* *
35450134 CACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
*
35450199 TTATCTCATACATACACATTCACATTCATCACAT
66 TTATCACATACATACACATTCACATTCATCACAT
35450233 AAAATCCTAA
Statistics
Matches: 209, Mismatches: 26, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
139 8 0.04
140 5 0.02
141 135 0.65
142 27 0.13
143 19 0.09
144 4 0.02
145 11 0.05
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (141 bp):
CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
TTATCACATACATACACATTCACATTCATCACATTAGCCATTCGGCCTTACCACATATATGCATG
TTCACATTCAC
Found at i:35450221 original size:94 final size:94
Alignment explanation
Indices: 35449897--35450232 Score: 437
Period size: 94 Copynumber: 3.6 Consensus size: 94
35449887 CATACATATT
* * * * * * *
35449897 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACACATT--TCACATTAGTCATTC
1 TCACATTGGCCATTCGGCCTTATCAC--ATACATA-CACATTCACATTCATCACATTGGCCATTC
* * *
35449960 GGCTTTACCACATATATGCATGTTCATATTCA
63 GGCCTTATCACATATATGCATGTTCACATTCA
* **
35449992 CCACATTGGCCATTCGGCCTTATCAC--ACATATGCATGCTCACATTCATCACATTGGCCATTCG
1 TCACATTGGCCATTCGGCCTTATCACATACATACACAT--TCACATTCATCACATTGGCCATTCG
35450055 GCCTTATCACATATATGCATGTTCACATTCA
64 GCCTTATCACATATATGCATGTTCACATTCA
* * **
35450086 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATACATACACATTCACATTCATCACATTGGCCATTCGGC
35450151 CTTATCACATATATGCATGTTCACATTCA
66 CTTATCACATATATGCATGTTCACATTCA
*
35450180 TCACATTGGCCATTCGGCCTTATCTCATACATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATCACATACATACACATTCACATTCATCACAT
35450233 AAAATCCTAA
Statistics
Matches: 211, Mismatches: 24, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
90 3 0.01
91 5 0.02
92 6 0.03
94 171 0.81
95 22 0.10
96 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACATACATACACATTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATGCATGTTCACATTCA
Found at i:35457162 original size:27 final size:27
Alignment explanation
Indices: 35457132--35457448 Score: 413
Period size: 27 Copynumber: 11.8 Consensus size: 27
35457122 CCTTAATCGA
* *
35457132 TAAAATGACTATTTTCCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
35457159 TAAAATGACTG--TTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* *
35457184 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
*
35457211 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* * * *
35457238 TAAAATGACTGTTTTTCTCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGGGG
* *
35457265 TAAAATGACTGTTTTGCTCTTATGGGAA
1 TAAAATGACTGTTTTGCCCTTATGGG-G
* *
35457293 TAAAATGATTGTTTTGCCCTTATGGGA
1 TAAAATGACTGTTTTGCCCTTATGGGG
35457320 TAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
*
35457347 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* *
35457374 TAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* * *
35457401 TAAAATGACTATTTTGCCCTTTTGTGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
** *
35457428 TAAAATGGTTATTTTGCCCTT
1 TAAAATGACTGTTTTGCCCTT
35457449 TTTATGGTAA
Statistics
Matches: 263, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
25 23 0.09
27 215 0.82
28 25 0.10
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGGGG
Found at i:35457371 original size:136 final size:134
Alignment explanation
Indices: 35457130--35457448 Score: 453
Period size: 136 Copynumber: 2.4 Consensus size: 134
35457120 ACCCTTAATC
* * *
35457130 GATAAAATGACTATTTTCCCCTTATGGGGTAAAATGACTG--TTGCCCTTATGGGGTAAAATGAC
1 GATAAAATGACTATTTTGCCCTTAT-GGGTAAAATGATTGTTTTGCCCTTATGGGATAAAATGAC
* * *
35457193 TATTTTGCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTTCTCT
65 TATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCT
*
35457258 TATGT
130 TATGA
* *
35457263 GATAAAATGACTGTTTTGCTCTTATGGGAATAAAATGATTGTTTTGCCCTTATGGGATAAAATGA
1 GATAAAATGACTATTTTGCCCTTATGGG--TAAAATGATTGTTTTGCCCTTATGGGATAAAATGA
* *
35457328 CTGTTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGATTGTTTTGCCC
64 CTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCC
35457393 TTATGA
129 TTATGA
* * * *
35457399 GGTAAAATGACTATTTTGCCCTTTTGTGGTAAAATGGTTATTTTGCCCTT
1 GATAAAATGACTATTTTGCCCTTATG-GGTAAAATGATTGTTTTGCCCTT
35457449 TTTATGGTAA
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
132 3 0.02
133 22 0.13
134 10 0.06
135 19 0.12
136 108 0.66
137 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (134 bp):
GATAAAATGACTATTTTGCCCTTATGGGTAAAATGATTGTTTTGCCCTTATGGGATAAAATGACT
ATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTT
ATGA
Found at i:35469733 original size:51 final size:48
Alignment explanation
Indices: 35469553--35469739 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 48
35469543 GCCGAAGCTA
** * *
35469553 TCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-ACAG
**
35469602 TCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CA-CAG
** * *
35469652 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
* *
35469700 TTTTCGGGTACACATATTAGCCTGCACTTAGTACTACACA
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
35469740 TGCGACCTCA
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
47 2 0.02
48 2 0.02
49 36 0.31
50 41 0.35
51 35 0.30
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCACAG
Found at i:35469737 original size:101 final size:99
Alignment explanation
Indices: 35469564--35469750 Score: 259
Period size: 101 Copynumber: 1.9 Consensus size: 99
35469554 CTGGTATGCA
* * **
35469564 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
35469629 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
35469663 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACACATATTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
35469727 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
35469751 AATAGATCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 42 0.55
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:35471920 original size:15 final size:15
Alignment explanation
Indices: 35471871--35471926 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
35471861 CAAGAAAACT
35471871 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
35471886 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
*
35471901 GAATAAAGAAATCTA
1 GAATAAAGAAATCCA
35471916 GAATAAAGAAA
1 GAATAAAGAAA
35471927 CCCAAGATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 28 0.82
16 3 0.09
ACGTcount: A:0.62, C:0.11, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:35474781 original size:45 final size:44
Alignment explanation
Indices: 35474686--35474774 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 44
35474676 CTGACATTTC
*
35474686 GCCTGTTAGGCTCG-AGGCCCGATATCAGTTCACCGGTATTATA
1 GCCTGCTAGGCTCGAAGGCCCGATATCAGTTCACCGGTATTATA
35474729 GCCTGCTAGGCTCGAAGGCCCGA-AT-AGTATCTCACCGGTATTATA
1 GCCTGCTAGGCTCGAAGGCCCGATATCAG--T-TCACCGGTATTATA
35474774 G
1 G
35474775 TTTGCTAAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
42 2 0.05
43 15 0.37
44 9 0.22
45 15 0.37
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (44 bp):
GCCTGCTAGGCTCGAAGGCCCGATATCAGTTCACCGGTATTATA
Found at i:35475181 original size:43 final size:43
Alignment explanation
Indices: 35475129--35475326 Score: 315
