Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 267 of 297
Found at i:91182591 original size:25 final size:25
Alignment explanation
Indices: 91182544--91182601 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
91182534 GAACTAGAAT
* * *
91182544 CAGAATTAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGGTAA
**
91182569 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
91182594 CAGAATCA
1 CAGAATCA
91182602 AAATTAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:91182618 original size:31 final size:31
Alignment explanation
Indices: 91182576--91182635 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
91182566 TGACAGAATC
91182576 AGAATCAGTATCAGGTAACAGAATCAAAATT
1 AGAATCAGTATCAGGTAACAGAATCAAAATT
*
91182607 AGAATCTGTATCAGGTAACAGAATCAAAA
1 AGAATCAGTATCAGGTAACAGAATCAAAA
91182636 ATCAGAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATT
Found at i:91183583 original size:27 final size:27
Alignment explanation
Indices: 91183527--91183962 Score: 522
Period size: 27 Copynumber: 16.2 Consensus size: 27
91183517 GAGGCAAAAT
* * * *
91183527 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91183553 AGTAATT-TCACCCTATAGGGGTATTTT
1 GGTAATTCT-ACCCTACAGGGGTATTTC
* *
91183580 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
91183607 GGAAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91183634 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91183661 GGTAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91183688 GATAATTCTGCCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
91183714 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
91183742 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
91183769 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
91183795 GGGTAATTCTACCCCACAGGGGTATTCC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
91183823 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
91183849 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* * *
91183877 GGTAATTTTACCCTATAGGGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91183904 GATAATTTTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91183931 AGTAATTTTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91183958 TGTAA
1 GGTAA
91183963 CACCCTGGAT
Statistics
Matches: 358, Mismatches: 43, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
25 1 0.00
26 20 0.06
27 328 0.92
28 9 0.03
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:91185052 original size:27 final size:27
Alignment explanation
Indices: 91185019--91185090 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
91185009 AAAGTACTCC
91185019 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
91185046 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
*
91185073 CGATTTACAAAATTACCA
1 CGATTTACAGAATTACCA
91185091 AAATACCCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:91185120 original size:28 final size:27
Alignment explanation
Indices: 91185080--91185236 Score: 199
Period size: 27 Copynumber: 5.8 Consensus size: 27
91185070 CCTCGATTTA
91185080 CAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
*
91185107 CAAAATTACCCAAAATATCCCTAGTTTG
1 CAAAATTA-CCAAAATACCCCTAGTTTG
*
91185135 CAAAATTACCAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
* * *
91185162 TAAAATTACCAAAATACCCATGGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
* **
91185189 CAAAATTACTAAAATACCCCT-GTAGGG
1 CAAAATTACCAAAATACCCCTAGT-TTG
* *
91185216 TAAAATTACCGAAATACCCCT
1 CAAAATTACCAAAATACCCCT
91185237 GTAAGGTAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 87 0.76
28 26 0.23
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCCTAGTTTG
Found at i:91185249 original size:27 final size:27
Alignment explanation
Indices: 91185136--91185252 Score: 94
Period size: 27 Copynumber: 4.3 Consensus size: 27
91185126 CCTAGTTTGC
* **
91185136 AAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCGAAATACCCCT-GTAAGGT
* * ** *
91185163 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCGAAATACCCCT-GTAAGGT
** *
91185190 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAAGGT
91185217 AAAATTACCGAAATACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAAGGT
*
91185244 AGAATTACC
1 AAAATTACC
91185253 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.03
27 76 0.97
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAAGGT
Found at i:91186141 original size:38 final size:38
Alignment explanation
Indices: 91186090--91186182 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
91186080 TGCTGCAACT
91186090 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
1 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
91186128 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
1 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
*
91186166 ATGGAGTGTAGGGCTGG
1 GTGGAGTGTAGGGCTGG
91186183 TACAGGGCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.16, C:0.14, G:0.44, T:0.26
Consensus pattern (38 bp):
GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
Found at i:91189781 original size:27 final size:27
Alignment explanation
Indices: 91189746--91189838 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
91189736 TACAATTTCA
*
91189746 GTAAATTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* *
91189773 GTAATTTTACAAACTAAGGGTAATTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* ** **
91189800 GTAATTCTATCCTAC-AGGGGTATTTCA
1 GTAATTTTA-CAAACTAGGGGTATTTTG
91189827 GTAATTTTACAA
1 GTAATTTTACAA
91189839 TCGAGGGTAA
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
26 1 0.02
27 48 0.92
28 3 0.06
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:91189877 original size:27 final size:27
Alignment explanation
Indices: 91189837--91190034 Score: 218
Period size: 27 Copynumber: 7.3 Consensus size: 27
91189827 GTAATTTTAC
* *
91189837 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
** * * *
91189864 AATTTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* *
91189891 AATCAAGGGTAAAA-CGATAATTCTATA
1 AATCGAGGGTAAAATAG-TAATTCTATA
91189918 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
91189945 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* **
91189972 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* * *
91189999 AATAGAAGGTAAAATAGTAATTCTACA
1 AATCGAGGGTAAAATAGTAATTCTATA
91190026 AATCGAGGG
1 AATCGAGGG
91190035 CATTTTAGTA
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:91189947 original size:81 final size:81
Alignment explanation
Indices: 91189837--91190034 Score: 306
Period size: 81 Copynumber: 2.4 Consensus size: 81
91189827 GTAATTTTAC
* * **
91189837 AATCGAGGGTAAAATAGTAATTTTGTAAATTTAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
91189902 AAACGATAATTCTATA
66 AAACGATAATTCTATA
* *
91189918 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
*
91189983 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
* * *
91189999 AATAGAAGGTAAAATAGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
91190035 CATTTTAGTA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 107 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
AAACGATAATTCTATA
Found at i:91190046 original size:54 final size:53
Alignment explanation
Indices: 91189908--91190054 Score: 145
Period size: 54 Copynumber: 2.7 Consensus size: 53
91189898 GGTAAAACGA
* * * *
91189908 TAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTATAAATCGAGGG-ATAATAGTAATTCTATAAATAGAAGGTAAAATAG
* *
91189962 TAATTTTGTAAATCGAGGG-TGAA-ACGGTAATTCTATAAATAGAAGGTAAAATAG
1 TAATTCTATAAATCGAGGGAT-AATA--GTAATTCTATAAATAGAAGGTAAAATAG
* ** *
91190016 TAATTCTACAAATCGAGGGCATTTTAGTAATTTTATAAA
1 TAATTCTATAAATCGAGGG-ATAATAGTAATTCTATAAA
91190055 CCAATTGATG
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 2 0.03
54 70 0.93
56 2 0.03
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.32
Consensus pattern (53 bp):
TAATTCTATAAATCGAGGGATAATAGTAATTCTATAAATAGAAGGTAAAATAG
Found at i:91190113 original size:27 final size:27
Alignment explanation
Indices: 91190077--91190224 Score: 174
Period size: 27 Copynumber: 5.5 Consensus size: 27
91190067 ATTTTTGGTA
* *
91190077 ATTTTTGTAATTTTATAAATCAGGGGT
1 ATTTTGGTAATTTTACAAATCAGGGGT
* *
91190104 ATTTTGGTAATTTTACAAAT-TGATGGT
1 ATTTTGGTAATTTTACAAATCAG-GGGT
* * * *
91190131 ATTTCGGTAATTTCACAAACCAGTGGT
1 ATTTTGGTAATTTTACAAATCAGGGGT
* *
91190158 ATTTTGATAATTTTACAAACCAGGGGT
1 ATTTTGGTAATTTTACAAATCAGGGGT
91190185 ATTTTGGTAATTTTAC-AATCCAGGGGT
1 ATTTTGGTAATTTTACAAAT-CAGGGGT
91190212 ATTTTGGTAATTT
1 ATTTTGGTAATTT
91190225 GGTAAACTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 100 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTTTGGTAATTTTACAAATCAGGGGT
Found at i:91192161 original size:6 final size:6
Alignment explanation
Indices: 91192143--91192233 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
91192133 AAGAAACATT
* *
91192143 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
91192192 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
91192234 GTAAAAGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:91192188 original size:25 final size:25
Alignment explanation
Indices: 91192157--91192224 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
91192147 GAACTAGAAT
*
91192157 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
*
91192182 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
91192207 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
91192225 CAGTATCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:91192188 original size:31 final size:30
Alignment explanation
Indices: 91192152--91192256 Score: 103
Period size: 31 Copynumber: 3.6 Consensus size: 30
91192142 TATCAGAACT
* *
91192152 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAG-ATTAGGTAAC
*
91192183 AGAATCAGAATCAG--T---ATTAGGTAAC
1 AGAATCAAAATCAGAATCAGATTAGGTAAC
* *
91192208 AGAATCAAAATCAGAATCAGTATCAGGTAAA
1 AGAATCAAAATCAGAATCAG-ATTAGGTAAC
91192239 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
91192257 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
25 22 0.35
27 1 0.02
29 1 0.02
31 28 0.44
32 11 0.17
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAAAATCAGAATCAGATTAGGTAAC
Found at i:91192435 original size:27 final size:26
Alignment explanation
Indices: 91192393--91192449 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
91192383 GCTCAGTTAT
*
91192393 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
91192420 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
