Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 57 of 62
Found at i:13339884 original size:21 final size:21
Alignment explanation
Indices: 13339860--13339924 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
13339850 ATGCATCACT
*
13339860 TGAATGTACATCGATACACCA
1 TGAATGTACATCGATGCACCA
* * *
13339881 TGAAGGTACACCGATGCATTCCT
1 TGAATGTACATCGATGCA--CCA
*
13339904 TGAATGTGCATCGATGCACCA
1 TGAATGTACATCGATGCACCA
13339925 GGTTATGCAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
21 17 0.50
23 17 0.50
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (21 bp):
TGAATGTACATCGATGCACCA
Found at i:13339918 original size:23 final size:22
Alignment explanation
Indices: 13339848--13339921 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
13339838 ATTATATTAC
13339848 CGATGCATCACTTGAATGTACAT
1 CGATGCATC-CTTGAATGTACAT
* * * *
13339871 CGATACA-CCATGAAGGTACAC
1 CGATGCATCCTTGAATGTACAT
*
13339892 CGATGCATTCCTTGAATGTGCAT
1 CGATGCA-TCCTTGAATGTACAT
13339915 CGATGCA
1 CGATGCA
13339922 CCAGGTTATG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 16 0.40
22 1 0.03
23 23 0.57
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (22 bp):
CGATGCATCCTTGAATGTACAT
Found at i:13342772 original size:65 final size:65
Alignment explanation
Indices: 13342625--13342780 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 65
13342615 ACACCCTATT
* * *
13342625 TCGAATGCATGTT-GTGTACCGATGCACATCCATGCATCGATGCACTCTTGAATTTATTGAAACA
1 TCGAATGCATATTAGTGTACCGATGCACAACCATGCATCGATGCACTCATGAATTTATTGAAACA
* * **
13342689 TCGGATGCATTTTA-TGTACCGATGCACAGACCATGCATCGATGCACTCATGGCTCTT-TTGAAA
1 TCGAATGCATATTAGTGTACCGATGCACA-ACCATGCATCGATGCACTCATGAAT-TTATTGAAA
13342752 CA
64 CA
* *
13342754 TCGAATGTA-ATTAGTGTACAGATGCAC
1 TCGAATGCATATTAGTGTACCGATGCAC
13342781 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 28 0.36
65 48 0.62
66 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (65 bp):
TCGAATGCATATTAGTGTACCGATGCACAACCATGCATCGATGCACTCATGAATTTATTGAAACA
Found at i:13343263 original size:16 final size:15
Alignment explanation
Indices: 13343244--13343278 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
13343234 ATAAATACTA
*
13343244 AATAATATTATTAATT
1 AATAATATTAATAA-T
13343260 AATAATATTAATAAT
1 AATAATATTAATAAT
13343275 AATA
1 AATA
13343279 TAATCACAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATATTAATAAT
Found at i:13343355 original size:18 final size:18
Alignment explanation
Indices: 13343332--13343379 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
13343322 GTATAAATAC
*
13343332 TAATAATAATTAATTATA
1 TAATAATAATTAAATATA
13343350 TAATAATAA-TAAATATA
1 TAATAATAATTAAATATA
*
13343367 TAAAAAT-ATTAAA
1 TAATAATAATTAAA
13343380 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 17 0.63
18 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATAATTAAATATA
Found at i:13344490 original size:17 final size:18
Alignment explanation
Indices: 13344464--13344506 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
13344454 TTTGGACTAC
13344464 ATAA-ATAATAATATT-T
1 ATAATATAATAATATTAT
*
13344480 ATAATATAATATTATTAT
1 ATAATATAATAATATTAT
13344498 ATATATATA
1 ATA-ATATA
13344507 TATATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 4 0.17
19 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATATAATAATATTAT
Found at i:13345776 original size:22 final size:22
Alignment explanation
Indices: 13345751--13345800 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
13345741 AAAGCTTTGG
*
13345751 TCTTTGAAAAGAT-AATCTATCA
1 TCTTTGAAAAG-TGAATATATCA
*
13345773 TCTTTGAAAAGTGAATATATCC
1 TCTTTGAAAAGTGAATATATCA
13345795 TCTTTG
1 TCTTTG
13345801 CAGAATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (22 bp):
TCTTTGAAAAGTGAATATATCA
Found at i:13348213 original size:20 final size:21
Alignment explanation
Indices: 13348173--13348215 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
13348163 TATAAATGAA
13348173 AATGTTGTGGCAAAATGGAATG
1 AATGTTGTGG-AAAATGGAATG
*
13348195 AATGTTGTGG-AAGTGGAATG
1 AATGTTGTGGAAAATGGAATG
13348215 A
1 A
13348216 TGGAAGTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (21 bp):
AATGTTGTGGAAAATGGAATG
Found at i:13358195 original size:20 final size:21
Alignment explanation
Indices: 13358155--13358197 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
13358145 TATAAATGAA
13358155 AATGTTGTGGCAAAATGGAATG
1 AATGTTGTGG-AAAATGGAATG
*
13358177 AATGTTGTGG-AAGTGGAATG
1 AATGTTGTGGAAAATGGAATG
13358197 A
1 A
13358198 TGGAAGTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (21 bp):
AATGTTGTGGAAAATGGAATG
Found at i:13361272 original size:20 final size:19
Alignment explanation
Indices: 13361240--13361277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
13361230 TATCATTTAT
*
13361240 ATATATTCTTTTAACCAAC
1 ATATATTCATTTAACCAAC
13361259 ATATGATTCATTTAACCAA
1 ATAT-ATTCATTTAACCAA
13361278 TCAATACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (19 bp):
ATATATTCATTTAACCAAC
Found at i:13361552 original size:24 final size:22
Alignment explanation
Indices: 13361475--13361541 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
13361465 ATGTGAAATT
*
13361475 TGTCCCGAAGGACCACTGTATA
1 TGTCCCGAAGGACCAATGTATA
13361497 TGTCCCGAAGGACCAATGTATA
1 TGTCCCGAAGGACCAATGTATA
*
13361519 TGTCCCGAAGGACCATTGTATA
1 TGTCCCGAAGGACCAATGTATA
13361541 T
1 T
13361542 ATGTTCCGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (22 bp):
TGTCCCGAAGGACCAATGTATA
Found at i:13365412 original size:22 final size:22
Alignment explanation
Indices: 13365387--13365454 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
13365377 GGCATGTGAA
*
13365387 ATATTTCCCGAAAGACCACTGT
1 ATATGTCCCGAAAGACCACTGT
*
13365409 ATATGTCCCGAATGACCACTGT
1 ATATGTCCCGAAAGACCACTGT
*
13365431 ATATGTCCCGAAGGACCACTGT
1 ATATGTCCCGAAAGACCACTGT
13365453 AT
1 AT
13365455 TTATGTTCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (22 bp):
ATATGTCCCGAAAGACCACTGT
Found at i:13370114 original size:18 final size:18
Alignment explanation
Indices: 13370091--13370137 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
13370081 GTATAAATAC
*
13370091 TAATAATAATTAATTATA
1 TAATAATAATTAAATATA
13370109 TAATAATAA-TAAATATA
1 TAATAATAATTAAATATA
13370126 TAA-AAT-ATTAAA
1 TAATAATAATTAAA
13370138 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 1 0.04
16 7 0.26
17 10 0.37
18 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATAATAATTAAATATA
Found at i:13370117 original size:21 final size:21
Alignment explanation
Indices: 13370082--13370145 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 21
13370072 AATTCTAAGG
13370082 TATAAATACTAATAATAATTAAT
1 TATAAA-A-TAATAATAATTAAT
* *
13370105 TATATAATAATAATAAAT-A-
1 TATAAAATAATAATAATTAAT
*
13370124 TATAAAATATTAA-AATTAAT
1 TATAAAATAATAATAATTAAT
13370144 TA
1 TA
13370146 ATCCTAATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.09
19 12 0.35
20 3 0.09
21 10 0.29
22 1 0.03
23 5 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAAATAATAATAATTAAT
Found at i:13370209 original size:2 final size:2
Alignment explanation
Indices: 13370202--13370249 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
13370192 TTATCTTAAG
13370202 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
*
13370244 AC AT AT
1 AT AT AT
13370250 GGACTAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13371306 original size:14 final size:17
Alignment explanation
Indices: 13371277--13371323 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
13371267 GCCTTTGGGC
* *
13371277 TATATAAATAATAATAT
1 TATATATATAATATTAT
13371294 T-TATAATATAATATTAT
1 TATAT-ATATAATATTAT
13371311 TATATATATAATA
1 TATATATATAATA
13371324 ACGTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATAATATTAT
Found at i:13371333 original size:34 final size:33
Alignment explanation
Indices: 13371277--13371340 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
13371267 GCCTTTGGGC
* *
13371277 TATATAAATAATAATATTTATAATATAATATTAT
1 TATATAAATAATAACATATATAATA-AATATTAT
* *
13371311 TATATATATAATAACGTATATAATAAATAT
1 TATATAAATAATAACATATATAATAAATAT
13371341 CACTCGGACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 5 0.19
34 21 0.81
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (33 bp):
TATATAAATAATAACATATATAATAAATATTAT
Found at i:13379344 original size:30 final size:30
Alignment explanation
Indices: 13379308--13379368 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
13379298 TTAACGTTTG
*
13379308 ACTCGAATTGACTGTGACACAAATTACTCA
1 ACTCGAATTGACTCTGACACAAATTACTCA
* * *
13379338 ACTCGAATTGATTCTGGCACAAATTAGTCA
1 ACTCGAATTGACTCTGACACAAATTACTCA
13379368 A
1 A
13379369 GAGATAACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (30 bp):
ACTCGAATTGACTCTGACACAAATTACTCA
Found at i:13380825 original size:86 final size:87
Alignment explanation
Indices: 13380680--13380852 Score: 285
Period size: 86 Copynumber: 2.0 Consensus size: 87
13380670 ATGAAATTAT
*
13380680 GTTAGTAGATCACAACATTAGATTCATGCTATGGCATATGAAAATACATATAATAAATC-AAAAA
1 GTTAGTAGATCACAACATTAGATTCATGATATGGCATATGAAAATACATATAATAAATCAAAAAA
*
13380744 ACTCTATCGTTATTACATTTAC
66 ACTCTATCGTAATTACATTTAC
* * * *
13380766 GTTAGTTGATCACAACATTAGATTCATGATATGGTATGTGAAGATACATATAATAAATCAAAAAA
1 GTTAGTAGATCACAACATTAGATTCATGATATGGCATATGAAAATACATATAATAAATCAAAAAA
13380831 ACTCTATCGTAATTACATTTAC
66 ACTCTATCGTAATTACATTTAC
13380853 ATATGTCGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 54 0.68
87 26 0.32
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (87 bp):
GTTAGTAGATCACAACATTAGATTCATGATATGGCATATGAAAATACATATAATAAATCAAAAAA
ACTCTATCGTAATTACATTTAC
Found at i:13385346 original size:18 final size:18
Alignment explanation
Indices: 13385323--13385359 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13385313 CATTTAGTGA
13385323 CACACCTAGGGTGATGAT
1 CACACCTAGGGTGATGAT
13385341 CACACCTAGGGTGATGAT
1 CACACCTAGGGTGATGAT
13385359 C
1 C
13385360 GTTGTGACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (18 bp):
CACACCTAGGGTGATGAT
Found at i:13386008 original size:140 final size:141
Alignment explanation
Indices: 13385824--13386091 Score: 366
Period size: 140 Copynumber: 1.9 Consensus size: 141
13385814 AACATAAAAG
* * *
13385824 ATTAAACCTAAAAATGAAGGCTCTAATATTAACCATAATCAATTTTTAATC-AATTATTGAATCT
1 ATTAAAACTAAAAATGAAGGCTATAATATTAACCATAATCAA-TTTTAACCAAATTATTGAAT-T
* * * * *
13385888 -AATAGTCAAAATGAAACCTCGAGCGTAAAAGCGAGGGCTAAATCAATAATTTTCCTAAATTAAA
64 GAATAGTCAAAATGAAACCTCGAGCATAAAAGCGAGGACCAAATCAAAAATTTTCCCAAATTAAA
13385952 GGATTAAAGTGAA
129 GGATTAAAGTGAA
13385965 ATTAAAACT-AAAATGAAGGCTATAATTATTAACC-TAA-CTAATTTTAACCAAATTATTGAATT
1 ATTAAAACTAAAAATGAAGGCTATAA-TATTAACCATAATC-AATTTTAACCAAATTATTGAATT
* * *
13386027 GAATAGTCAAAATGGAACCTCGAGCATAAAATCGAGGACCAAATTAAAAATTTTCCCAAATTAAA
64 GAATAGTCAAAATGAAACCTCGAGCATAAAAGCGAGGACCAAATCAAAAATTTTCCCAAATTAAA
13386092 AGACTAAATC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
139 9 0.08
140 87 0.78
141 16 0.14
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (141 bp):
ATTAAAACTAAAAATGAAGGCTATAATATTAACCATAATCAATTTTAACCAAATTATTGAATTGA
ATAGTCAAAATGAAACCTCGAGCATAAAAGCGAGGACCAAATCAAAAATTTTCCCAAATTAAAGG
ATTAAAGTGAA
Found at i:13386729 original size:14 final size:14
Alignment explanation
Indices: 13386710--13386750 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
13386700 AAAATAGACT
13386710 AAAATTTAATAAAA
1 AAAATTTAATAAAA
* *
13386724 AAAATTAAATAAAT
1 AAAATTTAATAAAA
13386738 AAAA--TAATAAAA
1 AAAATTTAATAAAA
13386750 A
1 A
