Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold15
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: 4011073
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 11440 characters in sequence are not A, C, G, or T
File 7 of 25
Found at i:1031263 original size:418 final size:417
Alignment explanation
Indices: 1030394--1031470 Score: 1308
Period size: 418 Copynumber: 2.6 Consensus size: 417
1030384 ATGATGAAAC
* * * ** * *
1030394 GAGTTTGACTAGAATTAACGCCAATACAGTCAAATGAGGGTGAG-AAAAGTTTGACCA-AGCCCT
1 GAGTTTGACAAG-ACTAACACCAATACAGTCAAACAAGGGTGAGAAAAAGTTTAACCAGA-TCCT
** * * ** * * ** * *
1030457 AATGCTAATACAGTCAAACGAGGGTG-GAAAAAGTTTGACCAGGTCCTAATGCCAATATAGTCAA
64 AACACCAATACAGTCAAACAAAAGTGAGAAAAAGTTTGACTAGG-ACTAACACTAATACAGTCAA
* * * *
1030521 ATGAGGGTGGAAAAAGTTTGACCAAGTCCTAAACCAATATAATTAAACAAGGGTGAAAAGTTTGA
128 ACGAGGGTGG-AAAAGTTTGACCAAGTCCTAAACCAATACAATCAAACGAGGGTGAAAAGTTTGA
* * *
1030586 CCAAGTCCAAATGCCAATACAGTCAAACGAGGGTAAGAAAAAGTTTGACTGAGCCCCAACGCTAA
192 CC-AGTCCTAATGCCAATACAGTCAAACGAGGGTGAGAAAAAGTTTGACTGAGCCCCAACGCCAA
* *
1030651 TACAATCAAACGAGGGTGAAAAAGAGTTTGACCAAGACTAACACCAATATAGTCAAACAAGGGTG
256 TACAATCAAACGAGGGTGAAAAAGAGTTTGACCAAGACTAACACCAATAAAGTCAAACAAGGGTA
* *
1030716 AAAAGACTTTGACTAGGTCCTAACGTTAATACAGTCAAACAAGGGTGAAAGGTTTGACCAAGTCC
321 AAAAGACTTTGACTAGGTCCTAACGCTAATACAGTCAAACAAGGGTGAAAAGTTTGACCAAGTCC
*
1030781 TAATGCTAATATAGTCAAACGAGGGTGAAAAA
386 TAACGCTAATATAGTCAAACGAGGGTGAAAAA
* *
1030813 GAGTTTGACAGGACTAACACCAATACAGTCAAACAAGGGTGAGAAAAAGTTTAACTAGATCCTAA
1 GAGTTTGACAAGACTAACACCAATACAGTCAAACAAGGGTGAGAAAAAGTTTAACCAGATCCTAA
** * *
1030878 CATTAATAC-GTCAAATAAAAGTGAGAAAAAGTTTGAC-AGGACTAACATTAAT-CAGTCAAACG
66 CACCAATACAGTCAAACAAAAGTGAGAAAAAGTTTGACTAGGACTAACACTAATACAGTCAAACG
* * * * **
1030940 AGGGTGGAAAAGTTTGACCAAATCCCAATGCCAATACAGTCAAGTGAGGGTGAAAAGTGTTTGAC
131 AGGGTGGAAAAGTTTGACCAAGTCCTAA-ACCAATACAATCAAACGAGGGTGAAAA--GTTTGAC
* * * * *
1031005 TCAGTCCTAACGCCAATATAGTCAAACGAGGGTGAGAAAAAGTTTGA-TCGGGCCCTAATGCCAA
193 -CAGTCCTAATGCCAATACAGTCAAACGAGGGTGAGAAAAAGTTTGACT-GAGCCCCAACGCCAA
*
1031069 TACAATCAAACGAGGGTTAAAAAGAGTTTGACCAAGACTAACACCAATAAAGTCAAACAAGGGTA
256 TACAATCAAACGAGGGTGAAAAAGAGTTTGACCAAGACTAACACCAATAAAGTCAAACAAGGGTA
* ** *
1031134 AAAAGAGTTTGACTAGGTCCTAACGCTAATACAG-CAAATGAGGGTGAAAAGTTTGACTAAGTCC
321 AAAAGACTTTGACTAGGTCCTAACGCTAATACAGTCAAACAAGGGTGAAAAGTTTGACCAAGTCC
1031198 TAACGCTAATATAGTCAAACGAGGGTGAAAAA
386 TAACGCTAATATAGTCAAACGAGGGTGAAAAA
* ** * *
1031230 GAGTTTGGCCAAGACTAATGCCAATATAGTCAAACAAGGGTGAGAAAAAGTTTGACCAGATCCTA
1 GAGTTT-GACAAGACTAACACCAATACAGTCAAACAAGGGTGAGAAAAAGTTTAACCAGATCCTA
* * ** * *
1031295 ACGCCAATACAGTCAAACGAGGGTGAGAAAAAGTTTGACTAGGACTAATACTAATATAGTCAAAC
65 ACACCAATACAGTCAAACAAAAGTGAGAAAAAGTTTGACTAGGACTAACACTAATACAGTCAAAC
* * * * *
1031360 GAGGGTGAAAAAAGTTTAACTAAGTCTTAACACCAATACAATCAAACGAGGATGAAAAAAGTTTG
130 GAGGGTG-GAAAAGTTTGACCAAGTCCTAA-ACCAATACAATCAAACGAGGGTG--AAAAGTTTG
*
1031425 ACCAGGTCCTAATGCCAATACAGTCAAATGAGGGTGA-AAAAGAGTT
191 ACCA-GTCCTAATGCCAATACAGTCAAACGAGGGTGAGAAAA-AGTT
1031471 GGTGAAGATT
Statistics
Matches: 559, Mismatches: 82, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
415 19 0.03
416 35 0.06
417 71 0.13
418 251 0.45
419 70 0.13
420 14 0.03
421 21 0.04
422 74 0.13
424 4 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (417 bp):
GAGTTTGACAAGACTAACACCAATACAGTCAAACAAGGGTGAGAAAAAGTTTAACCAGATCCTAA
CACCAATACAGTCAAACAAAAGTGAGAAAAAGTTTGACTAGGACTAACACTAATACAGTCAAACG
AGGGTGGAAAAGTTTGACCAAGTCCTAAACCAATACAATCAAACGAGGGTGAAAAGTTTGACCAG
TCCTAATGCCAATACAGTCAAACGAGGGTGAGAAAAAGTTTGACTGAGCCCCAACGCCAATACAA
TCAAACGAGGGTGAAAAAGAGTTTGACCAAGACTAACACCAATAAAGTCAAACAAGGGTAAAAAG
ACTTTGACTAGGTCCTAACGCTAATACAGTCAAACAAGGGTGAAAAGTTTGACCAAGTCCTAACG
CTAATATAGTCAAACGAGGGTGAAAAA
Found at i:1032425 original size:13 final size:14
Alignment explanation
Indices: 1032393--1032431 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
1032383 TTCTCTCTCT
1032393 TTTTTTCTTTGATTC
1 TTTTTT-TTTGATTC
*
1032408 TTTTTTTTTGCTTC
1 TTTTTTTTTGATTC
1032422 TTTTTTTTTG
1 TTTTTTTTTG
1032432 TTTTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.03, C:0.10, G:0.08, T:0.79
Consensus pattern (14 bp):
TTTTTTTTTGATTC
Found at i:1032781 original size:13 final size:13
Alignment explanation
Indices: 1032763--1032788 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1032753 ACTCATCTCA
1032763 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
1032776 TTCTTCTTTTTTT
1 TTCTTCTTTTTTT
1032789 CCAACAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTCTTTTTTT
Found at i:1036684 original size:33 final size:32
Alignment explanation
Indices: 1036590--1036735 Score: 179
Period size: 31 Copynumber: 4.5 Consensus size: 32
1036580 CAGAAGAGAT
* *
1036590 CAACTTGTGTGGGCTTT-AAAATGGTTGCCAC
1 CAACTTGTGTGGGCTTTGAAAAAGGATGCCAC
*
1036621 CAACTTGTGTGGGCTTGGAAAAAAAGGATGCCAC
1 CAACTTGTGTGGGCTTTG--AAAAAGGATGCCAC
*
1036655 CAACTTGTATGGGCTTTGAGAAAAGGATGCCAC
1 CAACTTGTGTGGGCTTTGA-AAAAGGATGCCAC
* *
1036688 CAACTTGTATGGGCTTTGAAAAA-GATACCAC
1 CAACTTGTGTGGGCTTTGAAAAAGGATGCCAC
* *
1036719 TAGCTTGTGTGGGCTTT
1 CAACTTGTGTGGGCTTT
1036736 TGAGAGTTGC
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
31 37 0.36
32 5 0.05
33 32 0.31
34 28 0.27
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (32 bp):
CAACTTGTGTGGGCTTTGAAAAAGGATGCCAC
Found at i:1038501 original size:138 final size:138
Alignment explanation
Indices: 1038253--1038533 Score: 427
Period size: 138 Copynumber: 2.0 Consensus size: 138
1038243 CTTTGGAAGA
1038253 CCCTTAAGACTACTTTGCATCATTTGGCAGACGCCTTCAATTTATGCCCCCTAAAAATTGACCTT
1 CCCTTAAGACTACTTTGCATCATTTGGCAGACGCCTTCAATTTATGCCCCCTAAAAATTGACCTT
*
1038318 CTCAAGTCACTCTTCTAGGCTTTCAACCTTAGCCAAGTTGCTCAAATGCCCTTTTCAAGTTTTCA
66 CTCAAGTCACCCTTCTAGGCTTTCAACCTTAGCCAAGTTGCTCAAATGCCCTTTTCAAGTTTTCA
1038383 TCTAGACC
131 TCTAGACC
* * * * * *
1038391 CCCTTAAGACTGCTTTGCATCATTTGGCGGACGCTTTCGATTTATGCCCCTTCAAAATTGACCTT
1 CCCTTAAGACTACTTTGCATCATTTGGCAGACGCCTTCAATTTATGCCCCCTAAAAATTGACCTT
** * *** **
1038456 CTCAAGTTGCCCTTCTAGTCTTTCAACCTTAGCTGGGTTGCTCAAATGCCCTTTTCGGGTTTTCA
66 CTCAAGTCACCCTTCTAGGCTTTCAACCTTAGCCAAGTTGCTCAAATGCCCTTTTCAAGTTTTCA
1038521 TCTAGACC
131 TCTAGACC
1038529 CCCTT
1 CCCTT
1038534 TTTCATTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 128 1.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.35
Consensus pattern (138 bp):
CCCTTAAGACTACTTTGCATCATTTGGCAGACGCCTTCAATTTATGCCCCCTAAAAATTGACCTT
CTCAAGTCACCCTTCTAGGCTTTCAACCTTAGCCAAGTTGCTCAAATGCCCTTTTCAAGTTTTCA
TCTAGACC
Found at i:1038589 original size:16 final size:16
Alignment explanation
Indices: 1038570--1038611 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1038560 TTTTTTTTAA
1038570 TTATTTTTTTACCTTT
1 TTATTTTTTTACCTTT
1038586 TTA-TTTTTTA-CTTT
1 TTATTTTTTTACCTTT
1038600 TGT-TTTTTTTAC
1 T-TATTTTTTTAC
1038612 ATGGGATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.22
15 15 0.65
16 3 0.13
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (16 bp):
TTATTTTTTTACCTTT
Found at i:1041564 original size:13 final size:13
Alignment explanation
Indices: 1041546--1041570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1041536 CAATTCATCA
1041546 TGTATCGATACAT
1 TGTATCGATACAT
1041559 TGTATCGATACA
1 TGTATCGATACA
1041571 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1041581 original size:33 final size:32
Alignment explanation
Indices: 1041526--1041590 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
1041516 TTTAAAGCAA
1041526 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
*
1041559 TGTATCGATACAATATGC-CATGTATTGATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
1041591 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:1041645 original size:20 final size:19
Alignment explanation
Indices: 1041620--1041672 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1041610 CTACCAGTTT
* **
1041620 CATGTATCGATATAATTGTC
1 CATGTATCGATACAA-TGAA
*
1041640 CATGTACCGATACAATGAA
1 CATGTATCGATACAATGAA
1041659 CATGTATCGATACA
1 CATGTATCGATACA
1041673 CTATATTGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1043993 original size:21 final size:22
Alignment explanation
Indices: 1043953--1043995 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1043943 GATGATTTTG
* *
1043953 ATGAAAAATAAAGTATTTTGAA
1 ATGAAAAATAAAGAAATTTGAA
1043975 ATGAAAAAT-AAGAAATTTGAA
1 ATGAAAAATAAAGAAATTTGAA
1043996 GAAGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (22 bp):
ATGAAAAATAAAGAAATTTGAA
Found at i:1050202 original size:20 final size:20
Alignment explanation
Indices: 1050177--1050235 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1050167 TCCTGTAGCT
1050177 ATGTATCAATACAATTCATA
1 ATGTATCAATACAATTCATA
* *
1050197 ATGTATCGATAC-ATGCAT-
1 ATGTATCAATACAATTCATA
* *
1050215 TTGAAATCAATACAATTCATA
1 ATG-TATCAATACAATTCATA
1050236 GTCGTTTGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 2 0.07
19 12 0.40
20 16 0.53
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (20 bp):
ATGTATCAATACAATTCATA
Found at i:1050375 original size:19 final size:19
Alignment explanation
Indices: 1050331--1050403 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1050321 CTGCCAGTTT
* **
1050331 CATGTATCAATACAATAGTC
1 CATGTATCGATACAAT-GAA
1050351 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1050370 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1050391 -ATGTATCGATACA
1 CATGTATCGATACA
1050404 TCTGGGTGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1052111 original size:13 final size:13
Alignment explanation
Indices: 1052093--1052127 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1052083 TTGGCCATAT
1052093 ATCGATACAATGC
1 ATCGATACAATGC
*
1052106 ATCGATACAATGT
1 ATCGATACAATGC
1052119 ATCGATACA
1 ATCGATACA
1052128 TACAAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:1069645 original size:20 final size:19
Alignment explanation
Indices: 1069603--1069656 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
1069593 ATTTGAAGCA
1069603 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCA-C
1069623 ATGTATCGATACAATGTGC-C
1 ATGTATCGATACAAT-T-CAC
*
1069643 ATGTATCAATACAA
1 ATGTATCGATACAA
1069657 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATTCAC
Found at i:1072117 original size:13 final size:13
Alignment explanation
Indices: 1072099--1072124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1072089 TAGTAACCCT
1072099 TGTATCGATACAA
1 TGTATCGATACAA
1072112 TGTATCGATACAA
1 TGTATCGATACAA