91192446 CAGA
1 CAGA
91192450 CATAGCCACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:91193598 original size:27 final size:27
Alignment explanation
Indices: 91193134--91193590 Score: 546
Period size: 27 Copynumber: 17.0 Consensus size: 27
91193124 GGGGAAAAAT
* * * *
91193134 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
91193160 GGTAATT-TCACCCTATAGGGGTATTTT
1 GGTAATTCT-ACCCTACAGGGGTATTTC
* * *
91193187 AGTAATTCTACCCTATAGGCGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
91193214 GGTAATTCTACTCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91193241 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91193268 GGTAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
91193295 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
91193322 AGTAATTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91193349 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91193376 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91193403 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91193430 GGTAATTCTACCCCACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
91193456 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
91193484 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
91193511 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
91193538 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
91193565 GGTAATTCTATCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
91193591 TAGTAATTTC
Statistics
Matches: 378, Mismatches: 46, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
25 1 0.00
26 17 0.04
27 353 0.93
28 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:91193611 original size:27 final size:27
Alignment explanation
Indices: 91193502--91193604 Score: 120
Period size: 27 Copynumber: 3.8 Consensus size: 27
91193492 TACCCTATAA
* *
91193502 GGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACTAG
*
91193529 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACTAG
**
91193556 GGGTATTTTGGTAA-TTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTC-A-CAAACTAG
*
91193583 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTCACAA
91193605 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.05
27 57 0.86
28 6 0.09
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACTAG
Found at i:91193637 original size:27 final size:27
Alignment explanation
Indices: 91193603--91193743 Score: 212
Period size: 27 Copynumber: 5.2 Consensus size: 27
91193593 GTAATTTCAC
91193603 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* *
91193630 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
91193657 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* *
91193684 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
91193711 AATCGAGGGTAAAA-CGATAATTTTGTA
1 AATCGAGGGTAAAATAG-TAATTTTGTA
91193738 AATCGA
1 AATCGA
91193744 AGGTGAAACG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 103 0.99
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:91193674 original size:54 final size:54
Alignment explanation
Indices: 91193603--91193799 Score: 227
Period size: 54 Copynumber: 3.7 Consensus size: 54
91193593 GTAATTTCAC
* * *
91193603 AATCGAGGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
* * *
91193657 AATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
* * * * *
91193711 AATCGAGGGTAAAA-CGATAATTTTGTAAATCGAAGGTGAAACGATAATTATATA
1 AATCGAGGGTAAAATAG-TAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
* * * **
91193765 AAT-AAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGG
91193800 CATTTTAGTA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 25 0.20
54 97 0.80
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTATATA
Found at i:91193713 original size:81 final size:81
Alignment explanation
Indices: 91193603--91193799 Score: 254
Period size: 81 Copynumber: 2.4 Consensus size: 81
91193593 GTAATTTCAC
* * * * * *
91193603 AATCGAGGGTAAAATAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAAGGTA
* *
91193668 AAATAG-TAATTCTGTA
66 AAA-AGATAATTATATA
*
91193684 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAAGGTG
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAAGGTA
*
91193749 AAACGATAATTATATA
66 AAAAGATAATTATATA
* * *
91193765 AAT-AAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGG
91193800 CATTTTAGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 30 0.29
81 72 0.71
ACGTcount: A:0.42, C:0.06, G:0.22, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAAGGTA
AAAAGATAATTATATA
Found at i:91193752 original size:27 final size:26
Alignment explanation
Indices: 91193603--91193777 Score: 172
Period size: 27 Copynumber: 6.5 Consensus size: 26
91193593 GTAATTTCAC
*
91193603 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAAGA-TAATTTTGTA
* *
91193630 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAA-GATAATTTTGTA
* *
91193657 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAAGA-TAATTTTGTA
* * *
91193684 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAAGA-TAATTTTGTA
91193711 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAA-GATAATTTTGTA
* * * *
91193738 AATCGAAGGTGAAACGATAATTATATA
1 AATCGAGGGT-AAAAGATAATTTTGTA
*
91193765 AAT-AAGGGTAAAA
1 AATCGAGGGTAAAA
91193778 TGGTAATTCT
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.02
26 4 0.03
27 115 0.91
28 4 0.03
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (26 bp):
AATCGAGGGTAAAAGATAATTTTGTA
Found at i:91193860 original size:29 final size:28
Alignment explanation
Indices: 91193787--91193973 Score: 111
Period size: 27 Copynumber: 6.6 Consensus size: 28
91193777 ATGGTAATTC
* *
91193787 TACAAATCGAGGGCATTT-TAGTAA-TTT
1 TACAAATCAAGGGTATTTCTA-TAATTTT
* *
91193814 T-CTAAACCAATGGTATTTCTATAATTTT
1 TAC-AAATCAAGGGTATTTCTATAATTTT
* *
91193842 TAGAAAGTCAAGGGTATTTCTGTAAATTTT
1 TACAAA-TCAAGGGTATTTCTAT-AATTTT
*
91193872 TCACAAA-CTAGTGGTATTT-TGATAA-TTT
1 T-ACAAATCAAG-GGTATTTCT-ATAATTTT
* **
91193900 TACAAACCCGGGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCTATAATTTT
* * *
91193928 TAGAAAGTCAAGGGTATTTTTGTAATTTT
1 TACAAA-TCAAGGGTATTTCTATAATTTT
*
91193957 GT--AAATCAGGGGTATTT
1 -TACAAATCAAGGGTATTT
91193974 TTACAAATTG
Statistics
Matches: 126, Mismatches: 20, Indels: 28
0.72 0.11 0.16
Matches are distributed among these distances:
26 1 0.01
27 42 0.33
28 27 0.21
29 36 0.29
30 16 0.13
31 4 0.03
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (28 bp):
TACAAATCAAGGGTATTTCTATAATTTT
Found at i:91193997 original size:27 final size:25
Alignment explanation
Indices: 91193967--91194136 Score: 142
Period size: 27 Copynumber: 6.3 Consensus size: 25
91193957 GTAAATCAGG
* *
91193967 GGTATTTTTACAAATTGAGGGTATTTC
1 GGTAATTTTACAAA-T-AGGGTATTTT
* *
91193994 GGTAATTTCACAAACCAGTGGTATTTT
1 GGTAATTTTACAAA-TAG-GGTATTTT
*
91194021 GATAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAA-TA-GGGTATTTT
*
91194048 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAA-TA-GGGTATTTT
* *
91194075 GGTAATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTA-CAA-ATAGGGTATTTT
* *
91194102 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAA-TA-GGGTATTTT
91194129 GGTAATTT
1 GGTAATTT
91194137 GGTAAACCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 5 0.04
27 110 0.91
28 4 0.03
29 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (25 bp):
GGTAATTTTACAAATAGGGTATTTT
Found at i:91194020 original size:129 final size:129
Alignment explanation
Indices: 91193852--91194101 Score: 328
Period size: 129 Copynumber: 1.9 Consensus size: 129
91193842 TAGAAAGTCA
* * *
91193852 AGGGTATTTCTGTAAATTTTTCACAAACTAGTGGTATTTTGATAATTTTACAAACCCGGGGTATT
1 AGGGTATTTCGGTAAA-TTTTCACAAACCAGTGGTATTTTGATAATTTTACAAACCAGGGGTATT
* * * * *
91193917 TCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATC-AGGGGTATTTTTACAA
65 T-TGATAA-TTTTACAAA-CCAAGGGTATTTTGGTAATTTTATAAA-CAAAGGGTATTTTTACAA
91193980 ATTG
126 ATTG
*
91193984 AGGGTATTTCGGT-AA-TTTCACAAACCAGTGGTATTTTGATAATTTTACAAACTAGGGGTATTT
1 AGGGTATTTCGGTAAATTTTCACAAACCAGTGGTATTTTGATAATTTTACAAACCAGGGGTATTT
* *
91194047 TGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTT
66 TGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTT
91194102 AGTAATTTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
126 1 0.01
127 33 0.31
128 9 0.09
129 48 0.46
131 2 0.02
132 12 0.11
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (129 bp):
AGGGTATTTCGGTAAATTTTCACAAACCAGTGGTATTTTGATAATTTTACAAACCAGGGGTATTT
TGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTTACAAATTG
Found at i:91194145 original size:27 final size:27
Alignment explanation
Indices: 91193985--91194136 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
91193975 TACAAATTGA
* *
91193985 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
91194012 TGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
91194039 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
91194066 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
91194093 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
91194120 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
91194137 GGTAAACCAA
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:91195778 original size:5 final size:5
Alignment explanation
Indices: 91195760--91195791 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
91195750 GGATTCATTT
91195760 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC T
91195792 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:91195788 original size:15 final size:16
Alignment explanation
Indices: 91195760--91195815 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
91195750 GGATTCATTT
91195760 TTTTCTTCTTCTTTTC
1 TTTTCTTCTTCTTTTC
91195776 TTTTCTT-TTCTTTTC
1 TTTTCTTCTTCTTTTC
* * *
91195791 TCTTCATCTAC-TTTC
1 TTTTCTTCTTCTTTTC
*
91195806 TCTTCTTCTT
1 TTTTCTTCTT
91195816 TTCCCGCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 25 0.74
16 9 0.26
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTC
Found at i:91199574 original size:45 final size:44
Alignment explanation
Indices: 91199409--91199566 Score: 183
Period size: 45 Copynumber: 3.5 Consensus size: 44
91199399 TTCCATTATT
** *
91199409 AACTCGGACCAACTCAACGAGCTCAGATGCTCGA-ATCCATAATG
1 AACTCGGACCAACTCAACGAGCTCAGATGCTC-ACATATATCATG
* * *
91199453 AACTTGGACCAACTCAACGAGCTCAGATGCTTCACATATACCACG
1 AACTCGGACCAACTCAACGAGCTCAGATGC-TCACATATATCATG
** * * *
91199498 AACTTAGACCAACTCAACAAGTTCAGATTTCTCACATATATCATG