13386751 TTGTGACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.30
14 16 0.70
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATTTAATAAAA
Found at i:13386732 original size:20 final size:20
Alignment explanation
Indices: 13386692--13386732 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13386682 TAAGAACAAT
* *
13386692 AATTTAATAAAATAGACTAA
1 AATTTAATAAAAAAAACTAA
*
13386712 AATTTAATAAAAAAAATTAA
1 AATTTAATAAAAAAAACTAA
13386732 A
1 A
13386733 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AATTTAATAAAAAAAACTAA
Found at i:13388315 original size:140 final size:140
Alignment explanation
Indices: 13387909--13388325 Score: 466
Period size: 140 Copynumber: 3.0 Consensus size: 140
13387899 GTTTCTTTAG
* * * *
13387909 ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCACTTTTATGCTAGAGGTTCCATTT
1 ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCGCTTTTATGCTCGAGGTTTCATTT
* * * * **
13387974 TGAGTATTCGATTTAATAATTTGGTT-AAAATTGATTA-GGTTGATAATTAGAGCCCCCATTTTA
66 TGACTATTCAATTCAATAA-TTGGTTAAAAATTGATTAGGGTTAAT-ATTAGAGCCTTCATTTTA
*
13388037 GTTTTAAGTTCA
129 GTTTTAATTTCA
* * * * * *
13388049 CTTTAGTCATTTAATTTAGGCA-ATTTTTTTATTTGGTCCACGCTTTTATGCTCGA-GATTCTAT
1 ATTTAGTCCTTTAATTTAGG-AGAATTTTTAATTTGGTCCTCGCTTTTATGCTCGAGGTTTC-AT
* * * *
13388112 TTTGACTATT-AGATTCAATAATTGGTTAAAAACTAATTAGGGTTAATATTAAAGCCTTTATTTT
64 TTTGACTATTCA-ATTCAATAATTGGTTAAAAATTGATTAGGGTTAATATTAGAGCCTTCATTTT
13388176 AGTTTTAATTTCA
128 AGTTTTAATTTCA
* ** * * **
13388189 ATTTAGTCCTTTAATTTAGGAGAATTCTCGATTTAGCCCTCGCTTTTATGCTCGAGGTTTCAAAT
1 ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCGCTTTTATGCTCGAGGTTTCATTT
* *
13388254 TGACTATTCAATTCAATAATTGATTAAAAATTGATTAGGGTTAATATTAGAGCATTCATTTTTAG
66 TGACTATTCAATTCAATAATTGGTTAAAAATTGATTAGGGTTAATATTAGAGCCTTCA-TTTTAG
*
13388319 ATTTAAT
130 TTTTAAT
13388326 CTTCTAGGTT
Statistics
Matches: 228, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
139 10 0.04
140 194 0.85
141 24 0.11
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.45
Consensus pattern (140 bp):
ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCCTCGCTTTTATGCTCGAGGTTTCATTT
TGACTATTCAATTCAATAATTGGTTAAAAATTGATTAGGGTTAATATTAGAGCCTTCATTTTAGT
TTTAATTTCA
Found at i:13390807 original size:21 final size:21
Alignment explanation
Indices: 13390766--13390817 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
13390756 GAAAATTTTC
13390766 AATTATAAGTATTCAAGGTTGA
1 AATT-TAAGTATTCAAGGTTGA
*
13390788 AATTTAA-TATTTAAGTGTTGA
1 AATTTAAGTATTCAAG-GTTGA
*
13390809 ATTTTAAGT
1 AATTTAAGT
13390818 TGGATTGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 7 0.27
21 14 0.54
22 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
AATTTAAGTATTCAAGGTTGA
Found at i:13392152 original size:24 final size:24
Alignment explanation
Indices: 13392120--13392326 Score: 290
Period size: 24 Copynumber: 8.6 Consensus size: 24
13392110 GAGCATTATT
13392120 TGTGCAATTCTACGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
* *
13392144 TGTGTAATTCTACGAGGAACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
* * *
13392168 TGTGTAATTCTATGAGGAACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
*
13392192 TGTGTAATTCTACGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
13392216 TGTGCAATTCTACGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
* *
13392240 TATGCAATTCTATGAGGCACTTTG
1 TGTGCAATTCTACGAGGCACTTTG
13392264 TGTGCAATTCTACGAGGCAC-TTG
1 TGTGCAATTCTACGAGGCACTTTG
* *
13392287 TGTGCATATTCTACAAGGCATTTTG
1 TGTGCA-ATTCTACGAGGCACTTTG
*
13392312 TATGCATATTCTACG
1 TGTGCA-ATTCTACG
13392327 TTGCATATTT
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
23 9 0.05
24 142 0.85
25 16 0.10
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (24 bp):
TGTGCAATTCTACGAGGCACTTTG
Found at i:13392734 original size:18 final size:17
Alignment explanation
Indices: 13392709--13392760 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
13392699 ACTGCTATTA
13392709 ATTTTATTTATATTTAT
1 ATTTTATTTATATTTAT
*
13392726 ATTTATATTTTTA-TTACT
1 ATTT-TATTTATATTTA-T
13392744 ATTATTATTT-TATTTAT
1 ATT-TTATTTATATTTAT
13392761 GTTATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 10 0.33
18 19 0.63
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATTTATATTTAT
Found at i:13393674 original size:17 final size:17
Alignment explanation
Indices: 13393654--13393687 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13393644 TAGTAATGGA
13393654 AAACTCTAAAGAATGTC
1 AAACTCTAAAGAATGTC
13393671 AAACTCTAAAGAATGTC
1 AAACTCTAAAGAATGTC
13393688 TCTGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAACTCTAAAGAATGTC
Found at i:13402278 original size:44 final size:43
Alignment explanation
Indices: 13402214--13402311 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 43
13402204 TAATTTATCC
* *
13402214 TTCATTGGCTTGGAAGTCTTAATGCAAACAAAGCTTAAAACACCT
1 TTCATT-GCTTGGAACTCTTAACGCAAACAAAGCTTAAAAC-CCT
*
13402259 TTCATTGCTTGGAACTCTTAACGCAAGCAAAGCTTAAAACCCT
1 TTCATTGCTTGGAACTCTTAACGCAAACAAAGCTTAAAACCCT
13402302 TTCATTGCTT
1 TTCATTGCTT
13402312 CATGATTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 13 0.26
44 31 0.62
45 6 0.12
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (43 bp):
TTCATTGCTTGGAACTCTTAACGCAAACAAAGCTTAAAACCCT
Found at i:13408135 original size:57 final size:58
Alignment explanation
Indices: 13408074--13408193 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 58
13408064 TAAAGTACAC
* *
13408074 AAATGATTCCTTAACTATAGG-A-TGTTTTTTTGAATCTCTTGAATATTAAAAGTTATA
1 AAATGATTCCCT-ACTATAGGAAGTGTTTTGTTGAATCTCTTGAATATTAAAAGTTATA
* * *
13408131 AAATGGTTCCCTATTATAGGAAGTTGTTTTGTTGAATCTCTTGACTATTAAAAGTTATA
1 AAATGATTCCCTACTATAGGAAG-TGTTTTGTTGAATCTCTTGAATATTAAAAGTTATA
13408190 AAAT
1 AAAT
13408194 CTAACCCCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 7 0.13
57 11 0.20
59 37 0.67
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (58 bp):
AAATGATTCCCTACTATAGGAAGTGTTTTGTTGAATCTCTTGAATATTAAAAGTTATA
Found at i:13408396 original size:61 final size:61
Alignment explanation
Indices: 13408316--13408430 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
13408306 GTCGGTGACT
* *
13408316 ATTTTATAATTTTTAATAGTCAATGGACTCAAAAAAGCAACTCCCTATAGTCGGAAGATCA
1 ATTTTATAACTTTTAATAGTCAAGGGACTCAAAAAAGCAACTCCCTATAGTCGGAAGATCA
* * *
13408377 ATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGCAACTCTCTATAGTCGG
1 ATTTTATAACTTTTAATAGTCAAGGGACTCAAAAAAGCAACTCCCTATAGTCGG
13408431 GAGACCATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (61 bp):
ATTTTATAACTTTTAATAGTCAAGGGACTCAAAAAAGCAACTCCCTATAGTCGGAAGATCA
Found at i:13409944 original size:13 final size:13
Alignment explanation
Indices: 13409907--13409946 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
13409897 TTGATATTGA
13409907 AAAATAAATA-TT
1 AAAATAAATATTT
*
13409919 AAAATAATTTATTT
1 AAAATAA-ATATTT
13409933 AAAATAAATATTT
1 AAAATAAATATTT
13409946 A
1 A
13409947 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:13410825 original size:14 final size:14
Alignment explanation
Indices: 13410801--13410840 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
13410791 AGTAAGTTTC
13410801 TCTTCTTCTTTCTTT
1 TCTT-TTCTTTCTTT
13410816 TCTTTTCTTTCTTT
1 TCTTTTCTTTCTTT
13410830 TCTGTTTCTTT
1 TCT-TTTCTTT
13410841 GCTGAGTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.75
Consensus pattern (14 bp):
TCTTTTCTTTCTTT
Found at i:13411128 original size:16 final size:16
Alignment explanation
Indices: 13411103--13411141 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
13411093 GGACGTGGCA
13411103 GCGG-TGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
13411118 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
13411134 GCGGCTGG
1 GCGGCTGG
13411142 CATGGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.15, C:0.18, G:0.59, T:0.08
Consensus pattern (16 bp):
GCGGCTGGAGGCAGAG
Found at i:13411288 original size:3 final size:3
Alignment explanation
Indices: 13411280--13411346 Score: 107
Period size: 3 Copynumber: 22.0 Consensus size: 3
13411270 TTTAATATAT
* *
13411280 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATGA ATA ATA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
13411326 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
13411347 TGGGTAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13411791 original size:113 final size:112
Alignment explanation
Indices: 13411664--13412554 Score: 1167
Period size: 113 Copynumber: 7.9 Consensus size: 112
13411654 GATAGAATTA
* *
13411664 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * *
13411729 GAACTCTACT-TGGCAATGTTGATCCATCCAA-TGATGAATTC-A-AAAAGA
63 GAACT-TACTCTGGCAAAGTTAATCCAT-CAATTGATGAATTCAACAAAAGG
*
13411777 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * * *
13411842 CTCTAC-CTGGCAACTTTGATCCATCAAATGATGAATTCAAACAAAAAG
66 CT-TACTCTGGCAAAGTTAATCCATCAATTGATGAATTC-AACAAAAGG
*
13411890 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * *
13411955 GAACTCTAC-CTAGCAACGTTGATCCATCAAATGATGAATTCAAACAAAAGG
63 GAACT-TACTCTGGCAAAGTTAATCCATCAATTGATGAATTC-AACAAAAGG
*
13412006 TTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * * *
13412071 CTTTTTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGG
66 CTTACTCTGGCAAAGTTAATCCATCAA-TTGATGAATTC-AACAAAAGG
13412120 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** *
13412185 CTT-CTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGG
66 CTTACTCTGGCAAAGTTAATCCATCAATTGATGAATTCA-ACAAAAGG
13412232 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** * * *
13412297 CTTTTTCTGGAAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGG
66 CTTACTCTGGCAAAGTTAATCCATCAA-TTGATGAATTC-AACAAAAGG
13412346 TTGAACAAATTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
** *
13412408 CTT-CTCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGG
66 CTTACTCTGGCAAAGTTAATCCATCAATTGATGAATTCA-ACAAAAGG
*
13412455 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTAT
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTAT
* * *
13412520 GAACCTT-CTCTGGAAAAGATAATCCATCAAATGAT
63 GAA-CTTACTCTGGCAAAGTTAATCCATCAATTGAT
13412555 AGATTTGAAT
Statistics
Matches: 714, Mismatches: 42, Indels: 41
0.90 0.05 0.05
Matches are distributed among these distances:
108 1 0.00
109 45 0.06
110 69 0.10
111 41 0.06
112 100 0.14
113 170 0.24
114 129 0.18
115 23 0.03
116 136 0.19
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (112 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTACTCTGGCAAAGTTAATCCATCAATTGATGAATTCAACAAAAGG
Found at i:13413510 original size:83 final size:83
Alignment explanation
Indices: 13413283--13413920 Score: 1090
Period size: 83 Copynumber: 7.7 Consensus size: 83
13413273 GTAGTTCCTA
13413283 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
*
13413348 ATTCAATGATTGGTT-T-A
65 ATTCAATGATTGGTTCTGT
13413365 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
13413430 ATTCAATGATTGGTTCTGT
65 ATTCAATGATTGGTTCTGT
13413449 CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
1 CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
*
13413514 TTCAATGATTGGTT-T-A
66 TTCAATGATTGGTTCTGT
* *
13413530 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTT-T-C
1 CCAAA-CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
* *
13413593 ATTTAATGTTTGGTTCTGT
65 ATTCAATGATTGGTTCTGT
* *
13413612 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAA
1 CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
13413677 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
