Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 92 of 335
Found at i:29847137 original size:21 final size:21
Alignment explanation
Indices: 29847103--29847142 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
29847093 AAGATATACT
*
29847103 TATATAAACATATATTAAAGA
1 TATATAAACATATAATAAAGA
* *
29847124 TATATACATATATAATAAA
1 TATATAAACATATAATAAA
29847143 ATACATGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TATATAAACATATAATAAAGA
Found at i:29848104 original size:106 final size:107
Alignment explanation
Indices: 29847918--29848130 Score: 376
Period size: 106 Copynumber: 2.0 Consensus size: 107
29847908 TAAAAATCAG
29847918 AAAAAAAAATCATTTGGGATCTGGGAAAGGAAAAAAAAAAGAGAGGGGAGAGGGCTGAGCGATTT
1 AAAAAAAAATCATTTGGGATCTGGGAAAGGAAAAAAAAAAGAGAGGGGAGAGGGCTGAGCGATTT
29847983 CCGGTGGGGAGAGGGGGCACCGGTCCGTCACCGGACCTTCGC
66 CCGGTGGGGAGAGGGGGCACCGGTCCGTCACCGGACCTTCGC
29848025 AAAAAAAAATCATTTGGGAGT-TGGGAAAGG-AAAAAAAAAGAGAGGGGAGAGGGCTGAGCGATT
1 AAAAAAAAATCATTTGGGA-TCTGGGAAAGGAAAAAAAAAAGAGAGGGGAGAGGGCTGAGCGATT
* * *
29848088 TTCGGTGGGGAGAGGGGGCACCGGTCTGTTACCGGACCTTCGC
65 TCCGGTGGGGAGAGGGGGCACCGGTCCGTCACCGGACCTTCGC
29848131 CGGCGCCGGC
Statistics
Matches: 102, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
106 73 0.72
107 28 0.27
108 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.37, T:0.15
Consensus pattern (107 bp):
AAAAAAAAATCATTTGGGATCTGGGAAAGGAAAAAAAAAAGAGAGGGGAGAGGGCTGAGCGATTT
CCGGTGGGGAGAGGGGGCACCGGTCCGTCACCGGACCTTCGC
Found at i:29849938 original size:138 final size:137
Alignment explanation
Indices: 29849749--29850022 Score: 503
Period size: 138 Copynumber: 2.0 Consensus size: 137
29849739 CCATTCAGGC
*
29849749 AACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAG
1 AACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAG
29849814 ATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCA
66 ATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCA
29849879 TTTGGGT
131 TTTGGGT
*
29849886 AACAGTGGTACTAGGCCAGAGCCCTTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCA
1 AACAGTGGTACTAGGCCAGAGCCC-TTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCA
* *
29849951 GATAACAGTATGGCCCATGGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCC
65 GATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCC
29850016 ATTTGGG
130 ATTTGGG
29850023 GAGACTACTC
Statistics
Matches: 132, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
137 23 0.17
138 109 0.83
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAG
ATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCA
TTTGGGT
Found at i:29850315 original size:26 final size:26
Alignment explanation
Indices: 29850269--29850321 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
29850259 TCAAACATGC
*
29850269 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
29850295 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
29850321 A
1 A
29850322 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:29851839 original size:26 final size:26
Alignment explanation
Indices: 29851801--29851910 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
29851791 CATGGAATTC
*
29851801 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
29851827 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
29851853 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
29851879 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
29851905 TTATCA
1 TTATCA
29851911 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:29852576 original size:3 final size:3
Alignment explanation
Indices: 29852568--29852593 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29852558 AAGCCATTAT
29852568 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
29852594 TAATTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:29853204 original size:31 final size:32
Alignment explanation
Indices: 29853143--29853221 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
29853133 TATTTACATA
* *
29853143 AAATTTTAATTATAGTTCAAATGTAGATA-TT
1 AAATTTTAATTATAATTCAAATATAGATATTT
* *
29853174 AAATTTTAATTATAATTCAATTATATATATTT
1 AAATTTTAATTATAATTCAAATATAGATATTT
**
29853206 AAAAATTAA-TATAATT
1 AAATTTTAATTATAATT
29853222 ATTTATTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 32 0.78
32 9 0.22
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (32 bp):
AAATTTTAATTATAATTCAAATATAGATATTT
Found at i:29855517 original size:31 final size:31
Alignment explanation
Indices: 29855482--29855543 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
29855472 TTAACGGATA
29855482 CAAAATTTTCTACAATTTATTCAATTTAATT
1 CAAAATTTTCTACAATTTATTCAATTTAATT
*
29855513 CAAAATTTTCTATAATTTATTCAATTTAATT
1 CAAAATTTTCTACAATTTATTCAATTTAATT
29855544 TGATGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (31 bp):
CAAAATTTTCTACAATTTATTCAATTTAATT
Found at i:29857320 original size:19 final size:19
Alignment explanation
Indices: 29857278--29857322 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
29857268 GGTACTAAAA
29857278 AAATTAATTTTAAATTAATT
1 AAATT-ATTTTAAATTAATT
*
29857298 -AATTATTTTAAATTTATT
1 AAATTATTTTAAATTAATT
29857316 AAATTAT
1 AAATTAT
29857323 GAATTGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATTATTTTAAATTAATT
Found at i:29859385 original size:9 final size:9
Alignment explanation
Indices: 29859353--29859386 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
29859343 AAAACTTTAC
29859353 ACACA-TTA
1 ACACAGTTA
29859361 ACACAGTTA
1 ACACAGTTA
29859370 GACACAGTTA
1 -ACACAGTTA
29859380 ACACAGT
1 ACACAGT
29859387 CAAGTTCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 5 0.21
9 10 0.42
10 9 0.38
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (9 bp):
ACACAGTTA
Found at i:29864498 original size:44 final size:44
Alignment explanation
Indices: 29864449--29864666 Score: 265
Period size: 44 Copynumber: 4.9 Consensus size: 44
29864439 CCTTTGAAAT
* * * *
29864449 AGATTGAGGCCGCAAATATTATCTCTCTGAAGTTGCAGTGGAAC
1 AGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
**
29864493 AGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGT
1 AGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
* * * *
29864537 AGATTGAAGCCACTAACCTTATCTCCCTAAAGTTGTAGTGGAAC
1 AGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
* ** * *
29864581 AGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGC
1 AGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
* **
29864625 AAATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGG
1 AGATTGAAGCCA-CAAATCTTATCTCCCTGAAGTTGCAGTGG
29864667 GGTATATTGA
Statistics
Matches: 148, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 120 0.81
45 28 0.19
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
AGATTGAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
Found at i:29866164 original size:42 final size:46
Alignment explanation
Indices: 29866101--29866399 Score: 253
Period size: 49 Copynumber: 6.5 Consensus size: 46
29866091 CTTCGTTTTC
** * *
29866101 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACGTAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACAT-A
*
29866144 T-GATGCCATAGCCCAGCTATGGTCTTACAC-AT--AT-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
29866185 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
*
29866234 TCGATGCCATAGCCCAGCTATGGTTTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
* *
29866283 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-C
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATA
* * * * * * *
29866330 T-GATGCTATATCCCAGATATGGTCGTATACAGTAGCATAT-ATCACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATA-CATATCA-CATA
* * *
29866376 CCGATGCCATATCCCAGATATGGT
1 TCGATGCCATAGCCCAGCTATGGT
29866400 ATTATACGGA
Statistics
Matches: 222, Mismatches: 21, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.01
42 62 0.28
43 1 0.00
44 1 0.00
45 11 0.05
46 24 0.11
47 22 0.10
48 15 0.07
49 84 0.38
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:29866244 original size:49 final size:49
Alignment explanation
Indices: 29866171--29866325 Score: 276
Period size: 49 Copynumber: 3.2 Consensus size: 49
29866161 TATGGTCTTA
*
29866171 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
29866221 CACATATCACATATCGATGCCATAGCCCAGCTATGGTTTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
29866270 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
29866318 CACATATC
1 CACATATC
29866326 TCACTGATGC
Statistics
Matches: 102, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 11 0.11
49 85 0.83
50 6 0.06
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:29866460 original size:31 final size:31
Alignment explanation
Indices: 29866425--29866542 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
29866415 CTTGTCACTT
*
29866425 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
29866456 GTAGCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
29866487 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
29866518 GTAGTAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
29866543 TGTCATTTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.01
31 79 0.99
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:29866617 original size:50 final size:51
Alignment explanation
Indices: 29866524--29866646 Score: 212
Period size: 50 Copynumber: 2.4 Consensus size: 51
29866514 TCAGGTAGTA
* *
29866524 GAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
*
