Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 109 of 189
Found at i:30539537 original size:16 final size:17
Alignment explanation
Indices: 30539506--30539538 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30539496 AAAAGTACTC
*
30539506 AAAGAAAAGTGAAAGAA
1 AAAGAAAAGAGAAAGAA
30539523 AAAGAAAA-AGAAAGAA
1 AAAGAAAAGAGAAAGAA
30539539 CAAAAGGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAGAAAAGAGAAAGAA
Found at i:30545273 original size:22 final size:22
Alignment explanation
Indices: 30545248--30545306 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
30545238 TAACAGAATG
*
30545248 TATCATAGCATATCAGATTTCA
1 TATCATAGCATATCAGATATCA
* *
30545270 TATCGA-AGCTTATCATATATCA
1 TATC-ATAGCATATCAGATATCA
*
30545292 TATCATATCATATCA
1 TATCATAGCATATCA
30545307 TATCTATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (22 bp):
TATCATAGCATATCAGATATCA
Found at i:30545296 original size:5 final size:5
Alignment explanation
Indices: 30545286--30545324 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
30545276 AGCTTATCAT
*
30545286 ATATC ATATC ATATC ATATC ATATC TATTTTC ATATC AT
1 ATATC ATATC ATATC ATATC ATATC -A-TATC ATATC AT
30545325 GCTGTAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 25 0.83
6 2 0.07
7 3 0.10
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (5 bp):
ATATC
Found at i:30545307 original size:22 final size:22
Alignment explanation
Indices: 30545280--30545398 Score: 66
Period size: 22 Copynumber: 5.4 Consensus size: 22
30545270 TATCGAAGCT
30545280 TATCATAT-ATCATATCATATCA
1 TATCATATCAT-ATATCATATCA
*
30545302 TATCATATC-TATTTTCATATCA
1 TATCATATCATA-TATCATATCA
* * * * * *
30545324 T-GCTGTAGCATGTTTCATATCT
1 TATC-ATATCATATATCATATCA
* *
30545346 TGTCATATCATA-ACTCATGTCA
1 TATCATATCATATA-TCATATCA
* * *
30545368 TGTTATATCATATCTCATATCA
1 TATCATATCATATATCATATCA
30545390 TATCATATC
1 TATCATATC
30545399 CTACCCCAAC
Statistics
Matches: 72, Mismatches: 18, Indels: 14
0.69 0.17 0.13
Matches are distributed among these distances:
21 2 0.03
22 68 0.94
23 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (22 bp):
TATCATATCATATATCATATCA
Found at i:30545318 original size:49 final size:49
Alignment explanation
Indices: 30545248--30545357 Score: 116
Period size: 49 Copynumber: 2.2 Consensus size: 49
30545238 TAACAGAATG
* *
30545248 TATCATAGCATATCAGATTTCATATCGAAGCT-TATCATATATCATATCA
1 TATCATATCATATCAGATTTCATATC-AAGCTGTAGCATATATCATATCA
* * * * *
30545297 TATCATATCATATCTA-TTTTCATATCATGCTGTAGCATGTTTCATATCT
1 TATCATATCATATC-AGATTTCATATCAAGCTGTAGCATATATCATATCA
*
30545346 TGTCATATCATA
1 TATCATATCATA
30545358 ACTCATGTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 4 0.08
49 46 0.90
50 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (49 bp):
TATCATATCATATCAGATTTCATATCAAGCTGTAGCATATATCATATCA
Found at i:30545342 original size:44 final size:44
Alignment explanation
Indices: 30545294--30545398 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 44
30545284 ATATATCATA
** * * *
30545294 TCATATCATATCATATC-TATTTTCATATCATGCTGTAGCATGTT
1 TCATATCATATCATATCATA-ACTCATATCATGCTATAGCATATC
* * * * *
30545338 TCATATCTTGTCATATCATAACTCATGTCATGTTATATCATATC
1 TCATATCATATCATATCATAACTCATATCATGCTATAGCATATC
30545382 TCATATCATATCATATC
1 TCATATCATATCATATC
30545399 CTACCCCAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (44 bp):
TCATATCATATCATATCATAACTCATATCATGCTATAGCATATC
Found at i:30545387 original size:12 final size:12
Alignment explanation
Indices: 30545348--30545393 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
30545338 TCATATCTTG
*
30545348 TCATATCATAAC
1 TCATATCATATC
* *
30545360 TCATGTCATGT-
1 TCATATCATATC
30545371 T-ATATCATATC
1 TCATATCATATC
30545382 TCATATCATATC
1 TCATATCATATC
30545394 ATATCCTACC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 7 0.26
11 2 0.07
12 18 0.67
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (12 bp):
TCATATCATATC
Found at i:30548375 original size:19 final size:20
Alignment explanation
Indices: 30548351--30548395 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
30548341 TTGAGATGGA
30548351 ATGATATTCAACTTTGTGG-
1 ATGATATTCAACTTTGTGGT
* *
30548370 ATGATATTTAACTTTTTGGT
1 ATGATATTCAACTTTGTGGT
30548390 ATGATA
1 ATGATA
30548396 GGGACATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (20 bp):
ATGATATTCAACTTTGTGGT
Found at i:30556542 original size:179 final size:179
Alignment explanation
Indices: 30556270--30556918 Score: 974
Period size: 179 Copynumber: 3.6 Consensus size: 179
30556260 CGTTCCAACA
* * * * * * *
30556270 TAATTTCAGAGAGAAGAGACTTGTAGCTTTGATCTACTCCGCTGCAACATCAAGGAGATAAAAAT
1 TAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAAT
* * * * *
30556335 TGGTAATTTCAACCTGCTCTATTGCAACTTCAAGGAGATAAGGTTTGTACATTTTTATCCTGCTC
66 TGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGCTC
* * * *
30556400 CACTGCAACTTTAGGGAGATAATGATTGTAGCTTCGATCTGCTCTAATG
131 CACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGCTCCAATG
* *
30556449 TAATTTCAGGGAAAAGAGATTTGTAGCTTCGATCTAGTCTGCTGGAACTTCAAGGAGATAAGAAT
1 TAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAAT
* * *
30556514 TGGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGAGAAGGTTTGTATATTTTTATCCTGCTC
66 TGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGCTC
* *
30556579 CACTACAACTTTAGGGAGATAAGGATTATGGCTTCAATCTGCTCCAATG
131 CACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGCTCCAATG
** * * *
30556628 TAATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACTTTGCTGGAACTTTAAGGAGATAGGAAT
1 TAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAAT
* *
30556693 TGGTAACTTCAACCTGCTCCACTGTAACTTCAGGGGGATAAGGTTTGTATATTTTTATCCTGCTC
66 TGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGCTC
* *
30556758 CACTGCAACTTCAGGGAGATAAGGATTTTGGCTTCGATCTGCTCCAATG
131 CACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGCTCCAATG
* *
30556807 TAATTTCAGGGAGAAGAGATTTGTAGCTTCGATTTACTCTGCTGAAACTTCAAGGAGATAAGAAT
1 TAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAAT
* *
30556872 TGGTAACTTCAACCTGCTCCATTGTAACTTCAGGGAGATAAGGTTTG
66 TGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
30556919 CAACTTGTAG
Statistics
Matches: 422, Mismatches: 48, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
179 422 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (179 bp):
TAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGATAAGAAT
TGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGCTC
CACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGCTCCAATG
Found at i:30556639 original size:44 final size:43
Alignment explanation
Indices: 30556573--30556918 Score: 136
Period size: 44 Copynumber: 7.8 Consensus size: 43
30556563 TATTTTTATC
**
30556573 CTGCTCCACTACAACTTT-AGGGAGATAAGGATTATGGCTTCAAT
1 CTGCTCCACTGTAA-TTTCAGGGAGATAAGGATT-TGGCTTCAAT
* *
30556617 CTGCTCCAATGTAATTTCAGGGAG--AAGAGATTTGTAGCTTTAAT
1 CTGCTCCACTGTAATTTCAGGGAGATAAG-GATTTG--GCTTCAAT
* *** * * * *
30556661 CTACTTTGCTGGAACTTT-AAGGAGAT-AGGAATTGGTAACTTCAAC
1 CTGCTCCACTGTAA-TTTCAGGGAGATAAGGATTTGG---CTTCAAT
* * ** **
30556706 CTGCTCCACTGTAACTTCAGGGGGATAAGG-TTTGTATATTTTTAT
1 CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTG---GCTTCAAT
* * *
30556751 CCTGCTCCACTGCAACTTCAGGGAGATAAGGATTTTGGCTTCGAT
1 -CTGCTCCACTGTAATTTCAGGGAGATAAGGA-TTTGGCTTCAAT
* *
30556796 CTGCTCCAATGTAATTTCAGGGAG--AAGAGATTTGTAGCTTCGAT
1 CTGCTCCACTGTAATTTCAGGGAGATAAG-GATTTG--GCTTCAAT
* * ** * * * * *
30556840 TTACTCTGCTGAAACTTCAAGGAGATAA-GAATTGGTAACTTCAAC
1 CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTGG---CTTCAAT
* *
30556885 CTGCTCCATTGTAACTTCAGGGAGATAAGG-TTTG
1 CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTG
30556919 CAACTTGTAG
Statistics
Matches: 219, Mismatches: 56, Indels: 53
0.67 0.17 0.16
Matches are distributed among these distances:
42 14 0.06
43 9 0.04
44 94 0.43
45 64 0.29
46 34 0.16
48 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTGGCTTCAAT
Found at i:30557107 original size:143 final size:143
Alignment explanation
Indices: 30556923--30557396 Score: 662
Period size: 143 Copynumber: 3.3 Consensus size: 143
30556913 GGTTTGCAAC
*** * * **
30556923 TTGTAGCTTTAATCTGTTCTGTTACAAC-TTCAGGGAAATAAGATTCGTTGTCTTCAGTCTACTC
1 TTGTAGCTTTAATCTGTTCCACTACAACGCT-AGAGAAATAAGATTCACTGTCTTCAGTCTACTC
* ** * *
30556987 CGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGTAACTTCAGAAATACA
65 CGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGAAAGATA
30557052 AGATTCGCCATAAT
130 AGATTCGCCATAAT
* *
30557066 TTGTAGCTTTAATCTGTTCCACTATAACGCTAGAGAAATAAGATTCACTGTCTTCAGTCTGCTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATTCACTGTCTTCAGTCTACTCC
* *
30557131 ACTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGAAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGAAAGATAA
*
30557196 GATCCGCCATAAT
131 GATTCGCCATAAT
* * * *
30557209 TTGTAGCTTAAATCTGTTCCACTGCAACGCTAGAGAAATAACATTCACCGTCTTCAGTCTACTCC
1 TTGTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATTCACTGTCTTCAGTCTACTCC
* ** *
30557274 GTTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTATACTACAACTTCAGGAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGAAAGATAA
*
30557339 GATTCGCTATAAT
131 GATTCGCCATAAT
* * * *
30557352 TTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATT
1 TTGTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATT
30557397 TGCAGTTTCG
Statistics
Matches: 294, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
143 293 1.00
144 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (143 bp):
TTGTAGCTTTAATCTGTTCCACTACAACGCTAGAGAAATAAGATTCACTGTCTTCAGTCTACTCC
GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGAAAGATAA
GATTCGCCATAAT
Found at i:30562967 original size:22 final size:20
Alignment explanation
Indices: 30562942--30562984 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
30562932 GGCTAGCTGT
30562942 GTACAGAGGTGCTAACGTGGAG
1 GTACAGAGGT--TAACGTGGAG
*
30562964 GTACGGAGGTTAACGTGGAG
1 GTACAGAGGTTAACGTGGAG
30562984 G
1 G
30562985 AGGCAACTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
22 9 0.45
ACGTcount: A:0.26, C:0.12, G:0.44, T:0.19
Consensus pattern (20 bp):
GTACAGAGGTTAACGTGGAG
Found at i:30563551 original size:21 final size:20
Alignment explanation
Indices: 30563526--30563566 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
30563516 CCGGCCCGAT
*
30563526 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACAAAAAAAATA
*
30563547 TTTTAAAAATAAAAAAAATA
1 TTTTAAAAACAAAAAAAATA
30563567 AAAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAATA
Found at i:30563619 original size:40 final size:40
Alignment explanation
Indices: 30563545--30563621 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
30563535 ACACAAAAAA
*