*
13413695 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
1 CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
13413760 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
*
13413778 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
1 CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
13413843 TTCAATGATTGGTTCTGT
66 TTCAATGATTGGTTCTGT
* * *
13413861 CCAACCAAATCAGATAACTCAAAGAACACTTCCATAAGATGCTATTGGCAAATTCATCTT
1 CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
13413921 TCATTTAATG
Statistics
Matches: 533, Mismatches: 16, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
80 13 0.02
81 60 0.11
82 140 0.26
83 315 0.59
84 5 0.01
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
CCAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAA
TTCAATGATTGGTTCTGT
Found at i:13413716 original size:246 final size:249
Alignment explanation
Indices: 13413280--13413920 Score: 1132
Period size: 246 Copynumber: 2.6 Consensus size: 249
13413270 TCTGTAGTTC
13413280 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
1 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
*
13413345 TAAATTCAATGATTGGTT-T-ACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
66 TAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
13413408 TATTGGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAAACAGATCAGATAACTCAAAG
130 TATTGGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAAACAGATCAGATAACTCAAAG
13413473 AACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGGTT
195 AACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGGTT
*
13413528 -TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGTAAATTCATCTT-
1 CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
* * *
13413591 T-CATTTAATGTTTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
66 TAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
* *
13413655 ATTGGCAAATTTATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGA
131 ATTGGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAAACAGATCAGATAACTCAAAGA
13413720 ACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGGTT
196 ACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGGTT
*
13413774 CTGTCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
1 CT-ACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
* *
13413838 CTAAATTCAATGATTGGTTCTGTCCAACCAAATCAGATAACTCAAAGAACACTTCCATAAGATGC
65 CTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC
13413903 TATTGGCAAATTCATCTT
130 TATTGGCAAATTCATCTT
13413921 TCATTTAATG
Statistics
Matches: 372, Mismatches: 15, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
245 13 0.03
246 160 0.43
247 122 0.33
248 3 0.01
249 74 0.20
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (249 bp):
CTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
TAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
ATTGGCAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAAACAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATTGGTT
Found at i:13415065 original size:1 final size:1
Alignment explanation
Indices: 13415061--13415140 Score: 61
Period size: 1 Copynumber: 80.0 Consensus size: 1
13415051 TGACCCCCCC
* * * * * * * * * *
13415061 TTTTTCTTTTTTCTTTTTTCTTTTTTTTCTCTTTTTTTTTCTTTCTTTTCTTTTTCTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
13415126 TTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTT
13415141 CAAGCATAAT
Statistics
Matches: 57, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:13415080 original size:14 final size:13
Alignment explanation
Indices: 13415060--13415140 Score: 92
Period size: 14 Copynumber: 5.8 Consensus size: 13
13415050 TTGACCCCCC
*
13415060 CTTTTTCTTTTTT
1 CTTTTTTTTTTTT
13415073 CTTTTTTCTTTTTT
1 CTTTTTT-TTTTTT
13415087 -TTCTCTTTTTTTTT
1 CTT-T-TTTTTTTTT
13415101 CTTTCTTTTCTTTTT
1 CTTT-TTTT-TTTTT
13415116 CTTTTTTTTCTTTT
1 CTTTTTTTT-TTTT
13415130 CTTTTTTTTTT
1 CTTTTTTTTTT
13415141 CAAGCATAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 12
0.82 0.01 0.16
Matches are distributed among these distances:
13 11 0.18
14 36 0.59
15 14 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTTTTT
Found at i:13415086 original size:9 final size:9
Alignment explanation
Indices: 13415067--13415138 Score: 74
Period size: 9 Copynumber: 7.7 Consensus size: 9
13415057 CCCCTTTTTC
13415067 TTTTTTCTT
1 TTTTTTCTT
13415076 TTTTCTT-TT
1 TTTT-TTCTT
*
13415085 TTTTCTCTTT
1 TTTTTTC-TT
13415095 TTTTTTCTT
1 TTTTTTCTT
*
13415104 TCTTTTCTT
1 TTTTTTCTT
*
13415113 TTTCTTTTTT
1 TTT-TTTCTT
13415123 TTCTTTTCTT
1 TT-TTTTCTT
13415133 TTTTTT
1 TTTTTT
13415139 TTCAAGCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 1 0.02
9 26 0.50
10 24 0.46
11 1 0.02
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:13415122 original size:36 final size:37
Alignment explanation
Indices: 13415061--13415141 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 37
13415051 TGACCCCCCC
13415061 TTTTTC-TT-TTTTCTTTTTTCTTTTTTTTCTCTTT-T
1 TTTTTCTTTCTTTTCTTTTTTCTTTTTTTTCT-TTTCT
13415096 TTTTTCTTTCTTTTC-TTTTTCTTTTTTTTCTTTTCT
1 TTTTTCTTTCTTTTCTTTTTTCTTTTTTTTCTTTTCT
*
13415132 TTTTTTTTTC
1 TTTTTCTTTC
13415142 AAGCATAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
35 9 0.21
36 28 0.67
37 5 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (37 bp):
TTTTTCTTTCTTTTCTTTTTTCTTTTTTTTCTTTTCT
Found at i:13415140 original size:25 final size:24
Alignment explanation
Indices: 13415061--13415141 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 24
13415051 TGACCCCCCC
13415061 TTTTTCTTTTTTCTTTTTTCTTTTT
1 TTTTTCTTTTTT-TTTTTTCTTTTT
* *
13415086 TTTCTCTTTTTTTTTCTTTCTTTTC
1 TTTTTCTTTTTTTTT-TTTCTTTTT
13415111 TTTTTCTTTTTTTTCTTTTCTTTTT
1 TTTTTCTTTTTTTT-TTTTCTTTTT
13415136 TTTTTC
1 TTTTTC
13415142 AAGCATAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.06
25 46 0.92
26 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTTCTTTTTTTTTTTTCTTTTT
Found at i:13425774 original size:15 final size:13
Alignment explanation
Indices: 13425742--13425779 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
13425732 ACCTCTGACA
13425742 AAAT-AAATAATG
1 AAATAAAATAATG
13425754 AAATAAAATAATTG
1 AAATAAAATAA-TG
13425768 CAAATAAAATAA
1 -AAATAAAATAA
13425780 AACATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 2 0.09
15 11 0.48
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (13 bp):
AAATAAAATAATG
Found at i:13426521 original size:13 final size:13
Alignment explanation
Indices: 13426484--13426523 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
13426474 TTGATATTGA
13426484 AAAATAAATA-TT
1 AAAATAAATATTT
*
13426496 AAAATAATTTATTT
1 AAAATAA-ATATTT
13426510 AAAATAAATATTT
1 AAAATAAATATTT
13426523 A
1 A
13426524 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:13427403 original size:15 final size:14
Alignment explanation
Indices: 13427379--13427420 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
13427369 TGACAGTAAG
*
13427379 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
13427394 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
13427408 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
13427421 GCTGAGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:13427411 original size:20 final size:20
Alignment explanation
Indices: 13427379--13427420 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13427369 TGACAGTAAG
*
13427379 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
13427399 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
13427419 TT
1 TT
13427421 GCTGAGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:13427709 original size:16 final size:16
Alignment explanation
Indices: 13427684--13427722 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
13427674 GGACGTGGCA
13427684 GCGG-TGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
13427699 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
13427715 GCGGCTGG
1 GCGGCTGG
13427723 CATGGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.15, C:0.18, G:0.59, T:0.08
Consensus pattern (16 bp):
GCGGCTGGAGGCAGAG
Found at i:13427884 original size:3 final size:3
Alignment explanation
Indices: 13427876--13427973 Score: 169
Period size: 3 Copynumber: 32.7 Consensus size: 3
13427866 AATATATATT
* *
13427876 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13427924 TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13427972 TA
1 TA
13427974 TGGGTAAAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13429377 original size:65 final size:64
Alignment explanation
Indices: 13429257--13429404 Score: 167
Period size: 65 Copynumber: 2.3 Consensus size: 64
13429247 TTTTGAATGC
* * *
13429257 ATTTTATGCACCGATGCACAACCATGCATCGATGCACTCAGGATTTTATTGAAACATCGAATTG
1 ATTTTATGCACCAATGCACAACCATGCATCGATGCACTCACGATTTTATTAAAACATCGAATTG
* * *
13429321 ATTTTGTGCACCAATGCACAAGTCATGCATCGATGCAC-CCCGACTATTT-TTAAAACATCGAA-
1 ATTTTATGCACCAATGCACAA-CCATGCATCGATGCACTCACGA-T-TTTATTAAAACATCGAAT
13429383 TG
63 TG
* *
13429385 TATTTTATGCATCGATGCAC
1 -ATTTTATGCACCAATGCAC
13429405 CCCTAGTGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 44 0.62
66 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (64 bp):
ATTTTATGCACCAATGCACAACCATGCATCGATGCACTCACGATTTTATTAAAACATCGAATTG
Found at i:13431501 original size:18 final size:18
Alignment explanation
Indices: 13431468--13431506 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13431458 CTTTTAATGT
**
13431468 AATTGATATCTCTTTTAC
1 AATTGATATCGATTTTAC
*
13431486 AATTGATATCGATTTTTC
1 AATTGATATCGATTTTAC
13431504 AAT
1 AAT
13431507 AACTTTGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.49
Consensus pattern (18 bp):
AATTGATATCGATTTTAC
Found at i:13436869 original size:2 final size:2
Alignment explanation
Indices: 13436862--13436942 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
13436852 TTGAACGTAT
13436862 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
13436904 TA TA TA TA TA 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 TA TA TA TA TA T
13436943 TTGGTTTGGT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13437653 original size:64 final size:65
Alignment explanation
Indices: 13437577--13437732 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 65
13437567 CACACCCATT
* *
13437577 TCGAATGCATTTTATGCACCGATGCACAA-CCATGCATCGATGCACTCAGGA-T-TTTATTGAAA
1 TCGAATGCATTTTATGCACCGATGCACAAGCCATGCATCGATGCAC-CACGACTATTT-TTAAAA
13437639 CA
64 CA
* * *
13437641 TCGAATTG-ATTTTGTGCACCGATGCACAAGTCATGCATCGATGCACCCCGACTATTTTTAAAAC
1 TCGAA-TGCATTTTATGCACCGATGCACAAGCCATGCATCGATGCACCACGACTATTTTTAAAAC
13437705 A
65 A
* *
13437706 TCGAATGTATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATGCACCGATGCAC
13437733 CCTTAGTGTA
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
64 30 0.38
65 47 0.59
66 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTTATGCACCGATGCACAAGCCATGCATCGATGCACCACGACTATTTTTAAAACA
Found at i:13438952 original size:5 final size:6
Alignment explanation
Indices: 13438937--13438961 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13438927 TAATGTGTAA
13438937 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
13438962 TTATATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:13439021 original size:2 final size:2
Alignment explanation
Indices: 13439014--13439101 Score: 158
Period size: 2 Copynumber: 44.0 Consensus size: 2
13439004 ATGCATTTAG
13439014 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
* *