1072125 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1072137 original size:20 final size:20
Alignment explanation
Indices: 1072112--1072176 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1072102 ATCGATACAA
1072112 TGTATCGATACAAAGAATAT
1 TGTATCGATACAAAGAATAT
1072132 TGTATCGATAC-------AT
1 TGTATCGATACAAAGAATAT
1072145 TGTATCGATACAAAGAATAT
1 TGTATCGATACAAAGAATAT
1072165 TGTATCGATACA
1 TGTATCGATACA
1072177 TTCTAGAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 13 0.34
20 25 0.66
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAGAATAT
Found at i:1072148 original size:13 final size:13
Alignment explanation
Indices: 1072130--1072156 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1072120 TACAAAGAAT
1072130 ATTGTATCGATAC
1 ATTGTATCGATAC
1072143 ATTGTATCGATAC
1 ATTGTATCGATAC
1072156 A
1 A
1072157 AAGAATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1072177 original size:33 final size:33
Alignment explanation
Indices: 1072098--1072178 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
1072088 ATAGTAACCC
*
1072098 TTGTATCGATACAATGTATCGATACAAAGAATA
1 TTGTATCGATACATTGTATCGATACAAAGAATA
1072131 TTGTATCGATACATTGTATCGATACAAAGAATA
1 TTGTATCGATACATTGTATCGATACAAAGAATA
1072164 TTGTATCGATACATT
1 TTGTATCGATACATT
1072179 CTAGAAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (33 bp):
TTGTATCGATACATTGTATCGATACAAAGAATA
Found at i:1079869 original size:3 final size:3
Alignment explanation
Indices: 1079861--1079906 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
1079851 TCCGAGTCAC
1079861 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1079907 TTTGATGGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:1081447 original size:20 final size:20
Alignment explanation
Indices: 1081422--1081474 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1081412 TCCCGTAGCT
1081422 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
1081442 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATA
*
1081462 ATGTATCAATACA
1 ATGTATCGATACA
1081475 CACCCAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1082055 original size:33 final size:33
Alignment explanation
Indices: 1082018--1082084 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1082008 TTCAACGATT
1082018 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1082051 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1082084 T
1 T
1082085 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1082056 original size:13 final size:13
Alignment explanation
Indices: 1082038--1082062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1082028 CATAAAATGT
1082038 TGTATCGATACAA
1 TGTATCGATACAA
1082051 TGTATCGATACA
1 TGTATCGATACA
1082063 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1082145 original size:13 final size:13
Alignment explanation
Indices: 1082127--1082151 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1082117 ATTACTCACA
1082127 TGTATCGATACAT
1 TGTATCGATACAT
1082140 TGTATCGATACA
1 TGTATCGATACA
1082152 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1082288 original size:52 final size:52
Alignment explanation
Indices: 1082160--1082280 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1082150 CACTGATCTT
*
1082160 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1082212 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1082264 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1082281 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1086845 original size:150 final size:149
Alignment explanation
Indices: 1086608--1086887 Score: 393
Period size: 150 Copynumber: 1.9 Consensus size: 149
1086598 TTTCAACACG
* *
1086608 TAGCAGTGTTGCTACCAATAAGAAACAAGGCAAAAAAAGGAAAATTTCAATTTTTTAGGTGTTTA
1 TAGCAGTGTTACTACCAATAAGAAACAAGGCAAAAAAAGGAAAATTTCAATTTTTTAGGTGCTTA
* * * *
1086673 CGAGTCTAAACTCGAGTCATGGATGTTCGAGCATCCGTGATAGAAGGAAAAGAGTGGTATGAGCA
66 CGAGTCTAAACTCGAGTCATGGATATTCAAACATCCATGATAGAAGGAAAAGAGTGGTATGAGCA
1086738 TCACAAACATCATGTCACC
131 TCACAAACATCATGTCACC
* * * * * **
1086757 TAGCAGTGTTACTGCCAATAAGATAC-AGAGTAAAACAGAGGAGAATTTTGATTTTTTAGGTGCT
1 TAGCAGTGTTACTACCAATAAGAAACAAG-GCAAAA-AAAGGAAAATTTCAATTTTTTAGGTGCT
*
1086821 TAC-AGGTCTAAACTCGAGTTATGGATATTCAAACATCCATGATAGAAGGAAAAGAGTGGTATGA
64 TACGA-GTCTAAACTCGAGTCATGGATATTCAAACATCCATGATAGAAGGAAAAGAGTGGTATGA
1086885 GCA
128 GCA
1086888 CCACGAACTC
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
148 2 0.02
149 29 0.25
150 83 0.73
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (149 bp):
TAGCAGTGTTACTACCAATAAGAAACAAGGCAAAAAAAGGAAAATTTCAATTTTTTAGGTGCTTA
CGAGTCTAAACTCGAGTCATGGATATTCAAACATCCATGATAGAAGGAAAAGAGTGGTATGAGCA
TCACAAACATCATGTCACC
Found at i:1089176 original size:20 final size:20
Alignment explanation
Indices: 1089126--1089177 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1089116 CAGTAAGGTG
* *
1089126 ATGTATCAATACATAAATGA
1 ATGTATCGATACATAAATAA
*
1089146 ATGTATCGATACATAAGTAA
1 ATGTATCGATACATAAATAA
*
1089166 ATGTATTGATAC
1 ATGTATCGATAC
1089178 TAGACAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATAAATAA
Found at i:1089270 original size:21 final size:21
Alignment explanation
Indices: 1089244--1089292 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
1089234 TGAATGTATT
1089244 GATACATATTTTCATTATATC
1 GATACATATTTTCATTATATC
1089265 GATACATATTTTCATTATATC
1 GATACATATTTTCATTATATC
1089286 GATACAT
1 GATACAT
1089293 TCTTCAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (21 bp):
GATACATATTTTCATTATATC
Found at i:1092068 original size:80 final size:79
Alignment explanation
Indices: 1091762--1092144 Score: 374
Period size: 81 Copynumber: 4.8 Consensus size: 79
1091752 AGGGGTACAT
* * ** * **
1091762 CAACCACTGTTTTTACTTCCAAAATATTGAATTTTTCACTGTTGGGGATACTGTAACCCCATCAT
1 CAACC-CTATTTTTACTTCCAAAATA-TCAATTTTTCACCATCGGGGATACTCCAACCCCATCAT
1091827 TTTCG-AAGAGATACTC
64 TTTCGAAAG-GATACTC
* * * * * * * *
1091843 CAACCCTATTTCTCCTTCCAAAAGCATCAAATTTTTCAACATCAGGGATACTTCAACTCCATTAT
1 CAACCCTATTTTTACTTCCAAAA-TATC-AATTTTTCACCATCGGGGATACTCCAACCCCATCAT
*
1091908 TTTTGAAAGGATACTC
64 TTTCGAAAGGATACTC
* * * *
1091924 TAACTCGATTTTTACTTCCAAAATATCGAA-TTTTCACCATCGAGGATACTCCAACCCCATCATT
1 CAACCCTATTTTTACTTCCAAAATATC-AATTTTTCACCATCGGGGATACTCCAACCCCATCATT
**
1091988 TTCGAGGGGATACTC
65 TTCGAAAGGATACTC
* *
1092003 CAACCCTATTTTTACTTCCAAAATATCAATTTTTTCACCATTGGGGATAATCCAACCCCATCATT
1 CAACCCTATTTTTACTTCCAAAATATCAA-TTTTTCACCATCGGGGATACTCCAACCCCATCATT
* *
1092068 TCCGAGAGGATACTC
65 TTCGAAAGGATACTC
* * * * * * *
1092083 CAACCCCATTTCTACTTCTAAAAGCATCAAATTTTTCATCATCGGAGAGACTCCAACCCCAT
1 CAACCCTATTTTTACTTCCAAAA-TATC-AATTTTTCACCATCGGGGATACTCCAACCCCAT
1092145 TTTTATTTCC
Statistics
Matches: 247, Mismatches: 48, Indels: 14
0.80 0.16 0.05
Matches are distributed among these distances:
78 2 0.01
79 64 0.26
80 85 0.34
81 91 0.37
82 5 0.02
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (79 bp):
CAACCCTATTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCCATCATTT
TCGAAAGGATACTC
Found at i:1103921 original size:79 final size:79
Alignment explanation
Indices: 1103788--1103986 Score: 193
Period size: 79 Copynumber: 2.5 Consensus size: 79
1103778 AATAACGGGG
* * * * * ** * *
1103788 TTGGAGTATACCTTTGAAAACAACGGGGTTGGTGTATCCCCGGTTGTGAAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTTAG
*
1103852 GAAATAAAATCAGGA
65 GAAATAAAACCAGGA
* *
1103867 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGG
* * * *
1103932 GAATAAAGCCGGGG
66 AAATAAAACCAGGA
* ** * *
1103946 TTGGAGTATCCCCTCGGAGGTAACAGGGTTAGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
1103987 GATGAAATAA
Statistics
Matches: 98, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 1 0.01
79 97 0.99
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTAGG
AAATAAAACCAGGA
Found at i:1104096 original size:52 final size:51
Alignment explanation
Indices: 1104021--1104385 Score: 194
Period size: 52 Copynumber: 7.0 Consensus size: 51
1104011 CCTCGGTTGT
* *
1104021 GAAAAATTGGTATTTTTAGAAATAAAATTGGAGTTGGAGTATCCCTGATTAAA
1 GAAAAATTGGTA-TTTTAGAAATAAAATCGG-GTTGGAGTATCCCCGATTAAA
* * * **
1104074 GGAAAATTGGTGTTTT-GAAAATAAAATCGGGATTTGAGTATCCCCGATT-GT
1 GAAAAATTGGTATTTTAG-AAATAAAATCGGG-TTGGAGTATCCCCGATTAAA
* *
1104125 GAAAAATTAGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCGATT-AT
1 GAAAAATTGGTATTTTAGAAATAAAATC-GGGTTGGAGTATCCCCGATTAAA
* *** * * ** *
1104176 GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACA
1 GAAAAATTGGTATTTTAGAAATAAAATC-GGGTTGGAGTAT-CCC-C-GA-TTAA-A
** ** * **
1104233 G---GGTTGGAGTATCTCCGATGAAAT--AA-CGAGGTTGGAGTATCCTCGATT-GT
1 GAAAAATT-G-GTAT-T-TTA-GAAATAAAATCG-GGTTGGAGTATCCCCGATTAAA
* * *
1104283 GAAAAATTGGTGTTTTTAGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAA
1 GAAAAATTGGT-ATTTTAGAAATAAAATC-GGGTTGGAGTATCCCCGATTAAA
* *
1104336 GGAAAATTGGTGTTTT-GAAAATAAAATCGGGGTTGGAGTATCCCCGATTA
1 GAAAAATTGGTATTTTAG-AAATAAAATC-GGGTTGGAGTATCCCCGATTA
1104386 TGAACAATTG
Statistics
Matches: 236, Mismatches: 50, Indels: 53
0.70 0.15 0.16
Matches are distributed among these distances:
49 5 0.02
50 2 0.01
51 82 0.35
52 90 0.38
53 26 0.11
54 4 0.02
55 4 0.02
56 16 0.07
57 3 0.01
59 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (51 bp):
GAAAAATTGGTATTTTAGAAATAAAATCGGGTTGGAGTATCCCCGATTAAA
Found at i:1104152 original size:51 final size:51
Alignment explanation
Indices: 1104002--1104394 Score: 199
Period size: 51 Copynumber: 7.5 Consensus size: 51
1103992 AATAACGAGG
* * * * *
1104002 TTGGAGTATCCTCGGTTGTGAAAAATTGGTATTTTTAGAAATAAAAT-TGGA
1 TTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTAGAAATAAAATCGGGA
* * * * *
1104053 GTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAATCGGGA
1 -TTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTAG-AAATAAAATCGGGA
* * *
1104106 TTTGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGGG
1 TTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGGGA
* * * * * ** *
1104157 TTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGG
1 TTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGGGA
**** * ** **
1104208 TTGGAGTATCCCCTCGGAGGTAACAGGGTTGGAGTATCTCCGATGAAAT--AA-CGAGG-
1 TTGGAGTATCCCCGATTATG-AA-A-AATT--AGTAT-T-TTA-GAAATAAAATCG-GGA
* * * * *
1104264 TTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATC-AGA
1 TTGGAGTATCCCCGATTATGAAAAATTAGT-ATTTTAGAAATAAAATCGGGA
* * * * * *
1104315 GTCGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAATCGGGG
1 -TTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTAG-AAATAAAATCGGGA
*
1104368 TTGGAGTATCCCCGATTATGAACAATT