1 AACTCGGACCAACTCAACGAGCTCAGA-TGCTCACATATATCATG
91199543 AACTCGGACCAACTCAACGAGCTC
1 AACTCGGACCAACTCAACGAGCTC
91199567 GAATTTCTTA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 30 0.32
45 63 0.66
46 2 0.02
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.21
Consensus pattern (44 bp):
AACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATCATG
Found at i:91203111 original size:27 final size:26
Alignment explanation
Indices: 91203081--91203142 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
91203071 ATTTACTAAA
* *
91203081 ATACCTCTAAGTATGAATATTACCATT
1 ATACCCCTAAGTAT-AAAATTACCATT
* *
91203108 ATACCCCTAGGTGTAAAATTACCATT
1 ATACCCCTAAGTATAAAATTACCATT
91203134 ATACCCCTA
1 ATACCCCTA
91203143 GGGTTAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAATTACCATT
Found at i:91203317 original size:28 final size:28
Alignment explanation
Indices: 91203250--91203356 Score: 157
Period size: 28 Copynumber: 3.9 Consensus size: 28
91203240 AGAAGCGTTC
* *
91203250 TGGTGGCTCTACCACAAATA--TGTTATC
1 TGGTGGCTCTGCCACAAATATCTGTT-TT
*
91203277 TGGTGGCTTTGCCACAAATATCTGTTTT
1 TGGTGGCTCTGCCACAAATATCTGTTTT
91203305 TGGTGGCTCTGCCACAAATATCTGTTTT
1 TGGTGGCTCTGCCACAAATATCTGTTTT
91203333 TGGTGGCTCTGCCAC-AATATCTGT
1 TGGTGGCTCTGCCACAAATATCTGT
91203357 ATCTGGTGAC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
27 27 0.36
28 43 0.58
29 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (28 bp):
TGGTGGCTCTGCCACAAATATCTGTTTT
Found at i:91203364 original size:55 final size:55
Alignment explanation
Indices: 91203248--91203364 Score: 157
Period size: 55 Copynumber: 2.1 Consensus size: 55
91203238 GAAGAAGCGT
* *
91203248 TCTGGTGGCTCTACCACAAATATGTTATCTGGTGGCTTTGCCACAAATATCTGTT
1 TCTGGTGGCTCTACCACAAATATGTTATCTGGTGGCTCTGCCACAAATATCTGTA
* * *
91203303 TTTGGTGGCTCTGCCACAAATATCTGTT-TTTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTACCACAAATA--TGTTATCTGGTGGCTCTGCCACAAATATCTGTA
91203358 TCTGGTG
1 TCTGGTG
91203365 ACTTTGTCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
55 35 0.65
56 15 0.28
57 4 0.07
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (55 bp):
TCTGGTGGCTCTACCACAAATATGTTATCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:91203376 original size:55 final size:55
Alignment explanation
Indices: 91203248--91203384 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 55
91203238 GAAGAAGCGT
* * * * * *
91203248 TCTGGTGGCTCTACCACAA-ATATGTTATCTGGTGGCTTTGCCACAAATATCTGTT
1 TCTGGTGACTCTGCCACAATATCTGTT-TTTGGTGGCTCTGCCACAAATATCTGTA
* *
91203303 TTTGGTGGCTCTGCCACAAATATCTGTTTTTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGACTCTGCCAC-AATATCTGTTTTTGGTGGCTCTGCCACAAATATCTGTA
* * *
91203358 TCTGGTGACTTTGTCACAATATTTGTT
1 TCTGGTGACTCTGCCACAATATCTGTT
91203385 CTGGCAGCCA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 9 0.13
55 37 0.54
56 17 0.25
57 6 0.09
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (55 bp):
TCTGGTGACTCTGCCACAATATCTGTTTTTGGTGGCTCTGCCACAAATATCTGTA
Found at i:91206353 original size:18 final size:18
Alignment explanation
Indices: 91206330--91206366 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91206320 CCGAGAAATG
91206330 GATTCGTAAGGGTTGTGA
1 GATTCGTAAGGGTTGTGA
91206348 GATTCGTAAGGGTTGTGA
1 GATTCGTAAGGGTTGTGA
91206366 G
1 G
91206367 GCTTATCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.41, T:0.32
Consensus pattern (18 bp):
GATTCGTAAGGGTTGTGA
Found at i:91214595 original size:19 final size:18
Alignment explanation
Indices: 91214571--91214686 Score: 74
Period size: 19 Copynumber: 5.9 Consensus size: 18
91214561 CAATTTTATT
91214571 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTT-GA
* *
91214590 TTAATTTATTTAAATATT-A
1 TTAATTAATAT-AAT-TTGA
91214609 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTT-GA
91214629 TTAATTAATAATATAATTTAGA
1 TTAA-T--TAATATAATTT-GA
* *
91214651 TTAATTTATTTAAATATT-A
1 TTAATTAATAT-AAT-TTGA
91214670 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
91214687 TTATAAATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.05
19 27 0.35
20 24 0.31
21 5 0.06
22 17 0.22
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TTAATTAATATAATTTGA
Found at i:91214623 original size:29 final size:29
Alignment explanation
Indices: 91214591--91214715 Score: 130
Period size: 29 Copynumber: 4.2 Consensus size: 29
91214581 TAATTTGGAT
91214591 TAATTTATTTAAATATTATTTAATTAATA
1 TAATTTATTTAAATATTATTTAATTAATA
* * *
91214620 TAATTTGGA-TTAATTAATAATATAATTTAGAT-
1 TAATTT--ATTTAAAT-ATTATTTAA-TTA-ATA
*
91214652 TAATTTATTTAAATATTATTAAATTAATA
1 TAATTTATTTAAATATTATTTAATTAATA
*
91214681 TAATTT-TTATAAATATTATTTAATTAAAA
1 TAATTTATT-TAAATATTATTTAATTAATA
91214710 TAATTT
1 TAATTT
91214716 TTTTTCCATG
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
28 4 0.05
29 39 0.49
30 12 0.15
31 13 0.16
32 9 0.11
33 2 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAATA
Found at i:91214643 original size:22 final size:23
Alignment explanation
Indices: 91214605--91214656 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
91214595 TTATTTAAAT
* *
91214605 ATTATTTAATTAATATAATTTGG
1 ATTAATTAATTAATATAATTTAG
91214628 ATTAATTAA-TAATATAATTTAG
1 ATTAATTAATTAATATAATTTAG
91214650 ATTAATT
1 ATTAATT
91214657 TATTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
ATTAATTAATTAATATAATTTAG
Found at i:91214653 original size:61 final size:62
Alignment explanation
Indices: 91214571--91214686 Score: 207
Period size: 61 Copynumber: 1.9 Consensus size: 62
91214561 CAATTTTATT
* *
91214571 TTAATTAATATAATTTGGATTAATTTATTTAAATATTATTTAATTAATATAATTTGGATTAA
1 TTAATTAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
91214633 TTAA-TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTT
1 TTAATTAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTT
91214687 TTATAAATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
61 48 0.92
62 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (62 bp):
TTAATTAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATAATTTGGATTAA
Found at i:91214708 original size:15 final size:15
Alignment explanation
Indices: 91214593--91214708 Score: 62
Period size: 15 Copynumber: 7.7 Consensus size: 15
91214583 ATTTGGATTA
*
91214593 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
91214608 ATTTAATT-AATATA
1 ATTTAATTAAATATT
* * *
91214622 ATTTGGATTAATTAATA
1 ATTT-AATTAAAT-ATT
* * *
91214639 ATATAATTTAGAT-TA
1 ATTTAA-TTAAATATT
*
91214654 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
91214669 ATTAAATTAATATAATT
1 ATTTAATTAA-AT-ATT
91214686 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
91214698 ATTTAATTAAA
1 ATTTAATTAAA
91214709 ATAATTTTTT
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
12 3 0.04
13 5 0.07
14 18 0.24
15 30 0.39
16 7 0.09
17 13 0.17
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:91215005 original size:9 final size:9
Alignment explanation
Indices: 91214988--91215289 Score: 315
Period size: 9 Copynumber: 34.7 Consensus size: 9
91214978 TATATACTTG
91214988 AACTTACAT
1 AACTTACAT
*
91214997 AACTCACAT
1 AACTTACAT
*
91215006 GACTTACAT
1 AACTTACAT
91215015 AACTTACAT
1 AACTTACAT
91215024 AACTTACAT
1 AACTTACAT
**
91215033 AACACACAT
1 AACTTACAT
*
91215042 AACTCACAT
1 AACTTACAT
*
91215051 AACATACAT
1 AACTTACAT
*
91215060 AACTTATAT
1 AACTTACAT
91215069 AACTTACAT
1 AACTTACAT
91215078 AACTTACAT
1 AACTTACAT
*
91215087 AACTCACAT
1 AACTTACAT
91215096 AAC-T---T
1 AACTTACAT
91215101 -ACTTACAT
1 AACTTACAT
*
91215109 AACTCACAT
1 AACTTACAT
91215118 AACTTACAT
1 AACTTACAT
*
91215127 AACTTATAT
1 AACTTACAT
91215136 AACTTACAT
1 AACTTACAT
*
91215145 AACTTGCAT
1 AACTTACAT
*
91215154 AACTCACAT
1 AACTTACAT
91215163 AACTTACAT
1 AACTTACAT
91215172 AACTT--AT
1 AACTTACAT
*
91215179 -ATTTACAT
1 AACTTACAT
91215187 AACTTACAT
1 AACTTACAT
*
91215196 AACTCACAT
1 AACTTACAT
* *
91215205 AACTCAAAT
1 AACTTACAT
91215214 AACTTAC-T
1 AACTTACAT
91215222 GAACTTACAT
1 -AACTTACAT
*
91215232 AATTTACAT
1 AACTTACAT
91215241 AACTTACAT
1 AACTTACAT
91215250 AA--TACAT
1 AACTTACAT
* *
91215257 AAATATATAT
1 AACT-TACAT
91215267 AA--TATCAT
1 AACTTA-CAT
91215275 AACTTACAT
1 AACTTACAT
91215284 AACTTA
1 AACTTA
91215290 ATTAGAGTTA
Statistics
Matches: 245, Mismatches: 32, Indels: 32
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 3 0.01
7 11 0.04
8 8 0.03
9 210 0.86
10 9 0.04
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:91215107 original size:22 final size:22
Alignment explanation
Indices: 91215079--91215124 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
91215069 AACTTACATA
91215079 ACTTACATAACTCACATAACTT
1 ACTTACATAACTCACATAACTT
91215101 ACTTACATAACTCACATAACTT
1 ACTTACATAACTCACATAACTT
91215123 AC
1 AC
91215125 ATAACTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.30
Consensus pattern (22 bp):
ACTTACATAACTCACATAACTT
Found at i:91222863 original size:46 final size:46
Alignment explanation
Indices: 91222796--91222921 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
91222786 AACCCGCCCC
* * * * *
91222796 TAAGTGAACTCAGACTCAACTCAATGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCACATCCA
91222842 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
*
91222888 TAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
91222922 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 2 0.03
46 71 0.97
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
Found at i:91223378 original size:30 final size:30
Alignment explanation
Indices: 91223344--91223403 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
91223334 ATTTAATACG
*
91223344 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* *
91223374 AACTTTAGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
91223404 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:91225465 original size:30 final size:30
Alignment explanation
Indices: 91225430--91225489 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
91225420 CAAGAAAAAC
*
91225430 GAATAAAGAAATCCA-AGATAGAGAAACCCA
1 GAATAAAGAAATCCAGA-ATAAAGAAACCCA
91225460 GAATAAAGAAATCCAGAATAAAGAAACCCA
1 GAATAAAGAAATCCAGAATAAAGAAACCCA
91225490 AGATACGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCCA
Found at i:91225469 original size:15 final size:15
Alignment explanation
Indices: 91225430--91225489 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
91225420 CAAGAAAAAC
*
91225430 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
91225445 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
