Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 123 of 345
Found at i:32892420 original size:19 final size:21
Alignment explanation
Indices: 32892389--32892434 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
32892379 TAAGATAACT
*
32892389 TAATT-AAACAAAATT-AAGA
1 TAATTGAAACAAAATTAAAAA
32892408 TAATTGAAA-AAAATTAAAAA
1 TAATTGAAACAAAATTAAAAA
32892428 TAATTGA
1 TAATTGA
32892435 GCTTGTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (21 bp):
TAATTGAAACAAAATTAAAAA
Found at i:32894457 original size:37 final size:37
Alignment explanation
Indices: 32894407--32894480 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
32894397 AGGAGTTAGT
32894407 CCAAAAGAAGTACCATGATTGAAAACTCCTTATTGTA
1 CCAAAAGAAGTACCATGATTGAAAACTCCTTATTGTA
32894444 CCAAAAGAAGTACCATGATTGAAAACTCCTTATTGTA
1 CCAAAAGAAGTACCATGATTGAAAACTCCTTATTGTA
32894481 TACTCTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (37 bp):
CCAAAAGAAGTACCATGATTGAAAACTCCTTATTGTA
Found at i:32899213 original size:38 final size:38
Alignment explanation
Indices: 32899171--32899360 Score: 193
Period size: 38 Copynumber: 5.2 Consensus size: 38
32899161 ATAGAAATGT
* *
32899171 GGTGATATTCGGGCTATATGCCTAGCAGGCTTTGTGTC
1 GGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
* *
32899209 GGTGATATTCGGGCTACGTGTCTAGCAGG---T-T---
1 GGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
* *
32899240 GGT-ATTATTCGAGCTCTGTGCCTAGCAGGCTTTGTGCC
1 GGTGA-TATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
* * *
32899278 GATGATATTCGGGCTATGTGCCTAGCAAGCTTTGTACC
1 GGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
* * *
32899316 AGTGTTATTCGGGCTTTGTGCCTAGCAGGC-TTGTGCC
1 GGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
32899353 GGTG-TATT
1 GGTGATATT
32899361 GAAAATTTAC
Statistics
Matches: 124, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
30 1 0.01
31 23 0.19
34 2 0.02
35 2 0.02
36 4 0.03
37 9 0.07
38 82 0.66
39 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.34
Consensus pattern (38 bp):
GGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
Found at i:32901666 original size:2 final size:2
Alignment explanation
Indices: 32901659--32901685 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32901649 GTTAATGCTG
32901659 TA 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 T
32901686 CAACGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32902795 original size:48 final size:48
Alignment explanation
Indices: 32902699--32903540 Score: 1427
Period size: 48 Copynumber: 17.4 Consensus size: 48
32902689 TGTAGTGAAT
*
32902699 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
32902749 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
32902797 ATGTGAAATATGTATGAGATATGTATATGT-GTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
32902844 ATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
32902892 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
* *
32902942 CTGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
32902990 CTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
**
32903038 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAATCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
32903086 CTGTGAAATA-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
32903133 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
32903183 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* * *
32903231 CTGTGAAATATATATGAGATATGTATATGTGGTAAATCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
*
32903279 ATGTGAAATAAGTATGAGATATGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
32903329 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
32903377 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
32903425 ATGTGAAATATGTATGAGATATGTATATATGGTAAAGCTGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
32903473 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
32903521 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
32903541 GTGTGTATAT
Statistics
Matches: 751, Mismatches: 33, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
47 89 0.12
48 501 0.67
50 161 0.21
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
Found at i:32903125 original size:241 final size:242
Alignment explanation
Indices: 32902699--32903540 Score: 1467
Period size: 241 Copynumber: 3.5 Consensus size: 242
32902689 TGTAGTGAAT
*
32902699 ATGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 ATGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
32902764 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGT-G
64 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGG
32902828 TAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
129 TAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
32902893 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
194 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
* * *
32902942 CTGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTACTGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
32903007 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
** *
32903072 AAATCGAATGGCTACTGTGAAATA-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
131 AAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
32903136 TGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
196 TGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
* *
32903183 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
* *
32903248 GATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATAAGTATGAGATATGTATATATGTGG
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATATGTGG
*
32903313 TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
129 TAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
*
32903378 TGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTA
194 TGTGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
* *
32903425 ATGTGAAATATGTATGAGATATGTATATATGGTAAAGCTGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
* *
32903490 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
66 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
32903541 GTGTGTATAT
Statistics
Matches: 570, Mismatches: 25, Indels: 9
0.94 0.04 0.01
Matches are distributed among these distances:
241 302 0.53
242 157 0.28
243 53 0.09
244 58 0.10
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (242 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
TGAAATATGTATGAGAAATGTATATATGTGGTAAAGCCGAATGGCTA
Found at i:32906261 original size:40 final size:42
Alignment explanation
Indices: 32906151--32906450 Score: 143
Period size: 43 Copynumber: 7.0 Consensus size: 42
32906141 TAGATGCTCA
* * *
32906151 TAAA-CAAGTACAATGCCGACGTCCCGGACATGGTCTTACATG
1 TAAATCAA-TACAATGCCGATGTCCCAGACATGGTCTTACACG
* ** ** *
32906193 TAATTCAATATTGATGCCTCTGTCCCAGACAGGGTCTTACACG
1 TAAATCAATA-CAATGCCGATGTCCCAGACATGGTCTTACACG
*
32906236 -AAATC-ATACAATGCCGATGTCCCAGACATGGTCTTATACG
1 TAAATCAATACAATGCCGATGTCCCAGACATGGTCTTACACG
* * * ** *
32906276 TAAATCTCAAT-CGAGGCCTG-TATCCCAGACACAATCTTACTTATACG
1 TAAA--TCAATACAATGCC-GATGTCCCAG--AC-ATGGT-CTTACACG
* * * ***
32906323 TAAATCTCAAT-CGAGGCCTG-TATCCCAGACACAATCTTACACG
1 TAAA--TCAATACAATGCC-GATGTCCCAGACATGGTCTTACACG
* *
32906366 -AAATCAGATACGATGCCGATGTCCCAGACATGGTCTTATACG
1 TAAATCA-ATACAATGCCGATGTCCCAGACATGGTCTTACACG
* * *
32906408 TAAATCTCAAT-CGAGGCCTG-TGTCCCAGACACGGTCTTACACG
1 TAAA--TCAATACAATGCC-GATGTCCCAGACATGGTCTTACACG
32906451 ATGTCTCAGA
Statistics
Matches: 206, Mismatches: 34, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
40 29 0.14
41 9 0.04
42 36 0.17
43 78 0.38
44 8 0.04
45 7 0.03
46 3 0.01
47 36 0.17
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
TAAATCAATACAATGCCGATGTCCCAGACATGGTCTTACACG
Found at i:32906314 original size:83 final size:83
Alignment explanation
Indices: 32906159--32906315 Score: 183
Period size: 83 Copynumber: 1.9 Consensus size: 83
32906149 CATAAACAAG
* * * * *
32906159 TACAATGCCGACGTCCCGGACATGGTCTTACATGTAATTCAATATTGATGCCTCTGTCCCAGACA
1 TACAATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTATCCCAGACA
***
32906224 GGGTCTTACACGAAATCA
66 CAATCTTACACGAAATCA
* * *
32906242 TACAATGCCGATGTCCCAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTATCCCAGA
1 TACAATGCCGACGTCCCAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTATCCCAGA
32906305 CACAATCTTAC
64 CACAATCTTAC
32906316 TTATACGTAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
83 55 0.90
84 4 0.07
85 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (83 bp):
TACAATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTATCCCAGACA
CAATCTTACACGAAATCA
Found at i:32906328 original size:47 final size:47
Alignment explanation
Indices: 32906268--32906362 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
32906258 CAGACATGGT
32906268 CTTATACGTAAATCTCAATCGAGGCCTGTATCCCAGACACAATCTTA
1 CTTATACGTAAATCTCAATCGAGGCCTGTATCCCAGACACAATCTTA
32906315 CTTATACGTAAATCTCAATCGAGGCCTGTATCCCAGACACAATCTTA
1 CTTATACGTAAATCTCAATCGAGGCCTGTATCCCAGACACAATCTTA
32906362 C
1 C
32906363 ACGAAATCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (47 bp):
CTTATACGTAAATCTCAATCGAGGCCTGTATCCCAGACACAATCTTA
Found at i:32907609 original size:16 final size:17
Alignment explanation
Indices: 32907578--32907610 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32907568 TTTATAAGTA
32907578 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
32907595 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
32907611 GTTTCATCAT
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:32908053 original size:92 final size:92