1 TTGGAGTATCCCCGATTATGAAAAATT
1104395 GGGAAACTTA
Statistics
Matches: 253, Mismatches: 66, Indels: 45
0.70 0.18 0.12
Matches are distributed among these distances:
49 5 0.02
50 2 0.01
51 97 0.38
52 91 0.36
53 27 0.11
54 2 0.01
55 2 0.01
56 19 0.08
57 4 0.02
59 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAAATCGGGA
Found at i:1104203 original size:262 final size:262
Alignment explanation
Indices: 1103890--1104394 Score: 893
Period size: 262 Copynumber: 1.9 Consensus size: 262
1103880 TCGAAAATAA
1103890 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
*
1103955 CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGGTTG
66 CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
** * *
1104020 TGAAAAATTGGTATTTTTAGAAATAAAATTGGAGTTGGAGTATCCCTGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTATTTTTAGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
* *
1104085 GTTTTGAAAATAAAATCGGGATTTGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAA
196 GTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAA
1104150 AT
261 AT
*
1104152 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
* *
1104217 CCCCTCGGAGGTAACAGGGTTGGAGTATCTCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
*
1104282 TGAAAAATTGGTGTTTTTAGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTATTTTTAGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
* *
1104347 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTATGAACAATT
196 GTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGATTATGAAAAATT
1104395 GGGAAACTTA
Statistics
Matches: 230, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 230 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAGGTAACAGGGTTAGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
TGAAAAATTGGTATTTTTAGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
GTTTTGAAAATAAAATCGGGATTGGAGTATCCCCGATTATGAAAAATTAGTATTTTAGAAATAAA
AT
Found at i:1110019 original size:20 final size:19
Alignment explanation
Indices: 1109973--1110024 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
1109963 TTATGCTTTG
*
1109973 TATCGATACATGATCATTG
1 TATCGATACATGATCATTA
*
1109992 TTTCGATACATGCA-CAATTA
1 TATCGATACATG-ATC-ATTA
*
1110012 TATCGATATATGA
1 TATCGATACATGA
1110025 AACTGGCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
TATCGATACATGATCATTA
Found at i:1110091 original size:13 final size:13
Alignment explanation
Indices: 1110073--1110097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1110063 CATGGCATAT
1110073 TGTATCGATACAA
1 TGTATCGATACAA
1110086 TGTATCGATACA
1 TGTATCGATACA
1110098 TGACGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1110968 original size:62 final size:63
Alignment explanation
Indices: 1110854--1111045 Score: 192
Period size: 62 Copynumber: 2.9 Consensus size: 63
1110844 GAGCTTACAT
* ** *
1110854 AAACTT-TAACAAATAAAAATAAATTATACCATCAAAAACATAAACTCATATAATTATAC-TTG
1 AAACTTCT-ACAAATAAAAATAAATTATACCATTAAAAATTTAAACTCGTATAATTATACATTG
* *
1110916 AAACTTCTACAAATAAAAATAAATTATACCTTTAAAAATTTAAATTCGTATAATCATACCTAAAA
1 AAACTTCTACAAATAAAAATAAATTATACCATTAAAAATTTAAACTCGTAT-A--AT---T---A
*
1110981 TACATTT
57 TACATTG
* *
1110988 AAACTTCTACAAATAAAAGTAAATGATA-CATTAAAAATTTAAACTCGTATAATTATAC
1 AAACTTCTACAAATAAAAATAAATTATACCATTAAAAATTTAAACTCGTATAATTATAC
1111046 CAAAAAAATA
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
62 47 0.44
63 2 0.02
65 3 0.03
68 3 0.03
70 1 0.01
71 24 0.22
72 28 0.26
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.32
Consensus pattern (63 bp):
AAACTTCTACAAATAAAAATAAATTATACCATTAAAAATTTAAACTCGTATAATTATACATTG
Found at i:1111046 original size:71 final size:72
Alignment explanation
Indices: 1110916--1111051 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 72
1110906 ATTATACTTG
* * * *
1110916 AAACTTCTACAAATAAAAATAAATTATACCTTTAAAAATTTAAATTCGTATAATCATACCTAAAA
1 AAACTTCTACAAATAAAAATAAATGATACCATTAAAAATTTAAACTCGTATAATCATACCAAAAA
1110981 TACATTT
66 TACATTT
* *
1110988 AAACTTCTACAAATAAAAGTAAATGATA-CATTAAAAATTTAAACTCGTATAATTATACCAAAAA
1 AAACTTCTACAAATAAAAATAAATGATACCATTAAAAATTTAAACTCGTATAATCATACCAAAAA
1111052 AATAAATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
71 32 0.55
72 26 0.45
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (72 bp):
AAACTTCTACAAATAAAAATAAATGATACCATTAAAAATTTAAACTCGTATAATCATACCAAAAA
TACATTT
Found at i:1111211 original size:73 final size:74
Alignment explanation
Indices: 1111112--1111256 Score: 179
Period size: 73 Copynumber: 2.0 Consensus size: 74
1111102 AAAGACATAC
* * *
1111112 ACATTTAAAATTCTATAGATAAAAATAAATTATACTACTAAAAATTTAAACTTATATAATTAT-C
1 ACATTTAAACTTCTACAAATAAAAATAAATTATACTACTAAAAATTTAAACTTATATAATTATAC
*
1111176 TCAAAAAAC
66 TCAAAAAAT
* * * *
1111185 ACATTTAACCTCCTACAAATAAAAATAAATTATA-TTCTAAAAATTTAAA-TTCATATATTTATA
1 ACATTTAAACTTCTACAAATAAAAATAAATTATACTACTAAAAATTTAAACTT-ATATAATTATA
*
1111248 CCCAAAAAA
65 CTCAAAAAA
1111257 ATAACAAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
71 2 0.03
72 23 0.37
73 37 0.60
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (74 bp):
ACATTTAAACTTCTACAAATAAAAATAAATTATACTACTAAAAATTTAAACTTATATAATTATAC
TCAAAAAAT
Found at i:1111294 original size:61 final size:60
Alignment explanation
Indices: 1111199--1111320 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 60
1111189 TTAACCTCCT
* ** ** *
1111199 ACAAATAAAAATAAATTATATTCTAAAAATTTAAATTCATATATTTATACCCAAAAAAATA
1 ACAAATAAAAATAAATAATACCCTAAAAATTTAAACCCATATAATTA-ACCCAAAAAAATA
* *
1111260 ACAAATAAAGATAAATAATACCCTAAAAATTTAAACCCATATAATTAACTCAAAAAAATA
1 ACAAATAAAAATAAATAATACCCTAAAAATTTAAACCCATATAATTAACCCAAAAAAATA
1111320 A
1 A
1111321 ACTTCTATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 13 0.25
61 40 0.75
ACGTcount: A:0.59, C:0.12, G:0.01, T:0.28
Consensus pattern (60 bp):
ACAAATAAAAATAAATAATACCCTAAAAATTTAAACCCATATAATTAACCCAAAAAAATA
Found at i:1111620 original size:73 final size:73
Alignment explanation
Indices: 1111389--1111977 Score: 410
Period size: 73 Copynumber: 8.3 Consensus size: 73
1111379 AAAAAGTACT
* * * *
1111389 TTTAAACTTTTACAAATAAAAAATAAATTATATTCT-AAAAAT-TTAA---ATATAATCATACAT
1 TTTAAACTTCTACAAAT-AAAAATAAATTATA-CCTAAAAAATATAAACTCATATAATCATACCT
*
1111449 AAAAAATAAA
64 AAAAAACAAA
* * * * * * *
1111459 TTTAAACTTCTATAAATAAAGATAAATAATACCTTAAAAATTTAAATTCATATAATCA-ACTCCA
1 TTTAAACTTCTACAAATAAAAATAAATTATACCTAAAAAATATAAACTCATATAATCATAC-CTA
**
1111523 AAATGC--A
65 AAAAACAAA
*
1111530 TTTAAATTTCTACAAATAAAAAT-AATTATACCATAAAAAATATAAACTCATATAATCATACCTA
1 TTTAAACTTCTACAAATAAAAATAAATTATACC-TAAAAAATATAAACTCATATAATCATACCTA
*
1111594 AAAAACACA
65 AAAAACAAA
* * *
1111603 TTTAAACTTCTACAAATAAAAATAAATTATGTCCT-AAAAATTTAAACTCTTATAAT--TA--T-
1 TTTAAACTTCTACAAATAAAAATAAATTAT-ACCTAAAAAATATAAACTCATATAATCATACCTA
1111662 -AAAA-AAA
65 AAAAACAAA
* * * ** * * * *
1111669 --TAAACTTCTACAAATAAAGATAAATAATA-TTTTAAAATTTAAACTCGTCTAATCA-ACC-CA
1 TTTAAACTTCTACAAATAAAAATAAATTATACCTAAAAAATATAAACTCATATAATCATACCTAA
1111729 AAAACAAA
66 AAAACAAA
* * * * * *
1111737 TTTAAATTTTTATAAATAAAAATAAATTATACCATAAAAAATAAAAACTCGTATAATCATA-CTC
1 TTTAAACTTCTACAAATAAAAATAAATTATACC-TAAAAAATATAAACTCATATAATCATACCTA
* **
1111801 AAAAGCTTA
65 AAAAACAAA
* * * *
1111810 TTTAAACTTTTATAACTAAAAATAAATTATACCTTAAAAAT-T----T-A-ATAATCATACCTAA
1 TTTAAACTTCTACAAATAAAAATAAATTATACCTAAAAAATATAAACTCATATAATCATACCTAA
*
1111868 ACAACAAA
66 AAAACAAA
* * * ** * *
1111876 TTTAAACTTCTACAAATAAAAATAAATTATGTCATAAAAAATAAAAACTTGTATAATTATACCCA
1 TTTAAACTTCTACAAATAAAAATAAATTAT-ACCTAAAAAATATAAACTCATATAATCATA-CCT
*
1111941 AAAGAAATATACA
64 AAA-AAACA-A-A
*
1111954 TTTAAACTTTTACAAATAAAAATA
1 TTTAAACTTCTACAAATAAAAATA
1111978 CTTGTATAAT
Statistics
Matches: 410, Mismatches: 70, Indels: 70
0.75 0.13 0.13
Matches are distributed among these distances:
62 1 0.00
63 18 0.04
64 27 0.07
65 9 0.02
66 36 0.09
67 17 0.04
68 5 0.01
69 19 0.05
70 50 0.12
71 51 0.12
72 33 0.08
73 94 0.23
74 15 0.04
75 7 0.02
76 3 0.01
77 1 0.00
78 24 0.06
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (73 bp):
TTTAAACTTCTACAAATAAAAATAAATTATACCTAAAAAATATAAACTCATATAATCATACCTAA
AAAACAAA
Found at i:1111732 original size:64 final size:64
Alignment explanation
Indices: 1111391--1111723 Score: 174
Period size: 71 Copynumber: 4.9 Consensus size: 64
1111381 AAAGTACTTT
* * * * *
1111391 TAAACTTTTACAAATAAAAAATAAATTATATTCTAAAAATTTAAA-T-ATAATCATACATAAAAA
1 TAAACTTCTACAAAT-AAAAATAAATAATATCCTAAAAATTTAAACTCGT-ATAAT-CAT--AAA
1111454 ATAAA
61 A-AAA
* * * *
1111459 TTTAAACTTCTATAAATAAAGATAAATAATA-CCTTAAAAATTTAAATTCATATAATCAACTCCA
1 --TAAACTTCTACAAATAAAAATAAATAATATCC-TAAAAATTTAAACTCGTATAATC-A-T--A
**
1111523 AAATGCATT
59 AAA---AAA
* * * *
1111532 TAAATTTCTACAAATAAAAAT-AATTATA-CCATAAAAAATATAAACTCATATAATCATACCTAA
1 TAAACTTCTACAAATAAAAATAAATAATATCC-T-AAAAATTTAAACTCGTATAATC--A--T-A
1111595 AAAACACA
59 AAAA-A-A
* * * *
1111603 TTTAAACTTCTACAAATAAAAATAAATTATGTCCTAAAAATTTAAACTCTTATAATTATAAAAAA
1 --TAAACTTCTACAAATAAAAATAAATAATATCCTAAAAATTTAAACTCGTATAATCATAAAAAA
1111668 A
64 A
* * * *
1111669 TAAACTTCTACAAATAAAGATAAATAATAT-TTTAAAATTTAAACTCGTCTAATCA
1 TAAACTTCTACAAATAAAAATAAATAATATCCTAAAAATTTAAACTCGTATAATCA
1111724 ACCCAAAAAC
Statistics
Matches: 212, Mismatches: 35, Indels: 39
0.74 0.12 0.14
Matches are distributed among these distances:
63 20 0.09
64 27 0.13
66 1 0.00
67 1 0.00
68 6 0.03
69 27 0.13
70 28 0.13
71 46 0.22
72 5 0.02
73 42 0.20
74 7 0.03
75 2 0.01
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.32
Consensus pattern (64 bp):
TAAACTTCTACAAATAAAAATAAATAATATCCTAAAAATTTAAACTCGTATAATCATAAAAAAA
Found at i:1111985 original size:55 final size:55
Alignment explanation
Indices: 1111914--1112032 Score: 224
Period size: 55 Copynumber: 2.2 Consensus size: 55
1111904 ATGTCATAAA
1111914 AAAT-AAAA-ACTTGTATAATTATACCCAAAAGAAATATACATTTAAACTTTTAC
1 AAATAAAAATACTTGTATAATTATACCCAAAAGAAATATACATTTAAACTTTTAC
1111967 AAATAAAAATACTTGTATAATTATACCCAAAAGAAATATACATTTAAACTTTTAC
1 AAATAAAAATACTTGTATAATTATACCCAAAAGAAATATACATTTAAACTTTTAC
1112022 AAATAAAAATA
1 AAATAAAAATA
1112033 AATTATACCA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
53 4 0.06
54 4 0.06
55 56 0.88
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (55 bp):
AAATAAAAATACTTGTATAATTATACCCAAAAGAAATATACATTTAAACTTTTAC
Found at i:1112172 original size:72 final size:70
Alignment explanation
Indices: 1111977--1112196 Score: 244
Period size: 73 Copynumber: 3.0 Consensus size: 70
1111967 AAATAAAAAT
*
1111977 ACTTGTATAATTATACCCAAAAGAAATATACATTTAAACTTTTACAAATAAAAATAAATTATACC