13439056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13439098 TA TA
1 TA TA
13439102 CTAAAATGCA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13440818 original size:3 final size:3
Alignment explanation
Indices: 13440810--13440880 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
13440800 CCTAAAAACA
13440810 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13440858 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
13440881 CCCAAACAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13441512 original size:242 final size:238
Alignment explanation
Indices: 13441088--13441811 Score: 974
Period size: 241 Copynumber: 3.0 Consensus size: 238
13441078 TGTAAATAGT
* *
13441088 TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTAACTTTTCAAAAATTTCAATTTTTCAGAAAAG
1 TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAA-ATCAATTTTT-AGAAAAG
* * *
13441153 ATTTAAATGAGTAACTTTGGAAATCATTTTCTCATCTTTTGAAAATCATGTGAAAACATCTTACC
64 ATTTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTACC
* * * *
13441218 CGAAGGTCTTATGGG-TGGCCCGAAGGACTTATGATCTTGCTCAAAAGACTTATAGATGACTCAA
129 TGAAGGTCTTA-GGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAA
* ** * *
13441282 AGGTTTTAAGCATCAAACTCGAAAGACTTACTAATGGCTTGAAGAAC
193 A-GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTTAAAGAAC
* *
13441329 TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAGAAACAAATTTTTAGAAAAA
1 TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAA-AATC-AATTTTTAGAAAAG
* ** * *
13441394 ATTTAAATGAGAAACTCTGGAAATTGTTTTCTCATTTTTTTGAAAATCACGTGAAAACATCCTGC
64 ATTTAAATGAGAAACTTTGGAAATCATTTTCTCA-TTTTTTGAAAATCATGTGAAAACATCCTAC
*
13441459 CTGAAGGTCTTGGGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAA
128 CTGAAGGTCTTAGGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC-A
* * *
13441524 AAGATTTAATCATCATGCTCGAAAGACTTACTGATGGC-CAAAGGAC
192 AAGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTTAAAGAAC
* *
13441570 TTACTAAGTAAGAAACTTTGGAAATCATTTTCATACTTTTC--AAAATCAA-TTTTAGAAAAGAT
1 TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATCAATTTTTAGAAAAGAT
* * *
13441632 TTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTCGGAAATAATGTGAAAACATCCTACCTG
66 TTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTACCTG
* * * *
13441697 AAGGTCTTATGGATGGTCCAAATGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAAG
131 AAGGTCTTAGGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCC-AAAG
* * * *
13441762 ATTTAAGTATCTTGCTCGAAAGACTTATTGATGGCTTTAAGGAA-
195 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGC-TTAAAGAAC
13441806 TTACTA
1 TTACTA
13441812 TCAAGAAACC
Statistics
Matches: 426, Mismatches: 50, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
235 118 0.28
236 47 0.11
237 6 0.01
238 3 0.01
239 2 0.00
241 128 0.30
242 119 0.28
243 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (238 bp):
TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATCAATTTTTAGAAAAGAT
TTAAATGAGAAACTTTGGAAATCATTTTCTCATTTTTTGAAAATCATGTGAAAACATCCTACCTG
AAGGTCTTAGGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCAAAGA
TTTAAGCATCATGCTCGAAAGACTTACTGATGGCTTAAAGAAC
Found at i:13444630 original size:7 final size:7
Alignment explanation
Indices: 13444613--13444655 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
13444603 ATGCAAATAC
13444613 AAATG-A
1 AAATGCA
13444619 AAATGCA
1 AAATGCA
13444626 AAATGCA
1 AAATGCA
13444633 AAATGCA
1 AAATGCA
*
13444640 AAATAC-
1 AAATGCA
13444646 AAATGCA
1 AAATGCA
13444653 AAA
1 AAA
13444656 GATGTTAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.63, C:0.12, G:0.12, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:13444637 original size:14 final size:14
Alignment explanation
Indices: 13444613--13444655 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 14
13444603 ATGCAAATAC
13444613 AAATG-AAAATGCA
1 AAATGCAAAATGCA
13444626 AAATGCAAAATGCA
1 AAATGCAAAATGCA
*
13444640 AAATAC-AAATGCA
1 AAATGCAAAATGCA
13444653 AAA
1 AAA
13444656 GATGTTAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.63, C:0.12, G:0.12, T:0.14
Consensus pattern (14 bp):
AAATGCAAAATGCA
Found at i:13446620 original size:22 final size:22
Alignment explanation
Indices: 13446522--13446628 Score: 119
Period size: 23 Copynumber: 4.8 Consensus size: 22
13446512 GAGTCGAGGG
*
13446522 TTCTACGAGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGAC-A
* *
13446545 TTCTACGTGGTCATTTGGGACA
1 TTCTACGTGGTCCTTCGGGACA
13446567 TTTCTACGTGGTCCTTCGGGACA
1 -TTCTACGTGGTCCTTCGGGACA
* *
13446590 -TATATGTGGTCCTTCGGGACA
1 TTCTACGTGGTCCTTCGGGACA
*
13446611 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
13446629 TGCATTTTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
21 20 0.27
22 15 0.21
23 38 0.52
ACGTcount: A:0.17, C:0.22, G:0.27, T:0.34
Consensus pattern (22 bp):
TTCTACGTGGTCCTTCGGGACA
Found at i:13453400 original size:23 final size:23
Alignment explanation
Indices: 13453374--13453456 Score: 105
Period size: 23 Copynumber: 3.6 Consensus size: 23
13453364 GGTTCTACAC
*
13453374 GGTCATTTGGGATAATTCTACGT
1 GGTCCTTTGGGATAATTCTACGT
* * *
13453397 GGTCTTTTGGGACATTTCTACGT
1 GGTCCTTTGGGATAATTCTACGT
*
13453420 GGTCCTTTGGGA-AATTTCTATGT
1 GGTCCTTTGGGATAA-TTCTACGT
13453443 GGTCCTTTGGGATA
1 GGTCCTTTGGGATA
13453457 TATATGTGGT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 1 0.02
23 50 0.96
24 1 0.02
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (23 bp):
GGTCCTTTGGGATAATTCTACGT
Found at i:13453464 original size:21 final size:22
Alignment explanation
Indices: 13453395--13453467 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 22
13453385 ATAATTCTAC
* * * *
13453395 GTGGTCTTTTGGGACATTTCTAC
1 GTGGTCCTTTGGGA-ATATATAT
* *
13453418 GTGGTCCTTTGGGAAATTTCTAT
1 GTGGTCCTTTGGG-AATATATAT
13453441 GTGGTCCTTTGGG-ATATATAT
1 GTGGTCCTTTGGGAATATATAT
13453462 GTGGTC
1 GTGGTC
13453468 ATTCGGGACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.27
23 32 0.71
24 1 0.02
ACGTcount: A:0.15, C:0.14, G:0.29, T:0.42
Consensus pattern (22 bp):
GTGGTCCTTTGGGAATATATAT
Found at i:13460724 original size:12 final size:12
Alignment explanation
Indices: 13460707--13460740 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13460697 TCTTCCTCTC
13460707 TTTTTTTTTCCT
1 TTTTTTTTTCCT
13460719 TTTTTTGTTT-CT
1 TTTTTT-TTTCCT
13460731 TTTTTTTTTC
1 TTTTTTTTTC
13460741 AAACCACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCCT
Found at i:13463758 original size:29 final size:31
Alignment explanation
Indices: 13463724--13463786 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 31
13463714 TTTTTTTAAT
13463724 ATATATTTTT-TTAAAATTAATATTAGAAAGA
1 ATAT-TTTTTATTAAAATTAATATTAGAAAGA
13463755 ATATTTTTTAGCTTAAAATTAATATTAGAAAG
1 ATATTTTTTA--TTAAAATTAATATTAGAAAG
13463787 CTTTCCTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 5 0.17
31 4 0.14
33 20 0.69
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (31 bp):
ATATTTTTTATTAAAATTAATATTAGAAAGA
Found at i:13465883 original size:133 final size:133
Alignment explanation
Indices: 13465729--13465970 Score: 315
Period size: 133 Copynumber: 1.8 Consensus size: 133
13465719 TAATTGTTTG
* * * * * * *
13465729 AATATTCCATAATTGATTAAAATTAACTTGGTTAATAATTAGATCC-TCTATTTTAGGTTTAATT
1 AATATTCCATAATCGATTAAAATCAACTAGATTAATAATTAGAGCCTTC-ACTTTAGGCTTAATT
* * *
13465793 TCAAACTTACTCCTTAAATTTATGGGAATTTTTAATTTGGTCCTCGCTTTTTTCTCGAGGTTCCA
65 TCAAACTTACTCCTTAAATTTAAGAGAATTCTTAATTTGGTCCTCGCTTTTTTCTCGAGGTTCCA
13465858 TTTC
130 TTTC
* *
13465862 AATATTCCATAATCGATTAAAATCGACTAGATTAATTATTAGAGCCTTCACTTTAGGCTTAATTT
1 AATATTCCATAATCGATTAAAATCAACTAGATTAATAATTAGAGCCTTCACTTTAGGCTTAATTT
* * * * *
13465927 CATATTTAGTCCTTTAATTTAAGATAATTCTTAATTTGGTCCTC
66 CAAACTTACTCCTTAAATTTAAGAGAATTCTTAATTTGGTCCTC
13465971 ACCTATGCTC
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
133 89 0.98
134 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (133 bp):
AATATTCCATAATCGATTAAAATCAACTAGATTAATAATTAGAGCCTTCACTTTAGGCTTAATTT
CAAACTTACTCCTTAAATTTAAGAGAATTCTTAATTTGGTCCTCGCTTTTTTCTCGAGGTTCCAT
TTC
Found at i:13468008 original size:20 final size:21
Alignment explanation
Indices: 13467974--13468024 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
13467964 CATTCGCATC
** *
13467974 TTTGCATCGTTACATT-TGTA
1 TTTGCATTTTTACATTATGCA
*
13467994 TTTTCATTTTTACATTATGCA
1 TTTGCATTTTTACATTATGCA
13468015 TTTGCATTTT
1 TTTGCATTTT
13468025 GTTTGTTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.57
Consensus pattern (21 bp):
TTTGCATTTTTACATTATGCA
Found at i:13468331 original size:21 final size:21
Alignment explanation
Indices: 13468283--13468332 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
13468273 GAAAGTTTTA
*
13468283 ATCTTGAAGTTCTTTTATTTC
1 ATCTTGAAGTTCTTTTATATC
13468304 ATCTTGAAGTTCTTTTAATATC
1 ATCTTGAAGTTCTTTT-ATATC
13468326 AT-TTGAA
1 ATCTTGAA
13468333 TTAACGATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (21 bp):
ATCTTGAAGTTCTTTTATATC
Found at i:13480916 original size:62 final size:62
Alignment explanation
Indices: 13480682--13480930 Score: 216
Period size: 65 Copynumber: 3.9 Consensus size: 62
13480672 TCAAAATAAA
* * *
13480682 TTTTGTCTCACTTGAGACAGTTTTCCTT-AAGACACGAACA-TTTGATATTGTTTCCTTAAAAAA
1 TTTTGTCTCACTTGAGACAGTTTCCCTTGAA-ACAC-AA-ATTTTGAAATTGTTT-C--AAACAA
*
13480745 CAAA
60 -AAT
* *
13480749 TTTCGTCTCGCTTGAGACAGTTTCCCTTGAAACACAAATTTTGAAATTGTTTCACGAAACAAAAT
1 TTTTGTCTCACTTGAGACAGTTTCCCTTGAAACACAAATTTTGAAATTGTTT--C-AAACAAAAT
* * * ** * * * **
13480814 TTTTATCTCACTTGAGATATTTTATCTTAAAATACTAAA-TTTGAAATTATTTCATTCAAAAT
1 TTTTGTCTCACTTGAGACAGTTTCCCTTGAAACAC-AAATTTTGAAATTGTTTCAAACAAAAT
*
13480876 TTTTGTCTCACTTGAGACAAGTTCCCCTTGAAACACAAATTTTGAAATTGTTTCA
1 TTTTGTCTCACTTGAGAC-AGTTTCCCTTGAAACACAAATTTTGAAATTGTTTCA
13480931 CTCGAAACAA
Statistics
Matches: 147, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
62 26 0.18
63 26 0.18
65 41 0.28
66 22 0.15
67 30 0.20
68 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (62 bp):
TTTTGTCTCACTTGAGACAGTTTCCCTTGAAACACAAATTTTGAAATTGTTTCAAACAAAAT
Found at i:13481021 original size:102 final size:101
Alignment explanation
Indices: 13480886--13481163 Score: 331
Period size: 102 Copynumber: 2.7 Consensus size: 101
13480876 TTTTGTCTCA
* *
13480886 CTTGAGACAAGTTCCCCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAACAAAATTGATCTC
1 CTTGAGACAA-TTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATTGATCTC
* * * * *
13480951 ACTTGAGATTATTTTTTCTTAAAACCAACTTCATCTTG
65 ACTTGAGATT-GTTTTTATTAAAAACAACTTCAGCTCG
* * *
13480989 CTTGAGACAATTTCCCTTGAAACGCAAGTTTTGAAATTGTTTAACTCGAAACAAAATTGATATCA
1 CTTGAGACAATTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATTGATCTCA
* *
13481054 CTTGAGATTGTTTTTATTAAAAACAATTTCGGCTCG
66 CTTGAGATTGTTTTTATTAAAAACAACTTCAGCTCG
** * * * * * * *
13481090 CTTGAGGTAGTTTCTCTTTAACCATAAGTTTTGAAATTGTTTCACTTGAAACAAAATTTTATCTC
1 CTTGAGACAATTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAA-TTGATCTC
*
13481155 ACCTGAGAT
65 ACTTGAGAT
13481164 AACATCTTTT
Statistics
Matches: 149, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
101 66 0.44
102 73 0.49
103 10 0.07
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (101 bp):
CTTGAGACAATTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATTGATCTCA
CTTGAGATTGTTTTTATTAAAAACAACTTCAGCTCG
Found at i:13481141 original size:101 final size:102
Alignment explanation
Indices: 13480886--13481147 Score: 328
Period size: 101 Copynumber: 2.6 Consensus size: 102
13480876 TTTTGTCTCA
* * *