Alignment explanation
Indices: 32907906--32908168 Score: 391
Period size: 92 Copynumber: 2.9 Consensus size: 92
32907896 TGCCATAGTG
* *
32907906 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
32907971 TTCTTTTCATGTCACGTTGCCACGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
* *
32907998 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
32908063 TTCGTTTCGTATCACGTTGCCATGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
* * * *
32908090 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
32908155 CACATTTCATATCA
66 TTCGTTTCATATCA
32908169 GAGAGCACAC
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 153 1.00
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCGTTTCATATCACGTTGCCACGGTA
Found at i:32908144 original size:138 final size:138
Alignment explanation
Indices: 32907891--32908154 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 138
32907881 TTATCTTTGA
* * * * *
32907891 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCAGTTTCTATCACGTTGCCATGGTATCTT
** * *
32907956 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCACGGTATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTACACATTTCATATCACGTTGCCACGGTATCTTTCAACCATGGTCTTATTCA
32908021 TTTCCCGT
131 TTTCCCGT
* * *
32908029 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-GTTTCGTATCACGTTGCCATGGTATCT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCAGTTTC-TATCACGTTGCCATGGTATCT
* *
32908093 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
65 TTCAACCATGGTCTTACACATTTCATATCACGTTGCCACGGTATCTTTCAACCATGGTCTTA
32908155 CACATTTCAT
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 4 0.04
138 107 0.96
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (138 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCAGTTTCTATCACGTTGCCATGGTATCTT
TCAACCATGGTCTTACACATTTCATATCACGTTGCCACGGTATCTTTCAACCATGGTCTTATTCA
TTTCCCGT
Found at i:32908169 original size:46 final size:46
Alignment explanation
Indices: 32907896--32908168 Score: 350
Period size: 46 Copynumber: 5.9 Consensus size: 46
32907886 TTTGACATGA
* * * * *
32907896 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
32907942 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *** *
32907988 TGCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* * *
32908034 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCGTATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
32908080 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
32908126 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
32908169 GAGAGCACAC
Statistics
Matches: 204, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 200 0.98
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:32916522 original size:47 final size:47
Alignment explanation
Indices: 32916469--32916810 Score: 576
Period size: 47 Copynumber: 7.3 Consensus size: 47
32916459 GTAAGATATG
* *
32916469 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
32916516 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
32916563 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
32916610 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
32916657 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
32916704 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* * *
32916751 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
32916798 TAAATGTGATAAG
1 TATATGTGATAAG
32916811 TCCCGAAGGG
Statistics
Matches: 279, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 279 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
Found at i:32922138 original size:42 final size:42
Alignment explanation
Indices: 32922038--32922272 Score: 176
Period size: 43 Copynumber: 5.5 Consensus size: 42
32922028 CAATGTCGAC
* * * * **
32922038 GTCCCGGACGTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATCAATA-CGATGCCGAT
* * * *
32922081 GTCCCGGATAGGGTCTTACATG-AAATCAGATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATCA-ATACGATGCCGAT
* * *
32922123 ATCCCAGACATGGTCTTATACGTAAATCTCAAT-CGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACGTAAA--TCAATACGATGCC-GAT
* * *
32922166 GTCCTAGACACGGTCTTACACG-AAATCGATTACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGTAAATC-AATACGATGCCGAT
* * *
32922208 GTCCCAGACATGGTCTTATACGTAAATCTCAAT-TGAGGCCTG-T
1 GTCCCAGACATGGTCTTACACGTAAA--TCAATACGATGCC-GAT
32922251 GTCCCAGACATGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
32922273 ATGTCTCAGA
Statistics
Matches: 154, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
40 2 0.01
41 3 0.02
42 58 0.38
43 80 0.52
44 6 0.04
45 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAATACGATGCCGAT
Found at i:32922175 original size:43 final size:43
Alignment explanation
Indices: 32922124--32922268 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
32922114 GATGCCGATA
32922124 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
1 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
* * * * * *
32922167 TCCTAGACACGGTCTTACACG-AAATC-GATTACGATGCC-GATG
1 TCCCAGACATGGTCTTATACGTAAATCTCAAT-CGAGGCCTG-TG
*
32922209 TCCCAGACATGGTCTTATACGTAAATCTCAATTGAGGCCTGTG
1 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
32922252 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
32922269 CACGATGTCT
Statistics
Matches: 84, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.04
42 31 0.37
43 47 0.56
44 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
Found at i:32922191 original size:85 final size:85
Alignment explanation
Indices: 32922069--32922273 Score: 304
Period size: 85 Copynumber: 2.4 Consensus size: 85
32922059 GTAATTCAAT
* * * * * *
32922069 ATCGATGCCTCTGTCCCGGATAGGGTCTTACATGAAATCAGA-TACGATGCCGATATCCCAGACA
1 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATC-GATTACGATGCCGATATCCCAGACA
32922133 TGGTCTTATACGTAAATCTCA
65 TGGTCTTATACGTAAATCTCA
* *
32922154 ATCGAGGCCTGTGTCCTAGACACGGTCTTACACGAAATCGATTACGATGCCGATGTCCCAGACAT
1 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATCGATTACGATGCCGATATCCCAGACAT
32922219 GGTCTTATACGTAAATCTCA
66 GGTCTTATACGTAAATCTCA
* *
32922239 ATTGAGGCCTGTGTCCCAGACATGGTCTTACACGA
1 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
32922274 TGTCTCAGAC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 2 0.02
85 106 0.98
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (85 bp):
ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGAAATCGATTACGATGCCGATATCCCAGACAT
GGTCTTATACGTAAATCTCA
Found at i:32924976 original size:50 final size:48
Alignment explanation
Indices: 32924851--32925122 Score: 165
Period size: 49 Copynumber: 5.7 Consensus size: 48
32924841 GGTAAGGTGC
* * *
32924851 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCATCTTCGAGG
1 CGATTCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCCGAGG
* * * *
32924899 CTGATGT-CATGTCCCGGACATGGTCTTACACTAGCTCTCA-CATAACCGTGT
1 C-GAT-TCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T--CCGAGG
**
32924950 CGATTCCATGTCCCAGACATGGTCTTACACT-GAC-A-CATCTCAC-AAC
1 CGATTCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTC-CGAGG
* * * *
32924996 CGA-TGCATGTCCCAAACAT-GTCTTACACTAGC-ACTCGTCT-CGATG
1 CGATTCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCCGAGG
* * * * * * * *
32925041 CTGATGCCACGTCTCAGACATGATCTTACACTAGCTCTCATAT-TGTGG
1 C-GATTCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCCGAGG
*
32925089 CCGA-TGCATGTCCCAGACAT-GTCTTACACTAGCT
1 -CGATTCCATGTCCCAGACATGGTCTTACACTAGCT
32925123 CACACAAGTG
Statistics
Matches: 172, Mismatches: 34, Indels: 38
0.70 0.14 0.16
Matches are distributed among these distances:
44 13 0.08
45 17 0.10
46 23 0.13
47 24 0.14
48 25 0.15
49 38 0.22
50 28 0.16
51 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
CGATTCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCCGAGG
Found at i:32925128 original size:142 final size:144
Alignment explanation
Indices: 32924850--32925118 Score: 338
Period size: 142 Copynumber: 1.9 Consensus size: 144
32924840 GGGTAAGGTG
* * * * *
32924850 CCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCATCTTCGAGGCTGATGTCATGTCCCG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTATCATCTTCGAGGCTGATGCCACGTCCCA
* *
32924915 GACATGGTCTTACACTAGCTCTCACATAACCGTGTCGATTCCATGTCCCAGACATGGTCTTACAC
66 GACATGATCTTACACTAGCTCT-ACATAACCGTGCCGATTCCATGTCCCAGACATGGTCTTACAC
32924980 TGACACATCTCACAA
130 TGACACATCTCACAA
* * *
32924995 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-ACTCGTC-TCGATGCTGATGCCACGTCTC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTA-TCATCTTCGAGGCTGATGCCACGTCCC
** *
32925056 AGACATGATCTTACACTAGCTCT-CAT-ATTGTGGCCGA-TGCATGTCCCAGACAT-GTCTTACA
65 AGACATGATCTTACACTAGCTCTACATAACCGT-GCCGATTCCATGTCCCAGACATGGTCTTACA
32925117 CT
129 CT
32925119 AGCTCACACA
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
138 10 0.09
139 18 0.17
140 7 0.06
142 39 0.36
143 17 0.16
144 12 0.11
145 6 0.06
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (144 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTATCATCTTCGAGGCTGATGCCACGTCCCA
GACATGATCTTACACTAGCTCTACATAACCGTGCCGATTCCATGTCCCAGACATGGTCTTACACT
GACACATCTCACAA
Found at i:32925484 original size:30 final size:30
Alignment explanation
Indices: 32925443--32925500 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
32925433 AAATTTACAC
*
32925443 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTGCCCCTAGA
32925473 CTTTGGCAAAATGACCATTTTGCCCCTA
1 CTTTGGCAAAATGACCATTTTGCCCCTA
32925501 TGCTCAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTGCCCCTAGA
