Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 198 of 356
Found at i:64545545 original size:27 final size:27
Alignment explanation
Indices: 64545514--64545691 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
64545504 TAAATTGTAC
*
64545514 AGCACTAAGTGTGCGATTTGACTTTGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
64545541 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64545567 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
64545595 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
64545623 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
64545650 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
64545677 AACACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64545692 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:64545631 original size:82 final size:81
Alignment explanation
Indices: 64545515--64545670 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
64545505 AAATTGTACA
* * *
64545515 GCACTAAGTGTGCGATTTGACTTTGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
64545579 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
64545596 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
64545661 TGCGAGTTGA
65 TGCGAATTGA
64545671 TTATATAACA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:64545688 original size:82 final size:81
Alignment explanation
Indices: 64545511--64545691 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
64545501 GATTAAATTG
* * * *
64545511 TACAGCACTAAGTGTGCGATTTGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAACACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
64545576 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* ** ** *
64545592 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAACACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
64545656 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
64545674 TATAACACTGAGTGTGCG
1 TACAACACTAAGTGTGCG
64545692 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAACACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:64552227 original size:47 final size:47
Alignment explanation
Indices: 64552173--64552366 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
64552163 TTAGGACTTT
** * *
64552173 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
64552220 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
64552267 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
64552314 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
64552361 ATGTGA
1 ATGTGA
64552367 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:64552273 original size:22 final size:22
Alignment explanation
Indices: 64552202--64552273 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
64552192 GTATATATGA
64552202 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
64552224 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
64552249 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
64552271 GAT
1 GAT
64552274 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:64552494 original size:98 final size:96
Alignment explanation
Indices: 64552337--64552520 Score: 307
Period size: 98 Copynumber: 1.9 Consensus size: 96
64552327 GAACATGCAT
*
64552337 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
64552402 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
64552433 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
64552497 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
64552521 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:64552536 original size:50 final size:48
Alignment explanation
Indices: 64552336--64552520 Score: 300
Period size: 48 Copynumber: 3.8 Consensus size: 48
64552326 TGAACATGCA
64552336 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
64552384 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
64552432 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
64552482 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
64552521 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.01
48 80 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:64552774 original size:37 final size:37
Alignment explanation
Indices: 64552666--64552774 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
64552656 GGAAATATAT
*
64552666 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
*
64552703 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
* *
64552740 TCCGGGTAAGACCTGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTT
64552775 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
Found at i:64556651 original size:19 final size:18
Alignment explanation
Indices: 64556627--64556663 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
64556617 AGAATTGGCC
64556627 AAATGGGCCGTAATGGGCT
1 AAATGGGCC-TAATGGGCT
*
64556646 AAATGGGCCTGATGGGCT
1 AAATGGGCCTAATGGGCT
64556664 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (18 bp):
AAATGGGCCTAATGGGCT
Found at i:64562923 original size:16 final size:16
Alignment explanation
Indices: 64562902--64562933 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64562892 GTTGTAACGC
64562902 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
*
64562918 CCCAAAAATCCTGAAA
1 CCCAAAAATCCCGAAA
64562934 TTTTGAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.34, G:0.06, T:0.09
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:64572355 original size:29 final size:28
Alignment explanation
Indices: 64572307--64572361 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
64572297 ATCCGAAGTA
*
64572307 CTGATATCATGGTCCAAAGCCAAATCAG
1 CTGATATCATGGCCCAAAGCCAAATCAG
*
64572335 CTGATATTCATGGCCCGAAGCCAAATC
1 CTGATA-TCATGGCCCAAAGCCAAATC
64572362 GGTATAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (28 bp):
CTGATATCATGGCCCAAAGCCAAATCAG
Found at i:64575461 original size:25 final size:25
Alignment explanation
Indices: 64575433--64575485 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
64575423 AAGGCATAAG
*
64575433 CTATTCAATGAAATGTTAGTGTAAA
1 CTATTCAATCAAATGTTAGTGTAAA
64575458 CTATTCAATCAAATGTTAGTGTAAA
1 CTATTCAATCAAATGTTAGTGTAAA
64575483 CTA
1 CTA
64575486 CGAATTCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (25 bp):
CTATTCAATCAAATGTTAGTGTAAA
Found at i:64590293 original size:47 final size:47
Alignment explanation
Indices: 64590235--64590629 Score: 655
Period size: 47 Copynumber: 8.4 Consensus size: 47
64590225 CAGCCAAGAC
64590235 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
64590282 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
64590329 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGATTGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
64590376 AGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
64590423 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
64590470 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
64590517 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
64590564 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
64590611 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
64590630 TCCCGAAGGG
Statistics
Matches: 325, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 325 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:64592769 original size:29 final size:29
Alignment explanation
Indices: 64592734--64592807 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
64592724 GTTGTGAGAT
* *
64592734 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
64592763 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
64592792 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
64592808 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:64593241 original size:40 final size:40
Alignment explanation
Indices: 64593197--64593353 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
64593187 GAGTTACTAA
*
64593197 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
64593237 ATCCGGGCTAAGTCCCGAAAAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
64593277 ATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
64593317 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
64593354 CGTGTATTCG
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:64595074 original size:27 final size:27
Alignment explanation
Indices: 64595044--64595221 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64595034 ATATTGAGTC
* * * *
64595044 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64595071 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64595098 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64595126 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64595153 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64595180 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64595207 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64595222 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64595183 original size:82 final size:81
Alignment explanation
Indices: 64595065--64595220 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64595055 TGCTATATAA
* *
64595065 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64595130 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64595147 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64595211 CACTTAGTGC
65 CACTTAGTGC
64595221 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64603166 original size:27 final size:27
Alignment explanation
Indices: 64603049--64603222 Score: 174
Period size: 27 Copynumber: 6.5 Consensus size: 27
64603039 ATATTGAGTC
* * * *
64603049 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCAACATAGTCAACT
* *
64603076 CGCACACTTAGTGCTAC-TAATCAA-T
1 CGCACACTTAGTGCAACATAGTCAACT
*
64603101 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCAACATAGTC-AACT
** * *
64603129 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAACT
* * **
64603156 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAACT
*
64603183 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCAACATAGTCAACT
64603210 -GCACACTTAGTGC
1 CGCACACTTAGTGC
64603223 TGTACAATTT
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
25 18 0.14
26 24 0.19
27 65 0.51
28 21 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAACT
Found at i:64603192 original size:54 final size:54
Alignment explanation
Indices: 64603049--64603223 Score: 189
Period size: 53 Copynumber: 3.3 Consensus size: 54
64603039 ATATTGAGTC
* * * * *
64603049 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTAC-TAATCAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAT
** *
64603101 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAA-T
* **
64603156 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTC-AAT
64603210 -GCACACTTAGTGCT
1 CGCACACTTAGTGCT
64603224 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
52 20 0.19
53 32 0.31
54 29 0.28
55 23 0.22
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAT
Found at i:64603214 original size:80 final size:80
Alignment explanation
Indices: 64603070--64603222 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 80
64603060 TGCTATATAA
*
64603070 TCAACTCGCACACTTAGTGCTACTAATCAATCGCACACTTAGTGCTACATAGTCAAACTCGCACA
1 TCAACTCGCACACTTAGTGCTACTAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCACA
64603135 CTTAGTGCCGCATGG
66 CTTAGTGCCGCATGG
* * *
64603150 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-T-GC
1 TCAACTCGCACACTTAGTGCTA-C-TAATCA-ATCGCACACTTAGTGCAACATAGTCAAACTCGC
64603212 ACACTTAGTGC
63 ACACTTAGTGC
64603223 TGTACAATTT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
79 1 0.02
80 33 0.50
81 6 0.09
82 26 0.39
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACTAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCACA
CTTAGTGCCGCATGG
Found at i:64607189 original size:51 final size:51
Alignment explanation
Indices: 64607133--64607238 Score: 160
Period size: 51 Copynumber: 2.1 Consensus size: 51
64607123 TGGTAAAAAT
*
64607133 TGATAATGGGTTAGGTAAAT-TTTCATGATAATGAATTAGGTAAATATTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
** *
64607184 TGATAATGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
64607235 TGAT
1 TGAT
64607239 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 12 0.24
51 38 0.76
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.38
Consensus pattern (51 bp):
TGATAATGGTTAGGTAAATGTTCCATGATAATGAATTAGGTAAATATTCCA
Found at i:64607191 original size:26 final size:26
Alignment explanation
Indices: 64607133--64607238 Score: 153
Period size: 25 Copynumber: 4.2 Consensus size: 26
64607123 TGGTAAAAAT
*
64607133 TGATAATGGGTTAGGTAAAT-TTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
64607158 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64607184 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
64607209 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64607235 TGAT
1 TGAT
64607239 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
25 40 0.56
26 32 0.44
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64625814 original size:18 final size:17
Alignment explanation
Indices: 64625791--64625827 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
64625781 TAATAATAAT
*
64625791 AATAATTAAACTAAAAGA
1 AATAATTAAA-GAAAAGA
64625809 AATAATTAAAGAAAAGA
1 AATAATTAAAGAAAAGA
64625826 AA
1 AA
64625828 GTGGAGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (17 bp):
AATAATTAAAGAAAAGA
Found at i:64625869 original size:11 final size:11
Alignment explanation
Indices: 64625849--64625882 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
64625839 CAAATAAATT
64625849 GAAAAAAAAAA
1 GAAAAAAAAAA
*
64625860 GAAAAGAAAAA
1 GAAAAAAAAAA
64625871 GAAAAAAGAAAA
1 GAAAAAA-AAAA
64625883 AGGAGACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:64630661 original size:19 final size:19
Alignment explanation
Indices: 64630629--64630705 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
64630619 AAAAGCTATG
*
64630629 TGTTACATGAATGAATTAC
1 TGTTATATGAATGAATTAC
* *
64630648 TGTTATATGGATGAAGTAC
1 TGTTATATGAATGAATTAC
* *
64630667 TGTTTATACGAATGAGTTAC
1 TG-TTATATGAATGAATTAC
64630687 TGTTATCA--AATGAATTAC
1 TGTTAT-ATGAATGAATTAC
64630705 T
1 T
64630706 ATTTACATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
18 10 0.21
19 22 0.46
20 16 0.33
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (19 bp):
TGTTATATGAATGAATTAC
Found at i:64630681 original size:20 final size:20
Alignment explanation
Indices: 64630637--64630690 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
64630627 TGTGTTACAT
* *
64630637 GAATGAATTACTG-TTATAT
1 GAATGAAGTACTGTTTATAC
*
64630656 GGATGAAGTACTGTTTATAC
1 GAATGAAGTACTGTTTATAC
64630676 GAATG-AGTTACTGTT
1 GAATGAAG-TACTGTT
64630691 ATCAAATGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (20 bp):
GAATGAAGTACTGTTTATAC
Found at i:64633673 original size:29 final size:28
Alignment explanation
Indices: 64633629--64633718 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 28
64633619 TAAGCATGAC
64633629 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTGATGGGCCA
64633658 TATAAATGTGATTTGGGCC-GAATGGGCCA
1 TATAAATGTGA-TTGGGCCTG-ATGGGCCA
*
64633687 TATAAATGTGATTAGGCCT-AGTGGGCCA
1 TATAAATGTGATTGGGCCTGA-TGGGCCA
64633715 TATA
1 TATA
64633719 CAAGTATGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
27 1 0.02
28 19 0.34
29 36 0.64
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTGATGGGCCA
Found at i:64635779 original size:16 final size:17
Alignment explanation
Indices: 64635742--64635785 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
64635732 GGAATATAGA
64635742 TTTGAATCCCATCAGTT
1 TTTGAATCCCATCAGTT
64635759 TTTGAATCCCATCAG-T
1 TTTGAATCCCATCAGTT
64635775 TTTGAATCCCA
1 TTTGAATCCCA
64635786 CACACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (17 bp):
TTTGAATCCCATCAGTT
Found at i:64641149 original size:47 final size:47
Alignment explanation
Indices: 64641086--64641190 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
64641076 CCCTTCGGGA
* *
64641086 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
64641133 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
64641180 CTTATCACATA
1 CTTATCACATA
64641191 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:64641300 original size:48 final size:48
Alignment explanation
Indices: 64641242--64641579 Score: 477
Period size: 48 Copynumber: 7.0 Consensus size: 48
64641232 ATATACACAC
* * * *
64641242 ATCTCCTACATATTGCTCATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCTCATTAGCCATTCGGCTTTACCACATATACAT
* *
64641290 ATCTCATACATATTTCAT-GTTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTC-TCATTAGCCATTCGGCTTTACCACATATACAT
*
64641338 ATCTCATACATATTTCAT-ATTACCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTC-TCATTAGCCATTCGGCTTTACCACATATACAT
* * *
64641386 ATCTCATACATATTTCACAATAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCTCATTAGCCATTCGGCTTTACCACATATACAT
* *
64641434 ATCTCATACATATTTCAT-GTTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTC-TCATTAGCCATTCGGCTTTACCACATATACAT
64641482 ATCTCATACATATTTCAT-ATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTC-TCATTAGCCATTCGGCTTTACCACATATACAT
* * *
64641530 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATAT
1 ATCTCATACATATTTCTCATTAGCCATTCGGCTTTACCACATATACAT
64641578 AT
1 AT
64641580 TTATCTTGTA
Statistics
Matches: 263, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
48 262 1.00
49 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCTCATTAGCCATTCGGCTTTACCACATATACAT
Found at i:64641366 original size:96 final size:96
Alignment explanation
Indices: 64641242--64641579 Score: 525
Period size: 96 Copynumber: 3.5 Consensus size: 96
64641232 ATATACACAC
* * * *
64641242 ATCTCCTACATATTGC-TCATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTC
1 ATCTCATACATATTTCAT-ATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
* *
64641306 ATGTTAGCCATTCGGCTTTACCACATATACGT
65 ATATTAGCCATTCGGCTTTACCACATATACAT
*
64641338 ATCTCATACATATTTCATATTACCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
64641403 CAATAGCCATTCGGCTTTACCACATATATAT
66 TATTAGCCATTCGGCTTTACCACATATACAT
* *
64641434 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
64641499 TATTAGCCATTCGGCTTTACCACATATACAT
66 TATTAGCCATTCGGCTTTACCACATATACAT
* * *
64641530 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATATAT
1 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATAT
64641580 TTATCTTGTA
Statistics
Matches: 220, Mismatches: 21, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
96 219 1.00
97 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (96 bp):
ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
TATTAGCCATTCGGCTTTACCACATATACAT
Found at i:64641416 original size:144 final size:144
Alignment explanation
Indices: 64641242--64641579 Score: 613
Period size: 144 Copynumber: 2.3 Consensus size: 144
64641232 ATATACACAC
* * * *
64641242 ATCTCCTACATATTGCTCATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCA
64641307 TGTTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCATATTACCCATTCGGCTT
66 TGTTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCATATTACCCATTCGGCTT
64641372 TACCACATATACAT
131 TACCACATATACAT
*
64641386 ATCTCATACATATTTCACAATAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCA
*
64641451 TGTTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCATATTAGCCATTCGGCTT
66 TGTTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCATATTACCCATTCGGCTT
64641516 TACCACATATACAT
131 TACCACATATACAT
*
64641530 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATAT
64641580 TTATCTTGTA
Statistics
Matches: 186, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
144 186 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (144 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCA
TGTTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCATATTACCCATTCGGCTT
TACCACATATACAT
Found at i:64644944 original size:21 final size:21
Alignment explanation