13480886 CTTGAGACAAGTTCCCCTTGAAACACAAATTTTGAAATTGTTTCACTCGAAACAAAATTGATCTC
1 CTTGAGACAA-TTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATTGATATC
* * * * *
13480951 ACTTGAGATTATTTTTTCTTAAAACCAACTTCATCTTG
65 ACTTGAGATTAGTTTTTATTAAAAACAACTTCAGCTCG
* *
13480989 CTTGAGACAATTTCCCTTGAAACGCAAGTTTTGAAATTGTTTAACTCGAAACAAAATTGATATCA
1 CTTGAGACAATTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATTGATATCA
* *
13481054 CTTGAGATT-GTTTTTATTAAAAACAATTTCGGCTCG
66 CTTGAGATTAGTTTTTATTAAAAACAACTTCAGCTCG
** * * * * * *
13481090 CTTGAGGTAGTTTCTCTTTAACCATAAGTTTTGAAATTGTTTCACTTGAAACAAAATT
1 CTTGAGACAATTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATT
13481148 TTATCTCACC
Statistics
Matches: 137, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
101 68 0.50
102 59 0.43
103 10 0.07
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (102 bp):
CTTGAGACAATTTCCCTTGAAACACAAGTTTTGAAATTGTTTCACTCGAAACAAAATTGATATCA
CTTGAGATTAGTTTTTATTAAAAACAACTTCAGCTCG
Found at i:13481497 original size:39 final size:38
Alignment explanation
Indices: 13481454--13481550 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
13481444 CAATGGAAGG
*
13481454 GTTCATAATGAGAAGAACTCGCCCGAAGAAGGAT-AAGAA
1 GTTCATAATGAGAAGAACTCACCCGAAG-A-GATAAAGAA
* * * * *
13481493 GTTCATAATGAGAACAATTCATCCTAAGAGATAGAAGAG
1 GTTCATAATGAGAAGAACTCACCCGAAGAGATA-AAGAA
13481532 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
13481551 TGTTCACCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 3 0.06
38 1 0.02
39 44 0.92
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (38 bp):
GTTCATAATGAGAAGAACTCACCCGAAGAGATAAAGAA
Found at i:13482045 original size:25 final size:25
Alignment explanation
Indices: 13482011--13482065 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
13482001 GACAAATCAT
13482011 TCAATTGGAAATATGGAGAAACAAA
1 TCAATTGGAAATATGGAGAAACAAA
13482036 TCAATTGGAAATATGGAGAAACAAA
1 TCAATTGGAAATATGGAGAAACAAA
13482061 TCAAT
1 TCAAT
13482066 AGAAGATTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.51, C:0.09, G:0.18, T:0.22
Consensus pattern (25 bp):
TCAATTGGAAATATGGAGAAACAAA
Found at i:13483687 original size:14 final size:13
Alignment explanation
Indices: 13483623--13483691 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 13
13483613 TTAATTTTAC
13483623 AAATATAAAATAAA
1 AAATAT-AAATAAA
* * *
13483637 ACATATACATTAAT
1 AAATATA-AATAAA
13483651 AAATATCAAGATAAA
1 AAATAT-AA-ATAAA
13483666 AAATATAAATAAA
1 AAATATAAATAAA
*
13483679 AATTCATAAATAA
1 AAAT-ATAAATAA
13483692 CATTGCGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
13 9 0.20
14 25 0.57
15 10 0.23
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (13 bp):
AAATATAAATAAA
Found at i:13488217 original size:23 final size:23
Alignment explanation
Indices: 13488170--13488219 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
13488160 AATAACATAT
**
13488170 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
13488193 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
13488216 TAGG
1 TAGG
13488220 CATTTAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:13488280 original size:86 final size:87
Alignment explanation
Indices: 13488134--13488294 Score: 270
Period size: 86 Copynumber: 1.9 Consensus size: 87
13488124 ATGTTATATT
* * *
13488134 ATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATTAGCAAGAACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTA
13488199 GCGCTTATATAATAAAATAGGC
66 GCGCTTATATAATAAAATAGGC
* *
13488221 ATTTAATCGGAAATATTAGCAAGAACAAT-ACATATTAGGTAACGCTTATATAATGTAATAGGTA
1 ATTTAACCGAAAATATTAGCAAGAACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTA
13488285 GCGCTTATAT
66 GCGCTTATAT
13488295 TGACCCATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 44 0.64
87 25 0.36
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (87 bp):
ATTTAACCGAAAATATTAGCAAGAACAATAACATATTAGGTAACGCTTATATAATGTAATAGGTA
GCGCTTATATAATAAAATAGGC
Found at i:13488723 original size:200 final size:199
Alignment explanation
Indices: 13488289--13489013 Score: 983
Period size: 200 Copynumber: 3.6 Consensus size: 199
13488279 TAGGTAGCGC
* * * * *
13488289 TTATATTGACCCATTTTCTAACT-AAACCGGTATATTTATACC-GGTAACATTGCAAATTTACCT
1 TTATGTTGACCTATTTTCTCA-TAAAACCGGTATATTTATACCGGGT-ACATTGTAAATTTACAT
* *
13488352 ATTACATTATACTTATCGGTTTCGATGTTTTTGGGATCGATACAATTT--TAAATGTATCGACAC
64 ATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
* * * *
13488415 TTTATGCTTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGT
128 TTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAAAAAGTGT
13488480 CGATACA
193 CGATACA
* * * ** *
13488487 TTATGTAGACATATTTTTTCATAAAACCAATATATTTTTACCGGGTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACATAT
* *
13488552 TACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAATTGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
* * *
13488617 ATGCGTGCACCCCGTTTGGCACTCATTCTGGACAAAATGTATCGACAAAAATTTAAAAAGTGTCG
131 ATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAA-GTATCGACACAAATTTAAAAAGTGTCG
13488682 ATACA
195 ATACA
* * *
13488687 TTATGTTGACCTATTCTCTCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTACATAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACATAT
*
13488752 TACATTATAATTATCGATTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
** *
13488817 ATGCGTGCACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTC
131 ATGCGTGCACCTCGTTT-GGCATTCATTCTGGACAA-AAGTATCGACACAAATTTAAAAAGTGTC
13488882 GATACA
194 GATACA
* ** * * * *
13488888 TTATGTTGACCTGTTTTCT-ATTTAACTGGTATATTTATACCGGTTACATTGTTAATTTACCTAT
1 TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACATAT
* * * * **
13488952 TACATTATAATTATTGGTTTTGATGTTTTTGGGGTCAATACTTTTAGGAAATGTATCGACAC
66 TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACAC
13489014 ATAAATTTAC
Statistics
Matches: 465, Mismatches: 55, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
197 4 0.01
198 87 0.19
199 52 0.11
200 258 0.55
201 62 0.13
202 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (199 bp):
TTATGTTGACCTATTTTCTCATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACATAT
TACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTT
ATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAGTATCGACACAAATTTAAAAAGTGTCGA
TACA
Found at i:13491758 original size:19 final size:19
Alignment explanation
Indices: 13491734--13491781 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
13491724 TTACATTCAC
*
13491734 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCAT
*
13491753 ATACAAAATTATGAATCAT
1 ATACAAAATTATAAATCAT
*
13491772 AAACAAAATT
1 ATACAAAATT
13491782 TCCCCTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:13493314 original size:21 final size:22
Alignment explanation
Indices: 13493284--13493326 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
13493274 AAATATGTGT
13493284 AATTTAAAAAAATATCGATACA
1 AATTTAAAAAAATATCGATACA
*
13493306 AATTT-AAAAAATGTCGATACA
1 AATTTAAAAAAATATCGATACA
13493327 TTATGTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (22 bp):
AATTTAAAAAAATATCGATACA
Found at i:13493646 original size:200 final size:200
Alignment explanation
Indices: 13493290--13494451 Score: 1500
Period size: 200 Copynumber: 5.8 Consensus size: 200
13493280 GTGTAATTTA
* * * * * *
13493290 AAAAAATATCGATACAAATTTAAAAAATGTCGATACATTATGTTGTCCTATTTTCTAATTATACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAACC
* *
13493355 GGTATGTTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTCT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * * *
13493420 TTGGGATCGATAAATTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCTTTCATTT
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTC
13493485 TGGAC
196 TGGAC
* *
13493490 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAACC
* * * * ** * * *
13493555 GGTATATTTATATCGATTACAATGTTTATTTACCTATTACAATGTAATTATGGGTTTGGATGTTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * * * *
13493620 TTGGAATCGATACTTTTTATAAATGTATCAACACTTTATGTGTGCACCTTGTTTGGACATTCATT
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGG-CATTCATT
13493685 CTGGAC
195 CTGGAC
* * * * * *
13493691 AAAACGTATCAACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTATAAT-TAATC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAACC
* * * **
13493755 GGTATATTTCTATCGGTTACATTGTAAAGTTACCTATTACATTATAATTATTGGTTTTAATGTTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
13493820 TTGGGATCGATACAATTT-TAAATGTATCGACACTTTATGCGTGCAACC-CG-TTGGACATTCAT
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCGTGC-ACCTCGTTTGG-CATTCAT
13493882 TCTGGAC
194 TCTGGAC
* * ** *
13493889 AAAAAGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTACACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAACC
* * * * * *
13493954 GATATATTTCTACCGAG-TATATTGTAAATTTACCTATTGCGTTGTAATTATGGGTTTCGATATT
66 GGTATATTTCTACCG-GTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
* * * * *
13494018 TTTGGGATCGATACTTTTTATAAATGTAAT-TACATTTTATGTGTGCACCTCGTTTGGATATTCA
130 TTTGGGATCGATACATTTTATAAATGT-ATCGACACTTTATGCGTGCACCTCGTTTGG-CATTCA
13494082 TTCTGGAC
193 TTCTGGAC
* * *
13494090 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAAT-TAATC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAACC
* *
13494154 GGTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
** * *
13494219 TTGGGATCGATACAAGTT-TAAATGTATAGACACTTTATGCGTGCACCCCGTTTGGCACTT-ATT
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCA-TTCATT
13494282 CTGGAC
195 CTGGAC
* * *
13494288 AAAATA-TATCGACATAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAAC
1 AAAA-AGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAAC
* * * ***
13494352 CGATATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCTATTTCGATGTT
65 CGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTT
13494417 TTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
130 TTTGGGATCGATACATTTT-ATAAATGTATCGACAC
13494452 ATTTGTTTAC
Statistics
Matches: 829, Mismatches: 118, Indels: 30
0.85 0.12 0.03
Matches are distributed among these distances:
198 138 0.17
199 208 0.25
200 345 0.42
201 138 0.17
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATAAAACC
GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTT
TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTC
TGGAC
Found at i:13494107 original size:399 final size:400
Alignment explanation
Indices: 13493290--13494444 Score: 1714
Period size: 399 Copynumber: 2.9 Consensus size: 400
13493280 GTGTAATTTA
* * * * * *
13493290 AAAAAATATCGATACAAATTTAAAAAATGTCGATACATTATGTTGTCCTATTTTCTAATTATACC
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTA-ATC
* * * *
13493355 GGTATGTTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTCT
65 GGTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTT
*
13493420 TTGGGATCGATA-AATTTAATAAATGTATCGACACTTTATGCGTGC-ACCTCGTTTGGCTTTCAT
130 TTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCAACC-CGTTTGGCATTCAT
*
13493483 TTTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCA
192 TCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCA
* * * * ** * *
13493548 TAAAACCGGTATATTTATATCGATTACAATGTTTATTTACCTATTACAATGTAATTATGGGTTTG
257 TAAAACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTGTAATTATGGGTTTC
* *
13493613 GATGTTTTTGGAATCGATACTTTTTATAAATGT-ATCAACACTTTATGTGTGCACCTTGTTTGGA
322 GATGTTTTTGGGATCGATACTTTTTATAAATGTAATCAACACTTTATGTGTGCACCTCGTTTGGA
13493677 CATTCATTCTGGAC
387 CATTCATTCTGGAC
* * *