Found at i:32932155 original size:28 final size:28
Alignment explanation
Indices: 32932115--32932170 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
32932105 TACATTGGCG
32932115 TGTGACCCTATTTCATGAGAATTTTTCT
1 TGTGACCCTATTTCATGAGAATTTTTCT
32932143 TGTGACCCTATTTCATGAGAATTTTTCT
1 TGTGACCCTATTTCATGAGAATTTTTCT
32932171 AAGTTTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (28 bp):
TGTGACCCTATTTCATGAGAATTTTTCT
Found at i:32942621 original size:55 final size:55
Alignment explanation
Indices: 32942529--32942650 Score: 147
Period size: 55 Copynumber: 2.2 Consensus size: 55
32942519 CGTGTGCAAT
* * * * *
32942529 ACTGACTTTAAAACACGGCCATGACGCACACCTGTGTGGCTTGCCCATGTACAAC
1 ACTGACTTTAAAACACGACCATGACACACACCTGTGTGGCCTGCCCATGAACAAA
* * * *
32942584 ACTGACTTTAAAACACGACCATTACACACGTCC-GTGTGGCCTGTCCGTGAACAAA
1 ACTGACTTTAAAACACGACCATGACACAC-ACCTGTGTGGCCTGCCCATGAACAAA
32942639 ACTGACTTTAAA
1 ACTGACTTTAAA
32942651 TTTTAAGTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 55 0.96
56 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (55 bp):
ACTGACTTTAAAACACGACCATGACACACACCTGTGTGGCCTGCCCATGAACAAA
Found at i:32948770 original size:3 final size:3
Alignment explanation
Indices: 32948762--32948830 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
32948752 TTATTTTGTC
* * * * * *
32948762 ATT ATT ATT ATT ATT ATC ATC GTT ATT GTT ATT ATT ATC ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32948810 ATT ATTT ATT -TT ATT AGTT AT
1 ATT A-TT ATT ATT ATT A-TT AT
32948831 GTTATTTTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:32948793 original size:21 final size:21
Alignment explanation
Indices: 32948763--32948802 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32948753 TATTTTGTCA
32948763 TTATTATTATTATTATCATCG
1 TTATTATTATTATTATCATCG
*
32948784 TTATTGTTATTATTATCAT
1 TTATTATTATTATTATCAT
32948803 TATTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATTATTATTATTATCATCG
Found at i:32948799 original size:12 final size:12
Alignment explanation
Indices: 32948752--32948836 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
32948742 TTTGTTTATT
*
32948752 TTATT-TTGTCA
1 TTATTATTGTTA
*
32948763 TTATTATTATTA
1 TTATTATTGTTA
* *
32948775 TTATCATCGTTA
1 TTATTATTGTTA
* *
32948787 TTGTTATTATTA
1 TTATTATTGTTA
* *
32948799 TCATTATTTTTA
1 TTATTATTGTTA
32948811 TTATTTATT-TTA
1 TTA-TTATTGTTA
32948823 TTAGTTA-TGTTA
1 TTA-TTATTGTTA
32948835 TT
1 TT
32948837 TTTCTTTGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
11 6 0.11
12 46 0.81
13 5 0.09
ACGTcount: A:0.25, C:0.05, G:0.06, T:0.65
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:32948815 original size:18 final size:18
Alignment explanation
Indices: 32948750--32948815 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
32948740 TATTTGTTTA
*
32948750 TTTTATT-TTGTCATTAT
1 TTTTATTATTATCATTAT
*
32948767 TATTATTATTATCATCGTTAT
1 TTTTATTATTATCA---TTAT
*
32948788 TGTTATTATTATCATTAT
1 TTTTATTATTATCATTAT
32948806 TTTTATTATT
1 TTTTATTATT
32948816 TATTTTATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 6 0.15
18 18 0.44
21 17 0.41
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTATTATTATCATTAT
Found at i:32951068 original size:25 final size:25
Alignment explanation
Indices: 32951040--32951087 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32951030 TTATACCATG
* * *
32951040 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
32951065 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
32951088 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:32951156 original size:20 final size:20
Alignment explanation
Indices: 32951131--32951189 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
32951121 TAAATATGGT
32951131 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
32951151 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
32951171 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
32951190 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:32951171 original size:11 final size:11
Alignment explanation
Indices: 32951135--32951189 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
32951125 TATGGTATGT
32951135 ATGATATGCAC
1 ATGATATGCAC
* *
32951146 ATGAAATG--T
1 ATGATATGCAC
32951155 ATGATATGCAC
1 ATGATATGCAC
*
32951166 ATGATATG--T
1 ATGATATGCAC
32951175 ATGATATGCAC
1 ATGATATGCAC
32951186 ATGA
1 ATGA
32951190 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:32951267 original size:24 final size:24
Alignment explanation
Indices: 32951240--32951358 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
32951230 GAGGAAGTGA
*
32951240 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
32951264 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
32951287 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
32951311 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
32951335 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
32951359 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:32951309 original size:47 final size:48
Alignment explanation
Indices: 32951240--32951358 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
32951230 GAGGAAGTGA
32951240 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
32951287 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
32951335 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
32951359 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:32951592 original size:31 final size:31
Alignment explanation
Indices: 32951550--32951644 Score: 156
Period size: 31 Copynumber: 3.1 Consensus size: 31
32951540 CGTTTACAGT
32951550 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
32951581 ACAA-GCTTCGGCCCAGTAATATGAAATATGA
1 A-AAGGCTTCGGCCCAGTAATATGAAATATGA
* *
32951612 AAAGGCTTCGGCCCAGTATTGTGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
32951643 AA
1 AA
32951645 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.03
31 56 0.93
32 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:32957884 original size:38 final size:38
Alignment explanation
Indices: 32957837--32957933 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 38
32957827 AATAGAACTG
* * *
32957837 CGGTGATATTTGGGCTATGTGTCTAGTAGGCTTTGTGC
1 CGGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
*
32957875 CGGTAATATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
1 CGGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
* *
32957913 CGGTGATATTCAGGCTTTGTG
1 CGGTGATATTCGGGCTATGTG
32957934 TCGGTGTTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.14, C:0.16, G:0.33, T:0.36
Consensus pattern (38 bp):
CGGTGATATTCGGGCTATGTGCCTAGCAGGCTTTGTGC
Found at i:32957929 original size:22 final size:22
Alignment explanation
Indices: 32957901--32957945 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32957891 ATGTGCCTAG
32957901 CAGGCTTTGTGCCGGTGATATT
1 CAGGCTTTGTGCCGGTGATATT
* *
32957923 CAGGCTTTGTGTCGGTGTTATT
1 CAGGCTTTGTGCCGGTGATATT
32957945 C
1 C
32957946 GGACTCTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.31, T:0.40
Consensus pattern (22 bp):
CAGGCTTTGTGCCGGTGATATT
Found at i:32957960 original size:60 final size:58
Alignment explanation
Indices: 32957864--32957980 Score: 153
Period size: 60 Copynumber: 2.0 Consensus size: 58
32957854 TGTGTCTAGT
* * *
32957864 AGGCTTTGTGCCGGTAATATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATATTC
1 AGGCTTTGTGCCGGTAATATTCGGACTATGTACCTAGCAGGC-TTGTACCGGTG-TATTC
* ** *
32957924 AGGCTTTGTGTCGGTGTTATTCGGACTCTGTACCTAGCAGGCTTGTACCGGTGTATT
1 AGGCTTTGTGCCGGTAATATTCGGACTATGTACCTAGCAGGCTTGTACCGGTGTATT
32957981 AAAAATTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 4 0.08
59 10 0.20
60 36 0.72
ACGTcount: A:0.15, C:0.20, G:0.31, T:0.35
Consensus pattern (58 bp):
AGGCTTTGTGCCGGTAATATTCGGACTATGTACCTAGCAGGCTTGTACCGGTGTATTC
Found at i:32958322 original size:2 final size:2
Alignment explanation
Indices: 32958315--32958341 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32958305 AGCTTTTGGA
32958315 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
32958342 AGTAGAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32962402 original size:44 final size:41
Alignment explanation
Indices: 32962253--32962415 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 41
32962243 AGCTCATACA
* * * *
32962253 ATGCCAAAGTCCCAGACGTTGTCTTACA-TGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACT-AAATC-AA-ATCG
* * * *
32962296 ATGCCATTGTCTCAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACTAAATCAAAT-CG
* * *
32962338 ATACCGATGTCCCAGGCATGGTCTTACACATAAATCATAAGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-TAAATCA-AA-TCG
*
32962382 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACTAAAT
32962416 TACATATCGG
Statistics
Matches: 96, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 36 0.38
44 30 0.31
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTAAATCAAATCG
Found at i:32968243 original size:2 final size:2
Alignment explanation
Indices: 32968236--32968283 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
32968226 ATTACTGGTT
32968236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32968278 T- TA TA T
1 TA TA TA T
32968284 CTTCATTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32971484 original size:31 final size:31
Alignment explanation
Indices: 32971449--32971509 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
32971439 ATAGTCACTA
* * *
32971449 AATTATTTGAAAGTTTTTATTTCAGTCATTG
1 AATTATTCGAAAATTTTTATTTAAGTCATTG