29866575 GAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCATATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
29866625 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
29866647 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 49 0.72
51 19 0.28
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCC
Found at i:29866779 original size:14 final size:15
Alignment explanation
Indices: 29866760--29866788 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29866750 TTTTATCATC
29866760 AATACAT-ATGAAAT
1 AATACATCATGAAAT
29866774 AATACATCATGAAAT
1 AATACATCATGAAAT
29866789 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (15 bp):
AATACATCATGAAAT
Found at i:29872484 original size:44 final size:44
Alignment explanation
Indices: 29872421--29872504 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
29872411 TATAATGGCG
29872421 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACT
*
29872465 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT
29872505 TGTAATGGCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCACT
Found at i:29872634 original size:43 final size:43
Alignment explanation
Indices: 29872519--29872683 Score: 138
Period size: 44 Copynumber: 3.8 Consensus size: 43
29872509 ATGGCGAATC
* * * * ** *
29872519 TTAACCACAAATCTTATCTCCCTAAAGTTGCAGTGGAACATAT
1 TTAAGCACTAATCTTATCTCCCTAAAGTTACAGTAGAGTAGAT
* *
29872562 TGAAGC-CATAAATCTTATCTCCCTGAAGTTACAGTAGAGTAGAT
1 TTAAGCAC-T-AATCTTATCTCCCTAAAGTTACAGTAGAGTAGAT
** *
29872606 TTAAGCACTAATCTTATCTCCCTAAAGTTGTAGTAGAGTAGGT
1 TTAAGCACTAATCTTATCTCCCTAAAGTTACAGTAGAGTAGAT
* *
29872649 TAAAGTTAC-AAGTCTTATCTCCCTGAAA-TTACAGT
1 TTAAG-CACTAA-TCTTATCTCCCT-AAAGTTACAGT
29872684 GGGGTATATT
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
43 40 0.41
44 53 0.54
45 4 0.04
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (43 bp):
TTAAGCACTAATCTTATCTCCCTAAAGTTACAGTAGAGTAGAT
Found at i:29873690 original size:16 final size:17
Alignment explanation
Indices: 29873659--29873691 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
29873649 TTCATAAGTA
29873659 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
29873676 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
29873692 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:29874380 original size:46 final size:46
Alignment explanation
Indices: 29873972--29874381 Score: 520
Period size: 46 Copynumber: 9.0 Consensus size: 46
29873962 TTATCTTTGA
* * * * * * *
29873972 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* *** *
29874018 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
29874064 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ***
29874109 CATGTTGCCATGGTATCTTTCAACCATGGTCGTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
29874154 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
29874200 CTTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
29874246 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
29874292 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
29874338 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
29874382 TTCAGAAAGC
Statistics
Matches: 330, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 85 0.26
46 245 0.74
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:29877700 original size:3 final size:3
Alignment explanation
Indices: 29877694--29877744 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
29877684 GTGTTGTTTC
29877694 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
29877743 TT
1 TT
29877745 CATGCATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29877959 original size:3 final size:3
Alignment explanation
Indices: 29877945--29878026 Score: 137
Period size: 3 Copynumber: 27.3 Consensus size: 3
29877935 CCCCCGTTTC
*
29877945 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
29877993 TAT TAT TAT TAT TAT TAT TAT TAG TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
29878027 TATAATTTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:29881166 original size:30 final size:30
Alignment explanation
Indices: 29881132--29881190 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
29881122 CAATAATTCG
*
29881132 TCAATCAACTCATCATCATAATCGATATCA
1 TCAATCAACTCATCATCATAATCAATATCA
*
29881162 TCAATCAACTCATTATCATAATCAATATC
1 TCAATCAACTCATCATCATAATCAATATC
29881191 GTCATCCTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (30 bp):
TCAATCAACTCATCATCATAATCAATATCA
Found at i:29881696 original size:41 final size:41
Alignment explanation
Indices: 29881639--29881721 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
29881629 ACATTTATAG
29881639 ATAGATGTCTTTTAATTATACTCTAATTAGGAATCCAATAC
1 ATAGATGTCTTTTAATTATACTCTAATTAGGAATCCAATAC
* * *
29881680 ATAGATGTGTTTTAATTGTACTCTATTTAGGAATCCAATAC
1 ATAGATGTCTTTTAATTATACTCTAATTAGGAATCCAATAC
29881721 A
1 A
29881722 GAAGTGGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (41 bp):
ATAGATGTCTTTTAATTATACTCTAATTAGGAATCCAATAC
Found at i:29888623 original size:2 final size:2
Alignment explanation
Indices: 29888612--29888641 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
29888602 TTTTTCAATT
29888612 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
29888642 CATACAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29896083 original size:107 final size:108
Alignment explanation
Indices: 29895969--29896182 Score: 394
Period size: 107 Copynumber: 2.0 Consensus size: 108
29895959 TAAACAAAAT
*
29895969 ATTAGTTTAACAAAATAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
29896034 AATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTTG
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
*
29896076 ATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACAA
1 ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
*
29896141 AATTGTATTAAATTTTTTGTTAATTACTCTGATAAAATTTTT
66 AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
29896183 TGACGTGTTT
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.89
108 11 0.11
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (108 bp):
ATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAA
AATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTTG
Found at i:29897188 original size:12 final size:12
Alignment explanation
Indices: 29897171--29897203 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
29897161 CGGTTTACCC
29897171 ATATTAATTTTT
1 ATATTAATTTTT
29897183 ATATT-ATTTTT
1 ATATTAATTTTT
29897194 ATA-TAATTTT
1 ATATTAATTTT
29897204 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:29897360 original size:30 final size:30
Alignment explanation
Indices: 29897324--29897381 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
29897314 CAACTTAACA
29897324 AACAAATGT-TTATAAAATAATAACAAAATT
1 AACAAATGTCTT-TAAAATAATAACAAAATT
*
29897354 AACAAATGTCTTTAAAATAATAATAAAA
1 AACAAATGTCTTTAAAATAATAACAAAA
29897382 AGTAACAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.29
Consensus pattern (30 bp):
AACAAATGTCTTTAAAATAATAACAAAATT
Found at i:29897463 original size:11 final size:11
Alignment explanation
Indices: 29897426--29897475 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
29897416 ATAATAACAA
29897426 TAAAATAGTAG
1 TAAAATAGTAG
* *
29897437 TAACATAATAG
1 TAAAATAGTAG
29897448 TAAAATAGTAG
1 TAAAATAGTAG
* *
29897459 CAAAATAGGAG
1 TAAAATAGTAG
29897470 -AAAATA
1 TAAAATA
29897476 ATAAGAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 6 0.18
11 27 0.82
ACGTcount: A:0.58, C:0.04, G:0.16, T:0.22
Consensus pattern (11 bp):
TAAAATAGTAG
Found at i:29898662 original size:65 final size:64
Alignment explanation
Indices: 29898546--29898726 Score: 310
Period size: 65 Copynumber: 2.8 Consensus size: 64
29898536 CCATATGTTC
*
29898546 TCGAGTTAACTTATGAAACTAACTT-ATCGACAACATTATTAATATATACAATCTTGAGTTGGTG
1 TCGAGTTAACTTATGAAAC-AACTTAATCAACAACATTATTAATATATACAATCTTGAGTTGGTG
*
29898610 TCGAGTTAACTTGTGAAATCAACTTAATCAACAACATTATTAATATATACAATCTTGAGTTGGTG
1 TCGAGTTAACTTATGAAA-CAACTTAATCAACAACATTATTAATATATACAATCTTGAGTTGGTG
29898675 TCGAGTTAACTTATGAAACCAACTTAATCAACAACATTATTAATATATACAA
1 TCGAGTTAACTTATGAAA-CAACTTAATCAACAACATTATTAATATATACAA
29898727 CTGATGAAGG
Statistics
Matches: 111, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
64 22 0.20
65 89 0.80
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (64 bp):
TCGAGTTAACTTATGAAACAACTTAATCAACAACATTATTAATATATACAATCTTGAGTTGGTG
Found at i:29899409 original size:8 final size:9
Alignment explanation
Indices: 29899389--29899418 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
29899379 TCTTATGAAC
29899389 TTTTTATAT
1 TTTTTATAT
29899398 TTTTTATAT
1 TTTTTATAT
*
29899407 TTTTTAAAT
1 TTTTTATAT
29899416 TTT
1 TTT
29899419 AAATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTATAT
Found at i:29901724 original size:17 final size:19
Alignment explanation
Indices: 29901691--29901727 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
29901681 ATAAATTACA
29901691 ATAATAACAATAATAAAAG
1 ATAATAACAATAATAAAAG
29901710 ATAA-AACAA-AATAAAAG
1 ATAATAACAATAATAAAAG
29901727 A
1 A
29901728 ATATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 5 0.28
19 4 0.22
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (19 bp):
ATAATAACAATAATAAAAG
Found at i:29908352 original size:16 final size:15
Alignment explanation
Indices: 29908331--29908378 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
29908321 TTTTAAAGAA
*
29908331 AATATATACGTAAAAT