Period size: 43 Copynumber: 4.6 Consensus size: 43
35475119 TCGGCATTAT
*
35475129 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
* * *
35475172 GCCTGCTAGGCACGAAGGCCCTAATACACATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
* * *
35475215 GCCTGCTAGGCACGAAAGCTCGAATACACATCACCGCCACTAA
1 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
* *
35475258 GCCTGCTAGGAACGAAGGCTCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
35475301 GCCTGCTAGGCACGAAGGCTCGAATA
1 GCCTGCTAGGCACGAAGGCTCGAATA
35475327 TAATACCAGC
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
Found at i:35475367 original size:38 final size:38
Alignment explanation
Indices: 35475321--35475404 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
35475311 CACGAAGGCT
* * * *
35475321 CGAATATAATACCAGCAATAGGCCTGCGGGATTTATCC
1 CGAATATAATACCAGCAAGAAGCCTACGGGATTTAACC
* *
35475359 CGGATATAATACCAGCACGAAGCCTACGGGATTTAACC
1 CGAATATAATACCAGCAAGAAGCCTACGGGATTTAACC
35475397 CGAATATA
1 CGAATATA
35475405 CATCAAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (38 bp):
CGAATATAATACCAGCAAGAAGCCTACGGGATTTAACC
Found at i:35477918 original size:50 final size:51
Alignment explanation
Indices: 35477854--35477986 Score: 169
Period size: 50 Copynumber: 2.6 Consensus size: 51
35477844 AACAGTCTGG
*
35477854 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCA-CCATCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAGCCATCGAA
* * *** **
35477904 TACACGTAGTAGCCTGCACTTAGTACTGCACACGTGATCTCAGTTTTCGGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAGCCATCGAA
* *
35477955 TACGCATAGTAGCCTGCACTTAGTACTACACA
1 TACACGTAGTAGCCTGCACTTAGTACTACACA
35477987 TGCAACCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 40 0.56
51 31 0.44
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCAGCCATCGAA
Found at i:35486778 original size:26 final size:27
Alignment explanation
Indices: 35486724--35486777 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35486714 AAGACCAAAA
*
35486724 TACCCCTATAGGGTAAAATGACTATTT
1 TACCCCTAGAGGGTAAAATGACTATTT
*
35486751 TACCCCTCGAGGGT-AAATGACTGATTT
1 TACCCCTAGAGGGTAAAATGACT-ATTT
35486778 ATGCTATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAAATGACTATTT
Found at i:35488960 original size:21 final size:21
Alignment explanation
Indices: 35488934--35488975 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
35488924 TGAAAATATC
35488934 AAAATGACCATTTACAAAATA
1 AAAATGACCATTTACAAAATA
*
35488955 AAAATGGCCATTTACAAAATA
1 AAAATGACCATTTACAAAATA
35488976 TGCATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (21 bp):
AAAATGACCATTTACAAAATA
Found at i:35489672 original size:28 final size:28
Alignment explanation
Indices: 35489641--35489712 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
35489631 ATACTTAATG
*
35489641 TCTCACACACTAAGTGCAATACTCGATA
1 TCTCACACACTAAGTGCAACACTCGATA
* *
35489669 TCTCATACACTAAGTGCCACACTCGATA
1 TCTCACACACTAAGTGCAACACTCGATA
* *
35489697 TCTCGCACACAAAGTG
1 TCTCACACACTAAGTG
35489713 TCGTGCATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (28 bp):
TCTCACACACTAAGTGCAACACTCGATA
Found at i:35492683 original size:50 final size:50
Alignment explanation
Indices: 35492576--35492676 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
35492566 AAATGTGTGG
* *
35492576 ACTTGTATGAGTGCTATGAATATTCGGCCAAGCATGAGTATGTGCAAATT
1 ACTTGTATGAGTGCGATGAATATTCGGCCAAGCACGAGTATGTGCAAATT
35492626 ACTTGTATGAGTGCGATGAATATTCGGCCAAGCACGAGTATGTGCAAATT
1 ACTTGTATGAGTGCGATGAATATTCGGCCAAGCACGAGTATGTGCAAATT
35492676 A
1 A