1 ACTTGTATAATTATA-CC-AAA-AAATA-A-ATTTAAACTTTTA-TAATAAAAATAAATTATACC
*
1112042 ATAAAAAAATTAA
60 -T-AAAAATTTAA
** *
1112055 ACTCATATAATTATACTC-AAAAATACATTTAAACTTTTATAAATAAAAATAAATTATACACTAA
1 ACTTGTATAATTATAC-CAAAAAATAAATTTAAACTTTTAT-AATAAAAATAAATTATAC-CTAA
1112119 AAATTTAA
63 AAATTTAA
* * * *
1112127 ACTTGTATAATTATACCGAAAAAATAAATTTAAACTTCTATAATAAAGATAAATAATACCTTAAA
1 ACTTGTATAATTATACC-AAAAAATAAATTTAAACTTTTATAATAAAAATAAATTATACCTAAAA
1112192 ATTTA
65 ATTTA
1112197 TGTTAGGATC
Statistics
Matches: 125, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
71 11 0.09
72 39 0.31
73 52 0.42
74 1 0.01
75 5 0.04
76 2 0.02
77 1 0.01
78 14 0.11
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (70 bp):
ACTTGTATAATTATACCAAAAAATAAATTTAAACTTTTATAATAAAAATAAATTATACCTAAAAA
TTTAA
Found at i:1112389 original size:21 final size:20
Alignment explanation
Indices: 1112346--1112385 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1112336 GTCAAATATA
1112346 AATATTTTTCAAGCATTAAAT
1 AATATTTTTCAA-CATTAAAT
1112367 AATATGTTTTCAA-ATTAAA
1 AATAT-TTTTCAACATTAAA
1112386 ATAACTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (20 bp):
AATATTTTTCAACATTAAAT
Found at i:1112524 original size:13 final size:13
Alignment explanation
Indices: 1112506--1112530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1112496 ACATATTGCT
1112506 TTGTATCGATACG
1 TTGTATCGATACG
1112519 TTGTATCGATAC
1 TTGTATCGATAC
1112531 ATGATATTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACG
Found at i:1113863 original size:34 final size:35
Alignment explanation
Indices: 1113825--1113891 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1113815 CCTTACAACA
1113825 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1113859 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1113892 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1114368 original size:13 final size:13
Alignment explanation
Indices: 1114350--1114375 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1114340 ACAATTTTTG
1114350 TGTATCGATACAT
1 TGTATCGATACAT
1114363 TGTATCGATACAT
1 TGTATCGATACAT
1114376 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1114372 original size:32 final size:32
Alignment explanation
Indices: 1114331--1114393 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1114321 TACAAGCCAA
* *
1114331 TGTATCGATACA-ATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTCTGTATCGATACAT
1114363 TGTATCGATACATACTTTCTGTATCGATACA
1 TGTATCGATACATACTTTCTGTATCGATACA
1114394 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTCTGTATCGATACAT
Found at i:1114440 original size:21 final size:21
Alignment explanation
Indices: 1114414--1114489 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1114404 CTGCCAAGAA
*
1114414 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1114435 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1114455 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1114476 ATGTATCGATACAT
1 ATGTATCGATACAT
1114490 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1114460 original size:20 final size:20
Alignment explanation
Indices: 1114435--1114507 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1114425 CATCTTTTTT
1114435 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1114455 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1114476 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1114496 ATGTATCGATAC
1 ATGTATCGATAC
1114508 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1114471 original size:41 final size:41
Alignment explanation
Indices: 1114414--1114507 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1114404 CTGCCAAGAA
*
1114414 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1114455 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1114496 ATGTATCGATAC
1 ATGTATCGATAC
1114508 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1116236 original size:13 final size:13
Alignment explanation
Indices: 1116218--1116242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1116208 ACTGAAGCAA
1116218 TGTATCGATACAT
1 TGTATCGATACAT
1116231 TGTATCGATACA
1 TGTATCGATACA
1116243 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1119376 original size:34 final size:35
Alignment explanation
Indices: 1119338--1119404 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1119328 CCTTACAACA
1119338 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1119372 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1119405 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1119881 original size:13 final size:13
Alignment explanation
Indices: 1119863--1119888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1119853 ACAATTTTTG
1119863 TGTATCGATACAT
1 TGTATCGATACAT
1119876 TGTATCGATACAT
1 TGTATCGATACAT
1119889 ACTTTCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1119885 original size:32 final size:32
Alignment explanation
Indices: 1119844--1119906 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1119834 TACAAGCCAA
* *
1119844 TGTATCGATACA-ATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTCTGTATCGATACAT
1119876 TGTATCGATACATACTTTCTGTATCGATACA
1 TGTATCGATACATACTTTCTGTATCGATACA
1119907 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTCTGTATCGATACAT
Found at i:1119953 original size:21 final size:21
Alignment explanation
Indices: 1119927--1120002 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1119917 CTGCCAAGAA
*
1119927 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1119948 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1119968 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1119989 ATGTATCGATACAT
1 ATGTATCGATACAT
1120003 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1119973 original size:20 final size:20
Alignment explanation
Indices: 1119948--1120020 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1119938 CATCTTTTTT
1119948 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1119968 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1119989 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1120009 ATGTATCGATAC
1 ATGTATCGATAC
1120021 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1119984 original size:41 final size:41
Alignment explanation
Indices: 1119927--1120020 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1119917 CTGCCAAGAA
*
1119927 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1119968 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1120009 ATGTATCGATAC
1 ATGTATCGATAC
1120021 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1121102 original size:73 final size:72
Alignment explanation
Indices: 1121000--1121544 Score: 473
Period size: 73 Copynumber: 7.6 Consensus size: 72
1120990 CAAATAATAA
* * * *
1121000 ACCTAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATTTTGCTATAAAAATATAAACTCAT
1 ACCTAAAAAAT-AATTTAAACTTTTACAAATAAAAATAAATTATACTATAAAAATTTAAACTCGT
1121065 ATAATCAT
65 ATAATCAT
* * * *
1121073 ACCTAAAAAATACATTTAAACTTTTACAAATAAAAATAAATTTTGCTATAAAAATATAAACTCAT
1 ACCTAAAAAATA-ATTTAAACTTTTACAAATAAAAATAAATTATACTATAAAAATTTAAACTCGT
1121138 ATAATCAT
65 ATAATCAT
* * *
1121146 ACCTAAAAAATACATCTAAACTTTTACAAATAAAAATAAATTATACCAT--AAATTTAAACTTGT
1 ACCTAAAAAATA-ATTTAAACTTTTACAAATAAAAATAAATTATACTATAAAAATTTAAACTCGT
*
1121209 ATAATTAT
65 ATAATCAT
* * * * * * * **
1121217 ACCCAAAAAATAATTTAAACTTCTATAAATAAAGATACATAACACCCTAAAAATTTAAACTCGTA
1 ACCTAAAAAATAATTTAAACTTTTACAAATAAAAATAAATTATACTATAAAAATTTAAACTCGTA
* *
1121282 TAATTAA
66 TAATCAT
* * * *
1121289 ACC-AAAACCAA-AATTT--TCTTCTACAAATAAAAATAAATTATACTTTCAAAAA-TTATAGCT
1 ACCTAAAA--AATAATTTAAACTTTTACAAATAAAAATAAATTATACTAT-AAAAATTTA-AACT
*
1121349 CGTATAATTAT
62 CGTATAATCAT
* * *
1121360 ATCTAAAAAGTATATTTAAACTTTTACAAATCAAAATAAATTATACCT-TAAAAATTTAAACTCG
1 ACCTAAAAAATA-ATTTAAACTTTTACAAATAAAAATAAATTATA-CTATAAAAATTTAAACTCG
* *
1121424 CATAA-CTT
64 TATAATCAT
* * * ** ** * *
1121432 A-ATAAAAAATAAATTTAAACTTTTATAAACAAAAATAAATTATACCCTTTAATTTTAAACTTGT
1 ACCTAAAAAAT-AATTTAAACTTTTACAAATAAAAATAAATTATACTATAAAAATTTAAACTCGT
*
1121496 ATAATTAT
65 ATAATCAT
* * * * *
1121504 ATTCT-ATAAATAAATTTAAACATCTATAAATAAAAATAAAT
1 A-CCTAAAAAAT-AATTTAAACTTTTACAAATAAAAATAAAT
1121545 CATGCATTAA
Statistics
Matches: 397, Mismatches: 56, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
70 55 0.14
71 106 0.27
72 42 0.11
73 164 0.41
74 28 0.07
75 2 0.01
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (72 bp):
ACCTAAAAAATAATTTAAACTTTTACAAATAAAAATAAATTATACTATAAAAATTTAAACTCGTA
TAATCAT
Found at i:1121441 original size:214 final size:213
Alignment explanation
Indices: 1121097--1121502 Score: 505
Period size: 214 Copynumber: 1.9 Consensus size: 213
1121087 TTTAAACTTT
* *
1121097 TACAAATAAAAATAAATTTTGCTATAAAAATATAAACTCATATAATCATACCTAAAAAATACATC
1 TACAAATAAAAATAAATTATACTATAAAAATATAAACTCATATAATCATACCTAAAAAATACATC
* * *
1121162 TAAACTTTTACAAATAAAAATAAATTATACCATAAATTTAAACTTGTATAATTATACCCAAAAAA
66 TAAACTTTTACAAATAAAAATAAATTATACCAAAAATTTAAACTCGCATAATTATA-CCAAAAAA
* * *
1121227 T-AATTTAAACTTCTATAAATAAAGATACATAACACCCTAAAAATTTAAACTCGTATAATTAAAC
130 TAAATTTAAACTTCTATAAACAAAAATAAATAACACCCTAAAAATTTAAACTCGTATAATTAAAC
1121291 CAAAACCAAAATTTTCTTC
195 CAAAACCAAAATTTTCTTC
* * * * * * *
1121310 TACAAATAAAAATAAATTATACTTTCAAAAAT-TATAGCTCGTATAATTATATCTAAAAAGTATA
1 TACAAATAAAAATAAATTATACTAT-AAAAATATA-AACTCATATAATCATACCTAAAAAATACA
* * *
1121374 TTTAAACTTTTACAAATCAAAATAAATTATACCTTAAAAATTTAAACTCGCATAACTTA-A-TAA
64 TCTAAACTTTTACAAATAAAAATAAATTATACC--AAAAATTTAAACTCGCATAA-TTATACCAA
* * * ** * *
1121437 AAAATAAATTTAAACTTTTATAAACAAAAATAAATTATACCCTTTAATTTTAAACTTGTATAATT
126 AAAATAAATTTAAACTTCTATAAACAAAAATAAATAACACCCTAAAAATTTAAACTCGTATAATT
1121502 A
191 A
1121503 TATTCTATAA
Statistics
Matches: 162, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
213 24 0.15
214 67 0.41
215 50 0.31
216 18 0.11
217 3 0.02
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.33
Consensus pattern (213 bp):
TACAAATAAAAATAAATTATACTATAAAAATATAAACTCATATAATCATACCTAAAAAATACATC
TAAACTTTTACAAATAAAAATAAATTATACCAAAAATTTAAACTCGCATAATTATACCAAAAAAT
AAATTTAAACTTCTATAAACAAAAATAAATAACACCCTAAAAATTTAAACTCGTATAATTAAACC
AAAACCAAAATTTTCTTC
Found at i:1121498 original size:144 final size:142
Alignment explanation
Indices: 1121003--1121544 Score: 492
Period size: 144 Copynumber: 3.8 Consensus size: 142
1120993 ATAATAAACC
** * *
1121003 TAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATT-TTGCTATAAAAATATAAACTCATAT