91225460 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
91225475 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
91225490 AGATACGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:91231623 original size:27 final size:27
Alignment explanation
Indices: 91231592--91231646 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
91231582 TAGAATACTT
*
91231592 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
91231619 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
91231646 T
1 T
91231647 GATTTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.29
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:91231652 original size:27 final size:27
Alignment explanation
Indices: 91231601--91231732 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
91231591 TTAGTTTACC
91231601 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
91231628 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** **
91231655 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** * *
91231682 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
91231709 AAATTACCAAAGTACCCCTGATTT
1 AAATTACCAAAATACCCCTGATTT
91231733 ACAGAATTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
26 4 0.05
27 79 0.91
28 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:91231766 original size:81 final size:81
Alignment explanation
Indices: 91231601--91231782 Score: 188
Period size: 81 Copynumber: 2.2 Consensus size: 81
91231591 TTAGTTTACC
* * ** *
91231601 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGA
1 AAATTACCAAAATACCCTTGA-CTTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGA
**
91231665 AATACCCTCGACCTGTA
65 AATACCCTCGACCTACA
*** * *
91231682 AAATTATTGAAATACCCTTGACTTGTAAAATTACCAAAGTACCCCTGATTTACAG-AATTACCGT
1 AAATTACCAAAATACCCTTGACTTGTAAAATTACCAAAATACCCCTGATTT-CAGAAATTACCGA
** **
91231746 TTTACCCTCGATTTACA
65 AATACCCTCGACCTACA
91231763 AAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
91231783 TAGGGTAGAA
Statistics
Matches: 80, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
81 78 0.98
82 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGACTTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAA
ATACCCTCGACCTACA
Found at i:91231780 original size:27 final size:27
Alignment explanation
Indices: 91231601--91231780 Score: 123
Period size: 27 Copynumber: 6.7 Consensus size: 27
91231591 TTAGTTTACC
*
91231601 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
91231628 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
91231655 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * *
91231682 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
91231709 AAATTACCAAAGTACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **** **
91231736 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
91231763 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
91231781 TGTAGGGTAG
Statistics
Matches: 121, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
27 118 0.98
28 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:91231797 original size:27 final size:27
Alignment explanation
Indices: 91231767--91231906 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
91231757 TTTACAAAAT
91231767 TACCAAAATACCCTTGTAGGGTAGAAA
1 TACCAAAATACCCTTGTAGGGTAGAAA
*
91231794 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCAAAATACCCTTGTAGGGTAGAAA
* *
91231821 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCAAAATACCCTTGTAGGGTAGAAA
** * * *
91231848 TACTGAAATACCCCTATAGGGTAGAAT
1 TACCAAAATACCCTTGTAGGGTAGAAA
* * *
91231875 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCAAAATACCCTTGTAGGGTAGAAA
91231901 TTACCA
1 -TACCA
91231907 TTTTACCCCT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.02
27 96 0.98
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TACCAAAATACCCTTGTAGGGTAGAAA
Found at i:91231868 original size:54 final size:54
Alignment explanation
Indices: 91231767--91231905 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
91231757 TTTACAAAAT
* * *
91231767 TACCAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAA
1 TACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAA
* * *
91231821 TACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAAT
1 TACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAA
* * * *
91231875 TACCGAGATACCCTTGTGGGGTAAAATTACC
1 TACCAAAATACCCTTGTAGGGTAGAATTACC
91231906 ATTTTACCCC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
TACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAA
Found at i:91232213 original size:27 final size:26
Alignment explanation
Indices: 91232175--91232234 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
91232165 ACATATATAT
* *
91232175 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
91232201 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
91232228 ATATCTG
1 ATATCTG
91232235 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:91232385 original size:6 final size:6
Alignment explanation
Indices: 91232357--91232440 Score: 57
Period size: 6 Copynumber: 13.7 Consensus size: 6
91232347 ATTCGCATTT
* * * *
91232357 TGATTT TGATTC TG-TTAC TTGATAC TGATTC TGATTC TGATTT TG-TCACC
1 TGATTC TGATTC TGATT-C -TGATTC TGATTC TGATTC TGATTC TGAT--TC
*
91232407 TAATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
91232441 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 50 0.82
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:91232398 original size:31 final size:30
Alignment explanation
Indices: 91232357--91232456 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
91232347 ATTCGCATTT
*
91232357 TGATTTTGATTCTGTTACTTGATACTGATTC
1 TGATTCTGATTCTGTTAC-TGATACTGATTC
* * * *
91232388 TGATTCTGATTTTGTCACCTAATTCTGATTC
1 TGATTCTGATTCTGTTA-CTGATACTGATTC
* *
91232419 TGATTCTGATTCTAGTT-CTGATAATGTTTC
1 TGATTCTGATTCT-GTTACTGATACTGATTC
*
91232449 TTATTCTG
1 TGATTCTG
91232457 TAATGGGTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
30 16 0.29
31 36 0.65
32 3 0.05
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (30 bp):
TGATTCTGATTCTGTTACTGATACTGATTC
Found at i:91234410 original size:27 final size:27
Alignment explanation
Indices: 91234379--91234433 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
91234369 TAGAATACTT
*
91234379 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
91234406 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
91234433 T
1 T
91234434 GATTTGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.29
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:91234439 original size:27 final size:27
Alignment explanation
Indices: 91234388--91234519 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
91234378 TTAGTTTACC
91234388 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
91234415 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** **
91234442 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** * *
91234469 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
91234496 AAATTACCAAAGTACCCCTGATTT
1 AAATTACCAAAATACCCCTGATTT
91234520 ACAGAATTAC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
26 4 0.05
27 79 0.91
28 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:91234553 original size:81 final size:81
Alignment explanation
Indices: 91234388--91234569 Score: 188
Period size: 81 Copynumber: 2.2 Consensus size: 81
91234378 TTAGTTTACC
* * ** *
91234388 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGA
1 AAATTACCAAAATACCCTTGA-CTTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGA
**
91234452 AATACCCTCGACCTGTA
65 AATACCCTCGACCTACA
*** * *
91234469 AAATTATTGAAATACCCTTGACTTGTAAAATTACCAAAGTACCCCTGATTTACAG-AATTACCGT
1 AAATTACCAAAATACCCTTGACTTGTAAAATTACCAAAATACCCCTGATTT-CAGAAATTACCGA
** **
91234533 TTTACCCTCGATTTACA
65 AATACCCTCGACCTACA
91234550 AAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
91234570 TAGGGTAAAA
Statistics
Matches: 80, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
81 78 0.98
82 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGACTTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAA
ATACCCTCGACCTACA
Found at i:91234567 original size:27 final size:27
Alignment explanation
Indices: 91234388--91234567 Score: 123
Period size: 27 Copynumber: 6.7 Consensus size: 27
91234378 TTAGTTTACC
*
91234388 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
91234415 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
91234442 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * *
91234469 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
91234496 AAATTACCAAAGTACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **** **
91234523 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
91234550 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
91234568 TGTAGGGTAA
Statistics
Matches: 121, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
27 118 0.98
28 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:91234579 original size:27 final size:27
Alignment explanation
Indices: 91234549--91234692 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
91234539 CTCGATTTAC
*
91234549 AAAATTACCAAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
*
91234576 AAAAATACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
*
91234603 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCTTGTAGGGT
* * * **
91234630 AGAATTACTGAAATACCCCTACAGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
* * *
91234657 AGAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCTTGTAGGGT
91234684 AAAATTACC
1 AAAATTACC
91234693 ATTTTACCCC
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 96 0.95
28 3 0.03
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGTAGGGT
Found at i:91235002 original size:27 final size:26
Alignment explanation
Indices: 91234964--91235023 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
91234954 ATATATATAT
* *
91234964 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
91234990 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
91235017 ATATCTG
1 ATATCTG
91235024 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:91235187 original size:31 final size:31
Alignment explanation
Indices: 91235142--91235220 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
91235132 TTGCATTCAC
* *
91235142 ATTCTGATTTTGATTCTGTTACCTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
* * *
91235173 ATTTTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