35492677 TGTGTATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
ACTTGTATGAGTGCGATGAATATTCGGCCAAGCACGAGTATGTGCAAATT
Found at i:35493265 original size:43 final size:42
Alignment explanation
Indices: 35493109--35493266 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
35493099 ATGTGTTTTT
* * * *
35493109 GTGTAAGACCACATCTGGGACGTTGGCACCGACTTCTGTTTTAC
1 GTGTAAGACCACATCTAGGACATTGGCATCGA-TTCTG-ATTAC
** * * *
35493153 GTGTAAGACCATGTCTAGGACATCGACATC-ATATCTGATTTC
1 GTGTAAGACCACATCTAGGACATTGGCATCGAT-TCTGATTAC
* * *
35493195 GTGTAAGACC-CTATCTAGGATAATGGCATCGATGTTTGATTAC
1 GTGTAAGACCAC-ATCTAGGACATTGGCATCGAT-TCTGATTAC
* * *
35493238 ATGTAAGACCACATCTGGGACGTTGGCAT
1 GTGTAAGACCACATCTAGGACATTGGCAT
35493267 TGTATATGCT
Statistics
Matches: 87, Mismatches: 23, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
42 27 0.31
43 36 0.41
44 24 0.28
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCACATCTAGGACATTGGCATCGATTCTGATTAC
Found at i:35498411 original size:27 final size:26
Alignment explanation
Indices: 35498371--35498482 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
35498361 AGCATGGCTG
* * *
35498371 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
35498397 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
35498425 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
35498452 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
35498479 CCAG
1 CCAG
35498483 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:35498465 original size:54 final size:54
Alignment explanation
Indices: 35498371--35498482 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
35498361 AGCATGGCTG
*
35498371 CCAGAACAAATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
35498425 CCAGAACAGAA-ATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACA-AATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
35498479 CCAG
1 CCAG
35498483 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 32 0.62
55 20 0.38
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:35505029 original size:465 final size:465
Alignment explanation
Indices: 35504153--35505082 Score: 1673
Period size: 465 Copynumber: 2.0 Consensus size: 465
35504143 TCGATTCTGC
*
35504153 TTTTCAGCCCCCTTAACCTCCTCTGCTATCTTTGCCTTCTCCACCAAGACCGTAAAGTCTCGCTC
1 TTTTCAGCCCCCTTAACCTCCTCTGCTATCTTTGCCTTCTCCACCAAGACCGTAAAGTCTCACTC
35504218 CCTCTGCGGAGCAATCAACACCCTCAGGTCATCCCTAAGACCATCCTCGAAGCGTACACATCGCT
66 CCTCTGCGGAGCAATCAACACCCTCAGGTCATCCCTAAGACCATCCTCGAAGCGTACACATCGCT
* *
35504283 CATATTCCGTAGCAACTATGCTCACGGCATACCGGCTTAACCTTAGAAACTTGGCCTCGTACTCA
131 CATATTCCGTAGCAACTATGCTCACGGCATACCGGCTCAACCTCAGAAACTTGGCCTCGTACTCA
35504348 GCAACTGTCTTACCTCCTTGCACCAGATTCAAGAATTCCTTCCTGCGAGCGTCCACATAACTTGC
196 GCAACTGTCTTACCTCCTTGCACCAGATTCAAGAATTCCTTCCTGCGAGCGTCCACATAACTTGC
*
35504413 CCCAACATACTTGCCTTTAAAGGCCATCTTAAACAGTTCCCAAGTTACCCTATTAGCTGGGGTTC
261 CCCAACATACTTGCCTTTAAAGGCCATCTTAAACAGTTCCCAAGTTACCCTATCAGCTGGGGTTC
*
35504478 CTTCCCTTATAGTGAGCCACCACTGGTAAGCCTCGTCCCGTAGCAATGATACGGCTCCCTTCAGT
326 CTTCCCTCATAGTGAGCCACCACTGGTAAGCCTCGTCCCGTAGCAATGATACGGCTCCCTTCAGT
* *
35504543 TTCTGTTCCACAGAGCAATCCAAGTCATCCATAATTCGTTCTGTGGCCTCCAACCAATATTCTGC
391 TTCTCTTCCACAGAGCAATCCAAGTCATCCATAATTCATTCTGTGGCCTCCAACCAATATTCTGC
35504608 CACATTCGGG
456 CACATTCGGG
* *
35504618 TTTTCAGCCCGCTTAACCTCCTCTGCTATCTTTGCCTTCTCCACCAAGACTGTAAAGTCTCACTC
1 TTTTCAGCCCCCTTAACCTCCTCTGCTATCTTTGCCTTCTCCACCAAGACCGTAAAGTCTCACTC
* *
35504683 TCTCTGCGGAGCAATCAACACCCTCAGGTCATCCCTAAGACCATCCTCGAAGCGTACACTTCGCT
66 CCTCTGCGGAGCAATCAACACCCTCAGGTCATCCCTAAGACCATCCTCGAAGCGTACACATCGCT