13493691 AAAACGTATCAACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTATAATTAATCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCG
* * **
13493756 GTATATTTCTATCGGTTACATTGTAAAGTTACCTATTACATTATAATTATTGGTTTTAATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
13493821 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCG-TTGGACATTCATTCT
131 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCGTTTGG-CATTCATTCT
* * *
13493885 GGACAAAAAGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTACACCTATTTTCTCATAA
195 GGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAA
* * * *
13493950 AACCGATATATTTCTACCGAGTATATTGTAAATTTACCTATTGCGTTGTAATTATGGGTTTCGAT
260 AACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTGTAATTATGGGTTTCGAT
* * * *
13494015 ATTTTTGGGATCGATACTTTTTATAAATGTAAT-TACATTTTATGTGTGCACCTCGTTTGGATAT
325 GTTTTTGGGATCGATACTTTTTATAAATGTAATCAACACTTTATGTGTGCACCTCGTTTGGACAT
13494079 TCATTCTGGAC
390 TCATTCTGGAC
13494090 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCG
13494155 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
13494220 TGGGATCGATACAAGTTTAAATGTATAGACACTTTATGCGTGCACCCCGTTTGGCACTT-ATTCT
131 TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCGTTTGGCA-TTCATTCT
* * *
13494284 GGACAAAATA-TATCGACATAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATA
195 GGACAAAA-AGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATA
* * ***
13494348 AAACCGATATATTTATACCG-GTTACATTATAAATTTACCTATTACATTATAATTATCTATTTCG
259 AAACCGATATATTTATACCGAG-TACATTGTAAATTTACCTATTACATTGTAATTATGGGTTTCG
*
13494412 ATGTTTTTGGGATCGATACTTTTAATAAATGTA
323 ATGTTTTTGGGATCGATACTTTTTATAAATGTA
13494445 TCGACACATT
Statistics
Matches: 680, Mismatches: 66, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
398 5 0.01
399 533 0.78
400 84 0.12
401 58 0.09
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (400 bp):
AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAATCG
GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCGTTTGGCATTCATTCTG
GACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAA
ACCGATATATTTATACCGAGTACATTGTAAATTTACCTATTACATTGTAATTATGGGTTTCGATG
TTTTTGGGATCGATACTTTTTATAAATGTAATCAACACTTTATGTGTGCACCTCGTTTGGACATT
CATTCTGGAC
Found at i:13494443 original size:599 final size:598
Alignment explanation
Indices: 13493303--13494451 Score: 1562
Period size: 599 Copynumber: 1.9 Consensus size: 598
13493293 AAATATCGAT
*** * * * *
13493303 ACAAATTTAAAAAATGTCGATACATTATGTTGTCCTATTTTCTAATTATACCGGTATGTTTCTAC
1 ACAAATTTAAAAAATGTCGATACATTATGTACACCTATTTTCTAATAAAACCGATATATTTCTAC
*
13493368 CGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATGTCTTTGGGATCGATAA
66 CGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATCTTTGGGATCGATAA
* *
13493433 ATTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCTTTCATTTTGGACAAAAAGTA
131 ATTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGATTTCATTCTGGACAAAAAGTA
*
13493498 TCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACCGGTATATT
196 TCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAACCGGTATATT
* ** * * * *
13493563 TATATCGATTACAATGTTTATTTACCTATTACAATGTAATTATGGGTTTGGATGTTTTTGGAATC
261 TATACCGATTACAATGTAAAGTTACCTATTACAATATAATTATCGGTTTCGATGTTTTTGGAATC
*** * **
13493628 GATACTTTTTATAAATGTATCAACACTTTATGTGTGCACCTTGTTTGGACATTCATTCTGGACAA
326 GATACAAGTTATAAATGTATCAACACTTTATGCGTGCACCCCGTTTGGACATTCATTCTGGACAA
* * * *
13493693 AACGTATCAACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTATAATTAATCGGT
391 AACATATCAACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTATAA-TAACCGAT
* * * * *
13493758 ATATTTCTATCGGTTACATTGTAAAGTTACCTATTACATTATAATTATTGGTTTTAATGTTTTTG
455 ATATTTATACCGGTTACATTATAAAGTTACCTATTACATTATAATTATTGATTTCAATGTTTTTG
13493823 GGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCGTTGGACATTCATTCTGGA
520 GGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCGTTGGACATTCATTCTGGA
13493888 CAAAAAGTATCAAC
585 CAAAAAGTATCAAC
* * *
13493902 ACAAATTTAAAAAGTGTCGATATATTATGTACACCTATTTTCTCATAAAACCGATATATTTCTAC
1 ACAAATTTAAAAAATGTCGATACATTATGTACACCTATTTTCTAATAAAACCGATATATTTCTAC
* * * * *
13493967 CGAG-TATATTGTAAATTTACCTATTGCGTTGTAATTATGGGTTTCGATATTTTTGGGATCGATA
66 CG-GTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATCTTTGGGATCGATA
** * * * *
13494031 CTTTTTATAAATGTAAT-TACATTTTATGTGTGCACCTCGTTTGGATATTCATTCTGGACAAAAA
130 AATTTAATAAATGT-ATCGACACTTTATGCGTGCACCTCGTTTGGAT-TTCATTCTGGACAAAAA
* * * *
13494095 GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTTCTAAT-TAATCGGTAT
193 GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAACCGGTAT
* * * * *
13494159 ATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
258 ATTTATACCGATTACAATGTAAAGTTACCTATTACAATATAATTATCGGTTTCGATGTTTTTGGA
13494224 ATCGATACAAGTT-TAAATGTAT-AGACACTTTATGCGTGCACCCCGTTTGG-CACTT-ATTCTG
323 ATCGATACAAGTTATAAATGTATCA-ACACTTTATGCGTGCACCCCGTTTGGACA-TTCATTCTG
* * *
13494285 GACAAAATATATCGACATAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAA-
386 GACAAAACATATCAACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATT-T-T-ATAAT
* *
13494349 AACCGATATATTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATCT-ATTTCGA
448 AACCGATATATTTATACCGGTTACATTATAAAGTTACCTATTACATTATAATTAT-TGATTTCAA
*
13494413 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
512 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGACAC
13494452 ATTTGTTTAC
Statistics
Matches: 477, Mismatches: 62, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
597 62 0.13
598 106 0.22
599 235 0.49
600 74 0.16
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (598 bp):
ACAAATTTAAAAAATGTCGATACATTATGTACACCTATTTTCTAATAAAACCGATATATTTCTAC
CGGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCGATATCTTTGGGATCGATAA
ATTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGATTTCATTCTGGACAAAAAGTA
TCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATAAAACCGGTATATT
TATACCGATTACAATGTAAAGTTACCTATTACAATATAATTATCGGTTTCGATGTTTTTGGAATC
GATACAAGTTATAAATGTATCAACACTTTATGCGTGCACCCCGTTTGGACATTCATTCTGGACAA
AACATATCAACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTATAATAACCGATA
TATTTATACCGGTTACATTATAAAGTTACCTATTACATTATAATTATTGATTTCAATGTTTTTGG
GATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACCCGTTGGACATTCATTCTGGAC
AAAAAGTATCAAC
Found at i:13496038 original size:18 final size:18
Alignment explanation
Indices: 13496015--13496051 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13496005 CGAAATTTCT
13496015 ATTGAAATTAAAACTCAA
1 ATTGAAATTAAAACTCAA
* *
13496033 ATTGAAATTTAAATTCAA
1 ATTGAAATTAAAACTCAA
13496051 A
1 A
13496052 CTCCAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTAAAACTCAA
Found at i:13496070 original size:24 final size:24
Alignment explanation
Indices: 13496015--13496070 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
13496005 CGAAATTTCT
13496015 ATTGAAATTAAAACTCAAATTGAA
1 ATTGAAATTAAAACTCAAATTGAA
* * *
13496039 ATTTAAATTCAAACTCCAATT-AA
1 ATTGAAATTAAAACTCAAATTGAA
13496062 ATATGAAAT
1 AT-TGAAAT
13496071 GAAATTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (24 bp):
ATTGAAATTAAAACTCAAATTGAA
Found at i:13497448 original size:3 final size:3
Alignment explanation
Indices: 13497440--13497492 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
13497430 ACTTGTTTGG
* * *
13497440 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
13497488 TTC AT
1 ATC AT
13497493 TGAGCGCTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.26, C:0.32, G:0.02, T:0.40
Consensus pattern (3 bp):
ATC
Found at i:13499651 original size:201 final size:201
Alignment explanation
Indices: 13498979--13500343 Score: 1727
Period size: 200 Copynumber: 6.8 Consensus size: 201
13498969 TGAGAAATTT
* * * * * **
13498979 AAAAACGTATCGACATAAATTTAAAAAGTGTTGATACATAATGTTGACCACTTTTCTAATTAAAC
1 AAAAA-GTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGACTGCTTTTCTAATTAAA-
** * *
13499044 CA-GTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTATAATTATTA-GTTTTGATG
64 CAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTA-TAGGTTTCGATG
* * *
13499107 TTTTTGGGATCGATACAATTT-TAAATGTATCGACAC-TTATTGCGTACACCTCGTTTGGCCATT
128 TTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTA-TGCTTACACCTCGTTTGGGCATT
*
13499170 GATTCTGGAC
192 CATTCTGGAC
* * * * *
13499180 AAAAAGTATCGACACAAATTT-AGAAAGTGTCGATACATTATGTAGACCT-ATTTTCTCATAAAA
1 AAAAAGTATCGACACAAATTTCA-CAAGTGTCGATACATTATGTTGA-CTGCTTTTCTAATTAAA
* * * * * *
13499243 CTGGTATATATCTACCGGTTACATTGTAAATTTATCTATTACATTATAATTATATGTTTCGATGT
64 CAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGT
* * * * *
13499308 TTTTGGGATCAATACAATTT-TAAATGTATCGACAC-TTATTGCATACACCTCGTTT-GCCATTG
129 TTTTGGGATCGATACATTTTATAAATGTATCGACACTTTA-TGCTTACACCTCGTTTGGGCATTC
* *
13499370 ATTCAGGAT
193 ATTCTGGAC
* * * ** * * *
13499379 AAAAAGTATCGACACAAATTTAAAAAATGTCGATACATTATGTTGACCACTTTTATAATCAAACT
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGACTGCTTTTCTAATTAAACA
** * *
13499444 GGTATATTTATACCGACTATATTTTAAATTTACCTATTACATTATAATTATAGGTTTCAATGTTT
66 GGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
* *
13499509 TTGGGATTGATACTTTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCATT
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCATT
13499574 CTGGAC
196 CTGGAC
*
13499580 AAAAAGTATCGACACAAATTTCACATGTGTCGATACATTATGTTGACTGCTTTTCTAATTAAACA
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGACTGCTTTTCTAATTAAACA
*
13499645 GGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
* * *
13499710 TTGGGATCGATA-ATTTTATAAACGTATCGACACTTTATGCTTGCACCTCGTTTGTGCATTCATT
131 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCATT
*
13499774 CTGGAA
196 CTGGAC
* * *
13499780 AAAAAGTATCGACACAAATTCCACATGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAACA
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGACTGCTTTTCTAATTAAACA
* * *
13499845 GGTATATTTATACCGGTTATATTTTAAATTCACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
* * *
13499910 TTGGGATCGATA-ATTTTTATAAATGTATCGACACTTTATGTTTGCACCTCGTTTGTGCATTCAT
131 TTGGGATCGATACA-TTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCAT
*
13499974 TCTGGAA
195 TCTGGAC
* * *
13499981 AAAAAGTATCGACACAAATTCCACATGAGTCGATACATTATGTTGA-TCGCTTTTCTAATTAAAC
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGACT-GCTTTTCTAATTAAAC
* * * *
13500045 CGGTATATTTATACCGATTATATTGTAAATTTACCTATTACATTATAATCATCGGTTTCGATGTT
65 AGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTT
* * *
13500110 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGGCATTCAT
130 TTTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCAT
*
13500175 TCTAGAC
195 TCTGGAC
* * * **
13500182 AAAAAGTATCGACGCAAATTCCACAAGTGTCGATATATTGCGTTGACATG-TTTTCTAA-TAAAC
1 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGAC-TGCTTTTCTAATTAAAC
* * * * *
13500245 TGGTATATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTCGATGTT
65 AGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTT
* * * *
13500310 TTTAGG-TCCATAC-TTTTAGAAAATATATCGACAC
130 TTTGGGATCGATACATTTTA-TAAATGTATCGACAC
13500344 ATTTGTTTAC
Statistics
Matches: 1049, Mismatches: 100, Indels: 32
0.89 0.08 0.03
Matches are distributed among these distances:
198 6 0.01
199 161 0.15
200 443 0.42
201 437 0.42
202 1 0.00
203 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (201 bp):
AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATTATGTTGACTGCTTTTCTAATTAAACA
GGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
TTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCATT
CTGGAC
Found at i:13499964 original size:401 final size:401
Alignment explanation
Indices: 13498979--13500312 Score: 1785
Period size: 401 Copynumber: 3.3 Consensus size: 401
13498969 TGAGAAATTT
* * * * *
13498979 AAAAACGTATCGACATAAATTTAAAAAGTGTTGATACATAATGTTGACCACTTTTCTAATTAAAC
1 AAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACCACTTTTCTAATTAAA-
** * * *
13499044 CA-GTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTATAATTATTAGTTTTGATGT
65 CAGGTATATTTATACCGGTTACATTTTAAATTTACCTATTACATTATAATTATTGGTTTCGATGT
* * *
13499108 TTTTGGGATCGATACA-ATTT-TAAATGTATCGACAC-TTATTGCGTACACCTCGTTTGGCCATT
130 TTTTGGGATCGATA-ATTTTTATAAATGTATCGACACTTTA-TGCTTACACCTCGTTTGGGCATT
* * * * *
13499170 GATTCTGGACAAAAAGTATCGACACAAATTT-AGAAAGTGTCGATACATTATGTAGACCT-ATTT
193 CATTCTGGACAAAAAGTATCGACACAAATTTCA-CATGTGTCGATACATTATGTTGA-CTGCTTT
* * * * * * * **
13499233 TCTCATAAAACTGGTATATATCTACCGGTTACATTGTAAATTTATCTATTACATTATAATTATAT
256 TCTAATTAAACAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCG
* * *
13499298 GTTTCGATGTTTTTGGGATCAATACAATTT-TAAATGTATCGACAC-TTATTGCATACACCTCGT
321 GTTTCGATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTA-TGCATGCACCTCGT
* * *
13499361 TTGCCATTGATTCAGGA
385 TTGGCATTCATTCTGGA
* * * * *
13499378 TAAAAAGTATCGACACAAATTTAAAAAATGTCGATACATTATGTTGACCACTTTTATAATCAAAC
1 AAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACCACTTTTCTAATTAAAC
* ** * * *
13499443 TGGTATATTTATACCGACTATATTTTAAATTTACCTATTACATTATAATTATAGGTTTCAATGTT
66 AGGTATATTTATACCGGTTACATTTTAAATTTACCTATTACATTATAATTATTGGTTTCGATGTT
* *
13499508 TTTGGGATTGATACTTTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCAT
131 TTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCAT
13499573 TCTGGACAAAAAGTATCGACACAAATTTCACATGTGTCGATACATTATGTTGACTGCTTTTCTAA
196 TCTGGACAAAAAGTATCGACACAAATTTCACATGTGTCGATACATTATGTTGACTGCTTTTCTAA
13499638 TTAAACAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
261 TTAAACAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* *
13499703 GATGTTTTTGGGATCGATA-ATTTTATAAACGTATCGACACTTTATGCTTGCACCTCGTTTGTGC
326 GATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCATGCACCTCGTTTG-GC
13499767 ATTCATTCTGGA
390 ATTCATTCTGGA
* * * *
13499779 AAAAAAGTATCGACACAAATTCCACATGTGTCGATACATTATGTTGACCGCTTTTCTAATTAAAC
1 AAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACCACTTTTCTAATTAAAC
* * *
13499844 AGGTATATTTATACCGGTTATATTTTAAATTCACCTATTACATTATAATTATCGGTTTCGATGTT
66 AGGTATATTTATACCGGTTACATTTTAAATTTACCTATTACATTATAATTATTGGTTTCGATGTT
* * *
13499909 TTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATGTTTGCACCTCGTTTGTGCATTCAT
131 TTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCAT
* * *
13499974 TCTGGAAAAAAAGTATCGACACAAATTCCACATGAGTCGATACATTATGTTGA-TCGCTTTTCTA
196 TCTGGACAAAAAGTATCGACACAAATTTCACATGTGTCGATACATTATGTTGACT-GCTTTTCTA
* * *
13500038 ATTAAACCGGTATATTTATACCGATTATATTGTAAATTTACCTATTACATTATAATCATCGGTTT
260 ATTAAACAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGTTT
* *
13500103 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGG
325 CGATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCATGCACCTCGTTT-GG
*
13500168 CATTCATTCTAGA
389 CATTCATTCTGGA
* * * * * ** *
13500181 CAAAAAGTATCGACGCAAATTCCACAAGTGTCGATATATTGCGTTGA-CATGTTTTCTAA-TAAA
1 AAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACCA-CTTTTCTAATTAAA
* *
13500244 CTGGTATATTTATATCGGTTACATTGTT-AATTTACCTATTACATTATAATTATTGGTTTCGATG
65 CAGGTATATTTATACCGGTTACATT-TTAAATTTACCTATTACATTATAATTATTGGTTTCGATG
13500308 TTTTT
129 TTTTT
13500313 AGGTCCATAC
Statistics
Matches: 832, Mismatches: 89, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
398 1 0.00
399 130 0.16
400 198 0.24
401 400 0.48
402 102 0.12
403 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (401 bp):
AAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACCACTTTTCTAATTAAAC
AGGTATATTTATACCGGTTACATTTTAAATTTACCTATTACATTATAATTATTGGTTTCGATGTT
TTTGGGATCGATAATTTTTATAAATGTATCGACACTTTATGCTTACACCTCGTTTGGGCATTCAT
TCTGGACAAAAAGTATCGACACAAATTTCACATGTGTCGATACATTATGTTGACTGCTTTTCTAA
TTAAACAGGTATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
GATGTTTTTGGGATCGATACATTTTATAAATGTATCGACACTTTATGCATGCACCTCGTTTGGCA
TTCATTCTGGA
Found at i:13500815 original size:19 final size:19
Alignment explanation
Indices: 13500791--13500839 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
13500781 TTACATTCAC
13500791 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
13500810 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
13500829 ATACAAAATTA
1 ATACAAAATTA
13500840 ACCCTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:13502504 original size:65 final size:63
Alignment explanation
Indices: 13502434--13502588 Score: 197
Period size: 65 Copynumber: 2.4 Consensus size: 63
13502424 CACACCCATT
*
13502434 TCGAATGCATTTTGTGTACTGATGCACA-AGCCATGCATCGATGCACTCTTGAATAT-TTTGAAA
1 TCGAATGCATTTTGTGTACTGATGCACAGA-CCATGCATCGATGCAC-CCTG--TATCTTTGAAA
13502497 CA
62 CA
* * *
13502499 TCGAATGCATTTTGTGTACAGATGCACAGACCATGCATCGATGCACCCTGTCTCTTTGAAATA
1 TCGAATGCATTTTGTGTACTGATGCACAGACCATGCATCGATGCACCCTGTATCTTTGAAACA
* * *
13502562 TCGAATGCAATTAGTGTACTAATGCAC
1 TCGAATGCATTTTGTGTACTGATGCAC
13502589 CCCTAGTGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
62 2 0.03
63 31 0.39
64 3 0.04
65 43 0.54
66 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (63 bp):
TCGAATGCATTTTGTGTACTGATGCACAGACCATGCATCGATGCACCCTGTATCTTTGAAACA
Found at i:13508173 original size:23 final size:22
Alignment explanation
Indices: 13508143--13508222 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
13508133 ACACTAGACA
13508143 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCAT-CCTTGAAT
* * *
13508166 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCATCCTTGAAT
*
13508187 GTGCACCGATGCATTCCTTGAAT
1 GTGCATCGATGCA-TCCTTGAAT
* *
13508210 GTGTATCAATGCA
1 GTGCATCGATGCA
13508223 CTCTACTATG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 17 0.38
23 28 0.62
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCATCCTTGAAT
Found at i:13508190 original size:21 final size:20
Alignment explanation
Indices: 13508124--13508196 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
13508114 TTGTGCACTA
*
13508124 TGCATCGATACACTA-GACAG
1 TGCATCGATACACCATGA-AG
* *
13508144 TGCATCGATGCATCCCTTGAATG
1 TGCATCGATACA--CCATGAA-G
13508167 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCATGAA-G
*
13508188 TGCACCGAT
1 TGCATCGAT
13508197 GCATTCCTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 11 0.26
21 15 0.36
22 2 0.05
23 14 0.33
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (20 bp):
TGCATCGATACACCATGAAG
Found at i:13508200 original size:44 final size:43
Alignment explanation
Indices: 13508124--13508212 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 43
13508114 TTGTGCACTA
* *
13508124 TGCATCGATACACTAGACAGTGCATCGATGCATCCCTTGAATG
1 TGCATCGATACACCAGACAGTGCACCGATGCATCCCTTGAATG
*
13508167 TGCATCGATACACCATGA-AGGTGCACCGATGCATTCCTTGAATG
1 TGCATCGATACACCA-GACA-GTGCACCGATGCATCCCTTGAATG
13508211 TG
1 TG
13508213 TATCAATGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 15 0.37
44 26 0.63
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (43 bp):
TGCATCGATACACCAGACAGTGCACCGATGCATCCCTTGAATG
Found at i:13510961 original size:65 final size:64
Alignment explanation
Indices: 13510881--13511032 Score: 223
Period size: 65 Copynumber: 2.4 Consensus size: 64
13510871 CCCATTTCGT
* * *
13510881 ATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCGA
1 ATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATA-TTTAAAACATCGA
**
13510946 ATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGGCTATTTAAAACATCGA
1 ATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTAAAACATCGA
* * *
13511010 ATGTAATTAGTGTACCGATGCAC
1 ATGCATTTTGTGTACCGATGCAC
13511033 CCCTAGTGTA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 32 0.41
65 47 0.59
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCATTTTGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTAAAACATCGA
Found at i:13515333 original size:183 final size:182
Alignment explanation
Indices: 13514720--13515318 Score: 887
Period size: 181 Copynumber: 3.3 Consensus size: 182
13514710 GTGGCGCTTT
* * * *
13514720 ACCGGTTTTATTATATTTTTACATGTTATATTGTTATGGATTGATACATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
13514785 CACTTTATAGGCGCTATTACTGCTTCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT
66 CACTTTATAGGCGCTATTACTGCTTCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT
* * *
13514850 ATCGACACTTTCAACATATTCGATAGCTCTTTACCGGTTTTGTCATTTCGAG
131 ATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAG
* *
13514902 ATCGG-TTTGTCATATTTTTACCTGTTATATTGTTATGGATCGACACATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
* * * * *
13514966 CACTTTATAGGCGATATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATGCGTATATTAAGGT
66 CACTTTATAGGCGCTATTACTGCTTCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT
* * *
13515031 ATTGACACTTTCAACATATCCGGTAGTGCTTTACCGGTTTTATCATTTCGAG
131 ATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAG
*
13515083 ACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
* * * **
13515148 CACTTTATGGGCGCTATTATTGCTTCCCTTTTAAATTCCAAAAGTGTCGATACTTATTTTAATCT
66 CACTTTATAGGCGCTATTACTGCTTCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT
* * *
13515213 AATCGATACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGAG
131 -ATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAG
* * ** *
13515266 ACCGGTTTTGTCATGTGTTTA-CTAGTTATATTACTATGGATCAATACATTTTT
1 ACCGGTTTTGTCATATTTTTACCT-GTTATATTGTTATGGATCGATACATTTTT
13515319 TATTTGTATC
Statistics
Matches: 373, Mismatches: 41, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
181 163 0.44
182 120 0.32
183 90 0.24
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (182 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGA
CACTTTATAGGCGCTATTACTGCTTCCCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT
ATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTCGAG
Found at i:13515593 original size:11 final size:11
Alignment explanation
Indices: 13515577--13515602 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13515567 TCTGTCGTCC
13515577 TCACTCGCCGA
1 TCACTCGCCGA
13515588 TCACTCGCCGA
1 TCACTCGCCGA
13515599 TCAC
1 TCAC
13515603 CGTCGGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.46, G:0.15, T:0.19
Consensus pattern (11 bp):
TCACTCGCCGA
Found at i:13515883 original size:12 final size:12
Alignment explanation
Indices: 13515866--13515911 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
13515856 GACTGACGTT
13515866 GACCGTTGACCG
1 GACCGTTGACCG
13515878 GACCGTTGACC-
1 GACCGTTGACCG
* *
13515889 G-TCGTTGACCA
1 GACCGTTGACCG
*
13515900 AACCGTTGACCG
1 GACCGTTGACCG
13515912 ACGTTAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 8 0.29
11 1 0.04
12 19 0.68
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (12 bp):
GACCGTTGACCG
Found at i:13515886 original size:19 final size:17
Alignment explanation
Indices: 13515850--13515890 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
13515840 GAGTCGTCTA
*
13515850 ACCGTTGACTGACGTTG
1 ACCGTTGACGGACGTTG
13515867 ACCGTTGACCGGACCGTTG
1 ACCGTTGA-CGGA-CGTTG
13515886 ACCGT
1 ACCGT
13515891 CGTTGACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.24
Consensus pattern (17 bp):
ACCGTTGACGGACGTTG