1 AATATATACAT-AAAT
*
29908347 AATATA-ACATCAAT
1 AATATATACATAAAT
29908361 AATATATACATAGAAT
1 AATATATACATA-AAT
29908377 AA
1 AA
29908379 GAAATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 11 0.41
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.29
Consensus pattern (15 bp):
AATATATACATAAAT
Found at i:29909113 original size:7 final size:8
Alignment explanation
Indices: 29909096--29909120 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29909086 TTAAAAGCAG
29909096 AAATAAAA
1 AAATAAAA
29909104 AAATAAAA
1 AAATAAAA
29909112 AAATAAAA
1 AAATAAAA
29909120 A
1 A
29909121 CTAAACACCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:29909337 original size:24 final size:26
Alignment explanation
Indices: 29909306--29909360 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
29909296 TTGCAAATGG
*
29909306 AAAAAAAAGAAGA-AGAA-AAAAACA
1 AAAAAAAACAAGAGAGAACAAAAACA
*
29909330 AAAAAAAACAAGAGGAGAACAAAAAGA
1 AAAAAAAACAAGA-GAGAACAAAAACA
29909357 AAAA
1 AAAA
29909361 TCTCGAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 12 0.46
26 4 0.15
27 10 0.38
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (26 bp):
AAAAAAAACAAGAGAGAACAAAAACA
Found at i:29911098 original size:20 final size:20
Alignment explanation
Indices: 29911075--29911117 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
29911065 TTTAAATTCT
29911075 AAAATCTGAAAAGTAAGACC
1 AAAATCTGAAAAGTAAGACC
* *
29911095 AAAATTTGAAAAGTAATACC
1 AAAATCTGAAAAGTAAGACC
29911115 AAA
1 AAA
29911118 TTCTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (20 bp):
AAAATCTGAAAAGTAAGACC
Found at i:29916255 original size:30 final size:29
Alignment explanation
Indices: 29916232--29916319 Score: 122
Period size: 31 Copynumber: 2.9 Consensus size: 29
29916222 GTCATTAAGG
29916232 TATTTGAAAGTTTTTATTAAGTCACTAAAC
1 TATTTGAAAGTTTTT-TTAAGTCACTAAAC
* *
29916262 TATTTAAAATTTTTTTTTTAAGTCACTAAAC
1 TATTTGAAA--GTTTTTTTAAGTCACTAAAC
29916293 TATTTGAAAGTTTTTTTAAAGTCACTA
1 TATTTGAAAGTTTTTTT-AAGTCACTA
29916320 GACGATTAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
29 7 0.14
30 17 0.33
31 22 0.43
32 5 0.10
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (29 bp):
TATTTGAAAGTTTTTTTAAGTCACTAAAC
Found at i:29916283 original size:31 final size:30
Alignment explanation
Indices: 29916242--29916343 Score: 118
Period size: 31 Copynumber: 3.4 Consensus size: 30
29916232 TATTTGAAAG
*
29916242 TTTTTATTAAGTCACTAAACTATTTAAAATT
1 TTTTTTTTAAGTCACTAAACTATTT-AAATT
*
29916273 TTTTTTTTAAGTCACTAAACTATTTGAAA-G
1 TTTTTTTTAAGTCACTAAACTATTT-AAATT
* * * *
29916303 TTTTTTTAAAGTCACTAGACGA-TTAAGTT
1 TTTTTTTTAAGTCACTAAACTATTTAAATT
29916332 TTTTTTTTAAGT
1 TTTTTTTTAAGT
29916344 TCGATTAATG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
28 2 0.03
29 13 0.21
30 19 0.31
31 27 0.44
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (30 bp):
TTTTTTTTAAGTCACTAAACTATTTAAATT
Found at i:29916449 original size:65 final size:65
Alignment explanation
Indices: 29916354--29916484 Score: 192
Period size: 65 Copynumber: 2.0 Consensus size: 65
29916344 TCGATTAATG
* * *
29916354 AGCTCTAAGTGACTATTCAACAATCGGTACAGTAGATCAGCATTCATC-AATAAGTAGAAGAACA
1 AGCTCTAAGTGACTAGTCAACAATCAGTACAGTAGATCAGCATTCATCGAA-AAGAAGAAGAACA
29916418 T
65 T
* * *
29916419 AGCTCTAAGTGACTAGTCGACAATTAGTACAGTAGATCAGTATTCATCGAAAAGAAGAAGAACAT
1 AGCTCTAAGTGACTAGTCAACAATCAGTACAGTAGATCAGCATTCATCGAAAAGAAGAAGAACAT
29916484 A
1 A
29916485 CCTTAGATTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 57 0.97
66 2 0.03
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (65 bp):
AGCTCTAAGTGACTAGTCAACAATCAGTACAGTAGATCAGCATTCATCGAAAAGAAGAAGAACAT
Found at i:29917807 original size:42 final size:42
Alignment explanation
Indices: 29917745--29917827 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
29917735 AGCATGAATT
* * *
29917745 TAATGTAATTATATGCATTAAATTTGAATTGTGATTTATATG
1 TAATGTAATTATATACATTAAATTTAAATTATGATTTATATG
* *
29917787 TAATGTAATTATATATATTAAATTTAAATTATTATTTATAT
1 TAATGTAATTATATACATTAAATTTAAATTATGATTTATAT
29917828 ATATGCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (42 bp):
TAATGTAATTATATACATTAAATTTAAATTATGATTTATATG
Found at i:29935085 original size:23 final size:23
Alignment explanation
Indices: 29935057--29935103 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
29935047 AAAAGGAATA
29935057 TTCTATTTTCCTAGTAATAAAAT
1 TTCTATTTTCCTAGTAATAAAAT
29935080 TTCTATTTTCCTAGTAATAAAAT
1 TTCTATTTTCCTAGTAATAAAAT
29935103 T
1 T
29935104 CAAAGTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (23 bp):
TTCTATTTTCCTAGTAATAAAAT
Found at i:29935231 original size:105 final size:105
Alignment explanation
Indices: 29935104--29935295 Score: 285
Period size: 105 Copynumber: 1.8 Consensus size: 105
29935094 TAATAAAATT
* * * * * *
29935104 CAAAGTATGGAACAAAGAACAATAAAAGAAAAGTATGAATTAATTTATAGCTGGATAAACAATGG
1 CAAAATATGGAAAAAAAAACAATAAAAGAAAAGTATAAATTAATTTATAGCTCGATAAAAAATGG
*
29935169 TGTAACCATTTTCTAAAAAAAAGGCTATTTTGTTTTCTTC
66 TCTAACCATTTTCTAAAAAAAAGGCTATTTTGTTTTCTTC
** * *
29935209 CAAAATATGGAAAAAAAAACAATAAAAGGGAAGTATAAATTAGTTTCTAGCTCGATAAAAAATGG
1 CAAAATATGGAAAAAAAAACAATAAAAGAAAAGTATAAATTAATTTATAGCTCGATAAAAAATGG
29935274 TCTAACCATTTTCTAAAAAAAA
66 TCTAACCATTTTCTAAAAAAAA
29935296 ATTATTTTCC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
105 76 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (105 bp):
CAAAATATGGAAAAAAAAACAATAAAAGAAAAGTATAAATTAATTTATAGCTCGATAAAAAATGG
TCTAACCATTTTCTAAAAAAAAGGCTATTTTGTTTTCTTC
Found at i:29943487 original size:66 final size:66
Alignment explanation
Indices: 29943381--29943513 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
29943371 GAAACACGTA
29943381 TTTTTCGTATTGAGATATTTTTTATTAATTCTGTAATATGAAAACCTTTTAGCGGTAAACTAAAA
1 TTTTTCGTATTGAGATATTTTTTATTAATTCTGTAATATGAAAACCTTTTAGCGGTAAACTAAAA
29943446 G
66 G
*
29943447 TTTTTCGTATTGAGATATTTTTTATTAATTGTGTAATATGAAAACCTTTTAGCGGTAAACTAAAA
1 TTTTTCGTATTGAGATATTTTTTATTAATTCTGTAATATGAAAACCTTTTAGCGGTAAACTAAAA
29943512 G
66 G
29943513 T
1 T
29943514 AAAAGGACAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.44
Consensus pattern (66 bp):
TTTTTCGTATTGAGATATTTTTTATTAATTCTGTAATATGAAAACCTTTTAGCGGTAAACTAAAA
G
Found at i:29945690 original size:14 final size:14
Alignment explanation
Indices: 29945671--29945699 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29945661 ACTTTTGTTG
29945671 GGTTGTTTTAATTT
1 GGTTGTTTTAATTT
29945685 GGTTGTTTTAATTT
1 GGTTGTTTTAATTT
29945699 G
1 G
29945700 AAGAAGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (14 bp):
GGTTGTTTTAATTT
Found at i:29955795 original size:105 final size:105
Alignment explanation
Indices: 29955663--29955868 Score: 324
Period size: 105 Copynumber: 2.0 Consensus size: 105
29955653 TGCTAGTTAC
* * * *
29955663 CCTACCGTACTCATTCCAAATTCAACTTTTACGAGGTCAATAAATTCTTAAAAAGCTTTTGAA-G
1 CCTACCATACTCATTCCAAATTCAACTTTCACGAGATCAACAAATTCTTAAAAAGCTTTTGAATG
29955727 AAGTGAAATAAAAGAAAAATGTCATCCACATAGATTTTTCA
66 -AGTGAAATAAAAGAAAAATGTCATCCACATAGATTTTTCA
* * * *
29955768 CCTACCATACTCATTTCAAATTCAACTTTCACGAGATCTACAAATTCTTAAGAAGTTTTTGAATG
1 CCTACCATACTCATTCCAAATTCAACTTTCACGAGATCAACAAATTCTTAAAAAGCTTTTGAATG
29955833 AGTGAAATAAAAGAAAAATGTCATCCACATAGATTT
66 AGTGAAATAAAAGAAAAATGTCATCCACATAGATTT
29955869 GTCCTAAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 91 0.99
106 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (105 bp):
CCTACCATACTCATTCCAAATTCAACTTTCACGAGATCAACAAATTCTTAAAAAGCTTTTGAATG
AGTGAAATAAAAGAAAAATGTCATCCACATAGATTTTTCA
Found at i:29957103 original size:5 final size:5
Alignment explanation
Indices: 29957089--29957138 Score: 82
Period size: 5 Copynumber: 9.8 Consensus size: 5
29957079 TTTTGAAATC
*
29957089 TTTTA ATTTA TTTTA GTTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
29957139 TCTCTCACCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
5 37 0.88
6 5 0.12
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:29957614 original size:22 final size:22
Alignment explanation
Indices: 29957584--29957628 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29957574 TGGGAGTGTT
* *
29957584 TTTGTATCAAAATGATACCAGG
1 TTTGCATCAAAACGATACCAGG
*
29957606 TTTGCATCAAAACGATACTAGG
1 TTTGCATCAAAACGATACCAGG
29957628 T
1 T
29957629 GTGTACTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (22 bp):
TTTGCATCAAAACGATACCAGG
Found at i:29959595 original size:18 final size:18
Alignment explanation
Indices: 29959572--29959608 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
29959562 TAGTGAAATG
29959572 ATGTTAGAGGTTAACCCA
1 ATGTTAGAGGTTAACCCA
29959590 ATGTTAGAGGTTAACCCA
1 ATGTTAGAGGTTAACCCA
29959608 A
1 A
29959609 CTCTTTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (18 bp):
ATGTTAGAGGTTAACCCA
Found at i:29984969 original size:15 final size:15
Alignment explanation
Indices: 29984951--29984982 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
29984941 AATACTAAAA
*
29984951 TTATATTTTAACATT
1 TTATATTTTAAAATT
29984966 TTATATTTTAAAATT
1 TTATATTTTAAAATT
29984981 TT
1 TT
29984983 TTTCTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTTAAAATT
Found at i:29987376 original size:26 final size:26
Alignment explanation
Indices: 29987347--29987456 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
29987337 TGATACAAAT
29987347 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
29987373 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