32971480 AATTATTCGAAAATTTTTATTTAAGTCATT
1 AATTATTCGAAAATTTTTATTTAAGTCATT
32971510 TGGCTCTCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (31 bp):
AATTATTCGAAAATTTTTATTTAAGTCATTG
Found at i:32972835 original size:2 final size:2
Alignment explanation
Indices: 32972828--32972896 Score: 111
Period size: 2 Copynumber: 33.0 Consensus size: 2
32972818 ATACATAAAC
32972828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32972870 AT AT AT AT AT AT CAT AT CAT AT CAT AT
1 AT AT AT AT AT AT -AT AT -AT AT -AT AT
32972897 CATGCATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 58 0.91
3 6 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32973455 original size:15 final size:15
Alignment explanation
Indices: 32973435--32973464 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32973425 CTAAGGAAAT
*
32973435 CCAAGCCGCTGCTTC
1 CCAAGCAGCTGCTTC
32973450 CCAAGCAGCTGCTTC
1 CCAAGCAGCTGCTTC
32973465 AACATATCTC
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:0.17, C:0.43, G:0.20, T:0.20
Consensus pattern (15 bp):
CCAAGCAGCTGCTTC
Found at i:32973913 original size:2 final size:2
Alignment explanation
Indices: 32973906--32973934 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32973896 TTCTTTGGTT
32973906 TA TA 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 T
32973935 TTCTGTTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32974081 original size:18 final size:19
Alignment explanation
Indices: 32974058--32974093 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
32974048 CTATAGCTTG
32974058 GAAAAGAAAAAAG-AAAAA
1 GAAAAGAAAAAAGTAAAAA
32974076 GAAAAGAAAAAAGTAAAA
1 GAAAAGAAAAAAGTAAAA
32974094 TCATGTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
GAAAAGAAAAAAGTAAAAA
Found at i:32977400 original size:20 final size:21
Alignment explanation
Indices: 32977361--32977400 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32977351 TTGGGTGTCT
**
32977361 TAGTATCGTGATACCCATTAC
1 TAGTATCGCAATACCCATTAC
32977382 TAGTATCGCAATA-CCATTA
1 TAGTATCGCAATACCCATTA
32977401 TAGATAGCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
TAGTATCGCAATACCCATTAC
Found at i:32980256 original size:43 final size:45
Alignment explanation
Indices: 32980143--32980268 Score: 202
Period size: 46 Copynumber: 2.8 Consensus size: 45
32980133 TATTTGGGCA
32980143 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* *
32980189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
*
32980233 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32980269 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
43 33 0.43
44 1 0.01
46 42 0.55
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:32983208 original size:14 final size:14
Alignment explanation
Indices: 32983173--32983240 Score: 75
Period size: 15 Copynumber: 4.7 Consensus size: 14
32983163 TATCTTGGGT
*
32983173 TTCTTTATCCTGGA
1 TTCTTTATTCTGGA
32983187 TCTCTTTATTCTGGA
1 T-TCTTTATTCTGGA
32983202 TTCTTTATTCTGGA
1 TTCTTTATTCTGGA
*
32983216 TTTCTCTA-TCTTGGA
1 -TTCTTTATTC-TGGA
*
32983231 TTTTTTATTC
1 TTCTTTATTC
32983241 GGTTTCCTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
14 21 0.46
15 25 0.54
ACGTcount: A:0.13, C:0.18, G:0.12, T:0.57
Consensus pattern (14 bp):
TTCTTTATTCTGGA
Found at i:32983215 original size:29 final size:29
Alignment explanation
Indices: 32983163--32983240 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
32983153 CATAGTATCA
* * *
32983163 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTCTTTATTCTGGATCTCTC
*
32983193 TAT-TCTGGATTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTCTTTATTCTGGATCTCTC
*
32983222 TATCTTGGATTTTTTATTC
1 TATCTTGGATTCTTTATTC
32983241 GGTTTCCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 36 0.88
30 5 0.12
ACGTcount: A:0.13, C:0.17, G:0.14, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTCTTTATTCTGGATCTCTC
Found at i:32988345 original size:57 final size:58
Alignment explanation
Indices: 32988256--32988374 Score: 186
Period size: 57 Copynumber: 2.1 Consensus size: 58
32988246 TAGTTTACTC
* * * *
32988256 TAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCTAT
1 TAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAATATAT
*
32988314 TAAATTAATAGAATAC-TATCAAGATAAATATTAAATTAAATTAAATATTTAATATAT
1 TAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAATATAT
32988371 TAAA
1 TAAA
32988375 ATAACATTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 41 0.73
58 15 0.27
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.39
Consensus pattern (58 bp):
TAAATTAATAGAATACTTATCAAGATAAATATTAAATTAAATTAAATATTAAATATAT
Found at i:32992054 original size:49 final size:47
Alignment explanation
Indices: 32991955--32992242 Score: 321
Period size: 47 Copynumber: 6.3 Consensus size: 47
32991945 GTATGAGATA
32991955 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
32992002 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
32992049 TGTATATATG-T--GACC-GAT-G-TGATGAATG-TGAAAGT----GTG
1 TATATATGTGATAAGGCCTAATGGCCGATG--TGATGAATGTGAAAGTG
*
32992087 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
32992134 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
32992181 TATATATGTGAT-AGGGCTGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG
*
32992228 TATAAATGTGATAAG
1 TATATATGTGATAAG
32992243 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 22, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
38 11 0.05
39 1 0.00
41 7 0.03
42 11 0.05
43 11 0.05
44 7 0.03
46 5 0.02
47 149 0.73
48 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:32992061 original size:18 final size:18
Alignment explanation
Indices: 32992038--32992097 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
32992028 GATGTGATGA
32992038 ATGTGAAAGTGTGTATAT
1 ATGTGAAAGTGTGTATAT
**
32992056 ATGTGACCGATGTG-ATGA-
1 ATGTGAAAG-TGTGTAT-AT
32992074 ATGTGAAAGTGTGTATAT
1 ATGTGAAAGTGTGTATAT
32992092 ATGTGA
1 ATGTGA
32992098 TAAGGCCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.15
18 24 0.71
19 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (18 bp):
ATGTGAAAGTGTGTATAT
Found at i:32992067 original size:36 final size:36
Alignment explanation
Indices: 32992026--32992097 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
32992016 GGCCTAATGG
32992026 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
32992062 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
32992098 TAAGGCCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.33
Consensus pattern (36 bp):
CCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
Found at i:32992112 original size:132 final size:130
Alignment explanation
Indices: 32991955--32992191 Score: 429
Period size: 132 Copynumber: 1.8 Consensus size: 130
32991945 GTATGAGATA
32991955 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
32992020 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGACCGATGTGATGAATGTGAAAGTG
66 GAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGACCGATGTGATGAATGTGAAAGTG
32992085 TG
129 TG
*
32992087 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
32992152 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
66 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
32992192 TAGGGCTGAG
Statistics
Matches: 102, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
130 14 0.14
132 88 0.86
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.31
Consensus pattern (130 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGACCGATGTGATGAATGTGAAAGTGTG
Found at i:32992135 original size:83 final size:83
Alignment explanation
Indices: 32991979--32992144 Score: 300
Period size: 85 Copynumber: 2.0 Consensus size: 83
32991969 GGCCTAATGG
32991979 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
32992044 AAGTGTGTATATATGTGA
66 AAGTGTGTATATATGTGA
32992062 CCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 CCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
32992127 G-AAG-GTGTATATATGTGA
64 GAAAGTGTGTATATATGTGA
32992145 TAAGGCCGAA
Statistics
Matches: 81, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
83 34 0.42
84 3 0.04
85 44 0.54
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (83 bp):
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTGTATATATGTGA
Found at i:32994110 original size:21 final size:21
Alignment explanation
Indices: 32994040--32994111 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
32994030 CCATGGTATC
32994040 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * * *
32994061 TTTCATATCATGCTGCCATGATATC-
1 TTTCA-ACCATG--GTC-TTACA-CA
32994086 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
32994107 TTTCA
1 TTTCA
32994112 TATCATGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 7 0.19
24 7 0.19
25 8 0.22
26 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:32994158 original size:46 final size:46
Alignment explanation
Indices: 32993920--32994158 Score: 316
Period size: 46 Copynumber: 5.2 Consensus size: 46
32993910 ACGGGGTGTT
* * * * *
32993920 ACATTTCCTGTCATGTTGCAATAGTATCTTTCAACCATGGTCTTAT
1 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
* * ** * **
32993966 TCAATTCCCATCATGTTGCCATGGTATCTTTCAACCATGGTGTTGT
1 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
* ** *
32994012 TCATTTCATGCCAAGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
* *
32994058 ACATTTCATATCATGCTGCCATGATATCTTTCAACCATGGTCTTAC
1 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
32994104 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
1 ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