91235204 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
91235221 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.52
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:91235204 original size:6 final size:6
Alignment explanation
Indices: 91235195--91235229 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
91235185 ATTTTGTCAC
91235195 CTGATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
91235230 AATGTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:91237318 original size:29 final size:29
Alignment explanation
Indices: 91237284--91237357 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
91237274 TAATCAACCG
*
91237284 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
91237313 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
91237342 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
91237358 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:91240163 original size:40 final size:40
Alignment explanation
Indices: 91240118--91240314 Score: 241
Period size: 40 Copynumber: 4.9 Consensus size: 40
91240108 CGAATACACG
* * * * *
91240118 TCACCAGCATGATTACTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * ** * *
91240158 ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
91240198 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
91240238 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
91240278 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
91240315 TTAGTAACTC
Statistics
Matches: 135, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:91240339 original size:40 final size:40
Alignment explanation
Indices: 91240135--91240393 Score: 135
Period size: 40 Copynumber: 6.5 Consensus size: 40
91240125 CATGATTACT
* *
91240135 CTTCGGGACCTAGCCCGGATATA--ACAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTTAGCAC-AATGC
* ** * *
91240174 TCTTTGGGGTTTAGCACGGATATA-TCAC-TAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCAC-AATGC
* * * *
91240214 TCTTCGGAACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * ** *
91240254 TCTTTGGGACTTAGCCCGGATACA-TCGC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* *
91240294 TCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAATGC
* * * * *
91240335 CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAATGC
91240375 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
91240394 CATCATTCGA
Statistics
Matches: 179, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.02
40 158 0.88
41 18 0.10
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAATGC
Found at i:91240355 original size:80 final size:80
Alignment explanation
Indices: 91240133--91240393 Score: 208
Period size: 80 Copynumber: 3.3 Consensus size: 80
91240123 AGCATGATTA
* * * * * * ** * *
91240133 CTCTTCGGGACCTAGCCCGGATATA-ACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATAT
1 CTCTTCGGAACTTAGCCCGGATACATA-ACTAGCACCAATGCTCTTTCGGACTTAGCCCGGATAC
91240197 ATCACTAGCACGAATG
65 ATCACTAGCACGAATG
* ** *
91240213 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 CTCTTCGGAACTTAGCCCGGATACATAACTAGCACCAATGCTCTTTCGGACTTAGCCCGGATACA
* *
91240278 TCGCTAGCATGAATG
66 TCACTAGCACGAATG
* ** * * *
91240293 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-C-TTCGGATCTTAGTCTGGATA
1 CTCTTCGGAACTTAGCCCGGATACA-TAACTAGCACCAATGCTCTTTCGGA-CTTAGCCCGGATA
** *
91240356 TGGTCACTTAGCAC-AAAG
64 -CATCAC-TAGCACGAATG
*
91240374 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGAACTTAGCCCGGA
91240394 CATCATTCGA
Statistics
Matches: 149, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
79 5 0.03
80 120 0.81
81 19 0.13
82 5 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CTCTTCGGAACTTAGCCCGGATACATAACTAGCACCAATGCTCTTTCGGACTTAGCCCGGATACA
TCACTAGCACGAATG
Found at i:91240383 original size:120 final size:120
Alignment explanation
Indices: 91240133--91240393 Score: 276
Period size: 120 Copynumber: 2.2 Consensus size: 120
91240123 AGCATGATTA
* * * **
91240133 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATA
1 CTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATATA
* * * *
91240198 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
66 TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATCAAAG
* * * * * * *
91240253 CTCTTTGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 CTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATATA
* * * * **
91240318 GTAACTCGCACCAATGC-CTTCGGATCTTAGTCTGGATATGGTCACTTAGCA-CAAAG
66 -TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCATCAAAG
91240374 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
91240394 CATCATTCGA
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
120 89 0.77
121 21 0.18
122 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (120 bp):
CTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATATA
TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATCAAAG
Found at i:91240738 original size:29 final size:29
Alignment explanation
Indices: 91240699--91240777 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
91240689 CTTAATAATC
*
91240699 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
91240729 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
91240758 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
91240778 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:91246764 original size:26 final size:26
Alignment explanation
Indices: 91246728--91246780 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
91246718 TGTTTCTTCC
91246728 ACATGAAAATAGATTCATTAATATTA
1 ACATGAAAATAGATTCATTAATATTA
*
91246754 ACATTAAAATAGATTCATTAATATTA
1 ACATGAAAATAGATTCATTAATATTA
91246780 A
1 A
91246781 GTTACATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.36
Consensus pattern (26 bp):
ACATGAAAATAGATTCATTAATATTA
Found at i:91247591 original size:46 final size:45
Alignment explanation
Indices: 91247524--91247691 Score: 148
Period size: 46 Copynumber: 3.6 Consensus size: 45
91247514 GCCCATAAGC
*
91247524 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAGAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCA-AAGT
* * *
91247570 GAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACATCTC--A-C
1 GAACTCAGACTCAACTCAACGAGCTC-G--GAC--GTTCGCATC-CAAAGT
* * *
91247617 GAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCA-AAGT
*
91247663 GAACTC-GAACTCAACTCAACGAGTTCGGA
1 GAACTCAG-ACTCAACTCAACGAGCTCGGA
91247692 TGCCCAAATA
Statistics
Matches: 100, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 53 0.53
47 25 0.25
48 1 0.01
49 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCAAAGT
Found at i:91247633 original size:93 final size:93
Alignment explanation
Indices: 91247523--91247695 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
91247513 CGCCCATAAG
* *
91247523 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAGAAGTGAACTC-AGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAGAAGTGAACTCGA-ACTCAACTC
91247587 AACGAGCTCAGATGCCTAGTTACATCTCA
65 AACGAGCTCAGATGCCTAGTTACATCTCA
* * *
91247616 CGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAGAAGTGAACTCGAACTCAACTCA
* *
91247681 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
91247696 CAAATATCCG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAGAAGTGAACTCGAACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:91251395 original size:43 final size:43
Alignment explanation
Indices: 91251327--91251427 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
91251317 AAGAACCGCT
* * * * *
91251327 AAACGCTGCTAAAAGTCATGGCTTTTAAC-GCTGCTTTTTTCAG
1 AAACGCCGCTAAAAGCCATGACTTTTAACGGC-GCTTTTCTCAC
*
91251370 AAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAAGCCATGACTTTTAACGGCGCTTTTCTCAC
91251413 AAACGCCGCTAAAAG
1 AAACGCCGCTAAAAG
91251428 TCTTGATCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 49 0.96
44 2 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCATGACTTTTAACGGCGCTTTTCTCAC
Found at i:91252822 original size:16 final size:16
Alignment explanation
Indices: 91252801--91252833 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
91252791 TGAGGATCCC
91252801 AATGCTCACTTAGCAA
1 AATGCTCACTTAGCAA
91252817 AATGCTCACTTAGCAA
1 AATGCTCACTTAGCAA
91252833 A
1 A
91252834 CTTCTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (16 bp):
AATGCTCACTTAGCAA
Found at i:91257377 original size:34 final size:34
Alignment explanation
Indices: 91257334--91257403 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
91257324 GAATTGGTGA
91257334 ATTCGATGCTCCTAATGCCTTAATTTCATGTTTT
1 ATTCGATGCTCCTAATGCCTTAATTTCATGTTTT
91257368 ATTCGATGCTCCTAATGCCTTAATTTCATGTTTT
1 ATTCGATGCTCCTAATGCCTTAATTTCATGTTTT
91257402 AT
1 AT
91257404 ACTTAGGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.47
Consensus pattern (34 bp):
ATTCGATGCTCCTAATGCCTTAATTTCATGTTTT
Found at i:91268065 original size:18 final size:17
Alignment explanation
Indices: 91268034--91268074 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
91268024 AACCCAAAAT
91268034 AAAAAATAAAAAAAAGA
1 AAAAAATAAAAAAAAGA
*
91268051 AAAAAATGAAGAAAAAGA
1 AAAAAAT-AAAAAAAAGA
91268069 AAAAAA
1 AAAAAA
91268075 CCTAACCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAAATAAAAAAAAGA
Found at i:91268775 original size:51 final size:51
Alignment explanation
Indices: 91268715--91268816 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
91268705 ACATTATTCG
*
91268715 TTTTAAAATTTTATATAGGTACACATTACTATTGCTGTGCACATAATATAT
1 TTTTAAAATTTTATATAGGTACACATTACTATTGCTATGCACATAATATAT
91268766 TTTTAAAATTTTATATAGGTACACATTACTATTGCTATGCACATAATATAT
1 TTTTAAAATTTTATATAGGTACACATTACTATTGCTATGCACATAATATAT
91268817 ATTATATATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (51 bp):
TTTTAAAATTTTATATAGGTACACATTACTATTGCTATGCACATAATATAT
Found at i:91269316 original size:19 final size:19
Alignment explanation
Indices: 91269292--91269329 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91269282 TTGAGATTGC
91269292 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91269311 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
91269330 TACTTATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:91269423 original size:6 final size:7
Alignment explanation
Indices: 91269405--91269430 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
91269395 CACTCCCTTT
91269405 TAAAAAA
1 TAAAAAA
91269412 TAAAAAA
1 TAAAAAA
91269419 TAAAAAA
1 TAAAAAA
91269426 TAAAA
1 TAAAA
91269431 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:91271459 original size:24 final size:24