* *
35504748 CATATTCTGTAGCAACTATGCTCACGGCATACCGGCTCAACCTCAGAAACTTGGCCTCGTATTCA
131 CATATTCCGTAGCAACTATGCTCACGGCATACCGGCTCAACCTCAGAAACTTGGCCTCGTACTCA
* *
35504813 GCAACTGTCTTACCTCTTTGCACGAGATTCAAGAATTCCTTCCTGCGAGCGTCCACATAACTTGC
196 GCAACTGTCTTACCTCCTTGCACCAGATTCAAGAATTCCTTCCTGCGAGCGTCCACATAACTTGC
35504878 CCCAACATACTTGCCTTTAAAGGCCATCTTAAACAGTTCCCAAGTTACCCTATCAGCTGGGGTTC
261 CCCAACATACTTGCCTTTAAAGGCCATCTTAAACAGTTCCCAAGTTACCCTATCAGCTGGGGTTC
* *
35504943 CTTCTCTCATAGTGAGCCACCACTGGTAAGCCTCGTCCTGTAGCAATGATACGGCTCCCTTCAGT
326 CTTCCCTCATAGTGAGCCACCACTGGTAAGCCTCGTCCCGTAGCAATGATACGGCTCCCTTCAGT
* *
35505008 TTCTACTT-CATAGATCAATCCAAGTCATCCATAATTCATTCTGTGGCCTCCAACCAATATTCTG
391 TTCT-CTTCCACAGAGCAATCCAAGTCATCCATAATTCATTCTGTGGCCTCCAACCAATATTCTG
35505072 CCACATTCGGG
455 CCACATTCGGG
35505083 GTGATACCTG
Statistics
Matches: 445, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
465 443 1.00
466 2 0.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (465 bp):
TTTTCAGCCCCCTTAACCTCCTCTGCTATCTTTGCCTTCTCCACCAAGACCGTAAAGTCTCACTC
CCTCTGCGGAGCAATCAACACCCTCAGGTCATCCCTAAGACCATCCTCGAAGCGTACACATCGCT
CATATTCCGTAGCAACTATGCTCACGGCATACCGGCTCAACCTCAGAAACTTGGCCTCGTACTCA
GCAACTGTCTTACCTCCTTGCACCAGATTCAAGAATTCCTTCCTGCGAGCGTCCACATAACTTGC
CCCAACATACTTGCCTTTAAAGGCCATCTTAAACAGTTCCCAAGTTACCCTATCAGCTGGGGTTC
CTTCCCTCATAGTGAGCCACCACTGGTAAGCCTCGTCCCGTAGCAATGATACGGCTCCCTTCAGT
TTCTCTTCCACAGAGCAATCCAAGTCATCCATAATTCATTCTGTGGCCTCCAACCAATATTCTGC
CACATTCGGG
Found at i:35506739 original size:28 final size:28
Alignment explanation
Indices: 35506689--35506794 Score: 130
Period size: 27 Copynumber: 3.9 Consensus size: 28
35506679 GGCTGCCATA
* *
35506689 ACAGATAA-TGTGACAGAGTCACCAGAT
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
35506716 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAATTGTGGCAGAGCCACCAGAT
*
35506743 ACAGA-AATATGTGGCAAAGCCACCAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAGAT
*
35506771 -CAGATAATTGTGGCATAGCCACCA
1 ACAGATAATTGTGGCAGAGCCACCA
35506795 AGATGCTTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.04
27 48 0.70
28 18 0.26
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAGAT
Found at i:35512944 original size:15 final size:15
Alignment explanation
Indices: 35512912--35512940 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35512902 ATTTTCTATT
35512912 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
35512927 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
35512941 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:35514175 original size:56 final size:56
Alignment explanation
Indices: 35514084--35514276 Score: 280
Period size: 56 Copynumber: 3.4 Consensus size: 56
35514074 AAGAGCATGG
* * *
35514084 CTTCGATATATGTGTGCGAGGAAGACCACGTTTTATACGTTGGCATTGATATGTGA
1 CTTCGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCGATATGTGA
* * *
35514140 CTTCAATATATGTATGCGAGTAAGACCAAGTTTTATATGTTGGCATCGATATGTGA
1 CTTCGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCGATATGTGA
* *
35514196 CTTCGATATATGTGTGCGAGTAAGACCACA-TTTTATACATTGGTATCGATATGTGA
1 CTTCGATATATGTGTGCGAGTAAGACCA-AGTTTTATACGTTGGCATCGATATGTGA
* *
35514252 CTCCGATATATGTGTGTGAGTAAGA
1 CTTCGATATATGTGTGCGAGTAAGA
35514277 ACCTGTCTAG
Statistics
Matches: 123, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
56 122 0.99
57 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (56 bp):
CTTCGATATATGTGTGCGAGTAAGACCAAGTTTTATACGTTGGCATCGATATGTGA
Found at i:35514303 original size:56 final size:55
Alignment explanation