32994150 ACATTTCAT
1 ACATTTCAT
32994159 TTTAGAAAGC
Statistics
Matches: 168, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 168 1.00
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.39
Consensus pattern (46 bp):
ACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTAC
Found at i:32999289 original size:93 final size:93
Alignment explanation
Indices: 32999176--32999347 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
32999166 CGCCCATAAG
* *
32999176 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
32999241 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
32999269 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
32999334 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
32999348 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:32999344 original size:46 final size:46
Alignment explanation
Indices: 32999169--32999344 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
32999159 TGTAACCCGC
* * *
32999169 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
32999215 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
32999265 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
32999308 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
32999345 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:33003773 original size:41 final size:42
Alignment explanation
Indices: 33003707--33003789 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 42
33003697 ATATTGACAT
33003707 AACTCAAAATTCCCCTTTTCTTCACTTTATTTCCTTATTTTA
1 AACTCAAAATTCCCCTTTTCTTCACTTTATTTCCTTATTTTA
33003749 AACTCAAAATT-CCCTTTTCTTCACTTTATTTCCTTATTTTA
1 AACTCAAAATTCCCCTTTTCTTCACTTTATTTCCTTATTTTA
33003790 CTATATCAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 30 0.73
42 11 0.27
ACGTcount: A:0.24, C:0.25, G:0.00, T:0.51
Consensus pattern (42 bp):
AACTCAAAATTCCCCTTTTCTTCACTTTATTTCCTTATTTTA
Found at i:33004014 original size:13 final size:14
Alignment explanation
Indices: 33003984--33004020 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
33003974 CTATCCTTTC
*
33003984 ATTTCACATTTTAT
1 ATTTCACATTTAAT
33003998 -TTTCA-ATTTAAT
1 ATTTCACATTTAAT
33004010 ATTTCACATTT
1 ATTTCACATTT
33004021 GTCTCTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 6 0.30
13 10 0.50
14 4 0.20
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTCACATTTAAT
Found at i:33006532 original size:46 final size:46
Alignment explanation
Indices: 33006306--33006532 Score: 276
Period size: 46 Copynumber: 4.9 Consensus size: 46
33006296 TTATCTTTGA
* * * * * * * *
33006306 CATGATGCCATAGTGTCTTTCAACTATTGTTTTACTCATTTC-CTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAC-AT
* ** * *
33006352 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACAT
* * *
33006398 CATGTTGCCATAGTATCTTTCAACCATGGTCTTACACACTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACAT
*
33006444 CATGTTGCCATGGTATCTTTCAACCACGGTCTTACACATTTCACAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACAT
*
33006490 CATGTTGCCTTGGTATCTTTCAACCATGGTCTTACACATTTCA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
33006533 TTTCAGAAAG
Statistics
Matches: 158, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
46 157 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCACAT
Found at i:33008651 original size:24 final size:23
Alignment explanation
Indices: 33008614--33008677 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 23
33008604 CCCTTTTATA
*
33008614 CTAAATAAATAATAATAAAATAT
1 CTAATTAAATAATAATAAAATAT
*
33008637 CTAATT-AA-AATAAT-AATTAT
1 CTAATTAAATAATAATAAAATAT
*
33008657 CTAATTAAATAATTATAAAAT
1 CTAATTAAATAATAATAAAAT
33008678 CATTAACATC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 11 0.32
21 8 0.24
22 7 0.21
23 8 0.24
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAATTAAATAATAATAAAATAT
Found at i:33011295 original size:40 final size:40
Alignment explanation
Indices: 33011239--33011429 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
33011229 CATGAGCATT
*
33011239 TGAATAATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
33011280 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
33011320 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
* * ** *
33011360 TGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
* *
33011400 TTG-TTATATCCGGGCTAAGACCCGAAGGCA
1 -TGAATATATCCGGGCTAAGTCCCGAAGGCA
33011430 ATTGTGCAAG
Statistics
Matches: 143, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
40 136 0.95
41 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
Found at i:33011384 original size:80 final size:80
Alignment explanation
Indices: 33011239--33011505 Score: 295
Period size: 80 Copynumber: 3.3 Consensus size: 80
33011229 CATGAGCATT
* *
33011239 TGAATAATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGTCCCG
1 TGAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGACCCG
*
33011304 AAGGCATTTATGCTAG
65 AAGGCATTTGTGCTAG
*
33011320 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGA
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGACCCGA
* *
33011385 AGGCATTCGTGCGAG
66 AGGCATTTGTGCTAG
* * * * * * ** * * *
33011400 TTG-TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCTG
1 -TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGACCCG
* *
33011464 AAGGCAATTGTGCTTG
65 AAGGCATTTGTGCTAG
** * *
33011480 TGGTTATATCC-GGCTAAATTCCGAAG
1 TGAATATATCCGGGCTAAGTCCCGAAG
33011506 AAGCTCAGTT
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
79 14 0.09
80 139 0.87
81 7 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGACCCGA
AGGCATTTGTGCTAG
Found at i:33011451 original size:40 final size:40
Alignment explanation
Indices: 33011239--33011496 Score: 261
Period size: 40 Copynumber: 6.5 Consensus size: 40
33011229 CATGAGCATT
* * *
33011239 TGAATAATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAG
* *
33011280 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCAATTATGCTAG
* *
33011320 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCAATTATGCTAG
* * *
33011360 TGATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAG
* * *
33011400 TTG-TTATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 -TGAATATATCCGGGCTAAGACCCGAAGGCAATTATGCTAG
* ** * * * * *
33011440 TTACCAAATCCGGGTTAAGACCTGAAGGCAATTGTGCTTG
1 TGAATATATCCGGGCTAAGACCCGAAGGCAATTATGCTAG
**
33011480 TGGTTATATCC-GGCTAA
1 TGAATATATCCGGGCTAA
33011497 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
39 8 0.04
40 174 0.91
41 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGACCCGAAGGCAATTATGCTAG
Found at i:33011467 original size:120 final size:120
Alignment explanation
Indices: 33011249--33011496 Score: 293
Period size: 120 Copynumber: 2.1 Consensus size: 120
33011239 TGAATAATAC
* * * * *
33011249 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGAATATATCCGGGCTAAGACCCGAAGGCAATTA
* * * * *
33011314 TGCTAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
66 TGCAAGTGAACAAATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
* *
33011369 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGAATATATCCGGGCTAAGACCCGAAGGCAATT
* * * * * * * *
33011433 GTGCAAGTTACCAAATCCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTTATAT
65 ATGCAAGTGAACAAATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
33011489 CC-GGCTAA
1 CCGGGCTAA
33011497 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
119 6 0.06
120 99 0.93
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGAATATATCCGGGCTAAGACCCGAAGGCAATTA
TGCAAGTGAACAAATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATTATAT
Found at i:33017397 original size:26 final size:25
Alignment explanation
Indices: 33017360--33017443 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 25
33017350 TAATACAAAT
*
33017360 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
33017386 TGATAATGGGTTAGGTAAATGGTTCA
1 TGATAATGGGTTAGGTAAAT-GTTCA
*
33017412 TGATAATGTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATG-TTCA
33017438 TGATAA
1 TGATAA
33017444 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
25 1 0.02
26 50 0.93
27 3 0.06
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:33024538 original size:26 final size:26
Alignment explanation
Indices: 33024495--33024544 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33024485 ACAAATTTTC
***
33024495 TCAAAATTTTATTGGGGGTAAAATCA
1 TCAAAATTTTACCAGGGGTAAAATCA
33024521 TCAAAATTTTACCAGGGGTAAAAT
1 TCAAAATTTTACCAGGGGTAAAAT
33024545 TGTAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACCAGGGGTAAAATCA
Found at i:33029727 original size:17 final size:17
Alignment explanation
Indices: 33029705--33029741 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
33029695 TCGCGACTTG
33029705 GTGGCGATCAAGTTTGA
1 GTGGCGATCAAGTTTGA
33029722 GTGGCGATCAAGTTTGA
1 GTGGCGATCAAGTTTGA
33029739 GTG
1 GTG
33029742 TTGCTGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.38, T:0.30
Consensus pattern (17 bp):
GTGGCGATCAAGTTTGA
Found at i:33036111 original size:35 final size:35
Alignment explanation
Indices: 33036057--33036125 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
33036047 TGTCCCATGA
*
33036057 AAATGTATCCATTGAATGATAAATTATCACTTTCT
1 AAATGTAACCATTGAATGATAAATTATCACTTTCT
* *
33036092 AAATGTAACTATTGCATGATAAATTATCACTTTC
1 AAATGTAACCATTGAATGATAAATTATCACTTTC
33036126 CAAAATTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (35 bp):
AAATGTAACCATTGAATGATAAATTATCACTTTCT
Found at i:33036516 original size:17 final size:17
Alignment explanation