29987399 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
29987425 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
29987451 TGATAA
1 TGATAA
29987457 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:29993162 original size:26 final size:25
Alignment explanation
Indices: 29993119--29993226 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
29993109 TGATACAAAT
29993119 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
29993144 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
29993170 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
29993196 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
29993221 TGATAA
1 TGATAA
29993227 GAATTCATGT
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 33 0.42
26 43 0.55
27 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:29996202 original size:11 final size:11
Alignment explanation
Indices: 29996188--29996242 Score: 83
Period size: 11 Copynumber: 4.9 Consensus size: 11
29996178 AGATAAATAT
29996188 TATTTTATTAA
1 TATTTTATTAA
*
29996199 TATTTTAATAA
1 TATTTTATTAA
*
29996210 GATATTTATTAA
1 TAT-TTTATTAA
29996222 TATTTTATTAA
1 TATTTTATTAA
29996233 TATTTTATTA
1 TATTTTATTA
29996243 GTATATAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 30 0.77
12 9 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:29996217 original size:23 final size:22
Alignment explanation
Indices: 29996189--29996242 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
29996179 GATAAATATT
29996189 ATTTTATTAATATTTTAATAAG
1 ATTTTATTAATATTTTAATAAG
* *
29996211 ATATTTATTAATATTTTATTAAT
1 AT-TTTATTAATATTTTAATAAG
29996234 ATTTTATTA
1 ATTTTATTA
29996243 GTATATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTATTAATATTTTAATAAG
Found at i:29998453 original size:45 final size:46
Alignment explanation
Indices: 29998383--29998558 Score: 239
Period size: 46 Copynumber: 3.8 Consensus size: 46
29998373 GCTCTCTGAT
** * *
29998383 ATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
29998429 ATGAAATG-ATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
29998474 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
29998520 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
29998559 TCATGTCAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 42 0.36
46 76 0.64
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:29998581 original size:91 final size:90
Alignment explanation
Indices: 29998397--29998563 Score: 237
Period size: 91 Copynumber: 1.8 Consensus size: 90
29998387 AATGTGTAAA
* * * *
29998397 ACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGATAAGACCATGGTTGAAAGATACCA
1 ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGATAAGACCATAGTTGAAAGACACCA
*
29998462 TGGCAACGTGACATGAAAAGAATAAG
66 TGGCAACATGACA-GAAAAGAATAAG
29998488 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
1 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA-TAAGACCATAGTTGAAAGACAC
* *
29998552 TATGGCATCATG
64 CATGGCAACATG
29998564 TCAAAGATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
90 1 0.01
91 37 0.55
92 29 0.43
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (90 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGATAAGACCATAGTTGAAAGACACCA
TGGCAACATGACAGAAAAGAATAAG
Found at i:29999946 original size:15 final size:15
Alignment explanation
Indices: 29999928--29999958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29999918 TCAAATTAGT
29999928 TATTTACTATTATTA
1 TATTTACTATTATTA
*
29999943 TATTTATTATTATTA
1 TATTTACTATTATTA
29999958 T
1 T
29999959 TGTTTTATTA
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:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTACTATTATTA
Found at i:30000396 original size:3 final size:3
Alignment explanation
Indices: 30000121--30000379 Score: 186
Period size: 3 Copynumber: 86.0 Consensus size: 3
30000111 TATTACGGTT
* * * * *
30000121 TTA TTA TTA TTA CTA TTA TTA CTA TTT TTA TT- TTCA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * * * *
30000166 TTA TTA TCA TCCTA TT- TTA TTA CTA TTA TCA CTT- TTG TAA TTA CTA
1 TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* ** *
30000212 TTA TTA TTG TT- TTA TTA TTA TTA TTA TTTA GCA -TA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** *
30000256 TTA TTG CCA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
30000304 TTA TTA TTA TTA TTA TTA TTA TTA CTTT TTA CTA TTA CTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * *
30000350 CTA TTA ATA TCA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30000380 CTGTTTTCAT
Statistics
Matches: 200, Mismatches: 45, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
2 9 0.05
3 182 0.91
4 7 0.04
5 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:30001619 original size:46 final size:46
Alignment explanation
Indices: 30001559--30001786 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
30001549 TTTGACATGA
* * * * * *
30001559 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
30001605 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30001651 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
30001697 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
30001743 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
30001787 AGAGCATACT
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:30004658 original size:19 final size:19
Alignment explanation
Indices: 30004634--30004682 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
30004624 TTTTACACTA
30004634 AGGTACTAATTAATCAACT
1 AGGTACTAATTAATCAACT
30004653 AGGTACTAATTAATCAACT
1 AGGTACTAATTAATCAACT
*
30004672 AGGTACCAATT
1 AGGTACTAATT
30004683 TTTGGGCGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (19 bp):
AGGTACTAATTAATCAACT
Found at i:30006970 original size:139 final size:139
Alignment explanation
Indices: 30006720--30006998 Score: 531
Period size: 139 Copynumber: 2.0 Consensus size: 139
30006710 ATGCCACATT
*
30006720 ACCAAAAGAAAATATACATCACCAAAAGTTTGCTGAAGTCGGGTCTGGCTTTGGATGCTGGTTCA
1 ACCAAAAGAAAATATACATCACCAAAAGTTTGCTGAAGTCGGGTCTGGCTTTAGATGCTGGTTCA
30006785 GTACTTGACTTCTACAACCTGCGCACGGAAACAACCGTACGCTGAGTATCCATATACTCAGTGGT
66 GTACTTGACTTCTACAACCTGCGCACGGAAACAACCGTACGCTGAGTATCCATATACTCAGTGGT
30006850 ATCACTATA
131 ATCACTATA
*
30006859 ACCAAAAGAAAATATAGATCACCAAAAGTTTGCTGAAGTCGGGTCTGGCTTTAGATGCTGGTTCA
1 ACCAAAAGAAAATATACATCACCAAAAGTTTGCTGAAGTCGGGTCTGGCTTTAGATGCTGGTTCA
*
30006924 GTACTTGACTTCTACAACCTGCGCACGGAAACAACCGTACGCTGAGTATGCATATACTCAGTGGT
66 GTACTTGACTTCTACAACCTGCGCACGGAAACAACCGTACGCTGAGTATCCATATACTCAGTGGT
30006989 ATCACTATA
131 ATCACTATA
30006998 A
1 A
30006999 TTCAGTTTAT
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 137 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (139 bp):
ACCAAAAGAAAATATACATCACCAAAAGTTTGCTGAAGTCGGGTCTGGCTTTAGATGCTGGTTCA
GTACTTGACTTCTACAACCTGCGCACGGAAACAACCGTACGCTGAGTATCCATATACTCAGTGGT
ATCACTATA
Found at i:30011163 original size:53 final size:53
Alignment explanation
Indices: 30011082--30011232 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
30011072 CTTACACGGT
* *
30011082 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
30011137 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
30011190 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
30011233 GCGCACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:30015871 original size:38 final size:38
Alignment explanation
Indices: 30015823--30016136 Score: 520
Period size: 38 Copynumber: 8.3 Consensus size: 38
30015813 GGCTCAAAGG
* * * * *
30015823 CCCGAATATAATACCAGCACTAGGCCTGCGAGATTGAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
30015861 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
30015899 CCCGGATATATTACCAGCACGAAGCTTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
30015937 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30015975 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
30016013 CCCGGACATATTACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
30016051 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
30016089 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
30016127 CCCGGATATA
1 CCCGGATATA
30016137 CATCAAATAT
Statistics
Matches: 257, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 257 1.00
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:30020773 original size:44 final size:43
Alignment explanation
Indices: 30020721--30021056 Score: 120
Period size: 44 Copynumber: 7.7 Consensus size: 43
30020711 TCGAAGGCAG
*
30020721 TAAG-TCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAGAAAT
1 TAAGATCTTAACCCCCTAAGCAGTAAGGGAACAGGCTAGAAAT
* * * * * * *
30020763 TACAGATCTTATCTCCCTAAGCAGT-AGTGGAGCAGATCGAAGACAG
1 TA-AGATCTTAACCCCCTAAGCAGTAAG-GGAACAG-GC-TAGAAAT
* *
30020809 TAAG-CCTTAACCCCCTAAGCAGT-AGGGAAACAGGCTGGAAAT
1 TAAGATCTTAACCCCCTAAGCAGTAAGGG-AACAGGCTAGAAAT
* * * * * * * *
30020851 TACAGATGTTATCTCCCTAAGCAAT-AGTGGAGCA-GATTGAAGACGG
1 TA-AGATCTTAACCCCCTAAGCAGTAAG-GGAACAGGCTAGAA-A--T
* * *
30020897 TAAG-CCTTAA-CCCCTAAGGAGT-AGGGTAACAGGCTGGAAAT
1 TAAGATCTTAACCCCCTAAGCAGTAAGGG-AACAGGCTAGAAAT
* * * * ** * *
30020938 TACAGATCTTATCTCCCTACGCAGT-AGTGGAGCAGATTGAAGACAG
1 TA-AGATCTTAACCCCCTAAGCAGTAAG-GGAACAGGCT--AGAAAT
* * *
30020984 TAAG-CCTTAACCCCCTAAGCAGT-AGGGTAACATGCTAAAAAT
1 TAAGATCTTAACCCCCTAAGCAGTAAGGG-AACAGGCTAGAAAT
* * *
30021026 TATAGATCTTATCACCCTAAGCAGTAGGGGA
1 TA-AGATCTTAACCCCCTAAGCAGTAAGGGA
30021057 GCAAATCAAA
Statistics