Indices: 64644869--64644934 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
64644859 GTCTTGAATT
64644869 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
64644890 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
64644915 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
64644935 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:64646227 original size:28 final size:27
Alignment explanation
Indices: 64646191--64646246 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 27
64646181 CAATATATGT
64646191 AAAAAAATTTAAAGTATAAATTTATTA
1 AAAAAAATTTAAAGTATAAATTTATTA
*
64646218 AAAAACAATTTAAAGTATATATTTATTA
1 AAAAA-AATTTAAAGTATAAATTTATTA
64646246 A
1 A
64646247 TATATATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (27 bp):
AAAAAAATTTAAAGTATAAATTTATTA
Found at i:64646259 original size:18 final size:18
Alignment explanation
Indices: 64646233--64646274 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
64646223 CAATTTAAAG
*
64646233 TATATATTTATTAATATA
1 TATAAATTTATTAATATA
64646251 TATAAATTTATTAATATA
1 TATAAATTTATTAATATA
*
64646269 TGTAAA
1 TATAAA
64646275 AACAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TATAAATTTATTAATATA
Found at i:64646375 original size:19 final size:19
Alignment explanation
Indices: 64646351--64646388 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64646341 ATCCAAACAC
*
64646351 TAGAAAAGTAAATCATTTT
1 TAGAAAAGAAAATCATTTT
64646370 TAGAAAAGAAAATCATTTT
1 TAGAAAAGAAAATCATTTT
64646389 CCAGAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (19 bp):
TAGAAAAGAAAATCATTTT
Found at i:64647133 original size:179 final size:179
Alignment explanation
Indices: 64646798--64647133 Score: 489
Period size: 179 Copynumber: 1.9 Consensus size: 179
64646788 TCAAGAGTTC
* * *
64646798 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAAATGTCGAATAGTGAAATAGAGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTCGGAAATATCGAATAGTGAAATAGAGGTAT
* * *
64646863 CTTTAATGAATAAACTGTACTAATTGGCTAAACTAAAATTCTAAAAATTTTATGGTAAGAATATA
66 ATTTAATGAATAAACTGTACTAATTGGCTAAACAAAAATTCTAAAAATTTTATGGTAAGAAGATA
* * *
64646928 TGTGAGTCTAGTTTCTGGTAAAAATTAGTGGTTCTCAATTTGAAGTCGT
131 TATGAGTCTAATTTCTGATAAAAATTAGTGGTTCTCAATTTGAAGTCGT
* * *
64646977 TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTTGGAACTATC-AGATAGTGAAATAGGGGTA
1 TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTCGGAAATATCGA-ATAGTGAAATAGAGGTA
* *
64647041 TATTTAATGAATAAACTGTATTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAGA
65 TATTTAATGAATAAACTGTACTAATTGGCTAAA-CAAAAATTCTAAAAATTTTATGGTAAGAAGA
*
64647106 TATATGAGTGTAATTT-T-ATATAAAATTA
129 TATATGAGTCTAATTTCTGATA-AAAATTA
64647134 ACGAATATTA
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
178 3 0.02
179 95 0.68
180 41 0.29
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (179 bp):
TACCATGAAATAAATAATTTTTAGTGAAAAGAGGTCGGAAATATCGAATAGTGAAATAGAGGTAT
ATTTAATGAATAAACTGTACTAATTGGCTAAACAAAAATTCTAAAAATTTTATGGTAAGAAGATA
TATGAGTCTAATTTCTGATAAAAATTAGTGGTTCTCAATTTGAAGTCGT
Found at i:64649471 original size:15 final size:14
Alignment explanation
Indices: 64649451--64649495 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
64649441 TATGATACTG
64649451 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
64649465 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
64649480 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
64649495 T
1 T
64649496 GTTATCTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:64652095 original size:18 final size:20
Alignment explanation
Indices: 64652059--64652105 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
64652049 AGTTGTAAGT
64652059 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
64652079 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
64652098 ATGATATA
1 AT-ATATA
64652106 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:64652577 original size:50 final size:50
Alignment explanation
Indices: 64652458--64652843 Score: 253
Period size: 50 Copynumber: 7.6 Consensus size: 50
64652448 GTTGTGAGAA
* *
64652458 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACA-GTT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGGTTGTTAGGT
* * * * *
64652510 CACGTGTGAAGTGCTAAGTGTAGGCTACTACGTGTACCAGGTTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
* * ** * * * *
64652560 CGCATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAGTTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTG-TT-AGGT
* * ** * *
64652611 CACGTGTGTACTACTAAGTGCAGGCTACTACATGTA-CTGGATTGGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGG-TTGTTAGGT
* * * * * * *
64652661 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGCACC-CGTTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTT--GTTAGGT
* * * * * * *
64652712 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
** * * * * *
64652762 CATGTGTGTAGTAATAAGTACAGACTACTATGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
*
64652812 CACATGTGTAGTACTAAAG-CCAGGCTACTATG
1 CACATGTGTAGTACT-AAGTGCAGGCTACTATG
64652844 CATACCAGAG
Statistics
Matches: 253, Mismatches: 70, Indels: 24
0.73 0.20 0.07
Matches are distributed among these distances:
48 2 0.01
49 7 0.03
50 142 0.56
51 72 0.28
52 30 0.12
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGGTTGTTAGGT
Found at i:64652636 original size:51 final size:50
Alignment explanation
Indices: 64652564--64652741 Score: 164
Period size: 51 Copynumber: 3.5 Consensus size: 50
64652554 TTAGGTCGCA
*
64652564 TGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGATAGTTTCAATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAG-TTCAATCACG
* ** * * * * *
64652615 TGTGTACTACTAAGTGCAGGCTACTA--CATGTACTGGATTGGT-AGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCA--TACCCGATAGTTCA-ATCACG
** * * *
64652665 TGTGTAGTACTAAGTGCAGGCTACTATGCGCACCCGTTAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAT-AGTTCAATCACG
64652716 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
64652742 CGTGTATCAG
Statistics
Matches: 98, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
49 3 0.03
50 33 0.34
51 61 0.62
52 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGTTCAATCACG
Found at i:64652660 original size:101 final size:101
Alignment explanation
Indices: 64652509--64652747 Score: 336
Period size: 101 Copynumber: 2.4 Consensus size: 101
64652499 CAGTTTTAGG
* * * *
64652509 TCACGTGTGAAGTGCTAAGTGTAGGCTACTACGTGTACCAGGTTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTTGGTAGGTCGCATGTGTAGTAC
* * **
64652574 TAAGTGTAGGCTACTATGCATACCCGATAGTTTCAA
66 TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
* * *
64652610 TCACGTGTGTACTACTAAGTGCAGGCTACTACATGTA-CTGGATTGGTAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGG-TTGGTAGGTCGCATGTGTAGTA
* * *
64652674 CTAAGTGCAGGCTACTATGCGCACCCGTTAACTTCGA
65 CTAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
64652711 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA
64652748 TCAGATGGAT
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 3 0.02
101 118 0.98
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTTGGTAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
Found at i:64652770 original size:101 final size:99
Alignment explanation
Indices: 64652509--64652793 Score: 318
Period size: 101 Copynumber: 2.8 Consensus size: 99
64652499 CAGTTTTAGG
* * * * *
64652509 TCACGTGTGAAGTGCTAAGTGTAGGCTACTACGTGTACCAGGTTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CA-GATGGTAGGTCGCATGTGTAGTAC
* * **
64652574 TAAGTGTAGGCTACTATGCATACCCGATAGTTTCAA
64 TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
* * *
64652610 TCACGTGTGTACTACTAAGTGCAGGCTACTACATGTACTGGATTGGTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AGA-TGGTAGGTCGCATGTGTAGTAC
* * *
64652675 TAAGTGCAGGCTACTATGCGCACCCGTTAACTTCGA
64 TAAGTGCAGGCTACTATGCACACCCGATAACTTCAA
* *** *
64652711 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCATGTGTGTAGTAA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGATGG-TAGGTCGCATGTGTAGTAC
* *
64652776 TAAGTACAGACTACTATG
64 TAAGTGCAGGCTACTATG
64652794 TGTACCAGAT
Statistics
Matches: 155, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
100 5 0.03
101 149 0.96
102 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGATGGTAGGTCGCATGTGTAGTACTA
AGTGCAGGCTACTATGCACACCCGATAACTTCAA
Found at i:64653073 original size:16 final size:16
Alignment explanation
Indices: 64653052--64653083 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64653042 AGAATGGAGT
64653052 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
64653068 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
64653084 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:64658136 original size:23 final size:23
Alignment explanation
Indices: 64658082--64658162 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
64658072 CTGAGCTGAT
64658082 AAACGGTAAGCTCCAAAGAGCTG
1 AAACGGTAAGCTCCAAAGAGCTG
* ***
64658105 -AACGATAAGCTCCGTGGAGCTG
1 AAACGGTAAGCTCCAAAGAGCTG
*
64658127 AAACGGTAAGCCCCAAAGAGCTG
1 AAACGGTAAGCTCCAAAGAGCTG
*
64658150 AAATGGTAAGCTC
1 AAACGGTAAGCTC
64658163 ATACGAGCTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 18 0.39
23 28 0.61
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (23 bp):
AAACGGTAAGCTCCAAAGAGCTG
Found at i:64663113 original size:40 final size:40
Alignment explanation
Indices: 64663065--64663332 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
64663055 GCAAACACCT
* * *
64663065 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
64663105 TTGCCTTCGGGTCTTAGCCTGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
64663145 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64663185 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
64663225 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
64663265 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
64663305 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