Indices: 33036494--33036529 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
33036484 TGGAGAAAGG
33036494 AGGAAAACATAGGGAGA
1 AGGAAAACATAGGGAGA
33036511 AGGAAAACATAGGGAGA
1 AGGAAAACATAGGGAGA
33036528 AG
1 AG
33036530 TAGAAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.36, T:0.06
Consensus pattern (17 bp):
AGGAAAACATAGGGAGA
Found at i:33036732 original size:31 final size:29
Alignment explanation
Indices: 33036697--33036766 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
33036687 TTAACGAATT
*
33036697 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
***
33036728 AGTGACTAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
33036757 AGTGACTAAA
1 AGTGACTAAA
33036767 CTATAACCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.46
30 1 0.03
31 18 0.51
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:33036881 original size:22 final size:22
Alignment explanation
Indices: 33036853--33036897 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
33036843 TAAATACAAA
33036853 TATTATTAATAAATTTATTATT
1 TATTATTAATAAATTTATTATT
33036875 TATTATTAATAAATTTATTATT
1 TATTATTAATAAATTTATTATT
33036897 T
1 T
33036898 TAACATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTAATAAATTTATTATT
Found at i:33039150 original size:32 final size:32
Alignment explanation
Indices: 33039109--33039175 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
33039099 ACAGAACACC
33039109 TTTAATGGTTTTGTTGAATTTCCCCCAACAGT
1 TTTAATGGTTTTGTTGAATTTCCCCCAACAGT
33039141 TTTAATGGTTTTGTTGAATTTCCCCCAACAGT
1 TTTAATGGTTTTGTTGAATTTCCCCCAACAGT
33039173 TTT
1 TTT
33039176 GTGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (32 bp):
TTTAATGGTTTTGTTGAATTTCCCCCAACAGT
Found at i:33043291 original size:16 final size:17
Alignment explanation
Indices: 33043272--33043311 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
33043262 GATTTGGGAA
33043272 AATTTTA-ATTTTAG-AT
1 AATTTTAGA-TTTAGAAT
33043288 AATTTTAGATTTAGAAT
1 AATTTTAGATTTAGAAT
33043305 AATTTTA
1 AATTTTA
33043312 TGTTTAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
AATTTTAGATTTAGAAT
Found at i:33043317 original size:17 final size:16
Alignment explanation
Indices: 33043272--33043317 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
33043262 GATTTGGGAA
33043272 AATTTTAAT-TTTAGAT
1 AATTTT-ATGTTTAGAT
33043288 AATTTTA-GATTTAGAAT
1 AATTTTATG-TTTAG-AT
33043305 AATTTTATGTTTA
1 AATTTTATGTTTA
33043318 AAACTCTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (16 bp):
AATTTTATGTTTAGAT
Found at i:33043660 original size:182 final size:182
Alignment explanation
Indices: 33043337--33043713 Score: 551
Period size: 182 Copynumber: 2.1 Consensus size: 182
33043327 GTTTTTTTGG
* *
33043337 ATTGGGTCTTTAA-TGGTTCGAATCAGTTCAAATTTTAATCACTTCACGTTCAAGTTAATTCAAA
1 ATTGGGTCATTAAGAGGTTCGAATCAGTTCAAATTTTAATCACTTCACGTTCAAGTTAATTCAAA
* *
33043401 TTCAATTCAATTTGGGTTTAGAGTCAGGTGGTTTGAGATTTTTAATGATCAAATAGGATGGGGTT
66 TTCAATTCAATTTGGGTTTAGAGTCAGGTGGTTTGAGATTTTTAATGATCAAATAGGATGAGATT
* * *
33043466 GAATTAGAGTTTGAATTGATTGATTCGAATATTCAAATTCGGATATTTCCAA
131 GAATTAGAGTTTGAATCGATTGATTCAAATATTCAAATTCGAATATTTCCAA
* * *
33043518 ATTGGGTCATTAAGAGGTTCGAATCAGTTCAAGTTTTAATCACTTTATGTTCAAGTTAATTCAAA
1 ATTGGGTCATTAAGAGGTTCGAATCAGTTCAAATTTTAATCACTTCACGTTCAAGTTAATTCAAA
** * * *
33043583 TTTGATTCAATTTGGGTTTA-AGGTTAGGTGGTTTGAGTTTTTTAATGATCAAATTGGATGAGAT
66 TTCAATTCAATTTGGGTTTAGA-GTCAGGTGGTTTGAGATTTTTAATGATCAAATAGGATGAGAT
* * *
33043647 TGAATTTGAGTTTGAATCGATTGATTCAAATATTCAAATTTGAATTTTTCCAA
130 TGAATTAGAGTTTGAATCGATTGATTCAAATATTCAAATTCGAATATTTCCAA
* *
33043700 GTCGGGTCATTAAG
1 ATTGGGTCATTAAG
33043714 GATCCAGATC
Statistics
Matches: 174, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
181 13 0.07
182 161 0.93
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (182 bp):
ATTGGGTCATTAAGAGGTTCGAATCAGTTCAAATTTTAATCACTTCACGTTCAAGTTAATTCAAA
TTCAATTCAATTTGGGTTTAGAGTCAGGTGGTTTGAGATTTTTAATGATCAAATAGGATGAGATT
GAATTAGAGTTTGAATCGATTGATTCAAATATTCAAATTCGAATATTTCCAA
Found at i:33048338 original size:16 final size:17
Alignment explanation
Indices: 33048314--33048346 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33048304 CTAGTGAGAG
*
33048314 TTCATTTCAT-TGGCCC
1 TTCACTTCATATGGCCC
33048330 TTCACTTCATATGGCCC
1 TTCACTTCATATGGCCC
33048347 ATTGCAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.15, C:0.33, G:0.12, T:0.39
Consensus pattern (17 bp):
TTCACTTCATATGGCCC
Found at i:33048576 original size:2 final size:2
Alignment explanation
Indices: 33048569--33048594 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33048559 TCCCCACCCC
33048569 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
33048595 ATTAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:33049664 original size:23 final size:22
Alignment explanation
Indices: 33049628--33049672 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
33049618 TACATAAATG
33049628 TTTAAAATATATATAATAATAAA
1 TTTAAAATATATATAA-AATAAA
*
33049651 TTTAAAAT-TAATATTAAATAAA
1 TTTAAAATAT-ATATAAAATAAA
33049673 ATAAAAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATATATATAAAATAAA
Found at i:33049986 original size:24 final size:23
Alignment explanation
Indices: 33049937--33049987 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
33049927 TTATTCATAT
* **
33049937 TTTTTTTTGAAAGTATTTATGTA
1 TTTTTTTTAAAAGTATTTATAAA
33049960 TTTTTTTTAAAAGTTATTTATAAA
1 TTTTTTTTAAAAG-TATTTATAAA
33049984 TTTT
1 TTTT
33049988 GAGGGTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (23 bp):
TTTTTTTTAAAAGTATTTATAAA
Found at i:33052953 original size:18 final size:18
Alignment explanation
Indices: 33052912--33052966 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
33052902 AAAAAAATTA
*
33052912 AATTTTTATATATTCTTTAG
1 AATTTTTAT-T-TTTTTTAG
*
33052932 AATTTTTATTTTTTTTAT
1 AATTTTTATTTTTTTTAG
*
33052950 AATTTTTAATTTTTTTA
1 AATTTTTATTTTTTTTA
33052967 AAATATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 22 0.69
19 1 0.03
20 9 0.28
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
AATTTTTATTTTTTTTAG
Found at i:33052994 original size:24 final size:24
Alignment explanation
Indices: 33052950--33053007 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
33052940 TTTTTTTTAT
*
33052950 AATTTTTAATTTTTTTAAAATATA
1 AATTTTGAATTTTTTTAAAATATA
*
33052974 AATTTTGAA-TTTTTTATAA-AT-
1 AATTTTGAATTTTTTTAAAATATA
33052995 -ATTTTGAATTTTT
1 AATTTTGAATTTTT
33053008 AAATTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 8 0.26
21 4 0.13
22 2 0.06
23 9 0.29
24 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (24 bp):
AATTTTGAATTTTTTTAAAATATA
Found at i:33063899 original size:34 final size:34
Alignment explanation
Indices: 33063860--33063925 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
33063850 CGATAATATA
33063860 TACTATTAGTATTATATAATTAAGGTATGTTAGT
1 TACTATTAGTATTATATAATTAAGGTATGTTAGT
33063894 TACTATTAGTATTATATAATTAAGGTATGTTA
1 TACTATTAGTATTATATAATTAAGGTATGTTA
33063926 ATTATGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (34 bp):
TACTATTAGTATTATATAATTAAGGTATGTTAGT
Found at i:33064634 original size:13 final size:12
Alignment explanation
Indices: 33064618--33064664 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
33064608 AAACTTATTA
33064618 TTAATTATTATAT
1 TTAATT-TTATAT
*
33064631 TTAAATTTAT-T
1 TTAATTTTATAT
33064642 ATTAATTGTTATAT
1 -TTAATT-TTATAT
33064656 TTAATTTTA
1 TTAATTTTA
33064665 GAAATTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 1 0.03
12 12 0.41
13 15 0.52
14 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (12 bp):
TTAATTTTATAT
Found at i:33064664 original size:25 final size:25
Alignment explanation
Indices: 33064606--33064664 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
33064596 ATAAAAAAAG
*
33064606 TTAAACTTATTATTAATTATTATAT
1 TTAAATTTATTATTAATTATTATAT
*
33064631 TTAAATTTATTATTAATTGTTATAT
1 TTAAATTTATTATTAATTATTATAT
*
33064656 TTAATTTTA
1 TTAAATTTA
33064665 GAAATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (25 bp):
TTAAATTTATTATTAATTATTATAT
Found at i:33065973 original size:40 final size:40
Alignment explanation
Indices: 33065906--33066140 Score: 292
Period size: 40 Copynumber: 5.9 Consensus size: 40
33065896 TTATTGTATG
*
33065906 ATTGCACATACATGCCCCTGTTTGTAC-TCTGGTACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTC-GGTACCCCTA
* *
33065946 ATTACACTTACGTGCCCCTGTTTGTACTTCGGTACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
33065986 ATGGCACATACGTGCCCCTGTTTTTACTTCGATACCCTTG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * *
33066026 ATTGCACATACATGCCCCTGTTTGTACTTCAGTGCCCCTT
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * *
33066066 ATTGTACATACGTGCCCCTATTTGTACTTTGGTACCCCTG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
33066106 ATTGCACATATGTGCCCCTGTTTGTAATTCGGTAC
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
33066141 TCTGAATGCA
Statistics
Matches: 164, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
40 162 0.99
41 2 0.01
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:33065974 original size:20 final size:20
Alignment explanation
Indices: 33065951--33066131 Score: 100
Period size: 20 Copynumber: 9.1 Consensus size: 20
33065941 CCCTAATTAC
33065951 ACTTACGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
* ** * *
33065971 ACTT-CGGTACCCCTAATGGC
1 ACTTAC-GTGCCCCTGTTTGT
* *
33065991 ACATACGTGCCCCTGTTTTT
1 ACTTACGTGCCCCTGTTTGT
* * * *
33066011 ACTT-CGATACCCTTGATTGC
1 ACTTACG-TGCCCCTGTTTGT
* *
33066031 ACATACATGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