Indices: 35514087--35514307 Score: 171
Period size: 56 Copynumber: 3.9 Consensus size: 55
35514077 AGCATGGCTT
* * * * * *
35514087 CGATATATGTGTGCGAGGAAGACCACGTTTTATAC-GTTGGCATTGATATGTGACTT
1 CGATATATGTGTGCGAGTAAGA-CACATTCTAGACAG-TGGCATCGATATGTGACTC
* * * * * *
35514143 CAATATATGTATGCGAGTAAGAC-CAAGTTTTATA-TGTTGGCATCGATATGTGACTT
1 CGATATATGTGTGCGAGTAAGACAC-A-TTCTAGACAG-TGGCATCGATATGTGACTC
* * * *
35514199 CGATATATGTGTGCGAGTAAGACCACATTTTATACATTGGTATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGA-CACATTCTAGACAGTGGCATCGATATGTGACTC
* * *
35514255 CGATATATGTGTGTGAGTAAGA-ACCTGTCTAGGACAGTGGCATTGATATGTGA
1 CGATATATGTGTGCGAGTAAGACACAT-TCTA-GACAGTGGCATCGATATGTGA
35514308 TTACATGTAA
Statistics
Matches: 139, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
54 4 0.03
55 4 0.03
56 128 0.92
57 2 0.01
58 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (55 bp):
CGATATATGTGTGCGAGTAAGACACATTCTAGACAGTGGCATCGATATGTGACTC
Found at i:35517590 original size:159 final size:159
Alignment explanation
Indices: 35517287--35517612 Score: 456
Period size: 159 Copynumber: 2.1 Consensus size: 159
35517277 AGAATCTCAT
* *
35517287 ATCACATATACTGCTCACACTAGAGCTATCAACGAGCCTGCTCATACAAGCTGTGGGTCAAGACG
1 ATCACATATACTGCTCACACTAGAGCTATCAACGAGCCTCCTCACACAAGCTGTGGGTCAAGACG
* * *
35517352 TAGCTACATGGTGCTGCTCACACAAGTTATCAAGTAATCACAACACATGCCAGTATACTCAGCCA
66 TAGCTACACGGTGCTGCTCACACAAGCTATCAAGTAACCACAACACATGCCAGTATACTCAGCCA
35517417 CTGGTAAGACGTACAGAACCAGCACCCAG
131 CTGGTAAGACGTACAGAACCAGCACCCAG
* * * * *
35517446 ATCATATATCCTGCTCACACTAGAGCTATCAACGGGCCTCCTCACACAAGCTGTGGGTGAAGATG
1 ATCACATATACTGCTCACACTAGAGCTATCAACGAGCCTCCTCACACAAGCTGTGGGTCAAGACG
* * * * *
35517511 TAGCTACACGGTGTTGCTCACACAAGCTGTCAAGTAACCGCAACACATGCC-GATTTACTCAGTC
66 TAGCTACACGGTGCTGCTCACACAAGCTATCAAGTAACCACAACACATGCCAG-TATACTCAGCC
* * * * *
35517575 ACTGTTAGGATGTACAGGACCAGTACCCAG
130 ACTGGTAAGACGTACAGAACCAGCACCCAG
35517605 ATCACATA
1 ATCACATA
35517613 ATCACAATAA
Statistics
Matches: 145, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
158 1 0.01
159 144 0.99
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (159 bp):
ATCACATATACTGCTCACACTAGAGCTATCAACGAGCCTCCTCACACAAGCTGTGGGTCAAGACG
TAGCTACACGGTGCTGCTCACACAAGCTATCAAGTAACCACAACACATGCCAGTATACTCAGCCA
CTGGTAAGACGTACAGAACCAGCACCCAG
Found at i:35519410 original size:22 final size:22
Alignment explanation
Indices: 35519382--35519445 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
35519372 TAAATACGTT
* *
35519382 TGGCACAAAGCCATAGTCAGGA
1 TGGCACAGAGCCATAATCAGGA
** * *
35519404 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATAATCAGGA
35519426 TGGCACAGAGCCATAATCAG
1 TGGCACAGAGCCATAATCAG
35519446 ATTACGCGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
TGGCACAGAGCCATAATCAGGA
Found at i:35519844 original size:27 final size:26
Alignment explanation
Indices: 35519814--35519914 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
35519804 TACCCTACAG
*
35519814 GGGTATTTCGCTAATTTTACAAACTGA
1 GGGTATTTCGATAATTTTACAAA-TGA
35519841 GGGTATTTCGATAATTTTAC-AATGTA
1 GGGTATTTCGATAATTTTACAAATG-A
* *
35519867 GAGGTATTTTGATAATTTTACAAATAGG
1 G-GGTATTTCGATAATTTTACAAAT-GA
* *
35519895 GGGTATTTTGGTAATTTTAC
1 GGGTATTTCGATAATTTTAC
35519915 GAATCGGGGT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.03
26 4 0.06
27 55 0.83
28 4 0.06
29 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACAAATGA
Found at i:35528089 original size:15 final size:15
Alignment explanation
Indices: 35528069--35528099 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35528059 GGTTCTTGAT