1 TAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATTATACCTAT--AAATTTAAACTCGTAT
* * ** *
1121067 AATCATACCTAAAAAATACATTTAAACTTTTACAAATAAAAATAAATT-TTGCTATAAAAATATA
64 AATTATACCTAAAAAATA-ATTTAAACTTCTACAAATAAAAATAAATTATACCT-TAAAAATTTA
* * *
1121131 AACTCATATAATCATACC
127 AACTCGTATAA-CTTA-A
* * *
1121149 TAAAAAATACATCTAAACTTTTACAAATAAAAATAAATTATACC-ATAAATTTAAACTTGTATAA
1 TAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATTATACCTATAAATTTAAACTCGTATAA
* * * * * * *
1121213 TTATACCCAAAAAATAATTTAAACTTCTATAAATAAAGATACATAACACCCTAAAAATTTAAACT
66 TTATACCTAAAAAATAATTTAAACTTCTACAAATAAAAATAAATTATACCTTAAAAATTTAAACT
1121278 CGTATAA-TTAA
131 CGTATAACTTAA
* * * * *
1121289 -ACCAAAACCA-AAATTT--TCTTCTACAAATAAAAATAAATTATA-CTTTCAAAAATTATAGCT
1 TA--AAAA--ATAAATTTAAACTTTTACAAATAAAAATAAATTATACCTAT--AAATTTA-AACT
* * * *
1121349 CGTATAATTATATCTAAAAAGTATATTTAAACTTTTACAAATCAAAATAAATTATACCTTAAAAA
59 CGTATAATTATACCTAAAAAATA-ATTTAAACTTCTACAAATAAAAATAAATTATACCTTAAAAA
*
1121414 TTTAAACTCGCATAACTTAA
123 TTTAAACTCGTATAACTTAA
* * * * *
1121434 TAAAAAATAAATTTAAACTTTTATAAACAAAAATAAATTATACCCTTTAATTTTAAACTTGTATA
1 TAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATTATA-CCTATAAATTTAAACTCGTATA
* * * *
1121499 ATTATATTCT-ATAAATAAATTTAAACATCTATAAATAAAAATAAAT
65 ATTATA-CCTAAAAAAT-AATTTAAACTTCTACAAATAAAAATAAAT
1121545 CATGCATTAA
Statistics
Matches: 320, Mismatches: 56, Indels: 42
0.77 0.13 0.10
Matches are distributed among these distances:
139 2 0.01
140 25 0.08
141 6 0.02
142 11 0.03
143 72 0.22
144 123 0.38
145 35 0.11
146 40 0.12
147 6 0.02
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (142 bp):
TAAAAAATAAATTTAAACTTTTACAAATAAAAATAAATTATACCTATAAATTTAAACTCGTATAA
TTATACCTAAAAAATAATTTAAACTTCTACAAATAAAAATAAATTATACCTTAAAAATTTAAACT
CGTATAACTTAA
Found at i:1121543 original size:20 final size:20
Alignment explanation
Indices: 1121506--1121543 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1121496 ATAATTATAT
**
1121506 TCTATAAATAAATTTAAACA
1 TCTATAAATAAAAATAAACA
1121526 TCTATAAATAAAAATAAA
1 TCTATAAATAAAAATAAA
1121544 TCATGCATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
TCTATAAATAAAAATAAACA
Found at i:1121948 original size:10 final size:10
Alignment explanation
Indices: 1121918--1121966 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
1121908 TATTTGATTT
1121918 TTTAATATAAA
1 TTTAAT-TAAA
*
1121929 TTT-TTTAAA
1 TTTAATTAAA
1121938 TTTAATTAAA
1 TTTAATTAAA
1121948 TTTAA-T-AA
1 TTTAATTAAA
1121956 TTTCAATTAAA
1 TTT-AATTAAA
1121967 AAATTATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 5 0.16
9 10 0.31
10 12 0.38
11 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
TTTAATTAAA
Found at i:1122163 original size:28 final size:29
Alignment explanation
Indices: 1122119--1122181 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
1122109 TAACAAAACC
1122119 TAACTTGTGTACAAAAAAAAA-ATTGTTG
1 TAACTTGTGTACAAAAAAAAATATTGTTG
* *
1122147 TAACTTAG-GTACCAAAAAAAATTTTGTTG
1 TAACTT-GTGTACAAAAAAAAATATTGTTG
*
1122176 CAACTT
1 TAACTT
1122182 TTATATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (29 bp):
TAACTTGTGTACAAAAAAAAATATTGTTG
Found at i:1122190 original size:2 final size:2
Alignment explanation
Indices: 1122183--1122216 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1122173 TTGCAACTTT
1122183 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
1122217 AAAGCTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1133244 original size:170 final size:171
Alignment explanation
Indices: 1132827--1133325 Score: 788
Period size: 171 Copynumber: 2.9 Consensus size: 171
1132817 AAACAAAATC
* * * * *
1132827 TTTTAAAACCTCTAAAATATTTAACCTATATTTAATAAATTAAATGAAAAAAAAAGAGATCGAAG
1 TTTTAAAACCTCTAAAAAATTTAACTTATTTTTAATAAATAAAATG-AAAAAAAAGAGATCCAAG
* * *
1132892 AAAAGCCAAAAATAAGAGTTTCTTCTTCTCTATTTTAAAAGTACATTAGTTTTTACACAGTTTTT
65 AAAAGCTAGAAATAAGAGTTTCTTCTTCTCTATTTTAAAAGTACATTAGTTTTTACACAATTTTT
1132957 ATTTTCGATTAAAAAATATTCTCATTCATTAAAATGTAATTT
130 ATTTTCGATTAAAAAATATTCTCATTCATTAAAATGTAATTT
* * *
1132999 TTTTAAAACCTCTAAAAAATTTAACTTAATTTTAATAAATAAAATGAAGAAAAAGAGATTCAAGA
1 TTTTAAAACCTCTAAAAAATTTAACTTATTTTTAATAAATAAAATGAAAAAAAAGAGATCCAAGA
*
1133064 AAAGCTAGAAATAAGAGTTTCTTCTTCTCTATTTTAAAAGAACATTAGTTTTTACACAATTTTTA
66 AAAGCTAGAAATAAGAGTTTCTTCTTCTCTATTTTAAAAGTACATTAGTTTTTACACAATTTTTA
*
1133129 CTTTCGATTAAAAAATATT-TGCATTCATT-AAATGTAATTT
131 TTTTCGATTAAAAAATATTCT-CATTCATTAAAATGTAATTT
*
1133169 TTTTAAAACTTCTAAAAAATTTAACTTATTTTTAATAAATAAAATGAAAAAAAAGAGATCCAAGA
1 TTTTAAAACCTCTAAAAAATTTAACTTATTTTTAATAAATAAAATGAAAAAAAAGAGATCCAAGA
* *
1133234 AAAACTAGAAATAAGAGTTTCTTCTTTTCTATTTTAAAAGTACATTAGTTTTTTACACAATTTTT
66 AAAGCTAGAAATAAGAGTTTCTTCTTCTCTATTTTAAAAGTACATTAG-TTTTTACACAATTTTT
*
1133299 ATTTTC-ATTTAAAAAATGTTCTCATTC
130 ATTTTCGA-TTAAAAAATATTCTCATTC
1133326 TCATTCATTA
Statistics
Matches: 301, Mismatches: 22, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
170 119 0.40
171 140 0.47
172 42 0.14
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.39
Consensus pattern (171 bp):
TTTTAAAACCTCTAAAAAATTTAACTTATTTTTAATAAATAAAATGAAAAAAAAGAGATCCAAGA
AAAGCTAGAAATAAGAGTTTCTTCTTCTCTATTTTAAAAGTACATTAGTTTTTACACAATTTTTA
TTTTCGATTAAAAAATATTCTCATTCATTAAAATGTAATTT
Found at i:1135557 original size:15 final size:15
Alignment explanation
Indices: 1135539--1135573 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1135529 AAAGTATGAT
*
1135539 TTTTATTTAATTTAA
1 TTTTATTAAATTTAA
*
1135554 TTTTATTAAATTTAT
1 TTTTATTAAATTTAA
1135569 TTTTA
1 TTTTA
1135574 CATGTAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATTAAATTTAA
Found at i:1135864 original size:24 final size:24
Alignment explanation
Indices: 1135811--1135871 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
1135801 GTAATTTAAA
* *
1135811 AATTTTA-AAAATCTAATTTATTTT
1 AATTTTATAAAAT-TAATGTAATTT
*
1135835 TA-TTTATAAAATTAATGTAATTT
1 AATTTTATAAAATTAATGTAATTT
*
1135858 AATTTTATGAAATT
1 AATTTTATAAAATT
1135872 TATTTTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (24 bp):
AATTTTATAAAATTAATGTAATTT
Found at i:1136968 original size:24 final size:21
Alignment explanation
Indices: 1136916--1136968 Score: 52
Period size: 24 Copynumber: 2.4 Consensus size: 21
1136906 ATATATTTTT
*
1136916 TTAATTTTTATTATTTCTTTA
1 TTAATTTTTATTATTTATTTA
**
1136937 TTCTTTTTTAGTTAAATTTATTTA
1 TTAATTTTTA-TT--ATTTATTTA
1136961 TTAATTTT
1 TTAATTTT
1136969 ATCCAATAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 8 0.33
22 2 0.08
24 14 0.58
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TTAATTTTTATTATTTATTTA
Found at i:1139809 original size:3 final size:3
Alignment explanation
Indices: 1139794--1139828 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1139784 AACTGTCAAA
* *
1139794 GAT GAT GAA GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1139829 GGTTGACTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1144321 original size:20 final size:21
Alignment explanation
Indices: 1144296--1144334 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1144286 ATTTTTCAGA
1144296 ATGTATCGATACAT-TGAATG
1 ATGTATCGATACATCTGAATG
1144316 ATGTATCGATACATCTGAA
1 ATGTATCGATACATCTGAA
1144335 AAACTCAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATCTGAATG
Found at i:1148934 original size:20 final size:20
Alignment explanation
Indices: 1148905--1148981 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1148895 GTAAAAAGAC
1148905 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
1148925 AGAATATATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
1148945 TA-AATGTATCGATATATTGA
1 -AGAATGTATCGATACATTGA
*
1148965 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1148982 CTGGGGAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1149638 original size:28 final size:27
Alignment explanation
Indices: 1149566--1150709 Score: 1089
Period size: 28 Copynumber: 39.9 Consensus size: 27
1149556 AAAAAAGTTA
* *
1149566 CCACTGGCTTGTGGGGTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GTG
*
1149595 TCACTGACTTGTGGGCTTTGGAAAGGTG
1 CCACTGACTTGTGGGCTTT-GAAAGGTG
*
1149623 CCACTGACTTGCGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGG-TG
* *
1149651 CCACTAACTTGTGGGCTTTGAAAAAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGTG
** *
1149679 CCACTGACTCATGGGC-TTGAAAAAGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGTG
* *
1149706 CCACTAACTTGTGGGC-TTGAAAAGATG
1 CCACTGACTTGTGGGCTTTG-AAAGGTG
**
1149733 CCACTGACTCATGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAA-GGTG
* **
1149761 CCATTGACTCATGGGCTTTGAAAGGAGTG
1 CCACTGACTTGTGGGCTTTGAAA-G-GTG
*
1149790 CCACTAACTTGCGTGGGCTTTGAAAAGAGTG
1 CCACTGACTT--GTGGGCTTTG-AAAG-GTG
* * *
1149821 CCACTAACTTGCGTGCGCTTTAAAAGGGTG
1 CCACTGACTT--GTGGGCTTTGAAA-GGTG
1149851 CCACTGACTTGCGTGGGCTTTGAAAAGAGTG
1 CCACTGACTT--GTGGGCTTTG-AAAG-GTG
* ** *
1149882 CCACTAACTTGCGTGCACTTTAAAAGGGTG
1 CCACTGACTT--GTGGGCTTTGAAA-GGTG
*
1149912 TCACTGACTTGCATGGGCTTTGAAAGGATG
1 CCACTGACTTG--TGGGCTTTGAAAGG-TG
1149942 CCACTGACTTGTGGGCTTTGAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAG-GTG
* *
1149970 CCACTGACTCGTGAGC-TTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGTG
*
1149997 CCACTGACTTGCGTGGGCTTTAAAAGGGTG
1 CCACTGACTT--GTGGGCTTTGAAA-GGTG
1150027 CCACTGACTTGCATGGGCTTT-AAATGGGTG
1 CCACTGACTTG--TGGGCTTTGAAA--GGTG
*
1150057 CCATTGACTTGCGTGGGCTTTGAAAGGATG
1 CCACTGACTT--GTGGGCTTTGAAAGG-TG
*
1150087 CCATTGACTTGTGGGCTTTGAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAG-GTG
*
1150115 CCACTGACTCGTGGGCTTTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGTG
*
1150143 CCACTGACTCGTGGGC-TTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAA-GGTG
1150170 CCACTGACTTGTGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GTG
* *
1150199 CCACCGACTTGTGGGCTTTGAAATAAGTTG
1 CCACTGACTTGTGGGCTTTG--A-AAGGTG
1150229 CCA-TCGACTTGTGTAGGCTTTGAAAGGAGTG
1 CCACT-GACTTGTG--GGCTTTGAAA-G-GTG
*
1150260 CCACTAACTTGTGTGGGCTTTGAAAGAGTG
1 CCACTGAC-T-TGTGGGCTTTGAAAG-GTG
* *
1150290 CCACTAACTCGTGGGC-TTGAAAAGGTG
1 CCACTGACTTGTGGGCTTTG-AAAGGTG
*
1150317 CTACTGACTTGTGAGG-TTTGAAAGAGTG
1 CCACTGACTTGTG-GGCTTTGAAAG-GTG
*
1150345 CCACTGACTTGTGGGCTTTGAAAGGGTA
1 CCACTGACTTGTGGGCTTTGAAA-GGTG
*
1150373 CCACTAACTTGTGGGCTTTGAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAG-GTG
* *
1150401 CCACTAACTTATGGGCTTTGAAAGCGTG
1 CCACTGACTTGTGGGCTTTGAAAG-GTG
*
1150429 CCACTAACTTGTGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GTG
* *
1150458 CCACTAACTTGTGGGCTTTGAAAGGGTA
1 CCACTGACTTGTGGGCTTTGAAA-GGTG
*