33066051 ACTT-CAGTGCCCCT-TATTGT
1 ACTTAC-GTGCCCCTGT-TTGT
* *
33066071 ACATACGTGCCCCTATTTGT
1 ACTTACGTGCCCCTGTTTGT
** * * *
33066091 ACTTTGGTACCCCTGATTGC
1 ACTTACGTGCCCCTGTTTGT
* *
33066111 ACATATGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
33066131 A
1 A
33066132 ATTCGGTACT
Statistics
Matches: 113, Mismatches: 40, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
19 5 0.04
20 104 0.92
21 4 0.04
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (20 bp):
ACTTACGTGCCCCTGTTTGT
Found at i:33066121 original size:120 final size:120
Alignment explanation
Indices: 33065904--33066173 Score: 337
Period size: 120 Copynumber: 2.3 Consensus size: 120
33065894 AATTATTGTA
* * *
33065904 TGATTGCACATACATGCCCCTGTTTGTAC-TCTGGTACCCCTAATTACACTTACGTGCCCCTGTT
1 TGATTGCACATACATGCCCCTGTTTGTACTTCTAGTACCCCTAATTACACATACGTGCCCCTATT
* *
33065968 TGTACTTCGGTACCCCTAATGGCACATACGTGCCCCTGTTTTTACTTCGATACCC
66 TGTACTTCGGTACCCCTAATGGCACATACGTGCCCCTGTTTGTAATTCGATACCC
* * **
33066023 TTGATTGCACATACATGCCCCTGTTTGTACTTC-AGTGCCCCTTATTGTACATACGTGCCCCTAT
1 -TGATTGCACATACATGCCCCTGTTTGTACTTCTAGTACCCCTAATTACACATACGTGCCCCTAT
* * * * * *
33066087 TTGTACTTTGGTACCCCTGATTGCACATATGTGCCCCTGTTTGTAATTCGGTACTC
65 TTGTACTTCGGTACCCCTAATGGCACATACGTGCCCCTGTTTGTAATTCGATACCC
* * * * *
33066143 TGAATGCACTTTCATGCCCCTATTTATACTT
1 TGATTGCACATACATGCCCCTGTTTGTACTT
33066174 GATAACTCTG
Statistics
Matches: 129, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
119 26 0.20
120 101 0.78
121 2 0.02
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.36
Consensus pattern (120 bp):
TGATTGCACATACATGCCCCTGTTTGTACTTCTAGTACCCCTAATTACACATACGTGCCCCTATT
TGTACTTCGGTACCCCTAATGGCACATACGTGCCCCTGTTTGTAATTCGATACCC
Found at i:33080279 original size:14 final size:14
Alignment explanation
Indices: 33080260--33080301 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
33080250 GGACCTTTAA
33080260 ATTATTTTGGTTTT
1 ATTATTTTGGTTTT
*
33080274 ATTATTTTTGTTTT
1 ATTATTTTGGTTTT
*
33080288 ATTTTTTTGGTTTT
1 ATTATTTTGGTTTT
33080302 TGTTTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (14 bp):
ATTATTTTGGTTTT
Found at i:33080307 original size:14 final size:14
Alignment explanation
Indices: 33080264--33080310 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
33080254 CTTTAAATTA
33080264 TTTTGGTTTTATTAT
1 TTTTGGTTTTATT-T
33080279 TTTT-GTTTTATTT
1 TTTTGGTTTTATTT
33080292 TTTTGGTTTT-TGTT
1 TTTTGGTTTTAT-TT
33080306 TTTTG
1 TTTTG
33080311 TGTGAGCCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.20
14 20 0.67
15 4 0.13
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (14 bp):
TTTTGGTTTTATTT
Found at i:33084937 original size:39 final size:39
Alignment explanation
Indices: 33084830--33084998 Score: 248
Period size: 39 Copynumber: 4.3 Consensus size: 39
33084820 TTTAAGCTTA
* ** * *
33084830 GATATATTTCCAGCACGTAACCTGCGAACCTTAAGTCCG
1 GATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCG
*
33084869 GATTATAATTCCAGTATATAGCCTGCGGACCTTAAGTCCG
1 GA-TATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCG
* *
33084909 GATATATTTCTAGCATATAGCCTGCGGACCTTAAGTCCG
1 GATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCG
*
33084948 GATATAATTCTAGCATATAGCCTGCGGACCTTAAGTCCG
1 GATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCG
33084987 GATATAATTCCA
1 GATATAATTCCA
33084999 AATATCATGC
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 85 0.72
40 33 0.28
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (39 bp):
GATATAATTCCAGCATATAGCCTGCGGACCTTAAGTCCG
Found at i:33089968 original size:25 final size:25
Alignment explanation
Indices: 33089940--33089992 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
33089930 GAGAATTTAA
33089940 ATAAGTAATTCGATATAAATTATAT
1 ATAAGTAATTCGATATAAATTATAT
*
33089965 ATAAGTAATTCGATATAAATTATGT
1 ATAAGTAATTCGATATAAATTATAT
33089990 ATA
1 ATA
33089993 TGTATATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (25 bp):
ATAAGTAATTCGATATAAATTATAT
Found at i:33091309 original size:2 final size:2
Alignment explanation
Indices: 33091304--33091328 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33091294 GAAAAAAGAA
33091304 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33091329 GAATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33091773 original size:19 final size:19
Alignment explanation
Indices: 33091751--33091790 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
33091741 TTAATTCGGT
*
33091751 TTTGGGTTTTAAATTTGGG
1 TTTGGGTTTGAAATTTGGG
33091770 TTTGGGTTTGAAATTTGGG
1 TTTGGGTTTGAAATTTGGG
33091789 TT
1 TT
33091791 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.53
Consensus pattern (19 bp):
TTTGGGTTTGAAATTTGGG
Found at i:33093170 original size:30 final size:30
Alignment explanation
Indices: 33093136--33093195 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33093126 TTCCTGAGCC
33093136 TAGGGGCAAAAAT-GTAATTATGCAAAAGTT
1 TAGGGGC-AAAATGGTAATTATGCAAAAGTT
* *
33093166 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
33093196 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:33093407 original size:19 final size:19
Alignment explanation
Indices: 33093385--33093442 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
33093375 AATTTAAGTA
33093385 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
33093404 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
33093421 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
33093439 ATAT
1 ATAT
33093443 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:33093427 original size:35 final size:35
Alignment explanation
Indices: 33093388--33093454 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
33093378 TTAAGTAATA
*
33093388 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
33093423 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
33093455 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:33093842 original size:49 final size:50
Alignment explanation
Indices: 33093775--33094021 Score: 318
Period size: 49 Copynumber: 5.0 Consensus size: 50
33093765 AGCTATTGTG
* *
33093775 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
33093825 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
33093875 CGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* *
33093925 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
33093975 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
33094022 CTTTAGCTAC
Statistics
Matches: 167, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 47 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:33093913 original size:26 final size:26
Alignment explanation
Indices: 33093884--33093964 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
33093874 TCGATCACAT
33093884 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
* *
33093910 GTGTA-T-C-AAATGGTTAGG-T-C-AC
1 GTGTAGTACTAAGT-G-CAGGCTACTAC
33093932 GTGTGTAGTACTAAGTGCAGGCTACTAC
1 --GTGTAGTACTAAGTGCAGGCTACTAC
33093960 GTGTA
1 GTGTA
33093965 CCAGATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 20
0.63 0.06 0.31
Matches are distributed among these distances:
22 2 0.05
23 4 0.10
24 8 0.20
25 8 0.20
26 13 0.32
27 4 0.10
28 2 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:33093972 original size:101 final size:98
Alignment explanation
Indices: 33093778--33094016 Score: 334
Period size: 100 Copynumber: 2.4 Consensus size: 98
33093768 TATTGTGAGG
* * * *
33093778 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACT
* *
33093843 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCAGATAA-TT-GA
* *
33093878 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT-GGTCACATGTGTAGTAC
* *
33093943 TAAGTGCAGGCTACTACGTGTACCAGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCAGATAATTGA
* * *
33093977 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
33094017 GATAGCTTTA
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 37 0.30
100 45 0.36
101 42 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCAGATAATTGA
Found at i:33095651 original size:64 final size:64
Alignment explanation
Indices: 33095548--33095671 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
33095538 AGGCCTATGC
* * * * * *
33095548 TTATGCCAAATAATTAGGATGTTATGATTGACATGAATCAATTGTTCCTAACTAGATGTGATGT
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTGATGT
*
33095612 TTATGTCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
1 TTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTG
33095672 TTATAAATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATGTGATGT
Found at i:33096872 original size:1 final size:1
Alignment explanation
Indices: 33096851--33096909 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
33096841 TGGCCTCTCC
* * * * * * *
33096851 TTTTCTTTTCTTTTTTCTTTTTCTTTTTTTTTTTTTCTTTTTCTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
33096910 GTGAAGGTCT
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:33096880 original size:14 final size:13
Alignment explanation
Indices: 33096851--33096909 Score: 82
Period size: 14 Copynumber: 4.4 Consensus size: 13
33096841 TGGCCTCTCC
*
33096851 TTTTCTTTTCTTT
1 TTTTTTTTTCTTT
*
33096864 TTTCTTTTTCTTTT
1 TTTTTTTTTC-TTT
33096878 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
33096891 TTCTTTTTTTCTTT
1 TT-TTTTTTTCTTT
33096905 TTTTT
1 TTTTT
33096910 GTGAAGGTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
13 16 0.39
14 25 0.61
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:33096884 original size:20 final size:20
Alignment explanation