64663333 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:64665832 original size:47 final size:47
Alignment explanation
Indices: 64665763--64665983 Score: 204
Period size: 47 Copynumber: 4.7 Consensus size: 47
64665753 TAAGGTGCCA
* * *
64665763 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTTAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCG
*
64665810 ATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCCCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-ATCTCA-AGCCG
* * * *
64665858 AT-TCATGTCCCAGACAT-GTCTTACACTGGCAT-ACATCTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCATATCTC-AAGCCG
* * * * *
64665904 ATG-AATGTCCCAAACAT-GTCTTACACTAGCTCTTGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAA-GCCG
* *
64665950 ATGCCATATCCCAGACATGGTCTTATACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
64665984 TCGTAATGTG
Statistics
Matches: 143, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.01
46 58 0.41
47 63 0.44
48 20 0.14
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCG
Found at i:64665904 original size:46 final size:46
Alignment explanation
Indices: 64665808--64665930 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
64665798 TATCTTAAGT
64665808 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCCCATAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCCCATAGC
* * * *
64665856 CGATTCATGTCCCAGACATGTCTTACACTGGC-ATACATCTCGA-GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATC-CCATAGC
* *
64665902 CGATGAATGTCCCAAACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
64665931 AGCTCTTGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 2 0.03
46 44 0.67
47 16 0.24
48 4 0.06
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTATCATCCCATAGC
Found at i:64666020 original size:140 final size:140
Alignment explanation
Indices: 64665768--64666027 Score: 344
Period size: 140 Copynumber: 1.9 Consensus size: 140
64665758 TGCCAATGCC
* * *
64665768 ATGTCCCAGACACGGTCTTACACTAGCTCATATCTTAAGTCGATGCCATGTCCCAGACATGGTCT
1 ATGTCCCAAACACGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATATCCCAGACATGGTCT
** * *
64665833 TACACTGACTATCATCCCATAGCCGATTCATGTCCCAGACATGTCTTACACTGGCATACATCTCG
66 TACACTGACTATCATAACATAGCCGATACATGCCCCAGACATGTCTTACACTGGCATACATCTCG
64665898 AGGCCGATGA
131 AGGCCGATGA
* * *
64665908 ATGTCCCAAACA-TGTCTTACACTAGCTCTTGTCTCAATGTCGATGCCATATCCCAGACATGGTC
1 ATGTCCCAAACACGGTCTTACACTAGCTCATATCTCAA-GTCGATGCCATATCCCAGACATGGTC
* * * ** *
64665972 TTATACT-AGCTCTCGTAATGTGGCCGATACATGCCCCAGACATGTCTTACACTGGC
65 TTACACTGA-CTATCATAACATAGCCGATACATGCCCCAGACATGTCTTACACTGGC
64666028 TCACACAAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
139 22 0.22
140 80 0.78
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (140 bp):
ATGTCCCAAACACGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATATCCCAGACATGGTCT
TACACTGACTATCATAACATAGCCGATACATGCCCCAGACATGTCTTACACTGGCATACATCTCG
AGGCCGATGA
Found at i:64676180 original size:47 final size:47
Alignment explanation
Indices: 64676129--64676322 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
64676119 TTAGGATTTT
* ** * *
64676129 ATGTGATCAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
64676176 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
64676223 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
64676270 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
64676317 ATGTGA
1 ATGTGA
64676323 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:64676229 original size:22 final size:22
Alignment explanation
Indices: 64676158--64676229 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
64676148 GTATATATGA
64676158 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
64676180 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
64676205 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
64676227 GAT
1 GAT
64676230 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:64676278 original size:25 final size:25
Alignment explanation
Indices: 64676203--64676278 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
64676193 ATGCATATAT
64676203 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
64676228 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
64676250 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
64676275 GTGA
1 GTGA
64676279 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:64676451 original size:98 final size:96
Alignment explanation
Indices: 64676293--64676476 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
64676283 GAACATGCAT
*
64676293 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
64676358 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
64676389 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
64676453 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
64676477 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:64676492 original size:50 final size:48
Alignment explanation
Indices: 64676292--64676476 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
64676282 TGAACATGCA
64676292 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
64676340 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
64676388 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
64676438 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
64676477 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:64676723 original size:37 final size:37
Alignment explanation
Indices: 64676604--64676722 Score: 193
Period size: 37 Copynumber: 3.2 Consensus size: 37
64676594 ACATGAAACT
64676604 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* *
64676641 TGGGGAGTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* * *
64676678 TGGAGATTTTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
64676715 TGGAGATT
1 TGGAGATT
64676723 TCGTCTGAGC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 75 1.00
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:64677738 original size:46 final size:46
Alignment explanation
Indices: 64677564--64677783 Score: 198
Period size: 46 Copynumber: 4.7 Consensus size: 46
64677554 GTGCCAATGC
**
64677564 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAAATTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTC-TCATCTCAAGCTGATG
* * *
64677610 CCATGTCCTAGACATGGTCTTACACT-GACTATCATCTCATAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTCA-AGCTGATG
* * * * *
64677658 CATGTCCTAGACAT-GTCTTACACTGGCAT-ACGTCTTAAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGC-TCTCATCTCAA-GCTGATG
* * *
64677704 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATACCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAA-GCTGATG
* * *
64677750 CATATCCCAAACATGGTCTTATACTAGCTCTCAT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCAT
64677784 AATGTGGTCG
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 73 0.50
47 65 0.45
48 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGCTGATG
Found at i:64677764 original size:139 final size:140
Alignment explanation
Indices: 64677564--64677823 Score: 323
Period size: 139 Copynumber: 1.9 Consensus size: 140
64677554 GTGCCAATGC
** * * *
64677564 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAATTGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAACCGATGCCATATCCCAAACATGGTC
* *
64677629 TTACACT-GACTATCAT-CTCATAGCCGATGCATGTCCTAGACATGTCTTACACTGGCATACGTC
66 TTACACTAG-CTATCATAAT-ATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCATACGTC
64677692 TTAAGGCTGATG
129 TTAAGGCTGATG
*
64677704 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAATACCGATG-CATATCCCAAACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-ACCGATGCCATATCCCAAACATGG
* * * * * *
64677766 TCTTATACTAGCTCTCATAATGTGGTCGATGCATGTCCCAGGCATGTCTTACACTGGC
64 TCTTACACTAGCTATCATAATATAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
64677824 TCACGCAAGT
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
138 1 0.01
139 80 0.78
140 21 0.21
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAACCGATGCCATATCCCAAACATGGTC
TTACACTAGCTATCATAATATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCATACGTCTT
AAGGCTGATG
Found at i:64677769 original size:93 final size:90
Alignment explanation
Indices: 64677605--64677821 Score: 224
Period size: 93 Copynumber: 2.3 Consensus size: 90
64677595 TATCTCAAAT
* * * * *
64677605 TGATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTCATAGCCGATGCATGTCCTAGAC
1 TGATG-CATGTCCCAGACAT-GTCTTACACTG-CTCTCATCTCATAGCCGATGCATATCCCAAAC
* *
64677670 ATGTCTTACACTGGCATACGTCTTAA-G-GC
63 ATGTCTTACACTAGC-T-C-TCATAATGTGC
*
64677699 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATA-CCGATGCATATCCCAAACA
1 TGATGCATGTCCCAGACATGTCTTACACT-GCTCTCATCTC-ATAGCCGATGCATATCCCAAACA
* *
64677763 TGGTCTTATACTAGCTCTCATAATGTGG
64 T-GTCTTACACTAGCTCTCATAATGTGC
*
64677791 TCGATGCATGTCCCAGGCATGTCTTACACTG
1 T-GATGCATGTCCCAGACATGTCTTACACTG
64677822 GCTCACGCAA
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
90 5 0.05
91 2 0.02
92 39 0.37
93 55 0.52
94 5 0.05
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (90 bp):
TGATGCATGTCCCAGACATGTCTTACACTGCTCTCATCTCATAGCCGATGCATATCCCAAACATG
TCTTACACTAGCTCTCATAATGTGC
Found at i:64678179 original size:27 final size:27
Alignment explanation
Indices: 64678125--64678180 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
64678115 AGACAAATTG
** *
64678125 TTGCAACTTGCTGTCATCTTTCTGAGC
1 TTGCAACTCACTGTCATCTTTCTAAGC
*
64678152 TTGCAACTCACTGTCATCTTTTTAAGC
1 TTGCAACTCACTGTCATCTTTCTAAGC
64678179 TT
1 TT
64678181 CACAGATTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (27 bp):
TTGCAACTCACTGTCATCTTTCTAAGC
Found at i:64681216 original size:31 final size:32
Alignment explanation
Indices: 64681181--64681244 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
64681171 ACTTGGTAAG
*
64681181 TTTACTTTCTGATTA-TTGAGCTTACTAAGCA
1 TTTACTTTCCGATTATTTGAGCTTACTAAGCA
64681212 TTTACTTTCCGATTATTTGAGCTTACTAAGCA
1 TTTACTTTCCGATTATTTGAGCTTACTAAGCA
64681244 T
1 T