1150486 CCACTAACTTGTGGGCTTTGAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAG-GTG
* * *
1150514 CCACTAACTTATGGGCTTTGAGAGGGTG
1 CCACTGACTTGTGGGCTTTGA-AAGGTG
*
1150542 CCACTAACTTGTGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GTG
*
1150571 CCACTAACTTGTGGGCTTTGAAAAGTGTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GTG
1150600 CCACTGACTTGTGGGCTTTGAAAGAGTG
1 CCACTGACTTGTGGGCTTTGAAAG-GTG
1150628 CCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAA-GGTG
**
1150656 CCACTGACTCATGGGCTTTGAAAAGAGTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GTG
1150685 CCACTGACTTGTGGGCTTTGAAAGG
1 CCACTGACTTGTGGGCTTTGAAAGG
1150710 GATGAACATT
Statistics
Matches: 975, Mismatches: 79, Indels: 124
0.83 0.07 0.11
Matches are distributed among these distances:
26 3 0.00
27 117 0.12
28 415 0.43
29 190 0.19
30 150 0.15
31 83 0.09
32 13 0.01
33 4 0.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
CCACTGACTTGTGGGCTTTGAAAGGTG
Found at i:1150710 original size:57 final size:57
Alignment explanation
Indices: 1149499--1150710 Score: 1289
Period size: 56 Copynumber: 21.0 Consensus size: 57
1149489 TTAAAAAAAT
* * * * *
1149499 GTGCCACTAACTTGTGTAGGCTTTGAAAAAAGTTGCCACCGACACTTGTGGACTTTGAAAAAAG
1 GTGCCACTGACTTGTG--GGCTTTGAAAAGAG-TGCCACTG--ACTTGTGGGCTTTG--AAAGG
* * * * *
1149563 TTACCACTGGCTTGTGGGGTTTGAAAAGAGTGTCACTGACTTGTGGGCTTTGGAAA-G
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-GAAAGG
* * * **
1149620 GTGCCACTGACTTGCGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
** * *
1149676 GTGCCACTGACTCATGGGC-TTGAAAA-AGTGCCACTAACTTGTGGGC-TTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* ** * * **
1149730 ATGCCACTGACTCATGGGCTTTG-AAAGGGTGCCATTGACTCATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
1149786 AGTGCCACTAACTTGCGTGGGCTTTGAAAAGAGTGCCACTAACTTGCGTGCGCTTTAAAAGG
1 -GTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGG
* ** *
1149848 GTGCCACTGACTTGCGTGGGCTTTGAAAAGAGTGCCACTAACTTGCGTGCACTTTAAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * *
1149909 GTGTCACTGACTTGCATGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
1149967 GTGCCACTGACTCGTGAGC-TTGAAAAG-GTGCCACTGACTTGCGTGGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * *
1150024 GTGCCACTGACTTGCATGGGCTTT-AAATGGGTGCCATTGACTTGCGTGGGCTTTGAAAGG
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGG
* * * *
1150084 ATGCCATTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
1150140 GTGCCACTGACTCGTGGGC-TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
*
1150196 GTGCCACCGACTTGTGGGCTTTGAAATA-AGTTGCCA-TCGACTTGTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-AGAG-TGCCACT-GACTTGTG--GGCTTTGAAAGG
* * * *
1150256 AGTGCCACTAACTTGTGTGGGCTTTG-AAAGAGTGCCACTAACTCGTGGGC-TTGAAAAG
1 -GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
1150314 GTGCTACTGACTTGTGAGG-TTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTG-GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
1150370 GTACCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTAACTTATGGGCTTTGAAAGC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1150426 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
1150483 GTACCACTAACTTGTGGGCTTTG-AAAGAGTGCCACTAACTTATGGGCTTTGAGAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
1150539 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
1150597 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
**
1150653 GTGCCACTGACTCATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1150710 G
1 G
1150711 ATGAACATTC
Statistics
Matches: 996, Mismatches: 110, Indels: 91
0.83 0.09 0.08
Matches are distributed among these distances:
54 29 0.03
55 126 0.13
56 253 0.25
57 213 0.21
58 84 0.08
59 47 0.05
60 72 0.07
61 119 0.12
62 30 0.03
63 11 0.01
64 12 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (57 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:1151961 original size:9 final size:9
Alignment explanation
Indices: 1151949--1152000 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
1151939 TTTGTCTTAG
1151949 TTTTTTGTT
1 TTTTTTGTT
1151958 TTTTTTGGTT
1 TTTTTT-GTT
1151968 TTATTTT-TT
1 TT-TTTTGTT
* *
1151977 TTGTTT-TA
1 TTTTTTGTT
1151985 TTTTTTGTT
1 TTTTTTGTT
1151994 TTTTTTG
1 TTTTTTG
1152001 GGTGTAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 9 0.25
9 18 0.50
10 5 0.14
11 4 0.11
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:1151997 original size:14 final size:14
Alignment explanation
Indices: 1151951--1151990 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
1151941 TGTCTTAGTT
*
1151951 TTTTGTTTTTTTTGG
1 TTTTATTTTTTTT-G
1151966 TTTTATTTTTTTTG
1 TTTTATTTTTTTTG
1151980 TTTTATTTTTT
1 TTTTATTTTTT
1151991 GTTTTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (14 bp):
TTTTATTTTTTTTG
Found at i:1153762 original size:34 final size:35
Alignment explanation
Indices: 1153724--1153790 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1153714 CCTTACAACA
1153724 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1153758 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1153791 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1154287 original size:13 final size:13
Alignment explanation
Indices: 1154269--1154294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1154259 CTATTTATGA
1154269 TGTATCGATACAC
1 TGTATCGATACAC
1154282 TGTATCGATACAC
1 TGTATCGATACAC
1154295 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1154391 original size:22 final size:22
Alignment explanation
Indices: 1154364--1154419 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
1154354 GTGAACAGTG
1154364 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
1154386 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
1154408 TGAACAGTGATG
1 TGAACAGTGATG
1154420 AATAGTGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:1154426 original size:10 final size:10
Alignment explanation
Indices: 1154407--1154437 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1154397 GTATCGATAC
1154407 ATGAACAGTG
1 ATGAACAGTG
*
1154417 ATGAATAGTG
1 ATGAACAGTG
1154427 ATGAACAGTG
1 ATGAACAGTG
1154437 A
1 A
1154438 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:1154577 original size:20 final size:20
Alignment explanation
Indices: 1154514--1154584 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1154504 GCCAATGACC
**
1154514 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1154534 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1154554 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1154574 TGTATCGATAC
1 TGTATCGATAC
1154585 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1154650 original size:21 final size:21
Alignment explanation
Indices: 1154624--1154664 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1154614 GTCAACCTTG
1154624 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1154645 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1154665 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1163026 original size:19 final size:19
Alignment explanation
Indices: 1163002--1163041 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1162992 AAATAATGGG
*
1163002 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
1163021 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
1163040 AA
1 AA
1163042 AGTGGCCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:1167348 original size:20 final size:19
Alignment explanation
Indices: 1167279--1167352 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
1167269 GTAAAAAGAC
* * *
1167279 AAAATGTATCGAGACATTA
1 AAAATATATCGATAAATTA
1167298 AAGAATATATCGATAAATTCA
1 AA-AATATATCGATAAATT-A
* * * *
1167319 TACATGTATCGATATATTGA
1 AAAATATATCGATAAATT-A
1167339 AAAATATATCGATA
1 AAAATATATCGATA
1167353 CATCTGGGTA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
19 2 0.05
20 38 0.90
21 2 0.05
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (19 bp):
AAAATATATCGATAAATTA
Found at i:1168831 original size:19 final size:19
Alignment explanation
Indices: 1168788--1168840 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1168778 CATATCCAGA
* *
1168788 TGTATCGATACATCATACTT
1 TGTATCGATACAT-GTACCT
*
1168808 TGTATCGATACATGTTCCT
1 TGTATCGATACATGTACCT
*
1168827 TGTATCAATACATG
1 TGTATCGATACATG
1168841 AAAGTGGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTACCT
Found at i:1173306 original size:33 final size:33
Alignment explanation
Indices: 1173269--1173335 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1173259 TTCAACGATT
1173269 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1173302 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1173335 T
1 T
1173336 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1173307 original size:13 final size:13
Alignment explanation
Indices: 1173289--1173313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173279 CATAAAATGT
1173289 TGTATCGATACAA
1 TGTATCGATACAA
1173302 TGTATCGATACA
1 TGTATCGATACA
1173314 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1173396 original size:13 final size:13
Alignment explanation
Indices: 1173378--1173402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173368 ATTACTCACA
1173378 TGTATCGATACAT
1 TGTATCGATACAT
1173391 TGTATCGATACA
1 TGTATCGATACA
1173403 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1173467 original size:52 final size:52
Alignment explanation
Indices: 1173411--1173531 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1173401 CACTGATCTT
*
1173411 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1173463 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1173515 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1173532 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1177275 original size:27 final size:27
Alignment explanation
Indices: 1177237--1177307 Score: 142
Period size: 27 Copynumber: 2.6 Consensus size: 27
1177227 GATTGAAAAC
1177237 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1177264 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1177291 GGGGTTGGAGTGTCCCC
1 GGGGTTGGAGTGTCCCC
1177308 GATGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.13, C:0.20, G:0.45, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTGTCCCCTCGGAGGAAT
Found at i:1178577 original size:20 final size:21
Alignment explanation
Indices: 1178545--1178591 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1178535 GGAGGTGTTG
1178545 AACATGCTGC-AAATGCATGA
1 AACATGCTGCAAAATGCATGA
1178565 AACATAGCT-CAAAATGCATGA