30563545 TATTTTAAAAATAAAAAAAATAAAAAATATATATTTAAAG
1 TATTTTAAAAATAAAAAAAATAAAAAATAAATATTTAAAG
*
30563585 TATTTTAAAATTAAAAAATAA-AAATAAA-AAATATTTA
1 TATTTTAAAAATAAAAAA-AATAAA-AAATAAATATTTA
30563622 TTATATTCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 28 0.85
41 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (40 bp):
TATTTTAAAAATAAAAAAAATAAAAAATAAATATTTAAAG
Found at i:30565972 original size:109 final size:108
Alignment explanation
Indices: 30565702--30566023 Score: 477
Period size: 109 Copynumber: 3.0 Consensus size: 108
30565692 TGGATTAAAA
* * *
30565702 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * * *
30565765 TTCCTCGAATTTCGAAACGTAAAATATTGTCTTATTTCGAAAT
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
* * *
30565808 TTTAAAAGGATATTTGGCTATTTGATTGAACGACAAAAATCAAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
30565873 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA-T
* *
30565917 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGTACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
30565982 TTTCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
30566024 AATTTTCCTT
Statistics
Matches: 193, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
106 30 0.16
108 63 0.33
109 100 0.52
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (108 bp):
TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
Found at i:30566102 original size:15 final size:15
Alignment explanation
Indices: 30566078--30566108 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30566068 AATGAATATG
*
30566078 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
30566093 ATAATATGAACAAAA
1 ATAATATGAACAAAA
30566108 A
1 A
30566109 CGAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:30566160 original size:4 final size:4
Alignment explanation
Indices: 30566151--30566182 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
30566141 ATACCATGAC
30566151 AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
30566183 ACATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:30566454 original size:39 final size:38
Alignment explanation
Indices: 30566385--30566472 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
30566375 AAGTAAGTAT
*
30566385 ATACATATATACGTATGTAACTATCATAAAATATAAAA
1 ATACATATATACGTATATAACTATCATAAAATATAAAA
* * * *
30566423 AGTATATATATAGGTATATATA-TATCCTAAAATATGAAA
1 A-TACATATATACGTATATA-ACTATCATAAAATATAAAA
30566462 ATACATATATA
1 ATACATATATA
30566473 TATAAAATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
38 10 0.24
39 31 0.74
40 1 0.02
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (38 bp):
ATACATATATACGTATATAACTATCATAAAATATAAAA
Found at i:30568405 original size:132 final size:130
Alignment explanation
Indices: 30568173--30568829 Score: 562
Period size: 132 Copynumber: 5.0 Consensus size: 130
30568163 TTTACTTCCT
* * * * * *
30568173 TACTATCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGTGATAC-AGA
1 TACTATCTTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAG-
* * * * * ** * * * *
30568237 ATCTACAATC-TCTGACCTATTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGTT
65 ATCTGCAATCTTC-AATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAA--TGTT
*
30568301 TCTC
127 ACTC
* * *
30568305 TACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGGGAC-AGA
1 TACTATCTTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAG-
* *
30568369 ATCTGCAATCTTCAATCTATTTCACTGCTGCCTAGGGAGATAGAATTATTGGCTTCAATG-TACC
65 ATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTA-C
*
30568433 CC
129 TC
** * ** * ** *
30568435 ATTGTAACCACAGGG-AGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
1 -TACT-ATC-TTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACA
* * *
30568499 AGATCTGTAATCTTCAATCTATTTCACTGCTGCCCAGGGAAATAGAATTATTGGCTTCAATG-TA
63 AGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTA
30568563 CTC
128 CTC
* * * * * * * *
30568566 CACTGTAACTATGGGGAGGTAAAATCCGCCATCTTCGTTCTGTTCCACTACTGCTTAGGGAGATA
1 TAC--TATCT-TGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACA
* *
30568631 AGATATGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATG-TA
63 AGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTA
30568695 CTC
128 CTC
* * * * * * *
30568698 CACTATAACCATAGGG-AGGTAAAATCCGCCATATTCCATCTGCTCCACTACTGCTTAGGGAGAT
1 TACTAT---C-TTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAC
* * * *
30568762 AAGATCTGAAATCTTCAATCTATTCCATTG--GCAATCAGGGAGATAGAATTACTGGCTTCAATG
62 AAGATCTGCAATCTTCAATCTATTCCACTGCTGC--CCAGGGAGATAGAATTATTGGCTTCAATG
30568825 -TACTC
125 TTACTC
30568830 CACTGTAATC
Statistics
Matches: 452, Mismatches: 57, Indels: 32
0.84 0.11 0.06
Matches are distributed among these distances:
129 1 0.00
130 8 0.02
131 9 0.02
132 422 0.93
133 11 0.02
134 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (130 bp):
TACTATCTTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGA
TCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTACTC
Found at i:30568538 original size:44 final size:44
Alignment explanation
Indices: 30568490--30568674 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 44
30568480 ACTACTGCTT
* *
30568490 AGGGAGATAAGATCTGTAATCTTCAATCTATTTCACTGCTGCCC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTGCCC
* * * * ** *
30568534 AGGGAAAT-AGA-AT-TATTGGCTTCAATGTACTCCACTG-TAACT
1 AGGGAGATAAGATATGTAAT--CTTCAATCTATTCCACTGCTGCCC
* * ** ** ** * * **
30568576 ATGGGGAGGTAAAATCCGCCATCTTCGTTCTGTTCCACTACTGCTT
1 A--GGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTGCCC
30568622 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTGCCC
30568666 AGGGAGATA
1 AGGGAGATA
30568675 GAATTATTGG
Statistics
Matches: 95, Mismatches: 38, Indels: 16
0.64 0.26 0.11
Matches are distributed among these distances:
41 3 0.03
42 4 0.04
43 18 0.19
44 52 0.55
45 14 0.15
46 3 0.03
47 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATATGTAATCTTCAATCTATTCCACTGCTGCCC
Found at i:30568830 original size:132 final size:131
Alignment explanation
Indices: 30568330--30568875 Score: 781
Period size: 132 Copynumber: 4.1 Consensus size: 131
30568320 ATAAGATTCA
* * * *
30568330 CCATCTTCGATCTGCTCCACTACTGCTTAGGGGGA-CAGAATCTGCAATCTTCAATCTATTTCAC
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATCTTCAATCTATTCCAC
* * *
30568394 TGCTGCCTAGGGAGATAGAATTATTGGCTTCAATGTACCCCATTGTAACCACAGGGAGGTAAAAT
65 TGC-GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
30568459 CCG
129 CCG
* *
30568462 TCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACT
* * **
30568527 GCTGCCCAGGGAAATAGAATTATTGGCTTCAATGTACTCCACTGTAACTATGGGGAGGTAAAATC
66 GC-GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
30568592 CG
130 CG
* * *
30568594 CCATCTTCGTTCTGTTCCACTACTGCTTAGGGAGATAAGATATGTAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACT
* *
30568659 GCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCATAGGGAGGTAAAATC
66 GC-GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
30568724 CG
130 CG
* * * *
30568726 CCATATTCCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCATT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACT
* * *
30568791 G-GCAATCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAAT
66 GCGC--CCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
*
30568855 CTG
129 CCG
*
30568858 CCATCTTCGATCTACTCC
1 CCATCTTCGATCTGCTCC
30568876 GCTGTCGATG
Statistics
Matches: 375, Mismatches: 36, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
130 2 0.01
132 371 0.99
133 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (131 bp):
CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACT
GCGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC
G
Found at i:30569149 original size:46 final size:46
Alignment explanation
Indices: 30568974--30569735 Score: 864
Period size: 46 Copynumber: 16.7 Consensus size: 46
30568964 GCTGTCGATG
* * * * * *
30568974 CAGGAAGGCAAAATCTCCTATCTTC-AGTCTGCTCCGCTGTC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * * *
30569019 CAGGAAGGCAAG-GCTGCTATCTT-TAGTCTACTCAGCTGTC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * *
30569063 CAGGAAGGCAAGA-CTGGTTTCTTCGATCTATTCCGTTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
*
30569108 CATGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
30569154 CAGGAAGACAAGATCTGCTATATCTTCGATCTACTCCACAGCCAAATA
1 CAGGAAGACAAGATCTGC--TATCTTCGATCTACTCCGCTGCCAAATA
*
30569202 CAGGAAGACAAGATCTGCTATCTTTGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * * *
30569248 CAGGAAGACAAGATCTACTATCTTTGATCTACTTCACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * *
30569294 CAAGAAGACAAAATCTGCTATCTTGGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * * * * * *
30569340 AAGGAAGACAAAATCTCCTATCTTC-AGTCTGCTCTGCTGTC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * ** *
30569385 CAGGAAGGCAAG-GCTGCTATCTT-TAGTCTACTCAGCTATC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * *
30569429 CAGGAAGGCAAGA-CTGGTTTCTTCGATCTATTCCGTTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
30569474 CAGGAAGACAAGATCTGCTATCTTGGATCTATTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
30569520 TAGGAAGACAAGATCTGCTATCTTCGATCTACTCCACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
30569566 AAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
30569612 CAGGAAGACAAGATCTACTATCTTCGATCTACTCCGCTGCTAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
*
30569658 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
30569704 CAGGAAGACAAGATCTGCTATATCTTCGATCT
1 CAGGAAGACAAGATCTGC--TATCTTCGATCT
30569736 GTTCTCTGCG
Statistics
Matches: 624, Mismatches: 78, Indels: 27
0.86 0.11 0.04
Matches are distributed among these distances:
44 112 0.18
45 55 0.09
46 401 0.64
48 56 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (46 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
Found at i:30569323 original size:92 final size:92
Alignment explanation
Indices: 30568853--30569735 Score: 848
Period size: 92 Copynumber: 9.7 Consensus size: 92
30568843 GGGAGGTAAA
* * * * * * * * *
30568853 ATCTGCCATCTTCGATCTACTCCGCTGTC-GATGCAGGAGGGCAAGATCTGCTATCTTCAACCTG
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * *
30568917 CTCCACT-ACAACT-GAGGGAGGCAAG
66 CTCCACTGCCAAATACAGGAAGACAAG
* * * * * * * * * *
30568942 -GCTTG-TGTCTTCGATCTGCTTCGCTGTC-GATGCAGGAAGGCAAAATCTCCTATCTTC-AGTC
1 ATC-TGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGA-TC
* * * * *
30569003 TGCTCCGCTGTC-AGTACAGGAAGGCAAG
64 TACTCCACTGCCAAATACAGGAAGACAAG
* * * * * * * *
30569031 -GCTGCTATCTT-TAGTCTACTCAGCTGTC-AGTACAGGAAGGCAAGA-CTGGTTTCTTCGATCT
1 ATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCT
* ** *
30569092 ATTCCGTTGCCAAATACATGAAGACAAG
65 ACTCCACTGCCAAATACAGGAAGACAAG