64681245 GTAAATGCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.45
Consensus pattern (32 bp):
TTTACTTTCCGATTATTTGAGCTTACTAAGCA
Found at i:64683824 original size:29 final size:29
Alignment explanation
Indices: 64683790--64683847 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
64683780 TTTTGAGTGA
64683790 GACATTAAGTTCTTTGTTTAACCATGACC
1 GACATTAAGTTCTTTGTTTAACCATGACC
64683819 GACATTAAGTTCTTTGTTTAACCATGACC
1 GACATTAAGTTCTTTGTTTAACCATGACC
64683848 AAAATTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (29 bp):
GACATTAAGTTCTTTGTTTAACCATGACC
Found at i:64684944 original size:40 final size:40
Alignment explanation
Indices: 64684749--64684937 Score: 272
Period size: 40 Copynumber: 4.7 Consensus size: 40
64684739 ATGATAACCA
*
64684749 GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
64684789 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
64684829 GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
* *
64684869 GGCTAAGTCCCGAAGGCATTGGTGGGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
* * * *
64684909 GGCTACGCCCCGAAGGCATTCGAGCGAGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGT
64684938 AGCTATATCC
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:64692640 original size:40 final size:40
Alignment explanation
Indices: 64692442--64692633 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
64692432 CGGATGATAA
*
64692442 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
64692482 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * *
64692522 CCAGGCTGAGTCTCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
64692562 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* * *
64692602 CCGGGCTATGCCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64692634 AGCTATATCC
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 133 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:64696729 original size:23 final size:22
Alignment explanation
Indices: 64696669--64696745 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
64696659 GAGCTATGAT
64696669 CGGTAAGCTCCG-AGAGCTAAA
1 CGGTAAGCTCCGAAGAGCTAAA
*
64696690 CGGTAAGCTCCGTAGAGCTAAA
1 CGGTAAGCTCCGAAGAGCTAAA
*
64696712 GTGGTAAGC-CTCGAAGAGCTGAAA
1 -CGGTAAGCTC-CGAAGAGCT-AAA
*
64696736 CGGTATGCTC
1 CGGTAAGCTC
64696746 ATACGAGCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 12 0.26
22 10 0.21
23 21 0.45
24 4 0.09
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (22 bp):
CGGTAAGCTCCGAAGAGCTAAA
Found at i:64702576 original size:27 final size:27
Alignment explanation
Indices: 64702542--64702679 Score: 163
Period size: 27 Copynumber: 5.1 Consensus size: 27
64702532 TGGATAAGTT
64702542 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGTAAG
* *
64702569 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCCTGTAAG
* *
64702596 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAAG
* *
64702623 GTAGAATTACCGAGATA-CCCTGT-AG
1 GTAGAATTATCGAAATACCCCTGTAAG
* * **
64702648 GATAGAATTACCGAAATATCGTTGTAAG
1 G-TAGAATTATCGAAATACCCCTGTAAG
64702676 GTAG
1 GTAG
64702680 GACAAACGAT
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
25 2 0.02
26 21 0.22
27 71 0.73
28 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAAG
Found at i:64702653 original size:26 final size:27
Alignment explanation
Indices: 64702542--64702665 Score: 178
Period size: 27 Copynumber: 4.6 Consensus size: 27
64702532 TGGATAAGTT
*
64702542 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTATCGAAATACCCCTGTAGG
*
64702569 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
*
64702596 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* *
64702623 GTAGAATTACCGAGATA-CCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* *
64702649 ATAGAATTACCGAAATA
1 GTAGAATTATCGAAATA
64702666 TCGTTGTAAG
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 24 0.27
27 64 0.73
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAGG
Found at i:64703375 original size:27 final size:26
Alignment explanation
Indices: 64703335--64703386 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
64703325 CTCACTACAA
*
64703335 TCTGGTGGCCTCGTCACATATATCTGT
1 TCTGGTGACCTCGTCACA-ATATCTGT
*
64703362 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGTCACAATATCTG
64703387 GCAGCCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTGT
Found at i:64712785 original size:68 final size:68
Alignment explanation
Indices: 64712638--64712792 Score: 156
Period size: 68 Copynumber: 2.2 Consensus size: 68
64712628 AGCCGATTTG
* * * * *
64712638 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
64712703 TATC
65 TATA
* *
64712707 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
64712769 ATATAGTA
62 ATATA-TA
64712777 TCTCGTAGCT-TCTTGT
1 TCTCGTAGCTCTCTTGT
64712793 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
67 6 0.08
68 28 0.38
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:64728457 original size:48 final size:48
Alignment explanation
Indices: 64728386--64729109 Score: 1240
Period size: 48 Copynumber: 15.0 Consensus size: 48
64728376 AGATAAATAT
64728386 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
64728434 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
64728482 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
64728530 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
64728578 --ATGCATATGTGGTAAAGACGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
64728624 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTGTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
64728672 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
64728720 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
64728768 --ATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
64728816 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
64728864 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
64728912 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATTTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
*
64728962 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
64729010 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* *
64729060 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
64729108 AT
1 AT
64729110 GTGTGTATAT
Statistics
Matches: 646, Mismatches: 20, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
46 76 0.12
47 2 0.00
48 436 0.67
49 10 0.02
50 122 0.19
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:64728715 original size:190 final size:190
Alignment explanation
Indices: 64728392--64729109 Score: 1247
Period size: 190 Copynumber: 3.7 Consensus size: 190
64728382 ATATATATGT
*
64728392 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
64728457 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
64728522 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGC
131 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGC
* *
64728582 ATATGTGGTAAAGACGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
*
64728647 ATGGCTAATGTGAAATATGTGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
66 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
64728712 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGC
131 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGC
64728772 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGCC
*
64728837 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAA
64 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* * *
64728902 TATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATTTATGAGATATG
129 TATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG--ATG
*
64728967 T
190 C
64728968 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
* * *
64729033 ATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA
66 ATGGCTAATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
*
64729098 TATGTAGGAGAT
129 TATGTATGAGAT
64729110 GTGTGTATAT
Statistics
Matches: 504, Mismatches: 16, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
190 216 0.43
191 2 0.00
192 137 0.27
193 2 0.00
194 55 0.11
195 4 0.01
196 88 0.17
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (190 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
TGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATGC
Found at i:64729301 original size:37 final size:37
Alignment explanation
Indices: 64729250--64729352 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
64729240 GGAAATATAT
*
64729250 TCCGGGTAAAACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
64729287 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
64729324 CCCGGGTAAGATCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
64729353 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:64735426 original size:43 final size:46
Alignment explanation
Indices: 64735359--64735481 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 46
64735349 ACATGGCTTT
* ** *
64735359 GGCATCGATATGTAATTTCGTGTAAGACCATAACTAGG-C-T-ATC
1 GGCATCGATATGTGATCCCATGTAAGACCATAACTAGGACATGATC
** *
64735402 GGCATCGATATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATAACTAGGACAT-G-ATC
*
64735450 GGCATCGATATGTGATCCTATGTAAGACCATA
1 GGCATCGATATGTGATCCCATGTAAGACCATA
64735482 TCCAAGATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
43 32 0.48
44 1 0.02
45 1 0.02
48 32 0.48
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
GGCATCGATATGTGATCCCATGTAAGACCATAACTAGGACATGATC
Found at i:64735465 original size:48 final size:47
Alignment explanation
Indices: 64735324--64735480 Score: 162
Period size: 48 Copynumber: 3.4 Consensus size: 47
64735314 GGTTATGTGC
* * *
64735324 GATCCCATGTAAGATCATGCTTGGGACATGGCTTTGGCATCGATATGT
1 GATCCCATGTAAGACCATGC-TAGGACATGGCATTGGCATCGATATGT
* ** * * *
64735372 AATTTCGTGTAAGACCATAACTAGG-C-T---ATCGGCATCGATATGT
1 GATCCCATGTAAGACCAT-GCTAGGACATGGCATTGGCATCGATATGT
64735415 GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATG-CTAGGACATGGCATTGGCATCGATATGT
*
64735463 GATCCTATGTAAGACCAT