Matches: 208, Mismatches: 62, Indels: 46
0.66 0.20 0.15
Matches are distributed among these distances:
41 2 0.01
42 16 0.08
43 37 0.18
44 126 0.61
45 14 0.07
46 13 0.06
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (43 bp):
TAAGATCTTAACCCCCTAAGCAGTAAGGGAACAGGCTAGAAAT
Found at i:30020787 original size:88 final size:88
Alignment explanation
Indices: 30020625--30021107 Score: 655
Period size: 88 Copynumber: 5.5 Consensus size: 88
30020615 CATGTCCCTA
* * * * * * *
30020625 GAAGACGGTGAGCCTTAACTCCCTAAGTAGTAGGGTAATAGGCT-GAAAACTAAAGATCTTATCT
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAG-AAATTACAGATCTTATCT
* *
30020689 CCTTAAGCAGTAGTGGAGTAGATC
65 CCCTAAGCAGTAGTGGAGCAGATC
* * *
30020713 GAAGGCAGTAAGTCTTAACCCCCTAAGCAGTAAGGTAACAGGCTAGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTC
30020778 CCTAAGCAGTAGTGGAGCAGATC
66 CCTAAGCAGTAGTGGAGCAGATC
* * *
30020801 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGGAAATTACAGATGTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTC
* *
30020866 CCTAAGCAATAGTGGAGCAGATT
66 CCTAAGCAGTAGTGGAGCAGATC
* * *
30020889 GAAGACGGTAAGCCTTAA-CCCCTAAGGAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTC
* *
30020953 CCTACGCAGTAGTGGAGCAGATT
66 CCTAAGCAGTAGTGGAGCAGATC
* * * *
30020976 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACATGCTAAAAATTATAGATCTTATCAC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTC
* *
30021041 CCTAAGCAGTAGGGGAGCAAATC
66 CCTAAGCAGTAGTGGAGCAGATC
* * * *
30021064 AAAGACGGTGAGCCTTAACCCCCTCAGCAGTAGGGTAACAGGCT
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT
30021108 GAAGATCAAA
Statistics
Matches: 351, Mismatches: 42, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
87 81 0.23
88 269 0.77
89 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (88 bp):
GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATC
Found at i:30020964 original size:175 final size:176
Alignment explanation
Indices: 30020625--30021108 Score: 682
Period size: 175 Copynumber: 2.8 Consensus size: 176
30020615 CATGTCCCTA
* * * * * *
30020625 GAAGACGGTGAGCCTTAACTCCCTAAGTAGTAGGGTAATAGGCTGAAAACTAAAGATCTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAAAGATCTTATCTC
* * * * * *
30020690 CTTAAGCAGTAGTGGAGTAGATCGAAGGCAGTAAGTCTTAACCCCCTAAGCAGTAAGGTAACAGG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
*
30020755 CTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
131 CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
30020801 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGGAAATTACAGATGTTATCTC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAAAGATCTTATCTC
* * *
30020866 CCTAAGCAATAGTGGAGCAGATTGAAGACGGTAAGCCTTAA-CCCCTAAGGAGTAGGGTAACAGG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
* *
30020930 CTGGAAATTACAGATCTTATCTCCCTACGCAGTAGTGGAGCAGATT
131 CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
30020976 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACATGCTAAAAATTATAGATCTTATCAC
1 GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAAAGATCTTATCTC
* * * * *
30021041 CCTAAGCAGTAGGGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTCAGCAGTAGGGTAACAGG
66 CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
30021106 CTG
131 CTG
30021109 AAGATCAAAA
Statistics
Matches: 270, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
175 157 0.58
176 113 0.42
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (176 bp):
GAAGACAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTAAAGATCTTATCTC
CCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
CTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:30021190 original size:44 final size:44
Alignment explanation
Indices: 30021124--30021378 Score: 194
Period size: 44 Copynumber: 5.7 Consensus size: 44
30021114 CAAAACAAAC
30021124 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
* * * ** *
30021168 CTTATCTCCCTAAAGTTACAGTGGAGCTGACTGAAAATAGCGAA-T
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA-C-AAGT
* * ** * *
30021213 CTTATTTCCCTGAAGTTACAGTGGAATAGATTGAAGCTATGAATAAACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA---AT---TACA-AG-T
* * * * **
30021265 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATCAAA--ACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
* * * *
30021306 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTCACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
30021350 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
30021379 ACTAAAACAC
Statistics
Matches: 164, Mismatches: 33, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
41 28 0.17
42 5 0.03
43 2 0.01
44 64 0.39
45 31 0.19
46 2 0.01
48 2 0.01
49 1 0.01
50 1 0.01
51 5 0.03
52 23 0.14
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
Found at i:30021229 original size:45 final size:44
Alignment explanation
Indices: 30021124--30021436 Score: 172
Period size: 44 Copynumber: 7.0 Consensus size: 44
30021114 CAAAACAAAC
* ** *
30021124 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATACAAGT
* *
30021168 CTTATCTCCCTAAAGTTACAGTGGAGCTGACTGAAAATAGCGAA-T
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATA-C-AAGT
* ** * *
30021213 CTTATTTCCCTGAAGTTACAGTGGAATAGATTGAAGCTATGAATAAACAGAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTG-A---A--AATACA-AG-T
* * * * **
30021265 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CAAA-ACAAAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATACAAGT
* * * ** *
30021306 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTG-AAGTCACAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAAT-ACAAGT
* * *
30021350 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACACAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATACAAGT
* * * * *
30021393 CTCATATCCCTAAAATTTGCAGTGG-GACAGACTGAAAACTACAA
1 CTTATCTCCCT-GAAGTTACAGTGGAG-CAGACTGAAAA-TACAA
30021437 AAGTTGCGGT
Statistics
Matches: 210, Mismatches: 39, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
41 29 0.14
42 4 0.02
43 17 0.08
44 86 0.41
45 33 0.16
46 8 0.04
49 2 0.01
50 1 0.00
51 5 0.02
52 25 0.12
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAAATACAAGT
Found at i:30021314 original size:41 final size:41
Alignment explanation
Indices: 30021265--30021387 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 41
30021255 ATAAACAGAT
30021265 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
* * * **
30021306 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAGTCACAAGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCA-GATCAA--AACAAAC
* *
30021350 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAACA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-AAAACA
30021388 CAAATCTCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
41 31 0.46
42 4 0.06
43 3 0.04
44 30 0.44
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAAC
Found at i:30021818 original size:17 final size:18
Alignment explanation
Indices: 30021791--30021825 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
30021781 CCCAATACCT
30021791 AAAACTAAAAAAAAAAAC
1 AAAACTAAAAAAAAAAAC
*
30021809 AAAA-TAAAAAAAGAAAC
1 AAAACTAAAAAAAAAAAC
30021826 CCTAGCTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.83, C:0.09, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAACTAAAAAAAAAAAC
Found at i:30022874 original size:15 final size:15
Alignment explanation
Indices: 30022835--30022876 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
30022825 TCAAATTAGT
*
30022835 TATTTTCTATTATTA
1 TATTTTTTATTATTA
*
30022850 TATTTATTATTATTA
1 TATTTTTTATTATTA
30022865 T-TGTTTTTATTA
1 TAT-TTTTTATTA
30022877 CTGTTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTTTTATTATTA
Found at i:30022964 original size:22 final size:22
Alignment explanation
Indices: 30022939--30022980 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
30022929 TACTTTCTAT
*
30022939 TATTATCGTTATTAACATATAC
1 TATTATCATTATTAACATATAC
* *
30022961 TATTATTATTATTAATATAT
1 TATTATCATTATTAACATAT
30022981 TATTATTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTATCATTATTAACATATAC
Found at i:30022984 original size:20 final size:20
Alignment explanation
Indices: 30022936--30023003 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
30022926 TATTACTTTC
**
30022936 TATTATTATCGTTATTAACATA
1 TATTATTATTATTATT-A-ATA
*
30022958 TACTATTATTATTATTAATA
1 TATTATTATTATTATTAATA
* *
30022978 TATTATTATTACTATTTATA
1 TATTATTATTATTATTAATA
*
30022998 TGTTAT
1 TATTAT
30023004 CATTTCTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 25 0.64
21 1 0.03
22 13 0.33
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTATTATTATTATTAATA
Found at i:30023170 original size:41 final size:41
Alignment explanation
Indices: 30023089--30023170 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
30023079 TATCATCCTA
* * *
30023089 TTTTATTACTATTATCACTTTTGTAATTACTATTACTATTG
1 TTTTATTACTATTATCACTTTAGCAATTACTACTACTATTG
* * *
30023130 TTTTATTACTATTATTA-TTTAGCATATTATTACTATTATTG
1 TTTTATTACTATTATCACTTTAGCA-ATTACTACTACTATTG
30023171 CCATCATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 5 0.15
41 29 0.85
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (41 bp):
TTTTATTACTATTATCACTTTAGCAATTACTACTACTATTG
Found at i:30023262 original size:3 final size:3
Alignment explanation
Indices: 30023030--30023246 Score: 84
Period size: 3 Copynumber: 72.0 Consensus size: 3
30023020 TATTACGGTT