Alignment explanation
Indices: 91271432--91271485 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
91271422 TTTCTTTCCT
*
91271432 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
91271456 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
91271480 TTGCAT
1 TTGCAT
91271486 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:91271474 original size:19 final size:19
Alignment explanation
Indices: 91271452--91271495 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
91271442 CCCATGCATT
91271452 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
91271471 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
91271490 TGCATT
1 TGCATT
91271496 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:91275614 original size:88 final size:88
Alignment explanation
Indices: 91275465--91275688 Score: 328
Period size: 88 Copynumber: 2.6 Consensus size: 88
91275455 AGCTGAAGAT
* * * *
91275465 ATCCAAGATGATTTGGCATCTCTATATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAACTAATTTGGCT
*
91275530 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
*
91275553 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGG-GCAGATCGAAGACATAACTGATTTGGC
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-AGGGAGCAGATCGAAGACATAACTAATTTGGC
*
91275617 TTTCACGTGTTTACGTTGAAGCAA
65 TTTCACGTGTTTACGTTAAAGCAA
* *
91275641 ATCCAAGATGATTTGGCATTTCTGTAGC-GGC-GGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGG-GAGCAGATCGAAGA
91275689 TAACATATTT
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
85 2 0.02
86 1 0.01
87 15 0.12
88 103 0.83
89 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAACTAATTTGGCT
TTCACGTGTTTACGTTAAAGCAA
Found at i:91275709 original size:44 final size:44
Alignment explanation
Indices: 91275650--91276283 Score: 794
Period size: 44 Copynumber: 14.4 Consensus size: 44
91275640 AATCCAAGAT
*
91275650 GATTTGGCATTTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * *
91275694 TATTTGGCGTCTCTGTAGTGGCGGGGAGCAGATCAAAGATAATA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * *
91275738 GATTTGGCGTCTCTGTAACAGTGGGGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91275782 GATTTGGCATCTTTGTAGCGGTGGAGAGCAGATCGAAGATAACAGACAGCA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT-----A-A-CA
* * * * *
91275833 GATTTAGCGTCTCTGTAGCGGCAGAGAGAAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
91275877 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGTAGATAGCA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91275921 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91275965 GATTTGGCATCTCTGTAGCGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91276009 GATTTGACATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
91276053 GATTTGGC-TCTCTATAGCGGCAGAGAGCAGATTGAAGAT----
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
91276092 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91276136 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCAAAGGTAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
91276180 GATTTGGCGTCTCTGTAG-GGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * *
91276223 GATTTGGTGTCTCTGTAGCAGCGGAGAGCAGATCGTAGATAACG
1 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
91276267 GATTTGGCATCTCTGTA
1 GATTTGGCATCTCTGTA
91276284 TTAGACGGGG
Statistics
Matches: 521, Mismatches: 56, Indels: 26
0.86 0.09 0.04
Matches are distributed among these distances:
39 8 0.02
40 29 0.06
43 69 0.13
44 376 0.72
46 1 0.00
49 1 0.00
50 1 0.00
51 36 0.07
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (44 bp):
GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:91283736 original size:48 final size:48
Alignment explanation
Indices: 91283679--91283800 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 48
91283669 ACGACATGTG
* * *
91283679 AGTATTGAGATCTCGTATAAGACCATATCTGGGATATGGA-ATTGGCATC
1 AGTA-TGAGATCCCATATAAGACCATACCTGGGATAT-GACATTGGCATC
* * *
91283728 AGTATGAGACCCCATGTAAGACCATACCTGGGATATGACATTGGTATC
1 AGTATGAGATCCCATATAAGACCATACCTGGGATATGACATTGGCATC
*
91283776 -GATATGAGGTCCCATATAAGACCAT
1 AG-TATGAGATCCCATATAAGACCAT
91283801 GTTTGGGACA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
47 3 0.05
48 55 0.89
49 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (48 bp):
AGTATGAGATCCCATATAAGACCATACCTGGGATATGACATTGGCATC
Found at i:91283885 original size:42 final size:42
Alignment explanation
Indices: 91283826--91284060 Score: 174
Period size: 42 Copynumber: 5.5 Consensus size: 42
91283816 TCGACACCGT
* * * *
91283826 TATGAGACTTCATGTAAGACCATGTCTTGGACATGGCTTTGA
1 TATGAGATTTCGTGTAAGACCATGTCTTGGACATGGCATCGA
* * *
91283868 TATGATATTTCGTGTAAGACCATGT-TTGGGACATGGAATCTA
1 TATGAGATTTCGTGTAAGACCATGTCTT-GGACATGGCATCGA
* * * *
91283910 TATGAGATTCCGTGTAACACCATAG-C-TGGGCTATTGGCATCGG
1 TATGAGATTTCGTGTAAGACCAT-GTCTTGGAC-A-TGGCATCGA
* * * * *
91283953 TATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGT
1 TATGAGATTTCGTGTAAGACCATGTCTTGGACATGGCATCGA
* * *
91283995 TATGAGATTTCGTCTAAGACCATAG-C-TGGGCTATTGGCTTCGA
1 TATGAGATTTCGTGTAAGACCAT-GTCTTGGAC-A-TGGCATCGA
* * *
91284038 TATGAGATTACATGTAGGACCAT
1 TATGAGATTTCGTGTAAGACCAT
91284061 ATTCGTGATA
Statistics
Matches: 150, Mismatches: 33, Indels: 19
0.74 0.16 0.09
Matches are distributed among these distances:
41 8 0.05
42 84 0.56
43 55 0.37
44 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTTGGACATGGCATCGA
Found at i:91283969 original size:43 final size:43
Alignment explanation
Indices: 91283909--91284061 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 43
91283899 CATGGAATCT
* * *
91283909 ATATGAGATTCCGTGTAACACCATAGCTGGGCTATTGGCATCG
1 ATATGAGATTACATGTAAGACCATAGCTGGGCTATTGGCATCG
* * *
91283952 GTATGATATTACATGTAAGACCAT-GTCTAGGAC-A-TGGCATCG
1 ATATGAGATTACATGTAAGACCATAG-CT-GGGCTATTGGCATCG
* * * * *
91283994 TTATGAGATTTCGTCTAAGACCATAGCTGGGCTATTGGCTTCG
1 ATATGAGATTACATGTAAGACCATAGCTGGGCTATTGGCATCG
*
91284037 ATATGAGATTACATGTAGGACCATA
1 ATATGAGATTACATGTAAGACCATA
91284062 TTCGTGATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
41 3 0.03
42 31 0.36
43 50 0.57
44 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
ATATGAGATTACATGTAAGACCATAGCTGGGCTATTGGCATCG
Found at i:91283986 original size:85 final size:85
Alignment explanation
Indices: 91283866--91284060 Score: 266
Period size: 85 Copynumber: 2.3 Consensus size: 85
91283856 ACATGGCTTT
* * * * *
91283866 GATATGATATTTCGTGTAAGACCATGTTTGGGACATGGAATC-TATATGAGATTCCGTGTAACAC
1 GATATGATATTACATGTAAGACCATGTCTAGGACATGGAATCGT-TATGAGATTCCGTCTAACAC
91283930 CATAGCTGGGCTATTGGCATC
65 CATAGCTGGGCTATTGGCATC
* * * *
91283951 GGTATGATATTACATGTAAGACCATGTCTAGGACATGGCATCGTTATGAGATTTCGTCTAAGACC
1 GATATGATATTACATGTAAGACCATGTCTAGGACATGGAATCGTTATGAGATTCCGTCTAACACC
*
91284016 ATAGCTGGGCTATTGGCTTC
66 ATAGCTGGGCTATTGGCATC
* *
91284036 GATATGAGATTACATGTAGGACCAT
1 GATATGATATTACATGTAAGACCAT
91284061 ATTCGTGATA
Statistics
Matches: 96, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 95 0.99
86 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
GATATGATATTACATGTAAGACCATGTCTAGGACATGGAATCGTTATGAGATTCCGTCTAACACC
ATAGCTGGGCTATTGGCATC
Found at i:91289752 original size:47 final size:47
Alignment explanation
Indices: 91289686--91289839 Score: 156
Period size: 47 Copynumber: 3.3 Consensus size: 47
91289676 ATTTGTATGC
*
91289686 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA-GGCT
* * *
91289734 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATATTATG--GA-GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACAT-TGA-GACGAGGCT
* *
91289779 AGTGTAAGACCATGTATGAGACATGGCATCGACATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAG-GCT
**
91289827 AGTACAAGACCAT
1 AGTGTAAGACCAT
91289840 AGTTGAACTA
Statistics
Matches: 87, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
44 1 0.01
45 13 0.15
46 23 0.26
47 25 0.29
48 24 0.28
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGGCT
Found at i:91300439 original size:22 final size:22
Alignment explanation
Indices: 91300388--91300518 Score: 181
Period size: 22 Copynumber: 5.9 Consensus size: 22
91300378 GCTTACTGTT
* **
91300388 TTCAGCTCATTAGAGCTTATCAT
1 TTCAGCTCAATAGAGCTTA-CCG
91300411 TTCAGCTCAATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
*
91300433 TTCAGCTCGATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
*
91300455 TTCAGCTCGATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
*
91300477 TTCAGCTCGATAGAGCTTACCG
1 TTCAGCTCAATAGAGCTTACCG
*
91300499 TTTCAGCACAATAGAGCTTA
1 -TTCAGCTCAATAGAGCTTA
91300519 TTGTTCATCA
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
22 66 0.65
23 35 0.35
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (22 bp):
TTCAGCTCAATAGAGCTTACCG
Found at i:91311755 original size:25 final size:27
Alignment explanation
Indices: 91311726--91311787 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
91311716 TTTTACTGTA
91311726 TTTATTATTACG-GATATTT-T-AAATT
1 TTTATTATTA-GAGATATTTATAAAATT
* *
91311751 TTTATGATTAGATATATTTATAAAATT
1 TTTATTATTAGAGATATTTATAAAATT
*
91311778 ATTATTATTA
1 TTTATTATTA
91311788 TTATTAGATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 15 0.50
26 1 0.03
27 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTATTATTAGAGATATTTATAAAATT
Found at i:91312630 original size:19 final size:19
Alignment explanation
Indices: 91312606--91312663 Score: 53
Period size: 25 Copynumber: 2.7 Consensus size: 19
91312596 AATCAGAATT
*
91312606 AGAATCAAAATTAGGTGAC
1 AGAATCAAAATTAGGTAAC
91312625 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCA-AA--A-T-T-AGGTAAC
91312650 AGAATCAAAATTAG
1 AGAATCAAAATTAG
91312664 AATCTGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 1 0.03
22 2 0.06
23 1 0.03
24 3 0.09
25 13 0.41
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (19 bp):
AGAATCAAAATTAGGTAAC
Found at i:91312646 original size:25 final size:25
Alignment explanation
Indices: 91312599--91312656 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
91312589 GAACTAGAAT
* * *
91312599 CAGAATTAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGGTAA
**
91312624 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
91312649 CAGAATCA
1 CAGAATCA
91312657 AAATTAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:91312673 original size:31 final size:31
Alignment explanation
Indices: 91312631--91312690 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
91312621 TGACAGAATC
91312631 AGAATCAGTATCAGGTAACAGAATCAAAATT