Found at i:13515897 original size:22 final size:22
Alignment explanation
Indices: 13515869--13515916 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
13515859 TGACGTTGAC
** *
13515869 CGTTGACCGGACCGTTGACCGT
1 CGTTGACCAAACCGTTGACCGA
13515891 CGTTGACCAAACCGTTGACCGA
1 CGTTGACCAAACCGTTGACCGA
13515913 CGTT
1 CGTT
13515917 AACTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.31, G:0.27, T:0.23
Consensus pattern (22 bp):
CGTTGACCAAACCGTTGACCGA
Found at i:13517663 original size:32 final size:31
Alignment explanation
Indices: 13517600--13517675 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 31
13517590 TAAGTCGACC
* * *
13517600 CTTGGGTAGGCTCTGGGGCCCTGAGATTTTT
1 CTTGGGTAGGCTCTAGGGCCCTAAGAATTTT
*
13517631 CTTGGGTAGGTCTCTATGGCCCTAAGAATTTT
1 CTTGGGTAGG-CTCTAGGGCCCTAAGAATTTT
13517663 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
13517676 GCAGGCCCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 13 0.32
32 27 0.68
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.36
Consensus pattern (31 bp):
CTTGGGTAGGCTCTAGGGCCCTAAGAATTTT
Found at i:13525280 original size:21 final size:21
Alignment explanation
Indices: 13525250--13525290 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13525240 CTTTGATTTA
*
13525250 TTATTATGGATTTCAAGTTTG
1 TTATTATGGATTTAAAGTTTG
*
13525271 TTATTTTGGATTTAAAGTTT
1 TTATTATGGATTTAAAGTTT
13525291 ATAGGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.56
Consensus pattern (21 bp):
TTATTATGGATTTAAAGTTTG
Found at i:13526721 original size:11 final size:11
Alignment explanation
Indices: 13526705--13526767 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
13526695 CTCATTCCTA
13526705 AATAAAATAAT
1 AATAAAATAAT
13526716 AATAAAATAAT
1 AATAAAATAAT
*
13526727 CA-AAAATAA-
1 AATAAAATAAT
***
13526736 AATTCTA-AAT
1 AATAAAATAAT
13526746 AA-AAAAGTAAT
1 AATAAAA-TAAT
13526757 AATAAAATAAT
1 AATAAAATAAT
13526768 CAAACTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
9 4 0.10
10 10 0.26
11 21 0.54
12 4 0.10
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:13526733 original size:41 final size:40
Alignment explanation
Indices: 13526702--13526785 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
13526692 TAACTCATTC
13526702 CTAAAT-AAAA-TAATAATAAAATAATCAAAAATAAAATT
1 CTAAATAAAAAGTAATAATAAAATAATCAAAAATAAAATT
* *
13526740 CTAAATAAAAAAGTAATAATAAAATAATC-AAACTAAAATA
1 CTAAAT-AAAAAGTAATAATAAAATAATCAAAAATAAAATT
13526780 CTAAAT
1 CTAAAT
13526786 CTAAAAGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 6 0.15
40 19 0.46
41 16 0.39
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.25
Consensus pattern (40 bp):
CTAAATAAAAAGTAATAATAAAATAATCAAAAATAAAATT
Found at i:13527207 original size:18 final size:18
Alignment explanation
Indices: 13527184--13527219 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13527174 TTCAAGCATG
13527184 GGTTGAAAAAGTTAGACA
1 GGTTGAAAAAGTTAGACA
*
13527202 GGTTGAAAGAGTTAGACA
1 GGTTGAAAAAGTTAGACA
13527220 AGATAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.22
Consensus pattern (18 bp):
GGTTGAAAAAGTTAGACA
Found at i:13528658 original size:18 final size:18
Alignment explanation
Indices: 13528630--13528702 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 18
13528620 TTTGTGTCTG
* *
13528630 ATAACTGTAAAATATCTT
1 ATAATTGTAAAATATCTA
*
13528648 ATATTTGT-AAATATCTA
1 ATAATTGTAAAATATCTA
13528665 ATAATTGT--AATCATCTA
1 ATAATTGTAAAAT-ATCTA
*
13528682 AT-ATATGT-AAATATCTG
1 ATAAT-TGTAAAATATCTA
13528699 ATAA
1 ATAA
13528703 CTAAAAATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.11
17 31 0.67
18 10 0.22
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (18 bp):
ATAATTGTAAAATATCTA
Found at i:13528661 original size:17 final size:17
Alignment explanation
Indices: 13528639--13528697 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
13528629 GATAACTGTA
*
13528639 AAATATCTTATATTTGT
1 AAATATCTAATATTTGT
*
13528656 AAATATCTAATAATTGT
1 AAATATCTAATATTTGT
*
13528673 -AATCATCTAATATATGT
1 AAAT-ATCTAATATTTGT
13528690 AAATATCT
1 AAATATCT
13528698 GATAACTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 3 0.08
17 30 0.83
18 3 0.08
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (17 bp):
AAATATCTAATATTTGT
Found at i:13528717 original size:18 final size:17
Alignment explanation
Indices: 13528690--13528723 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13528680 TAATATATGT
13528690 AAATATCTGATAACTAA
1 AAATATCTGATAACTAA
13528707 AAATCATCTGATAACTA
1 AAAT-ATCTGATAACTA
13528724 TAAACATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATATCTGATAACTAA
Found at i:13530087 original size:29 final size:30
Alignment explanation
Indices: 13530023--13530087 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
13530013 AATCCAAAAC
* * *
13530023 TTTTCCAAAATTACCGAATTGGTCCCCCAA
1 TTTTTCAAAATTACAGAATTGGTCCCCAAA
* *
13530053 TATTTCAAAATTACATAA-TGGTCCCCAAA
1 TTTTTCAAAATTACAGAATTGGTCCCCAAA
13530082 TTTTTC
1 TTTTTC
13530088 TAAGGCCTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.32, C:0.25, G:0.08, T:0.35
Consensus pattern (30 bp):
TTTTTCAAAATTACAGAATTGGTCCCCAAA
Found at i:13531629 original size:17 final size:17
Alignment explanation
Indices: 13531607--13531669 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
13531597 GGTAACTGTA
13531607 AAATATCTGATATTTGT
1 AAATATCTGATATTTGT
**
13531624 AAATATCTGATAACTGT
1 AAATATCTGATATTTGT
13531641 -AATCATCTGATATTTGT
1 AAAT-ATCTGATATTTGT
*
13531658 AAATATATGATA
1 AAATATCTGATA
13531670 ACTAAAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 3 0.08
17 33 0.85
18 3 0.08
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (17 bp):
AAATATCTGATATTTGT
Found at i:13531653 original size:34 final size:34
Alignment explanation
Indices: 13531605--13531686 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
13531595 ATGGTAACTG
*
13531605 TAAAAT-ATCTGATATTTGTAAATATCTGATAAC
1 TAAAATCATCTGATATTTGTAAATATATGATAAC
**
13531638 TGTAATCATCTGATATTTGTAAATATATGATAAC
1 TAAAATCATCTGATATTTGTAAATATATGATAAC
13531672 TAAAATCATCTGATA
1 TAAAATCATCTGATA
13531687 ACTATAAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 4 0.09
34 39 0.91
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (34 bp):
TAAAATCATCTGATATTTGTAAATATATGATAAC
Found at i:13531685 original size:17 final size:16
Alignment explanation
Indices: 13531605--13531690 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 16
13531595 ATGGTAACTG
**
13531605 TAAAATATCTGATATT
1 TAAAATATCTGATAAC
*
13531621 TGTAAATATCTGATAAC
1 T-AAAATATCTGATAAC
** **
13531638 TGTAATCATCTGATATT
1 TAAAAT-ATCTGATAAC
* *
13531655 TGTAAATATATGATAAC
1 T-AAAATATCTGATAAC
13531672 TAAAATCATCTGATAAC
1 TAAAAT-ATCTGATAAC
13531689 TA
1 TA
13531691 TAAACATTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
16 8 0.15
17 41 0.79
18 3 0.06
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (16 bp):
TAAAATATCTGATAAC
Found at i:13535456 original size:21 final size:21
Alignment explanation
Indices: 13535424--13535463 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
13535414 AAAAATAAAA
13535424 AGAAAAATAAATAG-AAAACT
1 AGAAAAATAAATAGTAAAACT
13535444 AGAAAAATAAAATAGTAAAA
1 AGAAAAAT-AAATAGTAAAA
13535464 TAAATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 6 0.33
22 4 0.22
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (21 bp):
AGAAAAATAAATAGTAAAACT
Found at i:13539941 original size:21 final size:21
Alignment explanation
Indices: 13539914--13539984 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
13539904 GTCGAGGGTT
13539914 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
* *
13539935 TTTTGTGGTCCTTCGGGATAA
1 TTATGTGGTCCTTCGGGACAA
* *
13539956 TTATGTGGTCCTTCCGGATAA
1 TTATGTGGTCCTTCGGGACAA
*
13539977 ATATGTGG
1 TTATGTGG
13539985 CACCTCGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:13540008 original size:23 final size:23
Alignment explanation
Indices: 13539978--13540030 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
13539968 TCCGGATAAA
**
13539978 TATGTGGCACCTCGGTGCAAACC
1 TATGTGGCACCTAAGTGCAAACC
* *
13540001 TGTGTGGCACTTAAGTGCAAACC
1 TATGTGGCACCTAAGTGCAAACC
13540024 TATGTGG
1 TATGTGG
13540031 TCCTTTGGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (23 bp):
TATGTGGCACCTAAGTGCAAACC
Found at i:13546658 original size:21 final size:21
Alignment explanation
Indices: 13546603--13546651 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13546593 TCGAGGGTTT
* * *
13546603 TATGTAGTCCTTCGGGATAAT
1 TATGTGGTCCTTCGGGACAAA
13546624 TATGTGGTCCTTCGGGACAAA
1 TATGTGGTCCTTCGGGACAAA
13546645 TATGTGG
1 TATGTGG
13546652 CACTTCGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (21 bp):
TATGTGGTCCTTCGGGACAAA
Found at i:13547775 original size:19 final size:19
Alignment explanation
Indices: 13547741--13547784 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13547731 TTAGCATTGT
13547741 GAAAAG-AAAATAATGAAA
1 GAAAAGTAAAATAATGAAA
13547759 GAAAAGTAAAA-AGATGAAA
1 GAAAAGTAAAATA-ATGAAA
13547778 GAAAAGT
1 GAAAAGT
13547785 GGAACTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.11
Consensus pattern (19 bp):
GAAAAGTAAAATAATGAAA
Found at i:13552632 original size:20 final size:19
Alignment explanation
Indices: 13552609--13552646 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13552599 GCTTTTAAAG
*
13552609 ACTTTGAATTATTTTTGAAA
1 ACTTTGAA-AATTTTTGAAA
13552629 ACTTTGAAAATTTTTGAA
1 ACTTTGAAAATTTTTGAA
13552647 CAAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
ACTTTGAAAATTTTTGAAA
Found at i:13553970 original size:18 final size:18
Alignment explanation
Indices: 13553947--13553985 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
13553937 CAACTTTGGC
13553947 TTTCAAAATCAAATCATT
1 TTTCAAAATCAAATCATT
13553965 TTTCAAAATCAAATCATT
1 TTTCAAAATCAAATCATT
13553983 TTT
1 TTT
13553986 AACTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCAAAATCAAATCATT
Found at i:13555651 original size:2 final size:2
Alignment explanation
Indices: 13555644--13555670 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13555634 TCTTAAAATA
13555644 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
13555671 AATAAATATT
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:13558043 original size:2 final size:2
Alignment explanation
Indices: 13558038--13558062 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13558028 TTATTCTTAT
13558038 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 T
13558063 TAATTATCTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13558269 original size:13 final size:14
Alignment explanation
Indices: 13558237--13558267 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13558227 ATATATTTCA
*
13558237 TTTTATCTTTTATT
1 TTTTATCTTCTATT
13558251 TTTTATCTTCTATT
1 TTTTATCTTCTATT
13558265 TTT
1 TTT
13558268 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATCTTCTATT
Found at i:13558284 original size:20 final size:19
Alignment explanation
Indices: 13558220--13558304 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
13558210 TATATATTTA
* *
13558220 TTATTTTATATATTTCAT-T
1 TTATTTT-TATTTTTTATCT
13558239 TTATCTTTTATTTTTTATCT
1 TTAT-TTTTATTTTTTATCT
13558259 TCTATTTTTATTTTTGTAT-T
1 T-TATTTTTATTTTT-TATCT
* * *
13558279 GTTATTGTTATTATCT-TCT
1 -TTATTTTTATTTTTTATCT
13558298 TTATTTT
1 TTATTTT
13558305 ATGTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
18 7 0.13
19 14 0.26
20 26 0.48
21 7 0.13
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.72
Consensus pattern (19 bp):
TTATTTTTATTTTTTATCT
Done.