1 GATCCCATGTAAGACCAT
64735481 ATCCAAGATT
Statistics
Matches: 86, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
43 33 0.38
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 48 0.56
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (47 bp):
GATCCCATGTAAGACCATGCTAGGACATGGCATTGGCATCGATATGT
Found at i:64735500 original size:48 final size:48
Alignment explanation
Indices: 64735402--64735503 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
64735392 CTAGGCTATC
* * * *
64735402 GGCATCGATATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCCAAGACATGACATT
* ** *
64735450 GGCATCGATATGTGATCCTATGTAAGACCATATCCAAGATTTGACTTT
1 GGCATCGATATGTGATCCCATGTAAGACCATATCCAAGACATGACATT
64735498 GGCATC
1 GGCATC
64735504 CTACCATGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
GGCATCGATATGTGATCCCATGTAAGACCATATCCAAGACATGACATT
Found at i:64735734 original size:54 final size:54
Alignment explanation
Indices: 64735661--64735769 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
64735651 TGAATCAATG
64735661 AGACCTTGGAAGAAATGAATGAATGAATTATGATAATGAGTTTTATTATACATT
1 AGACCTTGGAAGAAATGAATGAATGAATTATGATAATGAGTTTTATTATACATT
* *
64735715 AGACCTTGGAAGAAGTGAATGAATGAATTATGATAATGAGTTTTATTGTACATT
1 AGACCTTGGAAGAAATGAATGAATGAATTATGATAATGAGTTTTATTATACATT
64735769 A
1 A
64735770 TGTAAATGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (54 bp):
AGACCTTGGAAGAAATGAATGAATGAATTATGATAATGAGTTTTATTATACATT
Found at i:64739435 original size:24 final size:24
Alignment explanation
Indices: 64739369--64739436 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
64739359 GGACTCACTA
*
64739369 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTC-TATGAGCTTA-CTATATAT
* *
64739395 CAGCTCTAAGAGCTTACTAT-TCT
1 CAGCTCTATGAGCTTACTATATAT
64739418 CAGCTCTTATGAGCTTACT
1 CAGCTC-TATGAGCTTACT
64739437 GTCCATCAGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.22
24 14 0.38
25 9 0.24
26 6 0.16
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (24 bp):
CAGCTCTATGAGCTTACTATATAT
Found at i:64747303 original size:65 final size:64
Alignment explanation
Indices: 64747192--64747316 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 64
64747182 CAGTATGCTC
*
64747192 TACACGGCCTCACACACGGGCGTGTGATCGGCCATGTGGTACAAGTCAGTATATCCCCTCAATGG
1 TACACGGCCTCACACACGGGCGTGTGATCGACCATGTGGTACAAGTCAGTATA-CCCCTCAATGG
* * * *
64747257 TACACGGCCT-AGCACATGGGCGTGTGACTCGACCGTGTTG-ATAAGTCAGTATACCCCTCA
1 TACACGGCCTCA-CACACGGGCGTGTGA-TCGACCATGTGGTACAAGTCAGTATACCCCTCA
64747317 GTTCTCACAT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 8 0.15
65 36 0.68
66 9 0.17
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (64 bp):
TACACGGCCTCACACACGGGCGTGTGATCGACCATGTGGTACAAGTCAGTATACCCCTCAATGG
Found at i:64755336 original size:40 final size:40
Alignment explanation
Indices: 64755281--64755490 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
64755271 TATTCGGATG
64755281 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
64755321 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
64755364 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
64755404 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
64755444 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
64755484 ATATCCG
1 ATATCCG
64755491 ATTAAATCTC
Statistics
Matches: 152, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 114 0.75
41 1 0.01
43 37 0.24
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:64755424 original size:83 final size:80
Alignment explanation
Indices: 64755285--64755490 Score: 281
Period size: 83 Copynumber: 2.5 Consensus size: 80
64755275 CGGATGATAT
* **
64755285 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
64755350 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
64755368 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
64755433 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
** *
64755448 CCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTG-CTATATCCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCG
64755491 ATTAAATCTC
Statistics
Matches: 113, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
79 2 0.02
80 45 0.40
81 2 0.02
83 64 0.57
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:64759071 original size:40 final size:40
Alignment explanation
Indices: 64758974--64759158 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
64758964 TTGAATGATG
* * * *
64758974 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
64759014 TCCAGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
64759054 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
64759094 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64759134 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64759159 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 81 0.66
41 7 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64776391 original size:39 final size:39
Alignment explanation
Indices: 64776293--64776512 Score: 234
Period size: 38 Copynumber: 5.6 Consensus size: 39
64776283 TTGAATGATG
* * * *
64776293 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
64776333 TCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64776373 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
64776411 TTCGGGCTAAGCCCGAAGGCATTT-TGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
64776449 TCCGGGTTAAGTCCCAAGGCA-ATGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64776488 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
64776513 AACGAGTAGC
Statistics
Matches: 150, Mismatches: 23, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
37 11 0.07
38 63 0.42
39 34 0.23
40 34 0.23
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64782166 original size:43 final size:43
Alignment explanation
Indices: 64782118--64782227 Score: 193
Period size: 43 Copynumber: 2.6 Consensus size: 43
64782108 CCGGCATTAC
*
64782118 GCCTGCTAGGTACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
64782161 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
64782204 GCCTACTAGGCAGGAAGGCCCGAA
1 GCCTGCTAGGCACGAAGGCCCGAA
64782228 ACTAATACCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.30, C:0.33, G:0.27, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:64782287 original size:38 final size:38
Alignment explanation
Indices: 64782230--64782322 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
64782220 GGCCCGAAAC
* * * *
64782230 TAATACCAGCACTAGGCCTGCTGGATTTATCCCGGATA
1 TAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATA
64782268 TAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATA
1 TAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATA
**
64782306 TTTTACCAGCACGAAGC
1 TAATACCAGCACGAAGC
64782323 TTGTGGGTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (38 bp):
TAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATA
Found at i:64785260 original size:44 final size:44
Alignment explanation
Indices: 64785195--64785278 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
64785185 TTGGTATCTC
* *
64785195 AAAGTCCATGGTTGTACCATGGCAATTAAAGAAGAATTGATGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGATGGA
* * *
64785239 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGCAATTAAAGAAGAATTGA
64785279 CGGTTAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAAGAAGAATTGATGGA
Found at i:64785403 original size:47 final size:45
Alignment explanation
Indices: 64785281--64785395 Score: 142
Period size: 45 Copynumber: 2.5 Consensus size: 45
64785271 GGAATTGACG
* * *
64785281 GTTAAGGACACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
1 GTTAAGGACTCCATGTAAGACCATGTCAAGACATGGCATCGGCAA
** *
64785326 GGCAAGGA-TCCAGTGTAAGACCATGTCAAGACATGGCATCGGCATT
1 GTTAAGGACTCCA-TGTAAGACCATGTCAAGACATGGCATCGGCA-A
64785372 GATTAAGGACTCCATGTAAGACCA
1 G-TTAAGGACTCCATGTAAGACCA
64785396 CATCAAGATG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 3 0.05
45 35 0.60
46 1 0.02
47 15 0.26
48 4 0.07
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (45 bp):
GTTAAGGACTCCATGTAAGACCATGTCAAGACATGGCATCGGCAA
Found at i:64785536 original size:47 final size:47
Alignment explanation
Indices: 64785418--64785539 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
64785408 GAACTGGCAC
* *
64785418 TAAGACAAGGATACCATGTAAGACAATGTTTGGAACTTGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
*
64785465 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
64785512 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
64785540 CCAAGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:64785582 original size:54 final size:54
Alignment explanation
Indices: 64785518--64785727 Score: 217
Period size: 53 Copynumber: 3.9 Consensus size: 54
64785508 TTGGTAAGAT
* * * *
64785518 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCAACAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCAATAAGGC
* * * * * * *
64785572 AAGGAAATCATGTAAGACCATGTCAAAAAATGGCATTGATTAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTT-CAATAAGGC
* * * *
64785627 AAAGG-TCCCATGTAAGACCATGGCAAGACATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCAATAAGGC
* * * *
64785680 AATGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTCAA
1 AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCAA
64785728 AAAAGAAAAG
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.02
53 43 0.33
54 41 0.32
55 39 0.30
56 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCAATAAGGC
Found at i:64785647 original size:55 final size:53
Alignment explanation
Indices: 64785521--64785701 Score: 164
Period size: 55 Copynumber: 3.4 Consensus size: 53
64785511 GTAAGATAAG
* * *** * * *
64785521 GATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCAACAAGGCAAG
1 GATACCATGTAAGACCATGGCAAAAAATGGCATTGATGAGTTC-ATAAGGCAAA
* * * *
64785575 GAAATCATGTAAGACCATGTCAAAAAATGGCATTGATTAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGGCAAAAAATGGCATTGATGAGTT-C-ATAAGGCAAA
* * * * * *