30569120 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATATCTTCGATC
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGC--TATCTTCGATC
*
30569185 TACTCCACAGCCAAATACAGGAAGACAAG
64 TACTCCACTGCCAAATACAGGAAGACAAG
* * *
30569214 ATCTGCTATCTTTGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTTGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * *
30569279 CTTCACTGCCAAATACAAGAAGACAAA
66 CTCCACTGCCAAATACAGGAAGACAAG
* * * *
30569306 ATCTGCTATCTTGGATCTACTCCGCTGCCAAATAAAGGAAGACAAAATCTCCTATCTTC-AGTCT
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGA-TCT
* ** * * *
30569370 GCTCTGCTGTC-AGTACAGGAAGGCAAG
65 ACTCCACTGCCAAATACAGGAAGACAAG
* * * ** * * * *
30569397 -GCTGCTATCTT-TAGTCTACTCAGCTATC-AGTACAGGAAGGCAAGA-CTGGTTTCTTCGATCT
1 ATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCT
* **
30569458 ATTCCGTTGCCAAATACAGGAAGACAAG
65 ACTCCACTGCCAAATACAGGAAGACAAG
* * *
30569486 ATCTGCTATCTTGGATCTATTCCGCTGCCAAATATAGGAAGACAAGATCTGCTATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
*
30569551 CTCCACTGCCAAATAAAGGAAGACAAG
66 CTCCACTGCCAAATACAGGAAGACAAG
* *
30569578 ATCTGCTATCTTCGATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
30569643 CTCCGCTGCTAAATACAGGAAGACAAG
66 CTCCACTGCCAAATACAGGAAGACAAG
*
30569670 ATCTGCTATCTTCGATCTACTCCACTGCCAAATACAGGAAGACAAGATCTGCTATATCTTCGATC
1 ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGC--TATCTTCGATC
30569735 T
64 T
30569736 GTTCTCTGCG
Statistics
Matches: 658, Mismatches: 112, Indels: 43
0.81 0.14 0.05
Matches are distributed among these distances:
87 1 0.00
88 95 0.14
89 87 0.13
90 63 0.10
91 44 0.07
92 272 0.41
94 96 0.15
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (92 bp):
ATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
CTCCACTGCCAAATACAGGAAGACAAG
Found at i:30569488 original size:272 final size:277
Alignment explanation
Indices: 30569082--30569735 Score: 833
Period size: 272 Copynumber: 2.4 Consensus size: 277
30569072 AAGACTGGTT
* * * * * * *
30569082 TCTTCGATCTATTCCGTTGCCAAATACATGAAGACAAGATCTGCTATC-TTCGATCTACTCCGCT
1 TCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGAGCTGCTATCTTTAG-TCTACTCAGCT
** *
30569146 GCCAAATACAGGAAGACAAGATCTGCTATATCTTCGATCTACTCCACAGCCAAATACAGGAAGAC
65 ATC-AGTACAGGAAGACAAGATCTGCTATATCTTCGATCTACTCCACAGCCAAATACAGGAAGAC
* *
30569211 AAGATCTGCTATCTTTGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTTGAT
129 AAGATCTGCTATCTTGGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGAT
* *
30569276 CTACTTCACTGCCAAATACAA-GAAGACAAAATCTGCTATCTTGGATCTACTCCGCTGCCAAATA
194 CTACTCCACTGCCAAATA-AAGGAAGACAAAATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
*
30569340 AAGGAAGACAAAATCTCCTA
258 AAGGAAGACAAAATCTACTA
* * * * *
30569360 TCTTC-AGTCTGCTCTGCTG-TCAGTACAGGAAGGCAAG-GCTGCTATCTTTAGTCTACTCAGCT
1 TCTTCGA-TCTACTCCGCTGCTAAATACAGGAAGACAAGAGCTGCTATCTTTAGTCTACTCAGCT
* * * ***
30569422 ATCAGTACAGGAAGGCAAGA-CTGGT-T-TCTTCGATCTATTCCGTTGCCAAATACAGGAAGACA
65 ATCAGTACAGGAAGACAAGATCTGCTATATCTTCGATCTACTCCACAGCCAAATACAGGAAGACA
* * *
30569484 AGATCTGCTATCTTGGATCTATTCCGCTGCCAAATATAGGAAGACAAGATCTGCTATCTTCGATC
130 AGATCTGCTATCTTGGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATC
* * *
30569549 TACTCCACTGCCAAATAAAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAATACA
195 TACTCCACTGCCAAATAAAGGAAGACAAAATCTGCTATCTTCGATCTACTCCGCTGCCAAATAAA
*
30569614 GGAAGACAAGATCTACTA
260 GGAAGACAAAATCTACTA
* *
30569632 TCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATCTGCTATC-TTCGATCTACTCCA-C
1 TCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGAGCTGCTATCTTTAG-TCTACT-CAGC
** *
30569695 TGCCAAATACAGGAAGACAAGATCTGCTATATCTTCGATCT
64 TATC-AGTACAGGAAGACAAGATCTGCTATATCTTCGATCT
30569736 GTTCTCTGCG
Statistics
Matches: 319, Mismatches: 45, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
271 2 0.01
272 180 0.56
273 20 0.06
274 21 0.07
275 32 0.10
276 23 0.07
277 18 0.06
278 23 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (277 bp):
TCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGAGCTGCTATCTTTAGTCTACTCAGCTA
TCAGTACAGGAAGACAAGATCTGCTATATCTTCGATCTACTCCACAGCCAAATACAGGAAGACAA
GATCTGCTATCTTGGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCT
ACTCCACTGCCAAATAAAGGAAGACAAAATCTGCTATCTTCGATCTACTCCGCTGCCAAATAAAG
GAAGACAAAATCTACTA
Found at i:30570985 original size:6 final size:6
Alignment explanation
Indices: 30570974--30571028 Score: 74
Period size: 6 Copynumber: 9.0 Consensus size: 6
30570964 TTGGCCTCTC
* * *
30570974 CTTTTT CTTTTT CTTTTCT CTTCTT CTTTCT CTTCTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTT-T CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
30571023 CTTTTT
1 CTTTTT
30571029 GGTATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:30574179 original size:109 final size:109
Alignment explanation
Indices: 30573917--30574456 Score: 852
Period size: 109 Copynumber: 5.0 Consensus size: 109
30573907 TGGATTAAAA
* * * * *
30573917 TTTAAGAGGATATTTTGCTATTTGGTTAAACGAG--AAATCGAAACCCAACACATTAGGGCACAT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * * * *
30573980 TTCCTCGAATTTCCAAACGTAAAATATTGTCTTA-TTTCAAAAT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * * *
30574023 TTTAAAAGGATATTTGGCTATTTGATCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
30574088 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
30574132 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCAAAACCCAACACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
30574197 TTTCTCGAATTTCCAAATGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
30574241 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
30574306 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
30574350 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * * *
30574415 TTTCTCGATTTTCTAAATGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
30574457 AATTTTCCTT
Statistics
Matches: 402, Mismatches: 29, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
106 28 0.07
108 57 0.14
109 317 0.79
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:30574535 original size:15 final size:15
Alignment explanation
Indices: 30574511--30574541 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30574501 AATAAATATG
*
30574511 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
30574526 ATAATATGAACAAAA
1 ATAATATGAACAAAA
30574541 A
1 A
30574542 CGAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:30574593 original size:4 final size:4
Alignment explanation
Indices: 30574584--30574615 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
30574574 ATACCATGAC
30574584 AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
30574616 CCATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:30578856 original size:12 final size:12
Alignment explanation
Indices: 30578835--30578871 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
30578825 ATATGGATAG
*
30578835 GTATGAGTATGA
1 GTATGGGTATGA
*
30578847 GTATGGGTATGG
1 GTATGGGTATGA
30578859 GTATGGGTATGA
1 GTATGGGTATGA
30578871 G
1 G
30578872 GAAGAGTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.32
Consensus pattern (12 bp):
GTATGGGTATGA
Found at i:30578857 original size:18 final size:18
Alignment explanation
Indices: 30578834--30578869 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30578824 GATATGGATA
30578834 GGTATGAGTATGAGTATG
1 GGTATGAGTATGAGTATG
* *
30578852 GGTATGGGTATGGGTATG
1 GGTATGAGTATGAGTATG
30578870 AGGAAGAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (18 bp):
GGTATGAGTATGAGTATG
Found at i:30585701 original size:33 final size:33
Alignment explanation
Indices: 30585659--30585725 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30585649 CGTCTAATTT
30585659 CCCTTCCCCATTTCCTCCCAACCCTATCTGCGC
1 CCCTTCCCCATTTCCTCCCAACCCTATCTGCGC
30585692 CCCTTCCCCATTTCCTCCCAACCCTATCTGCGC
1 CCCTTCCCCATTTCCTCCCAACCCTATCTGCGC
30585725 C
1 C
30585726 GTACCATCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.55, G:0.06, T:0.27
Consensus pattern (33 bp):
CCCTTCCCCATTTCCTCCCAACCCTATCTGCGC
Found at i:30590867 original size:11 final size:11
Alignment explanation
Indices: 30590851--30590877 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30590841 TAGAAATTAG
30590851 TTTGTGAAACT
1 TTTGTGAAACT
30590862 TTTGTGAAACT
1 TTTGTGAAACT
30590873 TTTGT
1 TTTGT
30590878 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:30592412 original size:92 final size:92
Alignment explanation
Indices: 30592276--30592469 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
30592266 TTGATTTTAG
* *
30592276 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
30592340 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
30592367 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
30592432 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
30592460 CAAATTCATA
1 TAAATTCATA
30592470 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:30592517 original size:48 final size:52
Alignment explanation
Indices: 30592447--30592545 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
30592437 AATAATTATT
30592447 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
30592495 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
30592546 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:30592527 original size:17 final size:17
Alignment explanation
Indices: 30592502--30592535 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30592492 ATAATTTTAA
*
30592502 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
30592519 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
30592536 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:30592552 original size:17 final size:16
Alignment explanation
Indices: 30592507--30592554 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
30592497 TTTAAATTTT
30592507 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
30592524 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
30592538 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
30592555 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:30592626 original size:18 final size:17
Alignment explanation
Indices: 30592595--30592629 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30592585 ATTATTAAGA
30592595 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
30592612 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
30592630 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:30592695 original size:129 final size:130
Alignment explanation
Indices: 30592542--30592775 Score: 425
Period size: 129 Copynumber: 1.8 Consensus size: 130
30592532 ATATTAGTTA
*
30592542 TAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* *
30592607 TATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
66 TATATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