* * * * *
30023030 TTA TTA TTA TTA CTA TTA TTA CTA TTT TTA TT- TTCA TCA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * * * *
30023075 TTA TTA TCA TCCTA TT- TTA TTA CTA TTA TCA CTT- TTG TAA TTA CTA
1 TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * ** *
30023121 TTA CTA TTG TT- TTA TTA CTA TTA TTA TTTA GCA -TA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * * *
30023165 TTA TTG CCA TCA TTA TTA TTA TTA TTA TTA CTTT TTA CTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * *
30023211 TTA CTA CTA TTA ATA TCA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30023247 CTGTTTTCAT
Statistics
Matches: 154, Mismatches: 49, Indels: 22
0.68 0.22 0.10
Matches are distributed among these distances:
2 9 0.06
3 136 0.88
4 7 0.05
5 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:30024817 original size:23 final size:23
Alignment explanation
Indices: 30024786--30024834 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
30024776 AAATGAGATG
30024786 TTTAAAAAT-TAATTTTAA-ATATT
1 TTTAAAAATAT-ATTTTAATA-ATT
*
30024809 TTTATAAATATATTTTAATAATT
1 TTTAAAAATATATTTTAATAATT
30024832 TTT
1 TTT
30024835 CGATTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAAAATATATTTTAATAATT
Found at i:30026017 original size:21 final size:21
Alignment explanation
Indices: 30025993--30026036 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
30025983 CTTGGTATGA
* *
30025993 TGCAAGGTGAGCTTACTCAGT
1 TGCAAGCTGAACTTACTCAGT
*
30026014 TGCAAGCTGAATTTACTCAGT
1 TGCAAGCTGAACTTACTCAGT
30026035 TG
1 TG
30026037 GATGCTAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (21 bp):
TGCAAGCTGAACTTACTCAGT
Found at i:30028152 original size:64 final size:63
Alignment explanation
Indices: 30028035--30028161 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 63
30028025 GTTTTCAATC
30028035 TTTGATGAATTCTATCTTTCGGTCCTTTTGAGGAAGTCCATTTTGGTTTTCTTTGATGACATA
1 TTTGATGAATTCTATCTTTCGGTCCTTTTGAGGAAGTCCATTTTGGTTTTCTTTGATGACATA
30028098 TTTGATGAATTCTATCTTTCGGTCCTTTTTGAGGAAGTCCATTTTGGTTTTCTTTGATGACATA
1 TTTGATGAATTCTATCTTTCGGTCC-TTTTGAGGAAGTCCATTTTGGTTTTCTTTGATGACATA
30028162 CTCGTGTATT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 25 0.40
64 38 0.60
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (63 bp):
TTTGATGAATTCTATCTTTCGGTCCTTTTGAGGAAGTCCATTTTGGTTTTCTTTGATGACATA
Found at i:30030130 original size:15 final size:15
Alignment explanation
Indices: 30030110--30030139 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30030100 TATTTTATTT
*
30030110 ATATTAGGATAATTA
1 ATATTAAGATAATTA
30030125 ATATTAAGATAATTA
1 ATATTAAGATAATTA
30030140 TTAGGATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:30033866 original size:6 final size:6
Alignment explanation
Indices: 30033855--30033919 Score: 68
Period size: 6 Copynumber: 11.5 Consensus size: 6
30033845 AGGCAACCCA
*
30033855 ATTTTT ATTTTT -TTTAT -TTTTT ATTTTT ATTTTT A--TTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
30033899 ATTATT A-TTTT ATTATTT ATT
1 ATTTTT ATTTTT ATT-TTT ATT
30033920 ATTTTCAGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
4 4 0.08
5 12 0.24
6 28 0.56
7 6 0.12
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:30033874 original size:7 final size:7
Alignment explanation
Indices: 30033864--30033924 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
30033854 AATTTTTATT
30033864 TTTTTTA
1 TTTTTTA
30033871 TTTTTTA
1 TTTTTTA
30033878 -TTTTTA
1 TTTTTTA
30033884 -TTTTTA
1 TTTTTTA
*
30033890 TTTATT-
1 TTTTTTA
*
30033896 TTTATTA
1 TTTTTTA
30033903 TTATTTTA
1 TT-TTTTA
*
30033911 TTATTTA
1 TTTTTTA
30033918 TTATTTT
1 TT-TTTT
30033925 CAGATATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 18 0.39
7 19 0.41
8 9 0.20
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:30033877 original size:16 final size:16
Alignment explanation
Indices: 30033856--30033924 Score: 95
Period size: 16 Copynumber: 4.2 Consensus size: 16
30033846 GGCAACCCAA
*
30033856 TTTTTATTTTTTTTAT
1 TTTTTATTTTTATTAT
30033872 TTTTTATTTTTATT-T
1 TTTTTATTTTTATTAT
30033887 TTATTTATTTTTATTAT
1 TT-TTTATTTTTATTAT
30033904 TATTTTATTATTTATTAT
1 T-TTTTATT-TTTATTAT
30033922 TTT
1 TTT
30033925 CAGATATTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
15 3 0.06
16 25 0.52
17 10 0.21
18 10 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTTTTATTAT
Found at i:30033887 original size:28 final size:26
Alignment explanation
Indices: 30033855--30033924 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
30033845 AGGCAACCCA
*
30033855 ATTTTTATTTTTTTTATTTTTTATTTTT
1 ATTTTTATTTTTTTTA-TTATTA-TTTT
30033883 ATTTTTATTTATTTTTATTATTATTTT
1 ATTTTTATTT-TTTTTATTATTATTTT
*
30033910 ATTATTTATTATTTT
1 ATT-TTTATTTTTTT
30033925 CAGATATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 11 0.29
28 21 0.55
29 6 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (26 bp):
ATTTTTATTTTTTTTATTATTATTTT
Found at i:30033932 original size:28 final size:27
Alignment explanation
Indices: 30033857--30033933 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
30033847 GCAACCCAAT
*
30033857 TTTTATTTTT-TTTATTTT--TTA-T-
1 TTTTATTTTTATTTATTTTCAATATTA
* *
30033879 TTTTATTTTTATTTATTTTTATTATTA
1 TTTTATTTTTATTTATTTTCAATATTA
30033906 TTTTATTATTTA-TTATTTTCAGATATTA
1 TTTTATT-TTTATTTATTTTCA-ATATTA
30033934 ATAAAATTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
22 10 0.22
23 8 0.17
25 3 0.07
26 1 0.02
27 15 0.33
28 9 0.20
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (27 bp):
TTTTATTTTTATTTATTTTCAATATTA
Found at i:30034882 original size:21 final size:20
Alignment explanation
Indices: 30034853--30034892 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30034843 CACACATACA
* *
30034853 TAAATAAAATAAAATAAAAAG
1 TAAA-AAAAAAAAAGAAAAAG
30034874 TAAAAAAAAAAAAGAAAAA
1 TAAAAAAAAAAAAGAAAAA
30034893 AAAGAGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (20 bp):
TAAAAAAAAAAAAGAAAAAG
Found at i:30035494 original size:15 final size:15
Alignment explanation
Indices: 30035474--30035503 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30035464 TATTTTATTT
*
30035474 ATATTAGGATAATTA
1 ATATTAAGATAATTA
30035489 ATATTAAGATAATTA
1 ATATTAAGATAATTA
30035504 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:30035550 original size:10 final size:10
Alignment explanation
Indices: 30035528--30035560 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30035518 ATTTAGGATT
30035528 TTAT-TTTAA
1 TTATCTTTAA
*
30035537 TTATCTTTAT
1 TTATCTTTAA
30035547 TTATCTTTAA
1 TTATCTTTAA
30035557 TTAT
1 TTAT
30035561 TTATCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:30039729 original size:32 final size:33
Alignment explanation
Indices: 30039668--30039729 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
30039658 TCAATAATTA
* *
30039668 AATAATTTTTAAATTTAAAAAATAATAAAAAAG
1 AATAATTTTAAAAATTAAAAAATAATAAAAAAG
* *
30039701 AATAA-TTTAAAAATTAAAAATTATTAAAA
1 AATAATTTTAAAAATTAAAAAATAATAAAA
30039730 TCATAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 20 0.80
33 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (33 bp):
AATAATTTTAAAAATTAAAAAATAATAAAAAAG
Found at i:30042427 original size:19 final size:19
Alignment explanation
Indices: 30042405--30042441 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
30042395 TTTAGTTAGT
30042405 TTATATTTACCTTTTGGAC
1 TTATATTTACCTTTTGGAC
30042424 TTATATTTACCTTTTGGA
1 TTATATTTACCTTTTGGA
30042442 GTAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.54
Consensus pattern (19 bp):
TTATATTTACCTTTTGGAC
Found at i:30051962 original size:43 final size:43
Alignment explanation
Indices: 30051868--30052026 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
30051858 GGTTACCGAG
* * * * *
30051868 ATGAGATTACATGTAAAACCATGTCTGGGAAATTGGAATTGTA
1 ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
* *
30051911 TTGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA
1 ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCG-TA
* * * * * *
30051955 AT-CGATTACGTGTACGACCCTATCTAGGACAGTGGCATCG-A
1 ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
* *
30051996 TATGTGATAACATGTAAGACCATATCTGGGA
1 -ATGAGATTACATGTAAGACCATATCTGGGA
30052027 TATAGCATTG
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 88 0.94
44 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATATCTGGGACATTGGCATCGTA
Found at i:30055604 original size:15 final size:15
Alignment explanation
Indices: 30055567--30055595 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30055557 TTTCCCTATC
30055567 TAATAATAATAATTA
1 TAATAATAATAATTA
30055582 TAATAATAATAATT
1 TAATAATAATAATT
30055596 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:30057783 original size:30 final size:30
Alignment explanation
Indices: 30057730--30057786 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
30057720 GTCCACTTCT
** * *
30057730 CCCAAATTGGTACTTATAGTTTTTTTTTTC
1 CCCAAATTGGTACCCAAACTTTTTTTTTTC
30057760 CCCAAATTGGTACCCAAACTTTTTTTT
1 CCCAAATTGGTACCCAAACTTTTTTTT
30057787 GTTAACAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (30 bp):
CCCAAATTGGTACCCAAACTTTTTTTTTTC
Found at i:30058982 original size:21 final size:20
Alignment explanation
Indices: 30058916--30058985 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
30058906 AGAGGCCAGC
*
30058916 CCGTGTGGCTACCCCACACG
1 CCGTGTGGATACCCCACACG
* * *
30058936 CTCGTATAGATACCCCACATG
1 C-CGTGTGGATACCCCACACG
30058957 CCCGTGTGGATACCCCACACAG