1 AGAATCAGTATCAGGTAACAGAATCAAAATT
*
91312662 AGAATCTGTATCAGGTAACAGAATCAAAA
1 AGAATCAGTATCAGGTAACAGAATCAAAA
91312691 ATCAGAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATT
Found at i:91312878 original size:27 final size:27
Alignment explanation
Indices: 91312835--91312932 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 27
91312825 GCTCAGTTAT
*
91312835 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGATA
*
91312862 CAGATATTGTTG-TAGAGCCACCAGA-A
1 CAGATATTG-TGACAGAGCCACCAGATA
* * * *
91312888 TAG---TTGTGGCATAGCCACCAGAAA
1 CAGATATTGTGACAGAGCCACCAGATA
* * *
91312912 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGACAGAGCCAC
91312933 TTAACAGAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
22 2 0.04
23 14 0.25
24 3 0.05
26 3 0.05
27 33 0.58
28 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGACAGAGCCACCAGATA
Found at i:91313638 original size:27 final size:27
Alignment explanation
Indices: 91313582--91314044 Score: 567
Period size: 27 Copynumber: 17.2 Consensus size: 27
91313572 GAGGCAAAAT
* * * *
91313582 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91313608 AGTAATT-TCACCCTATAGGGGTATTTT
1 GGTAATTCT-ACCCTACAGGGGTATTTC
* * *
91313635 AGTAATTCTACCCAATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91313662 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91313689 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91313716 GGTAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91313743 GATAATTCTGCCCTACAAGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91313769 TAGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
91313797 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91313824 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91313851 GATAATTCTACCCCACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91313878 GATAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
91313904 TGGTAATTCTACCCTACAGGGGTA-TTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
91313931 TGGTAATTCTACCCTACAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
91313959 GGTAATTCTACCCTATAGGGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91313986 GATAATTTTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
91314013 AGTAATTTTGCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
91314040 TGTAA
1 GGTAA
91314045 CACCCTGAAT
Statistics
Matches: 387, Mismatches: 43, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
25 1 0.00
26 17 0.04
27 362 0.94
28 7 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:91315134 original size:27 final size:27
Alignment explanation
Indices: 91315101--91315172 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
91315091 AAAGTACTCC
91315101 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
91315128 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
*
91315155 CGATTTACAAAATTACCA
1 CGATTTACAGAATTACCA
91315173 AAATACCCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Found at i:91315202 original size:28 final size:27
Alignment explanation
Indices: 91315162--91315318 Score: 199
Period size: 27 Copynumber: 5.8 Consensus size: 27
91315152 CCTCGATTTA
91315162 CAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
*
91315189 CAAAATTACCCAAAATATCCCTAGTTTG
1 CAAAATTA-CCAAAATACCCCTAGTTTG
*
91315217 CAAAATTACCAAAATACCCCTGGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
* * *
91315244 TAAAATTACCAAAATACCCATGGTTTG
1 CAAAATTACCAAAATACCCCTAGTTTG
* **
91315271 CAAAATTACTAAAATACCCCT-GTAGGG
1 CAAAATTACCAAAATACCCCTAGT-TTG
* *
91315298 TAAAATTACCGAAATACCCCT
1 CAAAATTACCAAAATACCCCT
91315319 GTAAGGTAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.02
27 87 0.76
28 26 0.23
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCCTAGTTTG
Found at i:91315331 original size:27 final size:27
Alignment explanation
Indices: 91315218--91315334 Score: 94
Period size: 27 Copynumber: 4.3 Consensus size: 27
91315208 CCTAGTTTGC
* **
91315218 AAAATTACCAAAATACCCCTGGT-TTGT
1 AAAATTACCGAAATACCCCT-GTAAGGT
* * ** *
91315245 AAAATTACCAAAATACCCATGGT-TTGC
1 AAAATTACCGAAATACCCCT-GTAAGGT
** *
91315272 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAAGGT
91315299 AAAATTACCGAAATACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAAGGT
*
91315326 AGAATTACC
1 AAAATTACC
91315335 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.03
27 76 0.97
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAAGGT
Found at i:91316223 original size:38 final size:38
Alignment explanation
Indices: 91316172--91316264 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
91316162 TGCTGCAACT
91316172 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
1 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
91316210 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
1 GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
*
91316248 ATGGAGTGTAGGGCTGG
1 GTGGAGTGTAGGGCTGG
91316265 TACAGGGCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.16, C:0.14, G:0.44, T:0.26
Consensus pattern (38 bp):
GTGGAGTGTAGGGCTGGGTGGGTTGAGATATTCCCCAC
Found at i:91319906 original size:27 final size:27
Alignment explanation
Indices: 91319871--91319963 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
91319861 TACAATTTCA
*
91319871 GTAAATTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*
91319898 GTAATTTTACAAACTAGGGGTAATTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* ** **
91319925 GTAATTCTATCCTAC-AGGGGTATTTCA
1 GTAATTTTA-CAAACTAGGGGTATTTTG
91319952 GTAATTTTACAA
1 GTAATTTTACAA
91319964 TCGAGGGTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
26 1 0.02
27 50 0.93
28 3 0.06
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:91320008 original size:27 final size:27
Alignment explanation
Indices: 91319962--91320159 Score: 207
Period size: 27 Copynumber: 7.3 Consensus size: 27
91319952 GTAATTTTAC
** * *
91319962 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
** * *
91319989 AATTTAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * *
91320016 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
91320043 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
91320070 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTATA
* *
91320097 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTATA
* * * *
91320124 AATAGAAGGTAAAATAGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTATA
91320151 AATCGAGGG
1 AATCGAGGG
91320160 CATTTTAGTA
Statistics
Matches: 142, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTATA
Found at i:91320072 original size:81 final size:81
Alignment explanation
Indices: 91319962--91320159 Score: 281
Period size: 81 Copynumber: 2.4 Consensus size: 81
91319952 GTAATTTTAC
* * * * **
91319962 AATCGAGGGTAAAACAGTAATTTTGTAAATTTAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
1 AATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
91320027 AAACGATAATTCTATA
66 AAACGATAATTCTATA
* *
91320043 AATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
*
91320108 AAACGGTAATTCTATA
66 AAACGATAATTCTATA
* *
91320124 AAT-AGAAGGTAAAATAGTAATTCTACAAATCGAGGG
1 AATCA-AGGGTAAAATAGTAATTCTATAAATCGAGGG
91320160 CATTTTAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 104 0.99
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (81 bp):
AATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
AAACGATAATTCTATA
Found at i:91320171 original size:81 final size:81
Alignment explanation
Indices: 91319994--91320179 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 81
91319984 TTGTAAATTT
* * *
91319994 AGGGTAAAATGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAGGGTAAAATA
1 AGGGCAAAATAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAAGGTAAAATA
*
91320059 GTAATTCTATAAATCG
66 GTAATTCTACAAATCG
* * * * *
91320075 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAAT-AGAAGGTAAAAT
1 AGGGCAAAATAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCA-AAGGTAAAAT
91320139 AGTAATTCTACAAATCG
65 AGTAATTCTACAAATCG
*** *
91320156 AGGGCATTTTAGTAATTTTATAAA
1 AGGGCAAAATAGTAATTTTGTAAA
91320180 CCAATTGATG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (81 bp):
AGGGCAAAATAGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTATAAATCAAAGGTAAAATA
GTAATTCTACAAATCG
Found at i:91320238 original size:27 final size:27
Alignment explanation
Indices: 91320202--91320349 Score: 174
Period size: 27 Copynumber: 5.5 Consensus size: 27
91320192 ATTTTTGGTA
* *
91320202 ATTTTTGTAATTTTATAAATCAGGGGT
1 ATTTTGGTAATTTTACAAATCAGGGGT
* *
91320229 ATTTTGGTAATTTTACAAAT-TGATGGT
1 ATTTTGGTAATTTTACAAATCAG-GGGT
* * * *
91320256 ATTTCGGTAATTTCACAAACCAGTGGT
1 ATTTTGGTAATTTTACAAATCAGGGGT
* *
91320283 ATTTTGATAATTTTACAAACCAGGGGT
1 ATTTTGGTAATTTTACAAATCAGGGGT
91320310 ATTTTGGTAATTTTAC-AATCCAGGGGT
1 ATTTTGGTAATTTTACAAAT-CAGGGGT
91320337 ATTTTGGTAATTT
1 ATTTTGGTAATTT
91320350 GGTAAACTAA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.03
27 100 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTTTGGTAATTTTACAAATCAGGGGT
Found at i:91322285 original size:6 final size:6
Alignment explanation
Indices: 91322267--91322357 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
91322257 AAGAAACATT
* *
91322267 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
91322316 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
91322358 GTAAAAGAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:91322312 original size:25 final size:25
Alignment explanation
Indices: 91322281--91322348 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
91322271 GAACTAGAAT
*
91322281 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
*
91322306 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
91322331 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
91322349 CAGTATCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:91322312 original size:31 final size:30
Alignment explanation
Indices: 91322276--91322367 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 30
91322266 TATCAGAACT
*
91322276 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAG-ATTAGGTAAC
91322307 AGAATCAGAATCAG--T---ATTAGGTAAC
1 AGAATCAGAATCAGAATCAGATTAGGTAAC
* * *
91322332 AGAATCAAAATCAGAATCAGTATCAGGTAAA
1 AGAATCAGAATCAGAATCAG-ATTAGGTAAC
91322363 AGAAT
1 AGAAT
91322368 AAAAAATCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 22 0.43
27 1 0.02
29 1 0.02
31 27 0.53
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGATTAGGTAAC
Found at i:91322559 original size:27 final size:26