*
30592672 TAATAATA-ATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
30592736 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATATTTTAATTAAAATATATTTAATAATAATTATGTT
30592776 TAAATATGAT
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
129 93 0.93
130 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (130 bp):
TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGTATCATATT
Found at i:30592752 original size:18 final size:17
Alignment explanation
Indices: 30592724--30592758 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30592714 ATTATTAAGA
*
30592724 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30592741 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30592759 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30592870 original size:144 final size:147
Alignment explanation
Indices: 30592712--30592983 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
30592702 ATAAGAATAT
*
30592712 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
30592777 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
30592839 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
30592856 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
30592921 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
30592984 CAATAATCAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 91 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:30592896 original size:18 final size:17
Alignment explanation
Indices: 30592868--30592902 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30592858 ATTATTAAGA
*
30592868 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
30592885 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
30592903 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:30593113 original size:44 final size:45
Alignment explanation
Indices: 30593064--30593158 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
30593054 TTACACCTCT
* *
30593064 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
30593108 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
30593153 ATTACA
1 ATTACA
30593159 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:30593158 original size:16 final size:16
Alignment explanation
Indices: 30593139--30593206 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
30593129 GATTTGCTAT
* *
30593139 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
30593155 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30593171 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30593187 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
30593203 TACA
1 TACA
30593207 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:30593321 original size:18 final size:18
Alignment explanation
Indices: 30593278--30593322 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
30593268 CAGTTTTTGG
*
30593278 AAAATTAA-CATTTTTTT
1 AAAATTAATTATTTTTTT
*
30593295 AAAA-AAATTATTTTTTT
1 AAAATTAATTATTTTTTT
30593312 AAAATTAATTA
1 AAAATTAATTA
30593323 ATAAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 2 0.09
17 16 0.70
18 5 0.22
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AAAATTAATTATTTTTTT
Found at i:30599579 original size:19 final size:19
Alignment explanation
Indices: 30599555--30599632 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 19
30599545 TGACTTGTTT
30599555 TTAAAATCATTTTGA-TGTG
1 TTAAAATCATTTTGACT-TG
* *
30599574 TTAAAATGATTTTAACTTG
1 TTAAAATCATTTTGACTTG
30599593 ATTAAAATCATTTTGACTTGG
1 -TTAAAATCATTTTGACTT-G
* *
30599614 TTAAAATCAATTTCACTTG
1 TTAAAATCATTTTGACTTG
30599633 ATTTTAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 16 0.32
20 33 0.66
21 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.45
Consensus pattern (19 bp):
TTAAAATCATTTTGACTTG
Found at i:30599603 original size:39 final size:40
Alignment explanation
Indices: 30599555--30599635 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
30599545 TGACTTGTTT
* *
30599555 TTAAAATCATTTTGA--TGTGTTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTGACTTG-GTTAAAATCAATTTAACTTGA
*
30599594 TTAAAATCATTTTGACTTGGTTAAAATCAATTTCACTTGA
1 TTAAAATCATTTTGACTTGGTTAAAATCAATTTAACTTGA
30599634 TT
1 TT
30599636 TTAAAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 15 0.41
40 20 0.54
41 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (40 bp):
TTAAAATCATTTTGACTTGGTTAAAATCAATTTAACTTGA
Found at i:30599989 original size:11 final size:11
Alignment explanation
Indices: 30599975--30599999 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30599965 ATCATTAAAG
30599975 AATAATCAATC
1 AATAATCAATC
30599986 AATAATCAATC
1 AATAATCAATC
30599997 AAT
1 AAT
30600000 TTACCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATCAATC
Found at i:30602768 original size:20 final size:21
Alignment explanation
Indices: 30602735--30602774 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30602725 AAATACCTAA
30602735 ATTTAAAGTGTCTC-TAAGGT
1 ATTTAAAGTGTCTCTTAAGGT
30602755 ATTTAAAGAT-TCTCTTAAGG
1 ATTTAAAG-TGTCTCTTAAGG
30602775 GCTTGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTTAAAGTGTCTCTTAAGGT
Found at i:30605842 original size:21 final size:21
Alignment explanation
Indices: 30605818--30605894 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 21
30605808 CCTGGAGCAG
*
30605818 TTTTGACTTGTTTTAAAATCA
1 TTTTGACTTGTGTTAAAATCA
*
30605839 TTTTGA--TGTGTTAAAATGA
1 TTTTGACTTGTGTTAAAATCA
* * * *
30605858 TTTTAACTTG-ATTGAAATTA
1 TTTTGACTTGTGTTAAAATCA
*
30605878 TTTTGGCTTG-GTTAAAA
1 TTTTGACTTGTGTTAAAA
30605895 CTAATTTCAC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 16 0.36
20 20 0.45
21 8 0.18
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTTGACTTGTGTTAAAATCA
Found at i:30607600 original size:157 final size:157
Alignment explanation
Indices: 30607314--30607627 Score: 619
Period size: 157 Copynumber: 2.0 Consensus size: 157
30607304 GAGAGATTAG
*
30607314 GGAATGTCGAACATAGCTACATTCATCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
1 GGAATGTCGAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
30607379 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
66 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
30607444 ATCTAGTGTATTATTGATTATATATAT
131 ATCTAGTGTATTATTGATTATATATAT
30607471 GGAATGTCGAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
1 GGAATGTCGAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
30607536 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
66 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
30607601 ATCTAGTGTATTATTGATTATATATAT
131 ATCTAGTGTATTATTGATTATATATAT
30607628 ATTCCATGTC
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (157 bp):
GGAATGTCGAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
ATCTAGTGTATTATTGATTATATATAT
Found at i:30609721 original size:493 final size:493
Alignment explanation
Indices: 30608795--30609778 Score: 1725
Period size: 493 Copynumber: 2.0 Consensus size: 493
30608785 ATTTTTACGG
30608795 GTACTTCCTCAACACCAATATATATTATGACATAGTCGAATTGCTAATTTTAATGTACTCGTGCT
1 GTACTTCCTCAACACCAATATATATTATGACATAGTCGAATTGCTAATTTTAATGTACTCGTGCT
* *
30608860 GTTGCAAGTATTTCACGGGATCATCTGAAATTGGGTTTGGAGATGATGGCGAACATAATACTACC
66 GTTGCAAGTATTTCACGGAATCATCTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
* * * *
30608925 TATTGTTAAAGTGAGTCCCAATATTGCTGTGTCGATTGTAATTGCAAATATTCGTAGCTAGTTTG
131 TATTGTTAAAGCGAGTCCCAATATTGCTGTGCCGATTGTAATTGCAAATATTCATAGCTAGTTCG
*
30608990 ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGTATAGT
196 ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
* * * *
30609055 GAGTGGGATGCGTCGTACAACTAGGTATGGCAGTGGTGTCGGATGCTGGACAGATACGTCTCAAG
261 GAGTGGGACGCGTCGTACAACGAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
* *
30609120 TTGCGTAACCGATCGAGAAATGGGGCCTGTTTACTACAACGATCGGTTCCTCCATGGATGTCAAG
326 TTGCGTAACCGATCGAGAAATGGGGCATGTGTACTACAACGATCGGTTCCTCCATGGATGTCAAG
*
30609185 TGTTCCTCCGTTTGTTCTAGACTTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
391 TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
* *
30609250 ACAAATCAACTAGTCCTTTTTGTACGAGAGATATACAT
456 ACAAATCAACAAGTCCTTTGTGTACGAGAGATATACAT
*
30609288 GTACTTCCTCAACACCAATATATATTATGACATAGTCGAATTGCTAATTTTAATGTACTTGTGCT
1 GTACTTCCTCAACACCAATATATATTATGACATAGTCGAATTGCTAATTTTAATGTACTCGTGCT
* *
30609353 GTTGCAGGTATTTCACGGAATCATTTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
66 GTTGCAAGTATTTCACGGAATCATCTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
* *
30609418 TATTGTTAAAGCGAGTCCCAATATTGTTGTGCCGGTTGTAATTGCAAATATTCATAGCTAGTTCG
131 TATTGTTAAAGCGAGTCCCAATATTGCTGTGCCGATTGTAATTGCAAATATTCATAGCTAGTTCG
*
30609483 ATTACATGCCTTTGTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
196 ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
30609548 GAGTGGGACGCGTCGTACAACGAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
261 GAGTGGGACGCGTCGTACAACGAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
* * * *
30609613 TTGCGTAACCGATCTAGAAATGGGGCATGTGTACTACAATGATCGGTTGCTCTATGGATGTCAAG
326 TTGCGTAACCGATCGAGAAATGGGGCATGTGTACTACAACGATCGGTTCCTCCATGGATGTCAAG
*
30609678 TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGTCGATAAGCATTCTAGTTGCAAGCCACTGGT
391 TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
30609743 ACAAATCAACAAGTCCTTTGTGTACGAGAGATATAC
456 ACAAATCAACAAGTCCTTTGTGTACGAGAGATATAC
30609779 CTATCGGTTG
Statistics
Matches: 464, Mismatches: 27, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
493 464 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (493 bp):
GTACTTCCTCAACACCAATATATATTATGACATAGTCGAATTGCTAATTTTAATGTACTCGTGCT
GTTGCAAGTATTTCACGGAATCATCTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
TATTGTTAAAGCGAGTCCCAATATTGCTGTGCCGATTGTAATTGCAAATATTCATAGCTAGTTCG
ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
GAGTGGGACGCGTCGTACAACGAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
TTGCGTAACCGATCGAGAAATGGGGCATGTGTACTACAACGATCGGTTCCTCCATGGATGTCAAG
TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
ACAAATCAACAAGTCCTTTGTGTACGAGAGATATACAT
Found at i:30613413 original size:17 final size:18
Alignment explanation
Indices: 30613393--30613431 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
30613383 TTTAATAAAA
*
30613393 AAATAAAAATT-AGTGAG
1 AAATAAAAATTAAGTAAG
*
30613410 AAATAAAATTTAAGTAAG
1 AAATAAAAATTAAGTAAG
30613428 AAAT
1 AAAT
30613432 TAAGAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (18 bp):
AAATAAAAATTAAGTAAG
Found at i:30614080 original size:29 final size:28
Alignment explanation
Indices: 30614048--30614109 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
30614038 AAAAGCCGGT
30614048 TTTTTTCAAAATTTACTGAAATGGGCCGA
1 TTTTTTCAAAATTTACTGAAATGGGCC-A
* ** *
30614077 TTTTTTGATTATTTACTGGAATGGGCCA