Indices: 33096856--33096907 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
33096846 TCTCCTTTTC
*
33096856 TTTTCTTTTTTCTTTTTCTT
1 TTTTTTTTTTTCTTTTTCTT
33096876 TTTTTTTTTTTCTTTTTCTT
1 TTTTTTTTTTTCTTTTTCTT
33096896 TTTTTCTTTTTT
1 TTTTT-TTTTTT
33096908 TTGTGAAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 24 0.80
21 6 0.20
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTTTCTTTTTCTT
Found at i:33099391 original size:19 final size:19
Alignment explanation
Indices: 33099351--33099398 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
33099341 GGGAAAATTT
* **
33099351 AATGCAAATGATGTAATGC
1 AATGCAAATGATGCAACAC
33099370 AATGCAAATGATGCAACAC
1 AATGCAAATGATGCAACAC
*
33099389 AATGAAAATG
1 AATGCAAATG
33099399 CATGGGATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAACAC
Found at i:33103457 original size:8 final size:8
Alignment explanation
Indices: 33103444--33103470 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
33103434 TATTTTGTTG
33103444 TTGTCTGC
1 TTGTCTGC
33103452 TTGTCTGC
1 TTGTCTGC
33103460 TTGTCTGC
1 TTGTCTGC
33103468 TTG
1 TTG
33103471 CAGGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.26, T:0.52
Consensus pattern (8 bp):
TTGTCTGC
Found at i:33103694 original size:20 final size:19
Alignment explanation
Indices: 33103666--33103707 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33103656 GGCTAGGATT
33103666 ATTTCGGTTTTGGGTTTAAA
1 ATTTCGG-TTTGGGTTTAAA
* *
33103686 ATTTGGGTTTGGGTTTGAA
1 ATTTCGGTTTGGGTTTAAA
33103705 ATT
1 ATT
33103708 CGGATCTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.19, C:0.02, G:0.29, T:0.50
Consensus pattern (19 bp):
ATTTCGGTTTGGGTTTAAA
Found at i:33105177 original size:2 final size:2
Alignment explanation
Indices: 33105170--33105195 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33105160 CCCATATTAG
33105170 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
33105196 GGCATTGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33107222 original size:15 final size:15
Alignment explanation
Indices: 33107202--33107240 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
33107192 TATAATTTAT
33107202 TATTTTATTCATATG
1 TATTTTATTCATATG
*
33107217 TATTTTATACATATG
1 TATTTTATTCATATG
*
33107232 TATGTTATT
1 TATTTTATT
33107241 TTTACACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (15 bp):
TATTTTATTCATATG
Found at i:33107246 original size:19 final size:19
Alignment explanation
Indices: 33107213--33107252 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
33107203 ATTTTATTCA
*
33107213 TATGTATTTTATACATATG
1 TATGTATTTTATACACATG
33107232 TATGTTATTTT-TACACATG
1 TATG-TATTTTATACACATG
33107251 TA
1 TA
33107253 AACACGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (19 bp):
TATGTATTTTATACACATG
Found at i:33115354 original size:13 final size:12
Alignment explanation
Indices: 33115335--33115366 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
33115325 GGTTGTTTAT
33115335 TAACTAATTAAC
1 TAACTAATTAAC
33115347 TAAACTAATTAAC
1 T-AACTAATTAAC
33115360 TAACTAA
1 TAACTAA
33115367 ACTAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:33122229 original size:13 final size:12
Alignment explanation
Indices: 33122210--33122241 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
33122200 GGTTGTTTAT
33122210 TAACTAATTAAC
1 TAACTAATTAAC
33122222 TAAACTAATTAAC
1 T-AACTAATTAAC
33122235 TAACTAA
1 TAACTAA
33122242 ACTAAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (12 bp):
TAACTAATTAAC
Found at i:33126202 original size:38 final size:38
Alignment explanation
Indices: 33126140--33126328 Score: 209
Period size: 38 Copynumber: 4.9 Consensus size: 38
33126130 TTTGATGTGC
* * * *
33126140 ATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAAATAT
1 ATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTAT
*
33126180 ATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTAT
1 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAT
*
33126218 ATCCGGGTTAAATCCCGCAGGTTTCGTGCTGGTATTAT
1 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAT
* * *
33126256 ATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTAT
1 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAT
* * * *
33126294 ATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 ATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
33126329 GACTGGATTC
Statistics
Matches: 131, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
37 1 0.01
38 94 0.72
39 11 0.08
40 25 0.19
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTAT
Found at i:33132585 original size:40 final size:40
Alignment explanation
Indices: 33132530--33132693 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
33132520 TGAATGATAC
* * *
33132530 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
33132570 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
33132610 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTCACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
33132650 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
33132690 CCGG
1 CCGG
33132694 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:33132663 original size:80 final size:80
Alignment explanation
Indices: 33132530--33132707 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
33132520 TGAATGATAC
* * * * * * *
33132530 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTCACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
33132594 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* *
33132610 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTCACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTCACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
33132675 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
33132690 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
33132708 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTCACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:33136727 original size:38 final size:38
Alignment explanation
Indices: 33136666--33136804 Score: 127
Period size: 38 Copynumber: 3.6 Consensus size: 38
33136656 ATTTGATGTG
* *
33136666 TATCCGGGCTTAAAGACCCGCAGG-TTATATGCTAGAAATA
1 TATCCGGG-TTAAA-TCCCGCAGGCTT-CATGCTAGAAATA
* * * *
33136706 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAAATA
* * * * *
33136744 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAAATA
* *
33136782 TATCCGGGTTCAATCCCACAGGC
1 TATCCGGGTTAAATCCCGCAGGC
33136805 CTAGTGCTGG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 73 0.83
39 7 0.08
40 8 0.09
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATGCTAGAAATA
Found at i:33136784 original size:76 final size:78
Alignment explanation
Indices: 33136704--33136855 Score: 209
Period size: 76 Copynumber: 2.0 Consensus size: 78
33136694 ATGCTAGAAA
* * * *
33136704 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TCTCGCAGGC
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTATATCCGAGCTTAAAGTCTCGCAGGC
33136767 TTCGTGCTGGTAT
66 TTCGTGCTGGTAT
* * * *
33136780 TATATCCGGGTTCAATCCCACAGGCCTAGTGCTGGTATTATATCTGAGCTTAAAGTCTCGTAGGT
1 TATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTATATCCGAGCTTAAAGTCTCGCAGGC
*
33136845 TTTGTGCTGGT
66 TTCGTGCTGGT
33136856 GACTGGATTC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 41 0.63
77 6 0.09
78 18 0.28
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (78 bp):
TATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTATTATATCCGAGCTTAAAGTCTCGCAGGC
TTCGTGCTGGTAT
Found at i:33136812 original size:38 final size:38
Alignment explanation
Indices: 33136704--33136823 Score: 195
Period size: 38 Copynumber: 3.2 Consensus size: 38
33136694 ATGCTAGAAA
33136704 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
33136742 TATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
33136780 TATATCCGGGTTCAATCCCACAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
33136818 TATATC
1 TATATC
33136824 TGAGCTTAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:33141530 original size:29 final size:29
Alignment explanation
Indices: 33141421--33141551 Score: 142
Period size: 29 Copynumber: 4.6 Consensus size: 29
33141411 ACCCCTACAT
* *
33141421 ACATGCATATGGCCCACTAGGCCCAATCTC
1 ACATTCATATGGCCCATTAGGCCCAAT-TC
* *
33141451 AC-TT-ATATTGCCCATTCGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * * *
33141478 ACGTTCATATGGCCTATCAAGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
33141507 ACATTCATATGGCCCATTAGGCCCAA-TC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
33141535 TCATTTATATGGCCCAT
1 ACATTCATATGGCCCAT
33141552 CCTGCCCAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
27 4 0.05
28 37 0.44
29 41 0.49
30 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:33141559 original size:57 final size:56
Alignment explanation
Indices: 33141426--33141572 Score: 156
Period size: 57 Copynumber: 2.6 Consensus size: 56
33141416 TACATACATG
* * *
33141426 CATATGGCCCA-CTAGGCCCAATCTCAC-TTATATTGCCCATTCGGCCCAATTCACGTT
1 CATATGGCCCATC-AAGCCCAAT-TCACATTATATGGCCCATTAGGCCCAATTCAC-TT
*
33141483 CATATGGCCTATCAAGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCA-TT
1 CATATGGCCCATCAAGCCCAATTCACATT-ATATGGCCCATTAGGCCCAAT-TCACTT
* ** *
33141540 TATATGGCCCATCCTGCCCAAATCACATTATAT
1 CATATGGCCCATCAAGCCCAATTCACATTATAT
33141573 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
56 8 0.10
57 46 0.60
58 20 0.26
59 3 0.04
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.29
Consensus pattern (56 bp):
CATATGGCCCATCAAGCCCAATTCACATTATATGGCCCATTAGGCCCAATTCACTT
Done.