64785630 GGTCCCATGTAAGACCATGGCAAGACATGGCATTGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGGCAAAAAATGGCATTGATGAGTTCATAAGGCAAA
*
64785683 GATACCACGTAAGACCATG
1 GATACCATGTAAGACCATG
64785702 ACAAGACATG
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 25 0.24
54 37 0.36
55 42 0.40
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGGCAAAAAATGGCATTGATGAGTTCATAAGGCAAA
Found at i:64792224 original size:40 final size:40
Alignment explanation
Indices: 64792180--64792327 Score: 260
Period size: 40 Copynumber: 3.7 Consensus size: 40
64792170 GCAAACACAT
* *
64792180 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
64792220 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
* *
64792260 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
64792300 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
64792328 TCCAATGCTC
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
Found at i:64799886 original size:40 final size:40
Alignment explanation
Indices: 64799808--64799930 Score: 223
Period size: 40 Copynumber: 3.1 Consensus size: 40
64799798 GCAAACACAT
*
64799808 TTGCCTTCGGGTCTTAACCCGGA-ATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
64799847 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
64799887 TTGCCTTCGGGTCTTAGCCCGGATATATCAAC-TGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
64799926 TTGCC
1 TTGCC
64799931 CGGATATATC
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
39 34 0.41
40 48 0.59
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
Found at i:64799937 original size:25 final size:26
Alignment explanation
Indices: 64799903--64799956 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
64799893 TCGGGTCTTA
64799903 GCCCGGATATATCAACT-GCATAATT
1 GCCCGGATATATCAACTCGCATAATT
64799928 GCCCGGATATATCAACTCGCATAATT
1 GCCCGGATATATCAACTCGCATAATT
64799954 GCC
1 GCC
64799957 TTCGGGTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (26 bp):
GCCCGGATATATCAACTCGCATAATT
Found at i:64800000 original size:38 final size:40
Alignment explanation
Indices: 64799928--64800017 Score: 157
Period size: 39 Copynumber: 2.3 Consensus size: 40
64799918 CTGCATAATT
64799928 GCCCGGATATATCAACTCGCATAATTGCCTTCGGGTC-TA
1 GCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTA
*
64799967 GCCCGGATATATCAACTCG-GTAATTGCCTTCGGGTCTTA
1 GCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTA
64800006 GCCCGGATATAT
1 GCCCGGATATAT
64800018 TCCAATGCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 16 0.33
39 33 0.67
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (40 bp):
GCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTA
Found at i:64802334 original size:27 final size:27
Alignment explanation
Indices: 64802296--64802363 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
64802286 GGCTGTCACA
*
64802296 GGCAGAGCCACCAGAACAGAT-ATATGT
1 GGCAAAGCCACCAGAACAGATAAT-TGT
*
64802323 GGCAAAGCCACCAGATCAGATAATTGT
1 GGCAAAGCCACCAGAACAGATAATTGT
*
64802350 GGCATAGCCACCAG
1 GGCAAAGCCACCAG
64802364 GACGCTTCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (27 bp):
GGCAAAGCCACCAGAACAGATAATTGT
Found at i:64802531 original size:28 final size:26
Alignment explanation
Indices: 64802469--64802531 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
64802459 AAAGTAACCC
** * *
64802469 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
64802495 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
64802523 TAGGGGTAT
1 TAGGGGTAT
64802532 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:64804403 original size:14 final size:15
Alignment explanation
Indices: 64804386--64804414 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64804376 ACTCATTTAA
64804386 GCATATA-TCACATT
1 GCATATATTCACATT
64804400 GCATATATTCACATT
1 GCATATATTCACATT
64804415 TTATGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (15 bp):
GCATATATTCACATT
Found at i:64818296 original size:19 final size:18
Alignment explanation
Indices: 64818250--64818297 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
64818240 CAAGATAAAC
*
64818250 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATACTTAAT
64818267 ATTAAGA-TAATCACTTAAT
1 ATTAA-ATTAAT-ACTTAAT
64818286 ATTAAATTAATA
1 ATTAAATTAATA
64818298 AATACTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 8 0.31
18 3 0.12
19 15 0.58
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATACTTAAT
Found at i:64832361 original size:42 final size:42
Alignment explanation
Indices: 64832301--64832466 Score: 206
Period size: 42 Copynumber: 4.0 Consensus size: 42
64832291 GAAATATTTG
* *
64832301 AGATAGCTTCGGCTATGCATTGGCACTTACTGTGCAAGATCG
1 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCAAGATCA
* * *
64832343 GGATAGCTTCGACTATGCATTGGCACTTAGTGTGCGAGATCA
1 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCAAGATCA
*** **
64832385 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGTGTGATTG
1 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCAAGATCA
* * * *
64832427 AGTTAGCTTCGGCTACGTATTGGCACTTAGTGTGCGAGAT
1 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCAAGAT
64832467 TCCCAAGTAA
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 108 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCAAGATCA
Found at i:64832449 original size:84 final size:84
Alignment explanation
Indices: 64832301--64832466 Score: 242
Period size: 84 Copynumber: 2.0 Consensus size: 84
64832291 GAAATATTTG
* *
64832301 AGATAGCTTCGGCTATGCATTGGCACTTACTGTGCAAGATCGGGATAGCTTCGACTATGCATTGG
1 AGATAGCTTCGGCTATGCATTGGCACTTACTGTGCAAGATCGAGATAGCTTCGACTACGCATTGG
64832366 CACTTAGTGTGCGAGATCA
66 CACTTAGTGTGCGAGATCA
* *** * * * *
64832385 AGATAGCTTCGGCTATGCATTGGCACTTAGTGTGTGTGATTGAGTTAGCTTCGGCTACGTATTGG
1 AGATAGCTTCGGCTATGCATTGGCACTTACTGTGCAAGATCGAGATAGCTTCGACTACGCATTGG
64832450 CACTTAGTGTGCGAGAT
66 CACTTAGTGTGCGAGAT
64832467 TCCCAAGTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (84 bp):
AGATAGCTTCGGCTATGCATTGGCACTTACTGTGCAAGATCGAGATAGCTTCGACTACGCATTGG
CACTTAGTGTGCGAGATCA
Found at i:64841532 original size:27 final size:26
Alignment explanation
Indices: 64841514--64841690 Score: 257
Period size: 27 Copynumber: 6.6 Consensus size: 26
64841504 ATATTAAGTC
* *
64841514 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
64841541 CGCACAC-TAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
64841567 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATA-TCAACT
64841594 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATA-TCAACT
64841621 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
*
64841649 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATA-TCAACT
64841676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64841691 GCACAATTTA
Statistics
Matches: 144, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
26 25 0.17
27 92 0.64
28 27 0.19
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:64841673 original size:82 final size:80
Alignment explanation
Indices: 64841514--64841690 Score: 291
Period size: 82 Copynumber: 2.2 Consensus size: 80
64841504 ATATTAAGTC
* *
64841514 CGCACACTCAGTGCTATATAATCAACTCGCACACTAGTGCTACATAATCAACTCGCACACTTAGT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTAGTGCTACATAATCAACTCGCACACTTAGT
64841579 GCTACATAGTCAACT
66 GCTACATAGTCAACT
* *
64841594 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACAC-TAGTGCTACATAATC-AACTCGCACACTTA
*
64841659 GTGCTACATAGTCAATT
64 GTGCTACATAGTCAACT
64841676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64841691 GCACAATTTA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 31 0.34
81 14 0.16
82 45 0.50
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (80 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTAGTGCTACATAATCAACTCGCACACTTAGT
GCTACATAGTCAACT
Found at i:64841679 original size:55 final size:54
Alignment explanation
Indices: 64841514--64841690 Score: 293
Period size: 55 Copynumber: 3.3 Consensus size: 54
64841504 ATATTAAGTC
* * * *
64841514 CGCACACTCAGTGCTATATAATCAACTCGCACAC-TAGTGCTACATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
64841567 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
64841621 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
64841676 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64841691 GCACAATTTA
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
53 31 0.26
54 41 0.35
55 45 0.38
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:64849718 original size:27 final size:27
Alignment explanation
Indices: 64849701--64849907 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
64849691 ATATTAAGTC
64849701 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
64849728 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
64849756 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
64849783 CGCACACTTAGTACTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
64849811 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
64849838 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
64849866 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
64849893 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
64849908 GCACAATTTA
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
27 91 0.54
28 78 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:64849785 original size:55 final size:55
Alignment explanation
Indices: 64849701--64849907 Score: 351
Period size: 55 Copynumber: 3.8 Consensus size: 55
64849691 ATATTAAGTC
* * * *
64849701 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
64849756 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTACTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
64849811 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
64849866 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
64849908 GCACAATTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 145 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:64853597 original size:42 final size:42