1 TTTTTTCAAAATTTACTGAAATGGGCCA
30614105 TTTTT
1 TTTTT
30614110 CGGGAAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (28 bp):
TTTTTTCAAAATTTACTGAAATGGGCCA
Found at i:30614411 original size:51 final size:51
Alignment explanation
Indices: 30614335--30614449 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
30614325 TCCTCTCTAA
*
30614335 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCATTT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
30614386 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
30614437 TCCCCTCAATTTC
1 TCCTCTCAATTTC
30614450 ATTTTTTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:30616266 original size:18 final size:18
Alignment explanation
Indices: 30616240--30616274 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30616230 AGGTGTGTTT
* *
30616240 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
30616258 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
30616275 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:30616716 original size:25 final size:26
Alignment explanation
Indices: 30616688--30616746 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
30616678 TTATCTGATG
*
30616688 TAATAAAATAGAA-TTTTATTTAATA
1 TAATAAAATAGAAGTTCTATTTAATA
* *
30616713 TAATAAAATAGAAGTTCTATTTGATG
1 TAATAAAATAGAAGTTCTATTTAATA
30616739 TAATAAAA
1 TAATAAAA
30616747 ACCCTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (26 bp):
TAATAAAATAGAAGTTCTATTTAATA
Found at i:30616782 original size:29 final size:28
Alignment explanation
Indices: 30616749--30616831 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
30616739 TAATAAAAAC
30616749 CCTAATTTATTTTAAAACCCTAACTCTAA
1 CCTAATTTA-TTTAAAACCCTAACTCTAA
* *
30616778 CCTAATTTAATTAAAATCCCTAACCCTAA
1 CCTAATTTATTTAAAA-CCCTAACTCTAA
* *
30616807 CCTAACTTAGTTAAAAACCCTAACT
1 CCTAATTTA-TTTAAAACCCTAACT
30616832 TAATTAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.13
29 35 0.76
30 5 0.11
ACGTcount: A:0.40, C:0.27, G:0.01, T:0.33
Consensus pattern (28 bp):
CCTAATTTATTTAAAACCCTAACTCTAA
Found at i:30616825 original size:76 final size:75
Alignment explanation
Indices: 30616742--30617029 Score: 359
Period size: 76 Copynumber: 3.8 Consensus size: 75
30616732 TTTGATGTAA
* * * * *
30616742 TAAAAACCCTAATTTATTTTAAAACCCTAACTCTAACCTAATTTAATTAAAATCCCTAACCCTAA
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
30616807 CCTAACTTAGT
66 CCTAA-TTAAT
*
30616818 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
30616882 -TTAA-AAACCC
66 CCTAATTAA--T
* * *
30616892 TAACCCTAA-CCTAACTTAATTAAAAACCCTAATCCTAACCTAATTTAATTTAAAACCCTAACCC
1 TAA---AAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC
30616956 TAACCTAATTTAAT
63 TAACCTAA-TTAAT
*
30616970 TAAAAACCCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
30617030 TTAATTAAAA
Statistics
Matches: 181, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
72 1 0.01
74 6 0.03
75 6 0.03
76 154 0.85
77 6 0.03
78 6 0.03
80 2 0.01
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (75 bp):
TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
CCTAATTAAT
Found at i:30616829 original size:47 final size:47
Alignment explanation
Indices: 30616778--30617107 Score: 507
Period size: 47 Copynumber: 6.8 Consensus size: 47
30616768 CTAACTCTAA
* * * *
30616778 CCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAGTTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
30616825 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
30616872 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
30616919 CCTAATCCTAACCTAATTTAATTTAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAA--CT----TAA-TT-A---AAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
30616977 CCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
30617024 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
30617071 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
30617108 TACATAATTT
Statistics
Matches: 264, Mismatches: 8, Indels: 22
0.90 0.03 0.07
Matches are distributed among these distances:
47 210 0.80
49 2 0.01
50 1 0.00
51 2 0.01
52 3 0.01
53 3 0.01
54 2 0.01
55 1 0.00
56 2 0.01
58 38 0.14
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:30616830 original size:18 final size:18
Alignment explanation
Indices: 30616807--30617094 Score: 102
Period size: 18 Copynumber: 18.3 Consensus size: 18
30616797 CTAACCCTAA
*
30616807 CCTAACTTAGTTAAAAAC
1 CCTAACTTAATTAAAAAC
30616825 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
30616843 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
30616854 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
30616872 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
30616890 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
30616901 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
30616919 CCTAA--T-CCT---AA-
1 CCTAACTTAATTAAAAAC
* *
30616930 CCTAATTTAATTTAAAAC
1 CCTAACTTAATTAAAAAC
**
30616948 CCTAAC---CCT---AAC
1 CCTAACTTAATTAAAAAC
*
30616960 -CTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
30616977 CCTAACTTAATTAAAAAT
1 CCTAACTTAATTAAAAAC
**
30616995 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
30617006 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
30617024 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
30617042 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
30617053 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
30617071 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
30617089 CCTAAC
1 CCTAAC
30617095 CCTAACCTAA
Statistics
Matches: 193, Mismatches: 35, Indels: 84
0.62 0.11 0.27
Matches are distributed among these distances:
11 30 0.16
12 13 0.07
13 1 0.01
14 6 0.03
15 6 0.03
16 1 0.01
17 13 0.07
18 123 0.64
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:30616904 original size:29 final size:29
Alignment explanation
Indices: 30616872--30616982 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
30616862 AATTAAAAAC
30616872 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
30616901 CCTAACTTAATTAAAAACCCTAATCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
30616930 CCTAATTTAATTTAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
30616959 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
30616983 TTAATTAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 77 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:30617003 original size:152 final size:152
Alignment explanation
Indices: 30616762--30617077 Score: 564
Period size: 152 Copynumber: 2.1 Consensus size: 152
30616752 AATTTATTTT
*
30616762 AAAACCCTAACTCTAACCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAGTTAAAAACCC
1 AAAACCCTAACTCTAACCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAATTAAAAACCC
30616827 TAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
66 TAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
30616892 TAACCCTAACCTAACTTAATTA
131 TAACCCTAACCTAACTTAATTA
*
30616914 AAAACCCTAA-TCCTAACCTAATTTAATTTAAAA-CCCTAACCCTAACCTAATTTAATTAAAAAC
1 AAAACCCTAACT-CTAACCTAATTTAA-TTAAAATCCCTAACCCTAACCTAACTTAATTAAAAAC
*
30616977 CCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
64 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
*
30617042 CCTAACCCTAACCTAATTTAATTA
129 CCTAACCCTAACCTAACTTAATTA
30617066 AAAACCCTAACT
1 AAAACCCTAACT
30617078 TAATTAAAAA
Statistics
Matches: 157, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
151 1 0.01
152 149 0.95
153 7 0.04
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (152 bp):
AAAACCCTAACTCTAACCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAATTAAAAACCC
TAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
TAACCCTAACCTAACTTAATTA
Found at i:30617057 original size:76 final size:76
Alignment explanation
Indices: 30616825--30617076 Score: 343
Period size: 76 Copynumber: 3.3 Consensus size: 76
30616815 AGTTAAAAAC
30616825 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
30616890 CCTAACCCTAA
66 CCTAACCCTAA
* * * *
30616901 CCTAACTTAATTAAAAACCCTAATCCTAACCTAATTTAATTTAAAACCCTAACCCTAACCTAATT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA--
* * *
30616966 TAA--TTAA---AAA
62 AAACCCTAACCCTAA
*
30616976 CCCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
1 -CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
30617041 CCCTAACCCTAA
65 CCCTAACCCTAA
*
30617053 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
30617077 TTAATTAAAA
Statistics
Matches: 149, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
72 2 0.01
74 6 0.04
75 6 0.04
76 121 0.81
77 6 0.04
78 6 0.04
80 2 0.01
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (76 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
CCTAACCCTAA
Found at i:30617162 original size:55 final size:55
Alignment explanation
Indices: 30617102--30617338 Score: 361
Period size: 55 Copynumber: 4.3 Consensus size: 55
30617092 AACCCTAACC
*
30617102 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
30617157 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
** ***
30617212 TAATTTTACATAATTTGATAATTTTATCTAATTTAATTAA-ATTTTTTTTGG-CTTAA
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CCATTAACACAATTTTTGGACTTAA
* *
30617268 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
30617323 TAATTTTACATAATTT
1 TAATTTTACATAATTT
30617339 TACATAATGT
Statistics
Matches: 165, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
53 5 0.03
54 7 0.04
55 105 0.64
56 35 0.21
57 8 0.05
58 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:30617234 original size:18 final size:18
Alignment explanation
Indices: 30617208--30617294 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
30617198 ATTTTTGGAC
30617208 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
*
30617226 TTGATAATTTTATC-TAAT
1 TTAATAATTTTA-CATAAT
*** ***
30617244 TTAATTAAATTTTTTTTGGC
1 TTAA-T-AATTTTACATAAT
30617264 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
*
30617282 TTGATAATTTTAC
1 TTAATAATTTTAC
30617295 TAACCATTAA
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
18 37 0.73
19 3 0.06
20 11 0.22
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.54
Consensus pattern (18 bp):
TTAATAATTTTACATAAT
Found at i:30617283 original size:111 final size:110
Alignment explanation
Indices: 30617102--30617338 Score: 361
Period size: 111 Copynumber: 2.1 Consensus size: 110
30617092 AACCCTAACC
*
30617102 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAATAATTTTACA
1 TAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTGTTGGACTTAATAATTTTACA
* *
30617167 TAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
66 TAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
* *** *
30617212 TAATTTTACATAATTTGATAATTTTATCTAATTTAATTAA-ATTTTTTTTGG-CTTAATAATTTT