1 -CCGTGTGGATACCCCACAC-G
30058979 CCGTGTG
1 CCGTGTG
30058986 CTCAAATCGT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.03
21 37 0.93
22 2 0.05
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.19
Consensus pattern (20 bp):
CCGTGTGGATACCCCACACG
Found at i:30059208 original size:21 final size:21
Alignment explanation
Indices: 30059152--30059211 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
30059142 ATCAAAATCA
*
30059152 ACCCCACACGCCCGTATGGAT
1 ACCCCACACGCCCGTGTGGAT
* *
30059173 ACCCTACATGCCCGTGTGGAT
1 ACCCCACACGCCCGTGTGGAT
30059194 ACCCCACACAG-CCGTGTG
1 ACCCCACAC-GCCCGTGTG
30059212 CTCAAATCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.22, C:0.40, G:0.22, T:0.17
Consensus pattern (21 bp):
ACCCCACACGCCCGTGTGGAT
Found at i:30060487 original size:46 final size:46
Alignment explanation
Indices: 30060129--30060486 Score: 513
Period size: 46 Copynumber: 7.8 Consensus size: 46
30060119 TGATGTCATA
* * * * * *
30060129 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATG
** *** *
30060175 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCAT-
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATG
* * *
30060221 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
30060267 GTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
30060313 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
30060359 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
* *
30060405 GTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
30060451 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCA
30060487 GAGAGCACAC
Statistics
Matches: 293, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 16 0.05
46 264 0.90
47 13 0.04
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
Found at i:30064871 original size:22 final size:23
Alignment explanation
Indices: 30064837--30064880 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
30064827 TGAAATGGCT
*
30064837 TATTTTCCATAATAACC-AATTC
1 TATTTTACATAATAACCTAATTC
* *
30064859 TATTTTACTTAATCACCTAATT
1 TATTTTACATAATAACCTAATT
30064881 GGCACTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTTTACATAATAACCTAATTC
Found at i:30071275 original size:11 final size:11
Alignment explanation
Indices: 30071259--30071283 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30071249 TAAACTATAC
30071259 CTACTCCACTT
1 CTACTCCACTT
30071270 CTACTCCACTT
1 CTACTCCACTT
30071281 CTA
1 CTA
30071284 GTTACTATAT
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:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (11 bp):
CTACTCCACTT
Found at i:30077555 original size:30 final size:30
Alignment explanation
Indices: 30077519--30077615 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
30077509 ACCACTAACA
* *
30077519 ATTTTTCGTTACAGACGTAACGGAATTATC
1 ATTTTTCGTTACAGACTTAACGGAGTTATC
* * *
30077549 ATTTTTCATCACAGACTTAACGGAGCTA-C
1 ATTTTTCGTTACAGACTTAACGGAGTTATC
* *
30077578 TATTTTTCGTTATATACTTAACGGAGTT-TCC
1 -ATTTTTCGTTACAGACTTAACGGAGTTAT-C
30077609 ATTTTTC
1 ATTTTTC
30077616 ATTCCCTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 1 0.02
30 52 0.96
31 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (30 bp):
ATTTTTCGTTACAGACTTAACGGAGTTATC
Found at i:30084320 original size:16 final size:16
Alignment explanation
Indices: 30084299--30084330 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30084289 TACACAGTTA
30084299 TTTCAGTGCTACTCAG
1 TTTCAGTGCTACTCAG
30084315 TTTCAGTGCTACTCAG
1 TTTCAGTGCTACTCAG
30084331 ACTCAAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (16 bp):
TTTCAGTGCTACTCAG
Found at i:30087774 original size:19 final size:20
Alignment explanation
Indices: 30087750--30087788 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
30087740 TGGTCACCAC
30087750 AATATAA-ATTAA-ATATAAT
1 AATATAAGA-TAAGATATAAT
30087769 AATATAAGATAAGATATAAT
1 AATATAAGATAAGATATAAT
30087789 TATGCCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATATAAGATAAGATATAAT
Found at i:30092291 original size:17 final size:17
Alignment explanation
Indices: 30092252--30092291 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
30092242 GAATTTAGTG
*
30092252 TTATTATTTTTATTTTT
1 TTATTTTTTTTATTTTT
**
30092269 AGATTTTTTTTATTTTT
1 TTATTTTTTTTATTTTT
30092286 TTATTT
1 TTATTT
30092292 AGGATATCAC
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (17 bp):
TTATTTTTTTTATTTTT
Found at i:30093741 original size:15 final size:15
Alignment explanation
Indices: 30093723--30093769 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
30093713 TTTTTAAATA
30093723 TTATATTTTAGTTAT
1 TTATATTTTAGTTAT
* **
30093738 TTATATTTAAAAT-T
1 TTATATTTTAGTTAT
*
30093752 TTATATTTTAGTCAT
1 TTATATTTTAGTTAT
30093767 TTA
1 TTA
30093770 CGTTATAGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (15 bp):
TTATATTTTAGTTAT
Found at i:30095549 original size:111 final size:112
Alignment explanation
Indices: 30095304--30095593 Score: 357
Period size: 112 Copynumber: 2.5 Consensus size: 112
30095294 TGGCCTTCTA
* *** * * *
30095304 ATGGCCGGCACTAGACTAGTAAAAAAAAAAATTAGTTTTGGCCTTCTAATGGCCGGCACTAGGGA
1 ATGGCCGGCACCAGACTAGTAAAAAAAATTTTTGGTTCTGGCCTTCTAATGGCCGGCACCAGGGA
*
30095369 CTTTTATCGTGTTCCAATGCAATTTTTTATTTTAATTTTCTACACTG
66 CTTTTATCGTGTCCCAATGCAATTTTTTATTTTAATTTTCTACACTG
* ** *
30095416 ATGGGCAACACCAGACTAGTAAAAAAAATTTTTGGTTCTGGCCTTCTAATGGCCGACACCAGGGA
1 ATGGCCGGCACCAGACTAGTAAAAAAAATTTTTGGTTCTGGCCTTCTAATGGCCGGCACCAGGGA
* * * *
30095481 CTTTTTTTGTGTCCCAATGCAATTTTTT-TTTTACTTTTCTACATTG
66 CTTTTATCGTGTCCCAATGCAATTTTTTATTTTAATTTTCTACACTG
* *
30095527 ATGGCCGGCACCAGACTTGTAAAAAAAGAAATTTTTTTGGGTTCTAGCCTTCTAATGGCCGGCAC
1 ATGGCCGGCACCAGACTAGT--AAAAA-AAA--TTTTT-GGTTCTGGCCTTCTAATGGCCGGCAC
30095592 CA
60 CA
30095594 AATTTATCAT
Statistics
Matches: 150, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
111 32 0.21
112 79 0.53
113 5 0.03
114 3 0.02
116 5 0.03
117 26 0.17
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (112 bp):
ATGGCCGGCACCAGACTAGTAAAAAAAATTTTTGGTTCTGGCCTTCTAATGGCCGGCACCAGGGA
CTTTTATCGTGTCCCAATGCAATTTTTTATTTTAATTTTCTACACTG
Found at i:30095654 original size:11 final size:11
Alignment explanation
Indices: 30095638--30095662 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30095628 TCCATTTGAG
30095638 TTTTTGTTTGC
1 TTTTTGTTTGC
30095649 TTTTTGTTTGC
1 TTTTTGTTTGC
30095660 TTT
1 TTT
30095663 ATTAGTTGAA
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:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (11 bp):
TTTTTGTTTGC
Found at i:30098418 original size:60 final size:60
Alignment explanation
Indices: 30098340--30098476 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
30098330 CAGTGTTAAC
* *
30098340 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
30098401 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
30098461 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
30098477 TAACACAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.78
61 13 0.19
62 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:30098440 original size:28 final size:27
Alignment explanation
Indices: 30098339--30098440 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
30098329 TCAGTGTTAA
* *
30098339 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
30098367 CTGGGCCATAGCCCCT-TACAGTATCAGAGTAT
1 CTGGGCC-TAGCCCATAT-CAGTATC--A--AT
*
30098399 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
30098427 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
30098441 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:30103355 original size:85 final size:85
Alignment explanation
Indices: 30103251--30103456 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
30103241 CATATTGATG
30103251 CATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACATGGTGCTAA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACATGGTGCTAA
30103316 GTGGATATACCAC-GATTAAA
66 GTGGATATACCACAG-TTAAA
* *
30103336 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTTATTAACATGGTGCTAA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACATGGTGCTAA
30103401 GTGGATATACCACAGTTAAA
66 GTGGATATACCACAGTTAAA
*
30103421 CATGTAACATGGTGCTAAGTGGATATGCCACAGTTA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACAGTTA
30103457 TACATGTTAA
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
85 115 0.99
86 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (85 bp):
CATGTAACGTGGTGCTAAGTGGATATGCCACAGTTACATATATTGATTCATTAACATGGTGCTAA
GTGGATATACCACAGTTAAA
Found at i:30103358 original size:38 final size:38
Alignment explanation
Indices: 30103302--30103451 Score: 158
Period size: 38 Copynumber: 3.7 Consensus size: 38
30103292 ATTGATTCAT
30103302 TAACATGGTGCTAAGTGGATATACCACGATTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACGATTAAACATG
* * * *
30103340 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACATGGTGCTAAGTGGATATACCACGATTA-A-ACA-TG
30103381 ATTTATTAACATGGTGCTAAGTGGATATACCAC-AGTTAAACATG
1 ------TAACATGGTGCTAAGTGGATATACCACGA-TTAAACATG
*
30103425 TAACATGGTGCTAAGTGGATATGCCAC
1 TAACATGGTGCTAAGTGGATATACCAC
30103452 AGTTATACAT
Statistics
Matches: 93, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
38 55 0.59
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.30
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACGATTAAACATG
Found at i:30103452 original size:38 final size:38
Alignment explanation
Indices: 30103387--30103463 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