Alignment explanation
Indices: 64853551--64853634 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
64853541 ACGATGTCTG
*
64853551 TATCGATGCCATGTCCCAGAAATGGTCTTACACAAAATCACA
1 TATCGATGCCATATCCCAGAAATGGTCTTACACAAAATCACA
* **
64853593 TATCGATGCCATATCCCAGATATGGTCTTACATGAAATCACA
1 TATCGATGCCATATCCCAGAAATGGTCTTACACAAAATCACA
64853635 CATAACCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (42 bp):
TATCGATGCCATATCCCAGAAATGGTCTTACACAAAATCACA
Found at i:64859939 original size:26 final size:24
Alignment explanation
Indices: 64859896--64859947 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
64859886 TTATCTCATT
* *
64859896 ATATTTCTATTTTATAATTGTTTATA
1 ATATTTATATTATATAA-TG-TTATA
*
64859922 ATATTTATATTATGTAATGTTATA
1 ATATTTATATTATATAATGTTATA
64859946 AT
1 AT
64859948 TGTGATGATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 2 0.09
26 14 0.61
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATATTTATATTATATAATGTTATA
Found at i:64872410 original size:14 final size:15
Alignment explanation
Indices: 64872384--64872412 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64872374 ATTATCATAA
64872384 AATGTGAATATATGC
1 AATGTGAATATATGC
64872399 AATGTG-ATATATGC
1 AATGTGAATATATGC
64872413 TTAAATGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
AATGTGAATATATGC
Found at i:64874295 original size:28 final size:26
Alignment explanation
Indices: 64874264--64874327 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
64874254 AATTACTTGA
* **
64874264 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCATT
*
64874292 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
64874318 ATACCCCTAG
1 ATACCCCTAG
64874328 GGTTACTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.69
27 1 0.03
28 9 0.28
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:64874458 original size:26 final size:27
Alignment explanation
Indices: 64874429--64874489 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 27
64874419 AGGAAGCGTC
64874429 CTGGTGGCTATGCCACAT-TATCTGAT
1 CTGGTGGCTATGCCACATATATCTGAT
* *
64874455 CTGGTGGCTTTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACATATATCTGAT
64874482 CT-GTGGCT
1 CTGGTGGCT
64874490 CTGCTGTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:64876825 original size:40 final size:40
Alignment explanation
Indices: 64876766--64877073 Score: 508
Period size: 40 Copynumber: 7.7 Consensus size: 40
64876756 GAGCATTGGA
**
64876766 ATATATCCGGGCTAAGACCCGAAGGCAATTACACGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
64876806 ATATATCCGGGCTATGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64876846 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
64876886 ATATATCAGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64876926 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
64876966 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGCTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64877006 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
64877046 ATATATCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
64877074 ATGTGTTTGC
Statistics
Matches: 254, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 254 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:64878523 original size:27 final size:26
Alignment explanation
Indices: 64878495--64878610 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
64878485 TGGTGACTCA
* *
64878495 ATTATCTGATCTGGTGTCTCTCCCAC
1 ATTATCTGATCTGGTGGCTCTGCCAC
64878521 AATTATCTGATCTGGTGGCTCTGCCAC
1 -ATTATCTGATCTGGTGGCTCTGCCAC
*
64878548 ATATATCTGTTCTGGTGGCTCTGCCAC
1 AT-TATCTGATCTGGTGGCTCTGCCAC
* * *
64878575 GATTATCTATATCTGGTGACTCTGTCAC
1 -ATTATCT-GATCTGGTGGCTCTGCCAC
64878603 ATTATCTG
1 ATTATCTG
64878611 TTCCGGAAGC
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
26 2 0.03
27 59 0.76
28 17 0.22
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (26 bp):
ATTATCTGATCTGGTGGCTCTGCCAC
Found at i:64878563 original size:54 final size:54
Alignment explanation
Indices: 64878495--64878613 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
64878485 TGGTGACTCA
* * *
64878495 ATTATCTGATCTGGTGTCTCTCCCACAATTATCT-GATCTGGTGGCTCTGCCAC
1 ATTATCTGTTCTGGTGGCTCTCCCACAATTATCTAGATCTGGTGACTCTGCCAC
* * * *
64878548 ATATATCTGTTCTGGTGGCTCTGCCACGATTATCTATATCTGGTGACTCTGTCAC
1 AT-TATCTGTTCTGGTGGCTCTCCCACAATTATCTAGATCTGGTGACTCTGCCAC
64878603 ATTATCTGTTC
1 ATTATCTGTTC
64878614 CGGAAGCCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
53 2 0.04
54 37 0.65
55 18 0.32
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (54 bp):
ATTATCTGTTCTGGTGGCTCTCCCACAATTATCTAGATCTGGTGACTCTGCCAC
Found at i:64886461 original size:27 final size:25
Alignment explanation
Indices: 64886386--64886464 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 25
64886376 AGGAAGTGTC
* *
64886386 CTGGTGGCTATGCCACAATTAT-TGAT
1 CTGGTGGCTCTGCCA-TATTATCTG-T
64886412 CTGGTGGCTCTGCGACATA-TATCTGT
1 CTGGTGGCTCTGC--CATATTATCTGT
64886438 GCTGGTGGCTCTGCCATGATTATCTGT
1 -CTGGTGGCTCTGCCAT-ATTATCTGT
64886465 ATCTAGTCAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
25 3 0.07
26 17 0.38
27 23 0.51
28 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (25 bp):
CTGGTGGCTCTGCCATATTATCTGT
Found at i:64888053 original size:22 final size:20
Alignment explanation
Indices: 64888028--64888080 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
64888018 TTCCTAGCAG
*
64888028 TATTGATACCATTTGATATAA
1 TATTGATACC-TTTGATACAA
64888049 TTATTGATACCTTTGATACAA
1 -TATTGATACCTTTGATACAA
*
64888070 TATCGATACCT
1 TATTGATACCT
64888081 ACGTGAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.34
21 9 0.31
22 10 0.34
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (20 bp):
TATTGATACCTTTGATACAA
Found at i:64889999 original size:95 final size:95
Alignment explanation
Indices: 64889895--64890085 Score: 346
Period size: 95 Copynumber: 2.0 Consensus size: 95
64889885 CTTCTTTTCA
*
64889895 TCTCTTAATTGACTTTCCCTTTGAACGATTACACCTTCTTCCCTCTCTTCTCATTTGGATATTTG
1 TCTCTTAATTGACTTTCCCGTTGAACGATTACACCTTCTTCCCTCTCTTCTCATTTGGATATTTG
* *
64889960 GGCTGATTTCTACCTAGCTCTCTCTCCATT
66 GGCCGATTTCTACCTAGATCTCTCTCCATT
64889990 TCTCTTAATTGACTTTCCCGTTGAACGATTACACCTTCTTCCCTCTCTTCTCATTTGGATATTTG
1 TCTCTTAATTGACTTTCCCGTTGAACGATTACACCTTCTTCCCTCTCTTCTCATTTGGATATTTG
*
64890055 GGCCGATTTCTACCTAGATCTCTCTCTATT
66 GGCCGATTTCTACCTAGATCTCTCTCCATT
64890085 T
1 T
64890086 GTTTTAGTTT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (95 bp):
TCTCTTAATTGACTTTCCCGTTGAACGATTACACCTTCTTCCCTCTCTTCTCATTTGGATATTTG
GGCCGATTTCTACCTAGATCTCTCTCCATT
Found at i:64891719 original size:3 final size:3
Alignment explanation
Indices: 64891711--64891740 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
64891701 AAGCATAAAC
*
64891711 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
64891741 CATTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:64893979 original size:34 final size:33
Alignment explanation
Indices: 64893914--64893984 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 33
64893904 TTGTACTGCC
*
64893914 ACTGTCACTGAACTGGGTAAGGCCCACACTGAT
1 ACTGTCACTGAACTGGGTAAGGCCCACACTGAA
*
64893947 ACTGTTACTGTAA-TGGGCTAAGGCCCTA-ACTGAA
1 ACTGTCACTG-AACTGGG-TAAGGCCC-ACACTGAA
64893981 ACTG
1 ACTG
64893985 AACTGTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 13 0.39
34 19 0.58
35 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (33 bp):
ACTGTCACTGAACTGGGTAAGGCCCACACTGAA
Found at i:64895922 original size:18 final size:19
Alignment explanation
Indices: 64895899--64895937 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
64895889 GTATGGTTAC
64895899 TGTT-CAGCCACCGAGAGG
1 TGTTACAGCCACCGAGAGG
64895917 TGTTCAACAGCCACCGAGAGG
1 TGTT--ACAGCCACCGAGAGG
64895938 CCGTGGTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.28, G:0.31, T:0.15
Consensus pattern (19 bp):
TGTTACAGCCACCGAGAGG
Found at i:64897698 original size:15 final size:16
Alignment explanation
Indices: 64897671--64897700 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64897661 AGATATTCCA
64897671 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
64897687 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
64897701 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:64908295 original size:47 final size:46
Alignment explanation
Indices: 64908135--64908308 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
64908125 GGGTTATGTA
* *
64908135 AGAGCCAATATAAGACCATGTCTGGGACATGCATCGGCATTGATATG
1 AGAGCCAATGTAAGACCATGTCTGGGACATGCATCGGC-TAGATATG
* * * * * *
64908182 AGGGCTAGT-TAAAGA-CATGTCTGGGACATGCATCAGCCACATTATG
1 AGAGCCAATGT-AAGACCATGTCTGGGACATGCATCGGCTAGA-TATG
* * *
64908228 ATAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAAAGG
1 AGAGCCAATGTAAGACCATGTCTGGGACAT-GCATCGGC-TAGATATG
*
64908276 AGAGCCAGTGTAAGA-CATGTCTGGGACATGCAT
1 AGAGCCAATGTAAGACCATGTCTGGGACATGCAT
64908309 TGGCCTCGAT
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 39 0.38
47 39 0.38
48 22 0.21
49 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (46 bp):
AGAGCCAATGTAAGACCATGTCTGGGACATGCATCGGCTAGATATG
Found at i:64908306 original size:94 final size:93
Alignment explanation
Indices: 64908137--64908308 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 93
64908127 GTTATGTAAG
* * * * *
64908137 AGCCAATATAAGACCATGTCTGGGACATGCATCGGCATTGATATGAGGGCTAGTTAAAGACATGT
1 AGCCAATATAAGACCATGTCTGGGACATGCATCGGCATAGAAAGGAGAGCCAGTTAAAGACATGT
64908202 CTGGGACATGCATCAGCCACATTATGAT
66 CTGGGACATGCATCAGCCACATTATGAT
* *
64908230 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAAAGGAGAGCCAGTGT-AAGACAT
1 AGCCAATATAAGACCATGTCTGGGACAT-GCATCGGCATAGAAAGGAGAGCCAGT-TAAAGACAT
64908294 GTCTGGGACATGCAT
64 GTCTGGGACATGCAT
64908309 TGGCCTCGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 27 0.39
94 42 0.60
95 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (93 bp):
AGCCAATATAAGACCATGTCTGGGACATGCATCGGCATAGAAAGGAGAGCCAGTTAAAGACATGT
CTGGGACATGCATCAGCCACATTATGAT
Done.