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CAATTAACACAATTGTTGGACTTAATAATTTT
30617275 ACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
63 ACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
30617323 TAATTTTACATAATTT
1 TAATTTTACATAATTT
30617339 TACATAATGT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
110 26 0.22
111 78 0.67
112 7 0.06
113 5 0.04
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (110 bp):
TAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTGTTGGACTTAATAATTTTACA
TAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
Found at i:30617337 original size:10 final size:10
Alignment explanation
Indices: 30617322--30617346 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30617312 TTGGGACTTA
30617322 ATAATTTTAC
1 ATAATTTTAC
30617332 ATAATTTTAC
1 ATAATTTTAC
30617342 ATAAT
1 ATAAT
30617347 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:30620619 original size:125 final size:125
Alignment explanation
Indices: 30620397--30620747 Score: 571
Period size: 124 Copynumber: 2.8 Consensus size: 125
30620387 CCCAAACTTG
* * * *
30620397 CTACTATAGCAAAATCGCGTCCACGAGGGTGCAATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTATAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
30620462 TAGAGGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
30620522 CTACTGTAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATCTCTTCTCAAATAGCATCCTGG
1 CTACTATAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
30620587 TAGAGGCGATTTTTTACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * *
30620646 CAACTATAGCAAAATTGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTAG
1 CTACTATAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
30620711 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAGGCGATTTTATACTATTTG-CTCAGAAACGTCAA
30620748 CTCGAAATAA
Statistics
Matches: 209, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
124 115 0.55
125 94 0.45
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTATAGCAAAATCGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:30624434 original size:23 final size:23
Alignment explanation
Indices: 30624390--30624477 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
30624380 TTAATGTTCA
**
30624390 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
*
30624413 CGAACATGTTCACGAACATTAAA
1 CGAACATGTTCACGAACATTAAT
* *
30624436 CTAACATGTTCATGAACATATAATT
1 CGAACATGTTCACGAACAT-TAA-T
*
30624461 C-AACATGTTCACAAACA
1 CGAACATGTTCACGAACA
30624478 ATGTTAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 3 0.06
23 33 0.61
24 17 0.31
25 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:30628147 original size:6 final size:6
Alignment explanation
Indices: 30628136--30628162 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30628126 AAGTTTACCC
30628136 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
30628163 GGTAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:30635223 original size:18 final size:18
Alignment explanation
Indices: 30635200--30635251 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
30635190 AATCCCGTGG
30635200 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
30635218 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
30635236 TTCAATTTCAAAACAT
1 TTCATTTTCAAAACAT
30635252 CTTTTTATTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.42
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:30653339 original size:21 final size:21
Alignment explanation
Indices: 30653315--30653359 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
30653305 CTCGCTTTCC
30653315 TTTCGCCTTTTTCACTTTTAT
1 TTTCGCCTTTTTCACTTTTAT
**
30653336 TTTCTTCTTTTTCACTTTTAT
1 TTTCGCCTTTTTCACTTTTAT
30653357 TTT
1 TTT
30653360 TCTCTTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTCGCCTTTTTCACTTTTAT
Found at i:30653365 original size:21 final size:22
Alignment explanation
Indices: 30653321--30653362 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
30653311 TTCCTTTCGC
30653321 CTTTTTCACTTTTA-TTTTCTT
1 CTTTTTCACTTTTATTTTTCTT
30653342 CTTTTTCACTTTTATTTTTCT
1 CTTTTTCACTTTTATTTTTCT
30653363 CTTCTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTTTCACTTTTATTTTTCTT
Found at i:30653380 original size:21 final size:20
Alignment explanation
Indices: 30653321--30653380 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
30653311 TTCCTTTCGC
*
30653321 CTTTTTCACTTTTATTTTCTT
1 CTTTCTCACTTTTATTTT-TT
*
30653342 CTTTTTCACTTTTA-TTTTT
1 CTTTCTCACTTTTATTTTTT
30653361 CTCTTCTC-CTTTTTATTTTT
1 CT-TTCTCAC-TTTTATTTTT
30653381 CCTTACTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 5 0.14
20 12 0.34
21 18 0.51
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (20 bp):
CTTTCTCACTTTTATTTTTT
Found at i:30655701 original size:24 final size:24
Alignment explanation
Indices: 30655677--30655723 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
30655667 AAACTACTTC
30655677 TAAAGAAAACTCAAGAGAGAATTCT
1 TAAAGAAAACTCAA-AGAGAATTCT
**
30655702 TGGAGAAAACTCAAAGAGAATT
1 TAAAGAAAACTCAAAGAGAATT
30655724 TCTACTCAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (24 bp):
TAAAGAAAACTCAAAGAGAATTCT
Found at i:30672829 original size:3 final size:3
Alignment explanation
Indices: 30672821--30672886 Score: 64
Period size: 3 Copynumber: 21.3 Consensus size: 3
30672811 ATAAATTTCA
* *
30672821 TAT TAT TAT TAT TAT TAT TAT TGAT CAT TAT TAGT T-T TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT
30672867 T-T TATT TAT TCAT TAT TAT T
1 TAT TA-T TAT T-AT TAT TAT T
30672887 GTGATAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 4 0.08
3 39 0.74
4 10 0.19
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:30672867 original size:31 final size:31
Alignment explanation
Indices: 30672826--30672884 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
30672816 TTTCATATTA
30672826 TTATTATTATTATTATTGA-TCATTATTAGTT
1 TTATTATTATT-TTATTGATTCATTATTAGTT
* *
30672857 TTATTTTTATTTTATTTATTCATTATTA
1 TTATTATTATTTTATTGATTCATTATTA
30672885 TTGTGATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (31 bp):
TTATTATTATTTTATTGATTCATTATTAGTT
Found at i:30673255 original size:24 final size:22
Alignment explanation
Indices: 30673213--30673256 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
30673203 TTTATTGTTA
*
30673213 TTATTTTTTTATGTTCATTTAT
1 TTATTTTTTTATGTCCATTTAT
30673235 TTATTTATTTATATGTCCATTT
1 TTATTT-TTT-TATGTCCATTT
30673257 TTAATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 3 0.16
24 10 0.53
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATTTTTTTATGTCCATTTAT
Found at i:30673607 original size:110 final size:108
Alignment explanation
Indices: 30673414--30673720 Score: 458
Period size: 110 Copynumber: 2.8 Consensus size: 108
30673404 TTTCTAATTG
* *
30673414 AGGCAATGTTTTGCGTTTGGAAATCCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCT-GGTTTCGATTTTTCT
* *
30673479 CGTTCAACCAAATAGCTAAATATCATTTTAAAAAATTTCAAAATA
65 CGTTCAACCAAATAGCTAAATATC-CTTCAAAAAATTTCAAAATA
* *
30673524 AGGCAATGTTTTGCGTTTGGCAATTCGAGAAAATGTGCCCTAATGTGCTGAGTTTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG-GTTTCGATTTTTCT
*
30673589 CGTTCAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAATA
65 CGTTCAACCAAATAGCTAAATATCCTTCAAAAAATTTCAAAATA
*
30673633 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGATTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG-TTTCGATTTTTCT
* * *
30673695 CGTTTAACCAAATTGCCAAATATCCT
65 CGTTCAACCAAATAGCTAAATATCCT
30673721 CTTGAATTTT
Statistics
Matches: 182, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
106 28 0.15
107 1 0.01
108 24 0.13
109 46 0.25
110 83 0.46
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGTTTCGATTTTTCTC
GTTCAACCAAATAGCTAAATATCCTTCAAAAAATTTCAAAATA
Found at i:30676403 original size:10 final size:10
Alignment explanation
Indices: 30676388--30676413 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30676378 GTAGAATTGA
30676388 AAAATAAAAG
1 AAAATAAAAG
30676398 AAAATAAAAG
1 AAAATAAAAG
30676408 AAAATA
1 AAAATA
30676414 TTTGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:30677142 original size:8 final size:8
Alignment explanation
Indices: 30677129--30677158 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
30677119 AAAATATTTT
30677129 TTTTATAA
1 TTTTATAA
30677137 TTTTATAA
1 TTTTATAA
30677145 TTTTTATAA
1 -TTTTATAA
30677154 TTTTA
1 TTTTA
30677159 ATACAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:30677149 original size:9 final size:9
Alignment explanation
Indices: 30677128--30677157 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30677118 AAAAATATTT
30677128 TTTTTATAA
1 TTTTTATAA
30677137 -TTTTATAA
1 TTTTTATAA
30677145 TTTTTATAA
1 TTTTTATAA
30677154 TTTT
1 TTTT
30677158 AATACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:30677281 original size:10 final size:10
Alignment explanation
Indices: 30677241--30677349 Score: 59
Period size: 10 Copynumber: 11.0 Consensus size: 10
30677231 TTTATGTTTA
30677241 TATAATTTTT
1 TATAATTTTT
*
30677251 TA-AATAATGTT
1 TATAAT--TTTT
* *
30677262 TACAACTTTT
1 TATAATTTTT
30677272 TATAATTTTT
1 TATAATTTTT
*
30677282 AATAATTTTT
1 TATAATTTTT
* *
30677292 AAAATATTTTT
1 TATA-ATTTTT
*
30677303 TAT-GTTTTT
1 TATAATTTTT
30677312 T-T-ATTTTT
1 TATAATTTTT
*
30677320 TTTCAA-TTTT
1 TAT-AATTTTT
30677330 TAT-ATTTTT
1 TATAATTTTT
30677339 TAATAATTTTT
1 T-ATAATTTTT
30677350 ATTTAAAAAG
Statistics
Matches: 77, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
8 8 0.10
9 15 0.19
10 33 0.43
11 19 0.25
12 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (10 bp):
TATAATTTTT
Found at i:30677290 original size:19 final size:19
Alignment explanation
Indices: 30677268--30677351 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
30677258 TGTTTACAAC
30677268 TTTTTATAATTTTTAATAA
1 TTTTTATAATTTTTAATAA
* *
30677287 TTTTTAAAATATTTT--TTA
1 TTTTTATAAT-TTTTAATAA
* * **
30677305 TGTTTTTTTATTTTTTTTCAA
1 T-TTTTATAATTTTTAAT-AA
*
30677326 TTTTTATATTTTTTAATAA
1 TTTTTATAATTTTTAATAA
30677345 TTTTTAT
1 TTTTTAT
30677352 TTAAAAAGAG
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
18 7 0.14
19 24 0.49
20 16 0.33
21 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (19 bp):
TTTTTATAATTTTTAATAA
Found at i:30677301 original size:29 final size:28
Alignment explanation
Indices: 30677241--30677350 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
30677231 TTTATGTTTA
* *
30677241 TATAATTTTTTAAATAATGTTTACAACTTTT
1 TATAA-TTTTT-AATAATTTTTA-AAATTTT
30677272 TATAATTTTTAATAATTTTTAAAATATTT
1 TATAATTTTTAATAATTTTTAAAAT-TTT
* ** * **
30677301 T-TTATGTTTTTTTATTTTTTTTCAATTTT
1 TATAAT-TTTTAATA-ATTTTTAAAATTTT
*
30677330 TATATTTTTTAATAATTTTTA
1 TATAATTTTTAATAATTTTTA
30677351 TTTAAAAAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