Alignment explanation
Indices: 91322517--91322573 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
91322507 GCTCAGTTAT
*
91322517 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
91322544 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
91322570 CAGA
1 CAGA
91322574 CATAGCCACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:91323315 original size:27 final size:27
Alignment explanation
Indices: 91323257--91323830 Score: 563
Period size: 27 Copynumber: 21.3 Consensus size: 27
91323247 AGGGGCAAAA
* * * *
91323257 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
91323283 CGGTAATT-TCACCCTATAGGGGTATTT
1 TGGTAATTCT-ACCCTACAGGGGTATTT
* * *
91323310 TAGTAATTCTACCCTATAGGCGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
91323337 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
91323364 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
91323391 CGGTAACTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
91323418 CGATAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
** *
91323445 CAGTAATTCTACCCTACAGAGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
**
91323472 CAGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
91323499 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
91323526 TGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
91323553 CGGTAATTCTACCCCACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
91323580 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
91323607 CGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * **
91323634 CGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* **
91323661 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
*
91323688 TGGTAATTCTATCC-ACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* **
91323715 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* **
91323742 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* **
91323769 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* **
91323796 TGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
91323823 TGGTAATT
1 TGGTAATT
91323831 TTACAAACTA
Statistics
Matches: 498, Mismatches: 44, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
25 1 0.00
26 16 0.03
27 479 0.96
28 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:91323870 original size:27 final size:27
Alignment explanation
Indices: 91323839--91324037 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
91323829 TTTTACAAAC
*
91323839 TAAATCGAGGGTAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTA
*
91323866 TAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAATAGTAATTCTA
*
91323893 TAAATCGAGGGTAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTA
*
91323920 TAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAATAGTAATTCTA
** * *
91323947 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTA
* * ** *
91323974 TAAATCGAAGGTGAAACGGTAATTATA
1 TAAATCGAGGGTAAAATAGTAATTCTA
* *
91324001 TAAAT-AAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAATAGTAATTCTA
*
91324027 CAAATCGAGGG
1 TAAATCGAGGG
91324038 CATTTTAGTA
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 20 0.13
27 131 0.87
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATAGTAATTCTA
Found at i:91323912 original size:54 final size:54
Alignment explanation
Indices: 91323839--91324037 Score: 283
Period size: 54 Copynumber: 3.7 Consensus size: 54
91323829 TTTTACAAAC
91323839 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
91323893 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
1 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
** * * * ** *
91323947 TAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTGAAACGGTAATTATA
1 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
* * **
91324001 TAAAT-AAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGG
91324038 CATTTTAGTA
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
53 26 0.20
54 105 0.80
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (54 bp):
TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTA
Found at i:91324098 original size:29 final size:28
Alignment explanation
Indices: 91324025--91324193 Score: 107
Period size: 29 Copynumber: 6.0 Consensus size: 28
91324015 ATGGTAATTC
* *
91324025 TACAAATCGAGGGCATTT-TAGTAA-TTT
1 TACAAATCAAGGGTATTTCTA-TAATTTT
* *
91324052 T-CTAAACCAATGGTATTTCTATAATTTT
1 TAC-AAATCAAGGGTATTTCTATAATTTT
* *
91324080 TAGAAAGTCAAGGGTATTTCTGTAAATTTT
1 TACAAA-TCAAGGGTATTTCTAT-AATTTT
*
91324110 TCACAAA-CTAGTGGTATTT-TGATAA-TTT
1 T-ACAAATCAAG-GGTATTTCT-ATAATTTT
* **
91324138 TACAAACCCGGGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCTATAATTTT
* * *
91324166 TAGAAAGTCAAGGGTATTTTTGTAATTT
1 TACAAA-TCAAGGGTATTTCTATAATTT
91324194 CGTAAATCAG
Statistics
Matches: 110, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
26 1 0.01
27 31 0.28
28 24 0.22
29 35 0.32
30 15 0.14
31 4 0.04
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (28 bp):
TACAAATCAAGGGTATTTCTATAATTTT
Found at i:91324235 original size:27 final size:25
Alignment explanation
Indices: 91324205--91324374 Score: 142
Period size: 27 Copynumber: 6.3 Consensus size: 25
91324195 GTAAATCAGG
* *
91324205 GGTATTTTTACAAATTGAGGGTATTTC
1 GGTAATTTTACAAA-T-AGGGTATTTT
* *
91324232 GGTAATTTCACAAACCAGTGGTATTTT
1 GGTAATTTTACAAA-TAG-GGTATTTT
*
91324259 GATAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAA-TA-GGGTATTTT
*
91324286 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAA-TA-GGGTATTTT
* *
91324313 GGTAATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTA-CAA-ATAGGGTATTTT
* *
91324340 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAA-TA-GGGTATTTT
91324367 GGTAATTT
1 GGTAATTT
91324375 GGTAAACCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 5 0.04
27 110 0.91
28 4 0.03
29 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (25 bp):
GGTAATTTTACAAATAGGGTATTTT
Found at i:91324383 original size:27 final size:27
Alignment explanation
Indices: 91324223--91324374 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
91324213 TACAAATTGA
* *
91324223 GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
91324250 TGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
91324277 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
91324304 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
91324331 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
91324358 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
91324375 GGTAAACCAA
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:91326016 original size:5 final size:5
Alignment explanation
Indices: 91325998--91326029 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
91325988 GGATTCATTT
91325998 TTTTC TTCTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC T
91326030 CTTCATCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:91326026 original size:15 final size:16
Alignment explanation
Indices: 91325998--91326053 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
91325988 GGATTCATTT
91325998 TTTTCTTCTTCTTTTC
1 TTTTCTTCTTCTTTTC
91326014 TTTTCTT-TTCTTTTC
1 TTTTCTTCTTCTTTTC
* * *
91326029 TCTTCATCTAC-TTTC
1 TTTTCTTCTTCTTTTC
*
91326044 TCTTCTTCTT
1 TTTTCTTCTT
91326054 TTCCCGCATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 25 0.74
16 9 0.26
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTTTTC
Found at i:91329812 original size:45 final size:44
Alignment explanation
Indices: 91329647--91329804 Score: 183
Period size: 45 Copynumber: 3.5 Consensus size: 44
91329637 TTCCATTATT
* ** *
91329647 AACTCGGACCAACTCAACGAGCTCAGATGCTCGCATCCATAATG
1 AACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATCATG
* * *
91329691 AACTTGGACCAACTCAACGAGCTCAGATGCTTCACATATACCACG
1 AACTCGGACCAACTCAACGAGCTCAGATGC-TCACATATATCATG
** * *
91329736 AACTTAGACCAACTCAAC-AACTTCAGATTTCTCACATATATCATG
1 AACTCGGACCAACTCAACGAGC-TCAGA-TGCTCACATATATCATG
91329781 AACTCGGACCAACTCAACGAGCTC
1 AACTCGGACCAACTCAACGAGCTC
91329805 GAATTTCTTA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
44 31 0.33
45 60 0.63
46 4 0.04
ACGTcount: A:0.34, C:0.31, G:0.14, T:0.21
Consensus pattern (44 bp):
AACTCGGACCAACTCAACGAGCTCAGATGCTCACATATATCATG
Found at i:91333553 original size:28 final size:28
Alignment explanation
Indices: 91333485--91333573 Score: 137
Period size: 27 Copynumber: 3.2 Consensus size: 28
91333475 GAGGAAGCGT
*
91333485 TCTGGTGGCTCTACCACAAATATCT-TA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
91333512 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
91333540 TTTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
91333567 TCTGGTG
1 TCTGGTG
91333574 ACTTTGTCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 39 0.70
28 17 0.30
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:91333584 original size:27 final size:27
Alignment explanation
Indices: 91333485--91333597 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
91333475 GAGGAAGCGT
*
91333485 TCTGGTGGCTCTACCACAAATATCT-TA
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
91333512 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
91333540 TTTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * * *
91333567 TCTGGTGACTTTGTCACAATATTTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
91333593 TCTGG
1 TCTGG
91333598 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:91333585 original size:55 final size:54
Alignment explanation
Indices: 91333487--91333593 Score: 144
Period size: 55 Copynumber: 2.0 Consensus size: 54
91333477 GGAAGCGTTC
*
91333487 TGGTGGCTCTACCACAAATATCTTATCTGGTGGCTCTGCCACAAATATCTGTTTT
1 TGGTGGCTCTACCACAAATATCTTATCTGGTGACTCTGCCAC-AATATCTGTTTT
* * * *
91333542 TGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTTTGTCACAATATTTGTT
1 TGGTGGCTCTACCACAAATATCT-TATCTGGTGACTCTGCCACAATATCTGTT
91333594 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 16 0.35
55 30 0.65
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (54 bp):
TGGTGGCTCTACCACAAATATCTTATCTGGTGACTCTGCCACAATATCTGTTTT
Found at i:91336562 original size:18 final size:18
Alignment explanation
Indices: 91336539--91336575 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
91336529 CCGAGAAATG
91336539 GATTCGTAAGGGTTGTGA
1 GATTCGTAAGGGTTGTGA
91336557 GATTCGTAAGGGTTGTGA
1 GATTCGTAAGGGTTGTGA
91336575 G
1 G
91336576 GCTTATCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.05, G:0.41, T:0.32
Consensus pattern (18 bp):
GATTCGTAAGGGTTGTGA
Done.