1 AACAT-GCTGCAAAATGCATGA
*
1178586 ATCATG
1 AACATG
1178592 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (21 bp):
AACATGCTGCAAAATGCATGA
Found at i:1179590 original size:52 final size:52
Alignment explanation
Indices: 1179442--1179570 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1179432 CGAAATATGA
1179442 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1179494 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1179546 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1179571 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1179597 original size:13 final size:13
Alignment explanation
Indices: 1179579--1179603 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1179569 CAAAGATCAG
1179579 TGTATCGATACAA
1 TGTATCGATACAA
1179592 TGTATCGATACA
1 TGTATCGATACA
1179604 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1179673 original size:19 final size:18
Alignment explanation
Indices: 1179649--1179746 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1179639 TAGCTTACAT
1179649 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1179668 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1179681 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1179700 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1179713 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1179733 TGTATCGATACAAA
1 TGTATCGATACAAA
1179747 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1179685 original size:32 final size:32
Alignment explanation
Indices: 1179644--1179744 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
1179634 TGCAGTAGCT
*
1179644 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1179676 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1179708 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1179741 TACA
1 TACA
1179745 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1179686 original size:13 final size:13
Alignment explanation
Indices: 1179668--1179724 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1179658 ACAAAACTTA
1179668 TGTATCGATACAT
1 TGTATCGATACAT
1179681 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1179699 ATGTATCGATACAT
1 -TGTATCGATACAT
1179713 TGTATCGATACA
1 TGTATCGATACA
1179725 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1183796 original size:52 final size:52
Alignment explanation
Indices: 1183718--1183866 Score: 257
Period size: 52 Copynumber: 2.9 Consensus size: 52
1183708 CGAAATATGA
1183718 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
1183770 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1183822 AAATTTGCCTGCATGTATCGATACATTTGAA-A-TGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTT-AATAGTGTATCGATACAT
1183867 TTTTTGGCAG
Statistics
Matches: 93, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
51 13 0.14
52 79 0.85
53 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1183924 original size:13 final size:13
Alignment explanation
Indices: 1183906--1183963 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
1183896 ACAAAACTTA
1183906 TGTATCGATACAT
1 TGTATCGATACAT
1183919 TGTATCGATACAACACTTT
1 TGTATCGAT---ACA---T
1183938 ATGTATCGATACAT
1 -TGTATCGATACAT
1183952 TGTATCGATACA
1 TGTATCGATACA
1183964 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1183944 original size:20 final size:20
Alignment explanation
Indices: 1183919--1183984 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1183909 ATCGATACAT
1183919 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
1183939 TGTATCGAT---ACA---T-
1 TGTATCGATACAACACTTTA
1183952 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
1183972 TGTATCGATACAA
1 TGTATCGATACAA
1183985 ATCGTTGAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 3 0.08
17 3 0.08
19 1 0.03
20 22 0.56
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:1183945 original size:33 final size:33
Alignment explanation
Indices: 1183885--1183983 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
1183875 AGTAGCTTAT
*
1183885 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
1183917 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
1183950 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
1183983 A
1 A
1183984 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 17 0.26
33 48 0.74
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACACTTTATGTATCGATAC
Found at i:1184480 original size:61 final size:61
Alignment explanation
Indices: 1184402--1184649 Score: 192
Period size: 61 Copynumber: 4.2 Consensus size: 61
1184392 CGACATTGGA
* * *
1184402 CTTAAAGATGCGGAGAATGATAAAGGTGCCAATATGCTGATTCACAA-CTAGCGATATCGGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCA-AAGCCAGCGATATCGGG
* * * *
1184463 CTTGAAGATGAGAAGAATGATAAAGGTGCCAATGTGTTGATTCAAAGCCAGCGATATTGGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATCGGG
* * * * * ** *
1184524 C-T-----T-A-AAG-ATGACAAAGGTACCAATGTGCTGATTCAAAGCCAACAATATTAGA
1 CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATCGGG
* * * * * * **
1184576 CTTGAAGATAAGAAGAATGATAAAGGTGCTGATATATGCTAATTCAAAGCTACCGATATTAGG
1 CTTAAAGATGAGAAGAATGATAAAGGTGC-CA-ATATGCTGATTCAAAGCCAGCGATATCGGG
1184639 CTTAAAGATGA
1 CTTAAAGATGA
1184650 CAAAGGTGCA
Statistics
Matches: 150, Mismatches: 25, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
52 39 0.26
53 4 0.03
54 1 0.01
55 1 0.01
58 1 0.01
59 1 0.01
60 6 0.04
61 63 0.42
62 1 0.01
63 33 0.22
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (61 bp):
CTTAAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAGCGATATCGGG
Found at i:1184584 original size:52 final size:52
Alignment explanation
Indices: 1184474--1184584 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 52
1184464 TTGAAGATGA
* * * * * * *
1184474 GAAGAATGATAAAGGTGCCAATGTGTTGATTCAAAGCCAGCGATATTGGGCTT
1 GAAG-ATGACAAAGGTACCAATGTGCTGATTCAAAGCCAACAATATTAGACTT
*
1184527 AAAGATGACAAAGGTACCAATGTGCTGATTCAAAGCCAACAATATTAGACTT
1 GAAGATGACAAAGGTACCAATGTGCTGATTCAAAGCCAACAATATTAGACTT
1184579 GAAGAT
1 GAAGAT
1184585 AAGAAGAATG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 46 0.94
53 3 0.06
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (52 bp):
GAAGATGACAAAGGTACCAATGTGCTGATTCAAAGCCAACAATATTAGACTT
Found at i:1184664 original size:115 final size:113
Alignment explanation
Indices: 1184463--1184740 Score: 362
Period size: 115 Copynumber: 2.4 Consensus size: 113
1184453 CGATATCGGG
* * * * *
1184463 CTTGAAGATGAGAAGAATGATAAAGGTGCCA-ATGTGTTGATTCAAAGCCAGCGATATTGGGCTT
1 CTTGAAGATGAGAAGAATGATAAAGGTGCGATATATG-TAATTCAAAGCCACCGATATTAGGCTT
*
1184527 AAAGATGACAAAGGTACCAATGTGCTGATTCAAAGCCAACAATATTAGA
65 AAAGATGACAAAGGTACAAATGTGCTGATTCAAAGCCAACAATATTAGA
* *
1184576 CTTGAAGATAAGAAGAATGATAAAGGTGCTGATATATGCTAATTCAAAGCTACCGATATTAGGCT
1 CTTGAAGATGAGAAGAATGATAAAGGTGC-GATATATG-TAATTCAAAGCCACCGATATTAGGCT
* * * * * * *
1184641 TAAAGATGACAAAGGTGCAAATGTGTTGATTCTAGGCCAGCGATGTTAGA
64 TAAAGATGACAAAGGTACAAATGTGCTGATTCAAAGCCAACAATATTAGA
*
1184691 CTTGAAGATGAGAAGAATGATAAAGGTGCCGATATAT-TAATTCAAGGCCA
1 CTTGAAGATGAGAAGAATGATAAAGGTG-CGATATATGTAATTCAAAGCCA
1184741 GTGATTTTGG
Statistics
Matches: 143, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
113 39 0.27
114 1 0.01
115 102 0.71
116 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (113 bp):
CTTGAAGATGAGAAGAATGATAAAGGTGCGATATATGTAATTCAAAGCCACCGATATTAGGCTTA
AAGATGACAAAGGTACAAATGTGCTGATTCAAAGCCAACAATATTAGA
Found at i:1184918 original size:32 final size:32
Alignment explanation
Indices: 1184882--1184996 Score: 119
Period size: 32 Copynumber: 3.6 Consensus size: 32
1184872 GATGCCACCA
*
1184882 ACTTGCGTGGGCTTTTGAGAAATTTGCCACTG
1 ACTTGTGTGGGCTTTTGAGAAATTTGCCACTG
****
1184914 ACTTGTGTGGGCTTTTGAAGGGGGTTGCCACTG
1 ACTTGTGTGGGCTTTTG-AGAAATTTGCCACTG
*
1184947 ACTTGTGTGGGC-TTT-AGAAAGGGTTT-CCACTA
1 ACTTGTGTGGGCTTTTGAGAAA---TTTGCCACTG
1184979 ACTTGTGTGGGCTTTTGA
1 ACTTGTGTGGGCTTTTGA
1184997 AGGATTGAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
30 2 0.03
32 36 0.54
33 28 0.42
34 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.36
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTTGAGAAATTTGCCACTG
Found at i:1184947 original size:33 final size:33
Alignment explanation
Indices: 1184905--1184999 Score: 147
Period size: 32 Copynumber: 2.9 Consensus size: 33
1184895 TTTGAGAAAT
1184905 TTGCCACTGACTTGTGTGGGCTTTTGAAGGGGG
1 TTGCCACTGACTTGTGTGGGCTTTTGAAGGGGG
* *
1184938 TTGCCACTGACTTGTGTGGGCTTTAGAA-AGGG
1 TTGCCACTGACTTGTGTGGGCTTTTGAAGGGGG
* *
1184970 TTTCCACTAACTTGTGTGGGCTTTTGAAGG
1 TTGCCACTGACTTGTGTGGGCTTTTGAAGG
1185000 ATTGAGATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 28 0.51
33 27 0.49
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.35
Consensus pattern (33 bp):
TTGCCACTGACTTGTGTGGGCTTTTGAAGGGGG
Found at i:1186234 original size:25 final size:25
Alignment explanation
Indices: 1186186--1186234 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1186176 TTTTTTCTGC
* *
1186186 TGTTTTTTTTTTGTTTTTCATTTTT
1 TGTTTTTTTTATGTTTTGCATTTTT
1186211 TGTTTTTTTTATGCTTTTGC-TTTT
1 TGTTTTTTTTATG-TTTTGCATTTT
1186235 GACTTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.80
Consensus pattern (25 bp):
TGTTTTTTTTATGTTTTGCATTTTT
Found at i:1191218 original size:81 final size:78
Alignment explanation
Indices: 1191099--1191305 Score: 209
Period size: 81 Copynumber: 2.6 Consensus size: 78
1191089 GATAATAACG
* * * * * * * *
1191099 GGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTAGAGTATCCCCGGTTGTGAGAAATCGATGA-T
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATT
*
1191163 TAGAAAAAAAAAAATC
65 TAG--AAAAAAAAACC
*
1191179 GGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATT
1 GGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATT
* ** * *
1191244 TTGGGAATAAAGCC
65 TAGAAAAAAAAACC
* *
1191258 AGGGTTGGAGTATCCCTTCGAAAGTAACGGGGTTGGAGTATCCCCGAT
1 -GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
1191306 GAAATAACGA
Statistics
Matches: 106, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 47 0.44
80 7 0.07
81 52 0.49
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTT
AGAAAAAAAAACC
Found at i:1191291 original size:28 final size:27
Alignment explanation
Indices: 1191259--1191327 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
1191249 AATAAAGCCA
*
1191259 GGGTTGGAGTATCCCTTCGA-AAGTAACG
1 GGGTTGGAGTATCCC--CGAGAAATAACG
1191287 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGA-GAAATAACG
*
1191315 AGGTTGGAGTATC
1 GGGTTGGAGTATC