28 11 0.18
29 30 0.49
30 15 0.25
31 5 0.08
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (28 bp):
TATAATTTTTAATAATTTTTAAAATTTT
Found at i:30677562 original size:21 final size:21
Alignment explanation
Indices: 30677533--30677573 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
30677523 ACTTAATAGG
30677533 TTTTGTTTTA-ATTTATAAGCA
1 TTTTGTTTTATATTT-TAAGCA
*
30677554 TTTTTTTTTATATTTTAAGC
1 TTTTGTTTTATATTTTAAGC
30677574 CCAACGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTGTTTTATATTTTAAGCA
Found at i:30681851 original size:24 final size:24
Alignment explanation
Indices: 30681809--30681862 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
30681799 AAAAAAAAAA
*
30681809 TAATTTAATATAATTATTTTTATT
1 TAATTTAATATAATAATTTTTATT
30681833 TAATATTAATATAA-AATTTTTATT
1 TAAT-TTAATATAATAATTTTTATT
30681857 TAATTT
1 TAATTT
30681863 TTACAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 17 0.61
25 9 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATTTAATATAATAATTTTTATT
Found at i:30681878 original size:24 final size:24
Alignment explanation
Indices: 30681824--30681879 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
30681814 TAATATAATT
*
30681824 ATTTTTATTTAATATTAATATAAA
1 ATTTTTATTTAATATTAACATAAA
* *
30681848 ATTTTTATTTAATTTTTACA-AAA
1 ATTTTTATTTAATATTAACATAAA
30681871 ATTGTTTAT
1 ATT-TTTAT
30681880 AAGTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTAATATTAACATAAA
Found at i:30684695 original size:22 final size:22
Alignment explanation
Indices: 30684669--30684712 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
30684659 CTTGAACATC
30684669 ATATTTTAGCATTATTTAATAT
1 ATATTTTAGCATTATTTAATAT
30684691 ATATTTTAGCATTATTTAATAT
1 ATATTTTAGCATTATTTAATAT
30684713 TAGGCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
ATATTTTAGCATTATTTAATAT
Found at i:30685381 original size:30 final size:31
Alignment explanation
Indices: 30685346--30685412 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
30685336 TTAAAAACCC
* *
30685346 AGTGACTTAAAT-AAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAAATTTCGAATAGTTT
30685376 AGTGACTTAAATAAAAAATTTCGAATAGTTT
1 AGTGACTTAAATAAAAAATTTCGAATAGTTT
30685407 AGTGAC
1 AGTGAC
30685413 CAACTTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAAATTTCGAATAGTTT
Found at i:30691635 original size:5 final size:5
Alignment explanation
Indices: 30691625--30691671 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
30691615 ATGATGTGTA
* *
30691625 AATAT AATAT AATA- AATAT AATTAA AATAT AATAT AATAT GATAT AA
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AA
30691672 GCAAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
6 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:30692034 original size:25 final size:26
Alignment explanation
Indices: 30692000--30692049 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
30691990 GACGTGGGGT
*
30692000 GAAGGAAAAAGAGAA-AAAGAAAAAC
1 GAAGGAAAAAGAGAAGAAAAAAAAAC
30692025 GAAGGAAAAAGAGAAGAAAAAAAAA
1 GAAGGAAAAAGAGAAGAAAAAAAAA
30692050 AAAGAGAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (26 bp):
GAAGGAAAAAGAGAAGAAAAAAAAAC
Found at i:30692537 original size:109 final size:109
Alignment explanation
Indices: 30692409--30692608 Score: 373
Period size: 109 Copynumber: 1.8 Consensus size: 109
30692399 TGATTCATTT
30692409 TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
1 TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
30692474 TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
66 TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
* * *
30692518 TTATCTATATTAATTATATTTTATTGATATAAAACAATTGCAGTTTCATTTAATTTGATCATAAA
1 TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
30692583 TACTTTTTAGATGTCTTATAATATAT
66 TACTTTTTAGATGTCTTATAATATAT
30692609 GTTTTTACTT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 88 1.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (109 bp):
TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
Found at i:30697337 original size:33 final size:32
Alignment explanation
Indices: 30697300--30697375 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
30697290 GAGCCCTTTT
30697300 CAGTAACAGAACAATGTGGGCCTTAGCCCAAAA
1 CAGTAACAGAACAATGTGGGCCTTAGCCC-AAA
* *** * *
30697333 CAGTAAAAGTGTAGTGTGGGCCTTAGCCCATA
1 CAGTAACAGAACAATGTGGGCCTTAGCCCAAA
*
30697365 CAGTATCAGAA
1 CAGTAACAGAA
30697376 TTAGAAACAG
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (32 bp):
CAGTAACAGAACAATGTGGGCCTTAGCCCAAA
Found at i:30697825 original size:27 final size:27
Alignment explanation
Indices: 30697790--30697842 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30697780 TATCGCAGCA
* *
30697790 AAGCTACCAATAATAGT-ATATGTGGCT
1 AAGCCACCAATAACAGTGAT-TGTGGCT
*
30697817 AAGCCACCAGTAACAGTGATTGTGGC
1 AAGCCACCAATAACAGTGATTGTGGC
30697843 AGAGCCATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
AAGCCACCAATAACAGTGATTGTGGCT
Found at i:30697985 original size:24 final size:24
Alignment explanation
Indices: 30697930--30697986 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
30697920 TTAGAATAAG
* *
30697930 TCATTTAAATCACAGACAAATCAG
1 TCATTTACATCACAGACAAATCAA
*
30697954 TCATTTACATCACGGACAAATCAA
1 TCATTTACATCACAGACAAATCAA
30697978 TCATTTACA
1 TCATTTACA
30697987 CTCGAGGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (24 bp):
TCATTTACATCACAGACAAATCAA
Found at i:30698048 original size:27 final size:27
Alignment explanation
Indices: 30698003--30698118 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 27
30697993 GGGTAAAATA
* *
30698003 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * **
30698029 GTCATTTTACCCTATGGGGGTTTTTTG
1 GTCATTTTACCCTATAGGGGTATTACG
* * * *
30698056 ATCGTTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
30698083 GTCATTTTACCCTATA-GGGTATTAAG
1 GTCATTTTACCCTATAGGGGTATTACG
*
30698109 GTCAGTTTAC
1 GTCATTTTAC
30698119 AAATATTAGG
Statistics
Matches: 69, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
26 22 0.32
27 47 0.68
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:30713465 original size:30 final size:30
Alignment explanation
Indices: 30713429--30713498 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
30713419 ATCAATAAGA
30713429 CACATGGCCGCGAGAGGAGGCCATGTGTGG
1 CACATGGCCGCGAGAGGAGGCCATGTGTGG
30713459 CACATGGCCGCGAGAGGAGGCCATGTGTGG
1 CACATGGCCGCGAGAGGAGGCCATGTGTGG
30713489 CACATGGCCG
1 CACATGGCCG
30713499 TGTGACAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.26, G:0.41, T:0.13
Consensus pattern (30 bp):
CACATGGCCGCGAGAGGAGGCCATGTGTGG
Found at i:30714388 original size:26 final size:27
Alignment explanation
Indices: 30714347--30714421 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 27
30714337 TTACATATTT
*
30714347 ATTCATATAAACATTT-CGTATAAACA
1 ATTCATATAAACATTTCCATATAAACA
* ** *
30714373 CTTCATATAATTATTTCCATATAACCA
1 ATTCATATAAACATTTCCATATAAACA
**
30714400 ATTCATATAGCCATTT-CATATA
1 ATTCATATAAACATTTCCATATA
30714422 GCCATTTCAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 19 0.49
27 20 0.51
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.39
Consensus pattern (27 bp):
ATTCATATAAACATTTCCATATAAACA
Found at i:30714408 original size:13 final size:13
Alignment explanation
Indices: 30714348--30714421 Score: 67
Period size: 13 Copynumber: 5.6 Consensus size: 13
30714338 TACATATTTA
30714348 TTCATATAAACAT
1 TTCATATAAACAT
* *
30714361 TTCGTATAAACAC
1 TTCATATAAACAT
**
30714374 TTCATATAATTAT
1 TTCATATAAACAT
* *
30714387 TTCCATATAACCAA
1 TT-CATATAAACAT
**
30714401 TTCATATAGCCAT
1 TTCATATAAACAT
30714414 TTCATATA
1 TTCATATA
30714422 GCCATTTCAA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
13 39 0.80
14 10 0.20
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:30714422 original size:13 final size:13
Alignment explanation
Indices: 30714385--30714430 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
30714375 TCATATAATT
*
30714385 ATTTCCATATAACC
1 ATTT-CATATAGCC
*
30714399 AATTCATATAGCC
1 ATTTCATATAGCC
30714412 ATTTCATATAGCC
1 ATTTCATATAGCC
30714425 ATTTCA
1 ATTTCA
30714431 AAGTGTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 26 0.90
14 3 0.10
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (13 bp):
ATTTCATATAGCC
Found at i:30722190 original size:15 final size:15
Alignment explanation
Indices: 30722170--30722214 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
30722160 CTCTACATCT
30722170 ATAGGTCATTTTCCC
1 ATAGGTCATTTTCCC
30722185 ATAGGTCATTTTCCC
1 ATAGGTCATTTTCCC
30722200 ATAGGTCATTTTCCC
1 ATAGGTCATTTTCCC
30722215 GAATCATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (15 bp):
ATAGGTCATTTTCCC
Found at i:30725853 original size:12 final size:12
Alignment explanation
Indices: 30725828--30725866 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30725818 ACTCGCTTCT
* *
30725828 TTACTTACTCAC
1 TTACTTGCTTAC
*
30725840 TTACTTGTTTAC
1 TTACTTGCTTAC
30725852 TTACTTGCTTAC
1 TTACTTGCTTAC
30725864 TTA
1 TTA
30725867 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:30726183 original size:50 final size:50
Alignment explanation
Indices: 30726115--30726307 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
30726105 TTTTCTGTAC
* * **
30726115 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
30726165 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGAACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCGG
* *
30726215 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
30726271 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
30726308 TCTCATTCCC
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 3 0.02
50 77 0.64
51 3 0.02
53 2 0.02
56 36 0.30
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:30726248 original size:100 final size:103
Alignment explanation
Indices: 30726115--30726301 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 103
30726105 TTTTCTGTAC
* * ** * *
30726115 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCAT-A-TC-GGTGCCCATGCCAT
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGATGCCAATGCCAT
*
30726177 GTCCCAGACATGGTCTTACGGGGAACCTCTCATCTCGG
66 GCCCCAGACATGGTCTTACGGGGAACCTCTCATCTCGG
*
30726215 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGC
1 TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAA-CTC-A-GATGCCAATGC
30726280 CATGCCCCAGACATGGTCTTAC
63 CATGCCCCAGACATGGTCTTAC
30726302 ATGGGATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.55
101 1 0.01
103 2 0.03
106 30 0.41
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (103 bp):
TGCCAACGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAACTCAGATGCCAATGCCAT
GCCCCAGACATGGTCTTACGGGGAACCTCTCATCTCGG
Found at i:30730419 original size:20 final size:20
Alignment explanation
Indices: 30730394--30730535 Score: 56