30103377 ATTGATTTAT
30103387 TAACATGGTGCTAAGTGGATATACCACAGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACAGTTAAACATG
* *
30103425 TAACATGGTGCTAAGTGGATATGCCACAGTTATACATG
1 TAACATGGTGCTAAGTGGATATACCACAGTTAAACATG
30103463 T
1 T
30103464 TAATTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACAGTTAAACATG
Found at i:30105930 original size:77 final size:77
Alignment explanation
Indices: 30105847--30106118 Score: 363
Period size: 76 Copynumber: 3.6 Consensus size: 77
30105837 AATTTACAAG
*
30105847 GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAATTTAATTTCAAAGAAATGGGAAAAAAACT
1 GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAATTTAATTTCAAAGAAATGGGAAAAAAAAT
30105912 AAAATTAAAATT
66 AAAATTAAAATT
* * *
30105924 GAAAGAAAGATAAATTTAAACGTAATAAGGAAAAAATTTAATTTCAAAGAAATGGG-AAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAATTTAATTTCAAAGAAATGGGAAAAAAAAT
30105988 AAAATTAAAATT
66 AAAATTAAAATT
** * *
30106000 GAAAGAAAGATAAATTTAAATGAAATGGGGAAAAAATTTAATTT-AAATTAAATGAGAAAAAAAA
1 GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAATTTAATTTCAAA-GAAATGGGAAAAAAAA
*** *
30106064 T-AAATTTGCATG
65 TAAAATTAAAATT
* * * *
30106076 GAAAGATAGAT-AATTTAAATGAAATGAGAAAAAAATTAAATTT
1 GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAATTTAATTT
30106119 GTATGGAAAA
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.18
76 82 0.47
77 61 0.35
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (77 bp):
GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAATTTAATTTCAAAGAAATGGGAAAAAAAAT
AAAATTAAAATT
Found at i:30106090 original size:48 final size:48
Alignment explanation
Indices: 30106038--30106156 Score: 193
Period size: 48 Copynumber: 2.5 Consensus size: 48
30106028 GGAAAAAATT
* *
30106038 TAATTTAAATTAAATGAGAAAAAAAATAAATTTGCATGGAAAGATAGA
1 TAATTTAAATGAAATGAGAAAAAAAATAAATTTGCATGGAAAAATAGA
* *
30106086 TAATTTAAATGAAATGAGAAAAAAATTAAATTTGTATGGAAAAATAGA
1 TAATTTAAATGAAATGAGAAAAAAAATAAATTTGCATGGAAAAATAGA
*
30106134 TAATTTAAATGAAATGAGGAAAA
1 TAATTTAAATGAAATGAGAAAAA
30106157 TTTTCATTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.56, C:0.01, G:0.15, T:0.28
Consensus pattern (48 bp):
TAATTTAAATGAAATGAGAAAAAAAATAAATTTGCATGGAAAAATAGA
Found at i:30106117 original size:27 final size:27
Alignment explanation
Indices: 30105857--30106118 Score: 112
Period size: 27 Copynumber: 10.3 Consensus size: 27
30105847 GAAAGAAAGA
* *
30105857 TAAATTTAAATGAAATAAGGAAAAAAT
1 TAAATTTAAATGAAATGAGAAAAAAAT
* * *
30105884 TTAATTTCAAA-GAAATGGGAAAAAAAC
1 TAAATTT-AAATGAAATGAGAAAAAAAT
* * *
30105911 TAAAATT-AA--AATTGA-AAGAAAGA-
1 TAAATTTAAATGAAATGAGAA-AAAAAT
* * * *
30105934 TAAATTTAAACGTAATAAGGAAAAAAT
1 TAAATTTAAATGAAATGAGAAAAAAAT
* *
30105961 TTAATTTCAAA-GAAATG-GGAAAAAAT
1 TAAATTT-AAATGAAATGAGAAAAAAAT
* * *
30105987 TAAAATT-AA--AATTGA-AAGAAAGA-
1 TAAATTTAAATGAAATGAGAA-AAAAAT
* *
30106010 TAAATTTAAATGAAATGGGGAAAAAAT
1 TAAATTTAAATGAAATGAGAAAAAAAT
* * *
30106037 TTAATTTAAATTAAATGAGAAAAAAAA
1 TAAATTTAAATGAAATGAGAAAAAAAT
** * * *
30106064 TAAATTTGCATGGAA--AG--ATAGA-
1 TAAATTTAAATGAAATGAGAAAAAAAT
30106086 T-AATTTAAATGAAATGAGAAAAAAAT
1 TAAATTTAAATGAAATGAGAAAAAAAT
30106112 TAAATTT
1 TAAATTT
30106119 GTATGGAAAA
Statistics
Matches: 168, Mismatches: 46, Indels: 42
0.66 0.18 0.16
Matches are distributed among these distances:
21 10 0.06
22 1 0.01
23 24 0.14
24 18 0.11
25 7 0.04
26 30 0.18
27 72 0.43
28 6 0.04
ACGTcount: A:0.58, C:0.02, G:0.13, T:0.26
Consensus pattern (27 bp):
TAAATTTAAATGAAATGAGAAAAAAAT
Found at i:30106141 original size:27 final size:27
Alignment explanation
Indices: 30106064--30106143 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
30106054 AGAAAAAAAA
* *
30106064 TAAATTTGCATGGAAAGATAGATAATT
1 TAAATTTGAATGGAAAAATAGATAATT
*
30106091 TAAA--TGAAAT-GAGAAA-A-A-AA-T
1 TAAATTTG-AATGGAAAAATAGATAATT
*
30106112 TAAATTTGTATGGAAAAATAGATAATT
1 TAAATTTGAATGGAAAAATAGATAATT
30106139 TAAAT
1 TAAAT
30106144 GAAATGAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
21 5 0.12
22 4 0.10
23 8 0.20
24 2 0.05
25 7 0.17
26 4 0.10
27 10 0.25
ACGTcount: A:0.53, C:0.01, G:0.15, T:0.31
Consensus pattern (27 bp):
TAAATTTGAATGGAAAAATAGATAATT
Found at i:30106239 original size:11 final size:10
Alignment explanation
Indices: 30106225--30106269 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
30106215 AATATAGTTT
30106225 AAATGAAATGG
1 AAATGAAAT-G
30106236 AAATGAAATG
1 AAATGAAATG
30106246 AAATGAAATTTG
1 AAATGAAA--TG
30106258 -AATGAAATG
1 AAATGAAATG
30106267 AAA
1 AAA
30106270 AAAAAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.06
10 11 0.35
11 16 0.52
12 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (10 bp):
AAATGAAATG
Found at i:30106243 original size:5 final size:5
Alignment explanation
Indices: 30106225--30106269 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
30106215 AATATAGTTT
30106225 AAATG AAATGG AAATG AAATG AAATG AAATTTG -AATG AAATG AAA
1 AAATG AAAT-G AAATG AAATG AAATG AAA--TG AAATG AAATG AAA
30106270 AAAAAAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 2 0.06
5 25 0.69
6 7 0.19
7 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (5 bp):
AAATG
Found at i:30106244 original size:16 final size:15
Alignment explanation
Indices: 30106225--30106269 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
30106215 AATATAGTTT
30106225 AAATGAAATGGAAATG
1 AAATGAAAT-GAAATG
30106241 AAATGAAATGAAATTTG
1 AAATGAAATGAAA--TG
30106258 -AATGAAATGAAA
1 AAATGAAATGAAA
30106270 AAAAAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.15
16 21 0.78
17 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (15 bp):
AAATGAAATGAAATG
Found at i:30106250 original size:21 final size:21
Alignment explanation
Indices: 30106225--30106269 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
30106215 AATATAGTTT
30106225 AAATGAAA-TGGAAATGAAATG
1 AAATGAAATTGG-AATGAAATG
*
30106246 AAATGAAATTTGAATGAAATG
1 AAATGAAATTGGAATGAAATG
30106267 AAA
1 AAA
30106270 AAAAAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATGAAATTGGAATGAAATG
Found at i:30106655 original size:12 final size:12
Alignment explanation
Indices: 30106638--30106763 Score: 62
Period size: 12 Copynumber: 9.8 Consensus size: 12
30106628 AAAATTAATG
30106638 AAATGAAATGTT
1 AAATGAAATGTT
30106650 AAATGAAATATGAATAT
1 AAATG-AA-ATG--T-T
30106667 GAAATGAAATGTT
1 -AAATGAAATGTT
* *
30106680 AAATGAAATATG
1 AAATGAAATGTT
30106692 AATATGAAATG--
1 AA-ATGAAATGTT
*
30106703 AAATGTAAT-TT
1 AAATGAAATGTT
*
30106714 GTAATGAATATGAAATT
1 -AAATGAA-ATG---TT
30106731 AAATGAAATGTT
1 AAATGAAATGTT
* *
30106743 AAATG-AATATA
1 AAATGAAATGTT
30106754 AAATGAAATG
1 AAATGAAATG
30106764 ATGATTATGA
Statistics
Matches: 88, Mismatches: 10, Indels: 32
0.68 0.08 0.25
Matches are distributed among these distances:
10 6 0.07
11 11 0.12
12 32 0.36
13 12 0.14
14 4 0.05
15 3 0.03
16 10 0.11
17 5 0.06
18 5 0.06
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAATGAAATGTT
Found at i:30106667 original size:6 final size:5
Alignment explanation
Indices: 30106634--30106764 Score: 82
Period size: 5 Copynumber: 23.0 Consensus size: 5
30106624 AAAAAAAATT
30106634 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATGA AATGTTA AATGAA
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG--A AATG-A
* * *
30106687 ATATGA ATATGA AATGA AATGTA ATTTGT AATGA ATATGA AATTA AATGA
1 A-ATGA A-ATGA AATGA AATG-A A-ATGA AATGA A-ATGA AATGA AATGA
*
30106737 AATGTTA AATGA ATATAA AATGA AATGA
1 AATG--A AATGA A-ATGA AATGA AATGA
30106765 TGATTATGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 24
0.75 0.07 0.17
Matches are distributed among these distances:
5 49 0.47
6 32 0.31
7 23 0.22
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (5 bp):
AATGA
Found at i:30106671 original size:30 final size:30
Alignment explanation
Indices: 30106635--30106764 Score: 160
Period size: 30 Copynumber: 4.3 Consensus size: 30
30106625 AAAAAAATTA
30106635 ATGAAATGAAATGTTAAATGAAATATGAAT
1 ATGAAATGAAATGTTAAATGAAATATGAAT
30106665 ATGAAATGAAATGTTAAATGAAATATGAAT
1 ATGAAATGAAATGTTAAATGAAATATGAAT
*
30106695 ATGAAATGAAATG-TAATTTGTAATGAATATGAA-
1 ATGAAATGAAATGTTAA-ATG--A--AATATGAAT
* *
30106728 ATTAAATGAAATGTTAAATG-AATAT-AAA
1 ATGAAATGAAATGTTAAATGAAATATGAAT
30106756 ATGAAATGA
1 ATGAAATGA
30106765 TGATTATGAA
Statistics
Matches: 89, Mismatches: 4, Indels: 16
0.82 0.04 0.15
Matches are distributed among these distances:
27 2 0.02
28 13 0.15
29 3 0.03
30 45 0.51
32 1 0.01
33 14 0.16
34 11 0.12
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (30 bp):
ATGAAATGAAATGTTAAATGAAATATGAAT
Found at i:30106729 original size:28 final size:28
Alignment explanation
Indices: 30106635--30106781 Score: 120
Period size: 30 Copynumber: 5.0 Consensus size: 28
30106625 AAAAAAATTA
*
30106635 ATGAAATGAAATGTTAA-ATGAAATATGAAT
1 ATGAAATGAAATG-TAATTTG-AA-ATGAAT
*
30106665 ATGAAATGAAATGTTAA-ATGAAATATGAAT
1 ATGAAATGAAATG-TAATTTG-AA-ATGAAT
*
30106695 ATGAAATGAAATGTAATTTGTAATGAAT
1 ATGAAATGAAATGTAATTTGAAATGAAT
* *
30106723 ATGAAATTAAATGAAATGTT-AAATGAAT
1 ATGAAATGAAATGTAAT-TTGAAATGAAT
* *
30106751 ATAAAATGAAATGATGATTATGAAATAGAAT
1 ATGAAATGAAATG-TAATT-TGAAAT-GAAT
30106782 GAAATTTAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
28 40 0.39
29 9 0.09
30 49 0.48
31 4 0.04
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.31
Consensus pattern (28 bp):
ATGAAATGAAATGTAATTTGAAATGAAT
Done.