1191328 GTCGACTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 3 0.08
28 34 0.92
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGAAATAACG
Found at i:1193823 original size:13 final size:13
Alignment explanation
Indices: 1193805--1193830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1193795 ACAAAGATCC
1193805 ATGTATCGATACA
1 ATGTATCGATACA
1193818 ATGTATCGATACA
1 ATGTATCGATACA
1193831 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1193826 original size:33 final size:33
Alignment explanation
Indices: 1193784--1193850 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1193774 AAAGTTTCCA
***
1193784 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1193817 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1193850 A
1 A
1193851 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1193910 original size:13 final size:13
Alignment explanation
Indices: 1193892--1193916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1193882 ACAATACTTA
1193892 TGTATCGATACAT
1 TGTATCGATACAT
1193905 TGTATCGATACA
1 TGTATCGATACA
1193917 AAACTTATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1193916 original size:32 final size:32
Alignment explanation
Indices: 1193873--1193935 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
1193863 TAGCTAATTA
* *
1193873 TGTATCAATACAATACTTATGTATCGATACAT
1 TGTATCAATACAAAACTTATGCATCGATACAT
*
1193905 TGTATCGATACAAAACTTATGCATCGATACA
1 TGTATCAATACAAAACTTATGCATCGATACA
1193936 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (32 bp):
TGTATCAATACAAAACTTATGCATCGATACAT
Found at i:1194017 original size:21 final size:21
Alignment explanation
Indices: 1193993--1194049 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1193983 CATTTGTAGG
1193993 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1194014 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1194035 ATGTATCGATACATT
1 ATGTATCGATACATT
1194050 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1194991 original size:61 final size:60
Alignment explanation
Indices: 1194730--1195300 Score: 677
Period size: 61 Copynumber: 9.8 Consensus size: 60
1194720 AATAAAGTGT
* * * * * * *
1194730 ATCCTGCTCATTGAAGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGC
* * *
1194785 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGT
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGC
* * * * *
1194840 GTCCTGCTCTTTAAGGACTGGAAA-ATGCCACTAACTTGTGTGGGCTTTAAAAG-----GT
1 ATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGC
* *
1194895 GTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGC
1194956 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAAGAG-
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-AGC
* *
1195012 ATCCTGGTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGC
* *
1195073 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGC
* *
1195134 ATCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGC
* * *
1195193 GTCCCGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGC
* *
1195252 GTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAA
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA
1195301 GAGGTGTCTT
Statistics
Matches: 464, Mismatches: 31, Indels: 38
0.87 0.06 0.07
Matches are distributed among these distances:
54 4 0.01
55 125 0.27
56 60 0.13
57 6 0.01
58 2 0.00
59 110 0.24
60 29 0.06
61 128 0.28
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (60 bp):
ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGC
Found at i:1195048 original size:117 final size:116
Alignment explanation
Indices: 1194751--1195378 Score: 720
Period size: 117 Copynumber: 5.5 Consensus size: 116
1194741 TGAAGAGTAA
* *
1194751 AAAGTGCCACCAACTCGTGTGGGCTTTG-AAAG-GCGTCCTGCTCTTTGAGGACTGAAAGGTGCC
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCC
* ** *
1194814 ACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTAAGGACTGG
66 ACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-G
* * ** *
1194861 AAAATGCCACTAACTTGTGTGGGCTTT-AAAAG-GTGTCCTGCTCTTTGGGGACTGAAAGGTGCC
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCC
1194924 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
66 ACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
* *
1194976 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAG-ATCCTGGTCTTTGGGGACTGAAAGGTGC
1 AAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAGCATCCTGCTCTTTGAGGACTGAAAGGTGC
*
1195040 CACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAA
65 CACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCATCCTGCTCTTTGAGGACT-G
1195094 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG-AAGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG----AGCATCCTGCTCTTTGAGGACTGAAAGG
* * * *
1195158 TGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG
62 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
* *
1195213 AAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG---A-GCATCCTGCTCTTTGAGGACTGAAAGG
* ** * *
1195276 TGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCTTGCTCTCTGAGGACTGG
62 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGAGGACT-G
* * ** *
1195327 AAAATGCCACCAGCTTGTGTGGGCTTTG-AAAG-GTGTCCTGCTCTCTGAGGAC
1 AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGCATCCTGCTCTTTGAGGAC
1195379 AAAGAAAGAG
Statistics
Matches: 466, Mismatches: 33, Indels: 39
0.87 0.06 0.07
Matches are distributed among these distances:
109 17 0.04
110 76 0.16
113 22 0.05
114 30 0.06
115 4 0.01
116 44 0.09
117 117 0.25
118 55 0.12
119 27 0.06
120 28 0.06
121 28 0.06
122 18 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (116 bp):
AAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGCATCCTGCTCTTTGAGGACTGAAAGGTGCC
ACCAACTTGTGTGGGCTTTAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
Found at i:1195213 original size:59 final size:59
Alignment explanation
Indices: 1194754--1195358 Score: 666
Period size: 55 Copynumber: 10.5 Consensus size: 59
1194744 AGAGTAAAAA
*
1194754 GTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCGTCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAG
* * *
1194809 GTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCTTTAAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAG
* * * *
1194864 ATGCCACTAACTTGTGTGGGCTTT-----AAAAGGTGTCCTGCTCTTTGGGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAG
* *
1194919 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTG-AAG
* * *
1194980 GTGCCACCAACTTGTGTGGGCTTT----GAAAAGAG-ATCCTGGTCTTTGGGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG-GCGTCCTGCTCTTTGAGGACTG-AAG
* * * *
1195036 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTAAAAA
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAG
* *
1195097 GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAG
* * *
1195157 GTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAG
*
1195216 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAG
* * * *
1195275 GTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCTTGCTCTCTGAGGACTGGAAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAG
* * *
1195330 ATGCCACCAGCTTGTGTGGGCTTTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAG
1195359 GTGTCCTGCT
Statistics
Matches: 487, Mismatches: 39, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
54 20 0.04
55 138 0.28
56 52 0.11
57 8 0.02
59 112 0.23
60 26 0.05
61 131 0.27
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (59 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAG
Found at i:1195662 original size:61 final size:58
Alignment explanation
Indices: 1195403--1195706 Score: 333
Period size: 55 Copynumber: 5.3 Consensus size: 58
1195393 ATAAAGTGTA
* * * * *
1195403 TCCTGCTCATTGAGGAGT-AAAAAGTGCCACCAACTCGTGTGGGCTTT--GA-AAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAAGGCG
* * *
1195458 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT--AA-TAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAGGCG
1195513 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG--AAGGCG
* *
1195573 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGGGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA---GAAGGCG
* * * * *
1195634 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCATCTTTTGTGGGCTTT--AA-AAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAGGCG
1195689 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1195707 AAAAAGCGGA
Statistics
Matches: 220, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
55 110 0.50
56 4 0.02
57 2 0.01
59 2 0.01
60 53 0.24
61 48 0.22
63 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (58 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAGGCG
Found at i:1196702 original size:10 final size:9
Alignment explanation
Indices: 1196675--1196749 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
1196665 TAAGTAGGTT
1196675 TTTTCTTTTC
1 TTTT-TTTTC
*
1196685 TCTCTTTTTC
1 T-TTTTTTTC
* *
1196695 TTTGTTTTG
1 TTTTTTTTC
1196704 TTTTTTTGT-
1 TTTTTTT-TC
1196713 TTTTTTTTCC
1 TTTTTTTT-C
1196723 TTTTTTTTC
1 TTTTTTTTC
1196732 TTTTGCTTTT-
1 TTTT--TTTTC
1196742 TTTTTTTT
1 TTTTTTTT
1196750 GAAGAGAAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 5 0.09
9 23 0.43
10 20 0.37
11 6 0.11
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:1196730 original size:28 final size:27
Alignment explanation
Indices: 1196675--1196749 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 27
1196665 TAAGTAGGTT
* *
1196675 TTTTCTTTTCTCTCTTTTTCTTTGTTTTG
1 TTTTCTTTT-T-TTTTTTTCTTTGTTTTC
*
1196704 TTTT-TTTGTTTTTTTTTCCTTTTTTTTC
1 TTTTCTTT-TTTTTTTTT-CTTTGTTTTC
1196732 TTTTGCTTTTTTTTTTTT
1 TTTT-CTTTTTTTTTTTT
1196750 GAAGAGAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 6 0.15
28 16 0.41
29 14 0.36
30 3 0.08
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (27 bp):
TTTTCTTTTTTTTTTTTCTTTGTTTTC
Found at i:1196749 original size:14 final size:14
Alignment explanation
Indices: 1196712--1196750 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
1196702 TGTTTTTTTG
*
1196712 TTTTTTTTTCCTTT
1 TTTTTTTTTGCTTT
1196726 TTTTTCTTTTGCTTT
1 TTTTT-TTTTGCTTT
1196741 TTTTTTTTTG
1 TTTTTTTTTG
1196751 AAGAGAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTGCTTT
Found at i:1197965 original size:13 final size:13
Alignment explanation
Indices: 1197947--1197972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1197937 CAATTTTTTG
1197947 TGTATCGATACAT
1 TGTATCGATACAT
1197960 TGTATCGATACAT
1 TGTATCGATACAT
1197973 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.