35528069 CTAAACATATTCAAA
1 CTAAACATATTCAAA
*
35528084 CTAAACTTATTCAAA
1 CTAAACATATTCAAA
35528099 C
1 C
35528100 ATATTTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (15 bp):
CTAAACATATTCAAA
Found at i:35528930 original size:14 final size:16
Alignment explanation
Indices: 35528907--35528939 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
35528897 TAAGACACAA
35528907 AAATTCCACACAT-AT
1 AAATTCCACACATAAT
35528922 AAATT-CACACATAAT
1 AAATTCCACACATAAT
35528937 AAA
1 AAA
35528940 CACTGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTCCACACATAAT
Found at i:35540851 original size:27 final size:26
Alignment explanation
Indices: 35540821--35540927 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
35540811 CTACCATAAT
*
35540821 AGATATTGTGACAGAGTCACCAGATAC
1 AGATATTGTGACAGAGCCACCAGA-AC
*
35540848 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGACAGAGCCACCAGAAC
* * * *
35540874 AGATATTTATGGCATAGCCACCAGAAAT
1 AGATA-TTGTGACAGAGCCACCAG-AAC
* * *
35540902 AGATATTTCTGGCATAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGAA
35540928 GGCTTCCTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
26 7 0.10
27 40 0.56
28 25 0.35
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
AGATATTGTGACAGAGCCACCAGAAC
Found at i:35540914 original size:28 final size:28
Alignment explanation
Indices: 35540838--35540927 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
35540828 GTGACAGAGT
* * *
35540838 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGAAACAGATATTTATGGCATAGC
35540865 CACCAG-AACAGATATTTATGGCATAGC
1 CACCAGAAACAGATATTTATGGCATAGC
* *
35540892 CACCAGAAATAGATATTTCTGGCATAGC
1 CACCAGAAACAGATATTTATGGCATAGC
35540920 CACCAGAA
1 CACCAGAA
35540928 GGCTTCCTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
26 7 0.12
27 22 0.39
28 27 0.48
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTATGGCATAGC
Found at i:35544681 original size:51 final size:49
Alignment explanation
Indices: 35544565--35544691 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
35544555 GAAGCTATCT
* *
35544565 GGTACGCATAGTAGCCTGCGCTTAGTACTACACATTCGACCAATAATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATTCGACCAATAATCG
* * * * **
35544614 GGTACACGTAGTAGCCTGCACTTTGTACTACACATGT-GATCATAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACAT-TCGACCA-A-TAATCG
35544665 GGTACGCATAGTAGCCTGCACTTAGTA
1 GGTACGCATAGTAGCCTGCACTTAGTA
35544692 TGTAACACAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 35 0.55
50 2 0.03
51 27 0.42
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (49 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATTCGACCAATAATCG
Found at i:35551048 original size:119 final size:120
Alignment explanation
Indices: 35550869--35551088 Score: 286
Period size: 119 Copynumber: 1.8 Consensus size: 120
35550859 TCGTTCAAAT
* * *
35550869 GCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACGTAACCCGGATATA
*
35550934 GTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAAC
66 GTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAAC
* * **
35550989 GCCTTCGGG-CATAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCGTAGTCCGGATA
1 GCCTTCGGGACATAACCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CGTAACCCGGATA
* * *
35551051 TGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 TAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
35551089 CATCATTCGA
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 65 0.76
120 17 0.20
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (120 bp):
GCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACGTAACCCGGATATA
GTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAAC
Found at i:35551088 original size:40 final size:40
Alignment explanation
Indices: 35550831--35551088 Score: 258
Period size: 40 Copynumber: 6.5 Consensus size: 40
35550821 AAATCACGTA
* * **
35550831 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATATAG-TAACTCGCACAAATG
* *
35550870 CCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
35550910 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* * *
35550950 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAACG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* * *
35550990 CCTTCGGG-CATAGCCCGGA-ATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATA-TAGTAACTCGCACAAATG
* ** * * *
35551029 CCTTC-GGATCGTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATG
*
35551069 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
35551089 CATCATTCGA
Statistics
Matches: 186, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 41 0.22
40 131 0.70
41 12 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:35555287 original size:15 final size:15
Alignment explanation
Indices: 35555248--35555292 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
35555238 CAAGAAAACT
*
35555248 GAATAAAGAAATCCTA
1 GAATAAAGAAA-CCCA
*
35555264 G-ATAGAGAAACCCA
1 GAATAAAGAAACCCA
35555278 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
35555293 AGATACGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 4 0.16
15 20 0.80
16 1 0.04
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:35558517 original size:43 final size:43
Alignment explanation
Indices: 35558445--35558654 Score: 341
Period size: 43 Copynumber: 4.9 Consensus size: 43
35558435 ACATATCATT
*
35558445 TCACCGGCA-TTAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
** *
35558487 TCACTTGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
35558530 TCACCGGCACTAAGCCTACTAGGCACAAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
35558573 TCACCGGCACTAAGCCTACTAGGCACGAAGGCCCGAATACATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
35558616 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
35558655 TAATACCAGC
Statistics
Matches: 155, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 7 0.05
43 148 0.95
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.13
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:35558698 original size:129 final size:128
Alignment explanation
Indices: 35558445--35558678 Score: 337
Period size: 129 Copynumber: 1.8 Consensus size: 128
35558435 ACATATCATT
* * **
35558445 TCACCGGCATTAGCCTGCTAGGCACGAAGGCCCGAATACACATCACTTGCACGAAGCCTGCTAGG
1 TCACCGGCATAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
* * * *
35558510 CACGAAGGCCCGAATACACATCACCGGCACTAAGCCTACTAGGCACAAAGGCCCGAATACACA
66 CACGAAGGCCCGAATACACATCACCAGCACTAAGCCTACGAGGCACAAAGGACAGAATACACA
* *
35558573 TCACCGGCACTAAGCCTACTAGGCACGAAGGCCCGAATACATATCACCGGCACTAAGCCTGCTAG
1 TCACCGGCA-TAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
* *
35558638 GCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTACGAG
65 GCACGAAGGCCCGAATACACATCACCAGCACTAAGCCTACGAG
35558679 ATTTATCTCG
Statistics
Matches: 95, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
127 17 0.18
128 11 0.12
129 67 0.71
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (128 bp):
TCACCGGCATAAGCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
CACGAAGGCCCGAATACACATCACCAGCACTAAGCCTACGAGGCACAAAGGACAGAATACACA
Done.