Period size: 20 Copynumber: 7.1 Consensus size: 20
30730384 GAAGTACAAC
30730394 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * *
30730414 CAGGGGTACCG-AAGTACAAAT
1 CAGGGGCA-CGTATGTGC-ATT
30730435 -AGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * ** * * **
30730454 TAAGGGTACCAAAGTACAAA
1 CAGGGGCACGTATGTGCATT
30730474 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * * **
30730494 TAGGGGAATCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
*
30730514 CAAGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
30730534 CA
1 CA
30730536 TACAATAATT
Statistics
Matches: 78, Mismatches: 38, Indels: 12
0.61 0.30 0.09
Matches are distributed among these distances:
19 6 0.08
20 66 0.85
21 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:30730439 original size:40 final size:40
Alignment explanation
Indices: 30730379--30730535 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
30730369 TGCATTCAAA
* *
30730379 GTACTGAAGTACAACCAGGGGCACGTATGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* * *
30730419 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTTAAGG
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* *
30730459 GTACCAAAGTACAAACAGGGGCACGTATGTGCATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* * *
30730499 GAATCGAAGTACAAACAAGGGCACGTATGTGCATTCA
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
30730536 TACAATAATT
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.20
Consensus pattern (40 bp):
GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
Found at i:30741057 original size:15 final size:15
Alignment explanation
Indices: 30741037--30741066 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30741027 CATTCTTCGG
30741037 AATTTTCCAATCAAC
1 AATTTTCCAATCAAC
30741052 AATTTTCCAATCAAC
1 AATTTTCCAATCAAC
30741067 CCTGATTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTTTCCAATCAAC
Found at i:30744872 original size:40 final size:38
Alignment explanation
Indices: 30744828--30745109 Score: 120
Period size: 40 Copynumber: 7.1 Consensus size: 38
30744818 ATACTATTCG
*
30744828 ATTCAGAGTTATCAGAGTATAAACAGGGGCAC-TAAAGTGC
1 ATTCAGAG-TA-CAGAGTACAAACAGGGGCACGT-AAGTGC
* * * *
30744868 ATTCAAAGTACCGAGTACAACCAGGGGCACGTATGTGC
1 ATTCAGAGTACAGAGTACAAACAGGGGCACGTAAGTGC
* * * * *
30744906 ATTCAGGGATGT-CAAAGTACAAATAGGGGTATGTATGTGC
1 ATTCA--GA-GTACAGAGTACAAACAGGGGCACGTAAGTGC
* * * * *
30744946 CTTCATGGGTACCGAAGTACAAACA-GGGCATGTATGTGC
1 ATTCA-GAGTACAG-AGTACAAACAGGGGCACGTAAGTGC
* * * * * *
30744985 ATTTAGGGATACCGAGGCACAAACAGGGGCACTTATGTGC
1 ATTCAGAG-TACAGA-GTACAAACAGGGGCACGTAAGTGC
* * * * * *
30745025 ATTCAGGTGTACCGAAGTACAAATAAGGGCACGCATGTGC
1 ATTCA-GAGTACAG-AGTACAAACAGGGGCACGTAAGTGC
* * * * * *
30745065 ATTTACGGGTACCGAAGTACAAATAGGGGCACGCATGTGC
1 ATTCA-GAGTACAG-AGTACAAACAGGGGCACGTAAGTGC
30745105 ATTCA
1 ATTCA
30745110 TACAATAATT
Statistics
Matches: 195, Mismatches: 36, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
38 33 0.17
39 34 0.17
40 123 0.63
41 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (38 bp):
ATTCAGAGTACAGAGTACAAACAGGGGCACGTAAGTGC
Found at i:30744975 original size:79 final size:79
Alignment explanation
Indices: 30744843--30745109 Score: 265
Period size: 79 Copynumber: 3.4 Consensus size: 79
30744833 GAGTTATCAG
* * * * ** *
30744843 AGTATAAACAGGGGCACTAAAGTGCATTCA-AAGTACCG-AGTACAACCAGGGGCACGTATGTGC
1 AGTACAAATAGGGGCACTTATGTGCATTCAGGTGTACCGAAGTACAAACA-GGGCACGTATGTGC
* ** *
30744906 ATTCAGGGATGTCAA
65 ATTTAGGGATACCGA
* * *
30744921 AGTACAAATAGGGGTA-TGTATGTGCCTTCATGG-GTACCGAAGTACAAACAGGGCATGTATGTG
1 AGTACAAATAGGGGCACT-TATGTGCATTCA-GGTGTACCGAAGTACAAACAGGGCACGTATGTG
30744984 CATTTAGGGATACCGA
64 CATTTAGGGATACCGA
* * * * *
30745000 GGCACAAACAGGGGCACTTATGTGCATTCAGGTGTACCGAAGTACAAATAAGGGCACGCATGTGC
1 AGTACAAATAGGGGCACTTATGTGCATTCAGGTGTACCGAAGTACAAA-CAGGGCACGTATGTGC
30745065 ATTTACGGG-TACCGA
65 ATTTA-GGGATACCGA
**
30745080 AGTACAAATAGGGGCACGCATGTGCATTCA
1 AGTACAAATAGGGGCACTTATGTGCATTCA
30745110 TACAATAATT
Statistics
Matches: 155, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
77 1 0.01
78 24 0.15
79 68 0.44
80 59 0.38
81 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (79 bp):
AGTACAAATAGGGGCACTTATGTGCATTCAGGTGTACCGAAGTACAAACAGGGCACGTATGTGCA
TTTAGGGATACCGA
Found at i:30745024 original size:119 final size:118
Alignment explanation
Indices: 30744876--30745107 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 118
30744866 GCATTCAAAG
* * * * * *
30744876 TACCGAGTACAACCAGGGGCACGTATGTGCATTCAGGGATGT-CAAAGTACAAATAGGGGTATGT
1 TACCGAGCACAAACAGGGGCACGTATGTGCATTCA-GG-TGTACAAAGTACAAATAAGGGCACGC
* * * *
30744940 ATGTGCCTTCATGGGTACCGAAGTACAAACA-GGGCATGTATGTGCATTTAGGGA
64 ATGTGCATTCACGGGTACCGAAGTACAAACAGGGGCACGCATGTGCATTTAGGGA
* *
30744994 TACCGAGGCACAAACAGGGGCACTTATGTGCATTCAGGTGTACCGAAGTACAAATAAGGGCACGC
1 TACCGA-GCACAAACAGGGGCACGTATGTGCATTCAGGTGTA-CAAAGTACAAATAAGGGCACGC
* *
30745059 ATGTGCATTTACGGGTACCGAAGTACAAATAGGGGCACGCATGTGCATT
64 ATGTGCATTCACGGGTACCGAAGTACAAACAGGGGCACGCATGTGCATT
30745108 CATACAATAA
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
117 3 0.03
118 8 0.08
119 70 0.73
120 15 0.16
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (118 bp):
TACCGAGCACAAACAGGGGCACGTATGTGCATTCAGGTGTACAAAGTACAAATAAGGGCACGCAT
GTGCATTCACGGGTACCGAAGTACAAACAGGGGCACGCATGTGCATTTAGGGA
Found at i:30749751 original size:21 final size:22
Alignment explanation
Indices: 30749727--30749767 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
30749717 TGTTATTTAT
*
30749727 TTAATAAAATA-AAATAAAAGG
1 TTAATAAAATACAAAAAAAAGG
30749748 TTAATAAAATACAAAAAAAA
1 TTAATAAAATACAAAAAAAA
30749768 ATGTTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (22 bp):
TTAATAAAATACAAAAAAAAGG
Found at i:30751953 original size:35 final size:35
Alignment explanation
Indices: 30751907--30751982 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
30751897 AAAATTGGTG
30751907 TATGT-TC-TTAAATGACCAAAATTGGTAT-G-TGT
1 TATGTATCTTTAAATGACCAAAA-TGGTATGGTTGT
*
30751939 TAATGTATCTTTAAATGGCCAAAATGGTATGGTTGT
1 T-ATGTATCTTTAAATGACCAAAATGGTATGGTTGT
30751975 TATGTATC
1 TATGTATC
30751983 AATTATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 1 0.03
33 4 0.11
34 8 0.21
35 21 0.55
36 4 0.11
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
TATGTATCTTTAAATGACCAAAATGGTATGGTTGT
Found at i:30755758 original size:11 final size:11
Alignment explanation
Indices: 30755742--30755766 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30755732 GGAAAATGAC
30755742 TTATGAAGTAA
1 TTATGAAGTAA
30755753 TTATGAAGTAA
1 TTATGAAGTAA
30755764 TTA
1 TTA
30755767 GTCCATAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (11 bp):
TTATGAAGTAA
Found at i:30758624 original size:25 final size:22
Alignment explanation
Indices: 30758590--30758767 Score: 83
Period size: 23 Copynumber: 7.7 Consensus size: 22
30758580 TGTTCAAGTG
30758590 TATATTGGTTGTGTTAGGAGGTTA
1 TATATTGGTTGTGTTAGGAGG--A
*
30758614 TATATATGGTTGTGTTTGGAGGA
1 TATAT-TGGTTGTGTTAGGAGGA
* * * *
30758637 TACATTTGGTTGTGTTCGAAGGG
1 TATA-TTGGTTGTGTTAGGAGGA
* * * * * * *
30758660 TAAAATAGTTTTTTTCA-AAGGG
1 TATATTGGTTGTGTT-AGGAGGA
* *
30758682 TA-ACTTGGCTGTGTTTGGAAGG-
1 TATA-TTGGTTGTGTTAGG-AGGA
30758704 TATACTTGGTTGTGTTAGGAGGTTA
1 TATA-TTGGTTGTGTTAGGAGG--A
*
30758729 TATATATGGTTGTGTTAGGAGGG
1 TATAT-TGGTTGTGTTAGGAGGA
*
30758752 TACATTTGGTTGTGTT
1 TATA-TTGGTTGTGTT
30758768 CGAAGGGTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.01
22 25 0.21
23 51 0.43
24 8 0.07
25 35 0.29
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (22 bp):
TATATTGGTTGTGTTAGGAGGA
Found at i:30758774 original size:23 final size:22
Alignment explanation
Indices: 30758620--30758777 Score: 84
Period size: 23 Copynumber: 6.9 Consensus size: 22
30758610 GTTATATATA
* * *
30758620 TGGTTGTGTTTGGAGGATACATT
1 TGGTTGTGTTCGAAGGGTA-ATT
**
30758643 TGGTTGTGTTCGAAGGGTAAAA
1 TGGTTGTGTTCGAAGGGTAATT
* * * * *
30758665 TAGTTTTTTTCAAAGGGTAACT
1 TGGTTGTGTTCGAAGGGTAATT
* * *
30758687 TGGCTGTGTTTGGAA-GGTATACT
1 TGGTTGTG-TTCGAAGGGTA-ATT
* * *
30758710 TGGTTGTGTTAGGAGGTTATATAT
1 TGGTTGTGTTCGAAGGGTA-AT-T
* *
30758734 ATGGTTGTGTTAGGAGGGTACATT
1 -TGGTTGTGTTCGAAGGGTA-ATT
30758758 TGGTTGTGTTCGAAGGGTAA
1 TGGTTGTGTTCGAAGGGTAA
30758778 AATACTTGTT
Statistics
Matches: 104, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
22 30 0.29
23 52 0.50
24 2 0.02
25 20 0.19
ACGTcount: A:0.22, C:0.05, G:0.34, T:0.40
Consensus pattern (22 bp):
TGGTTGTGTTCGAAGGGTAATT
Found at i:30765693 original size:7 final size:7
Alignment explanation
Indices: 30765681--30765706 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30765671 CTTGATTAGA
30765681 TTTTTAT
1 TTTTTAT
30765688 TTTTTAT
1 TTTTTAT
30765695 TTTTTAT
1 TTTTTAT
30765702 TTTTT
1 TTTTT
30765707 TTACTTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:30766406 original size:21 final size:21
Alignment explanation
Indices: 30766381--30766438 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
30766371 ATGTAACTCG
30766381 ATCACACGGGTGTGTGTCTCC
1 ATCACACGGGTGTGTGTCTCC
* **
30766402 TTCACACGGGCATGTGTCTCC
1 ATCACACGGGTGTGTGTCTCC
*
30766423 ACCACACGGGTGTGTG
1 ATCACACGGGTGTGTG
30766439 GGCCTCCACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (21 bp):
ATCACACGGGTGTGTGTCTCC
Found at i:30770280 original size:71 final size:71
Alignment explanation
Indices: 30770163--30770322 Score: 239
Period size: 71 Copynumber: 2.2 Consensus size: 71
30770153 TGGATAAAAA
* *
30770163 AATCTCCAAAACACACCACACAACTCATTAAGTCGTACACTATCTCCATGTAAGTCTAGCACGTA
1 AATCTCC-AAACACACCACACAACTCATAAAGTCGTACACTATCTCCATGTAAGTCTAGCACATA
30770228 TGCTCAC
65 TGCTCAC
* * * *
30770235 AATCTCCAAACACACCACACTACTCATAAAGTTGTACGCTATCTCCATGTAAGTGTAGCACATAT
1 AATCTCCAAACACACCACACAACTCATAAAGTCGTACACTATCTCCATGTAAGTCTAGCACATAT
30770300 GCTCAC
66 GCTCAC
* *
30770306 AAACTCTAAACACACCA
1 AATCTCCAAACACACCA
30770323 TACTGTCTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 73 0.91
72 7 0.09
ACGTcount: A:0.36, C:0.31, G:0.09, T:0.23
Consensus pattern (71 bp):
AATCTCCAAACACACCACACAACTCATAAAGTCGTACACTATCTCCATGTAAGTCTAGCACATAT
GCTCAC
Found at i:30773547 original size:42 final size:42
Alignment explanation
Indices: 30773496--30773593 Score: 153
Period size: 42 Copynumber: 2.3 Consensus size: 42
30773486 GCTCTCGATA
*
30773496 TCGCACACTTAGT-CCCTGTTATTCAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCC-ATTATTCAACATCATCATTTTAATT
* *
30773538 TCGCACACTTAGTGCCCATTATTCAACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
30773580 TCGCACACTTAGTG
1 TCGCACACTTAGTG
30773594 TCGTTCATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 49 0.94
43 3 0.06
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATTCAACATCATCATTTTAATT
Done.