Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2686660
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 14
Found at i:965490 original size:21 final size:21
Alignment explanation
Indices: 965432--965490 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
965422 GTCTGAGTTA
*
965432 CCCGCGAAAGCCGCAATAGCG
1 CCCGCGACAGCCGCAATAGCG
* * *
965453 TCCGCGACAGCCACAATAGTG
1 CCCGCGACAGCCGCAATAGCG
* *
965474 CCCGCGACGGTCGCAAT
1 CCCGCGACAGCCGCAAT
965491 CACAATAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.27, T:0.10
Consensus pattern (21 bp):
CCCGCGACAGCCGCAATAGCG
Found at i:965788 original size:6 final size:6
Alignment explanation
Indices: 965777--965806 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
965767 GCAAGCTCTT
965777 AACATG AACATG AACATG AACATG AACATG
1 AACATG AACATG AACATG AACATG AACATG
965807 GTGGATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
AACATG
Found at i:971460 original size:28 final size:28
Alignment explanation
Indices: 971420--971477 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
971410 TGGTTTTTTA
971420 CTTAAAGGCTTGATACAAAAATAAGTGC
1 CTTAAAGGCTTGATACAAAAATAAGTGC
*
971448 CTTAAATGCTTGATACAAAAATAAGTGC
1 CTTAAAGGCTTGATACAAAAATAAGTGC
971476 CT
1 CT
971478 AAACTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (28 bp):
CTTAAAGGCTTGATACAAAAATAAGTGC
Found at i:971729 original size:21 final size:21
Alignment explanation
Indices: 971690--971729 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
971680 CTCACGTCTC
*
971690 CCCTCTCCCCTATCTCTTTTT
1 CCCTCTCCCCTATCCCTTTTT
* *
971711 CCCTTTCCCCTTTCCCTTT
1 CCCTCTCCCCTATCCCTTT
971730 CTATGGTCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (21 bp):
CCCTCTCCCCTATCCCTTTTT
Found at i:972875 original size:33 final size:33
Alignment explanation
Indices: 972817--972933 Score: 200
Period size: 33 Copynumber: 3.6 Consensus size: 33
972807 CTTTATTTTG
* *
972817 TTCGGGTTGGGTCAGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
972849 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
972882 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
*
972915 TTCGGGTTGGGTCGGGTTT
1 TTCGGGTCGGGTCGGGTTT
972934 GGGTTTAGGG
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 14 0.17
33 67 0.83
ACGTcount: A:0.11, C:0.09, G:0.38, T:0.43
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:973511 original size:44 final size:43
Alignment explanation
Indices: 973442--973567 Score: 198
Period size: 44 Copynumber: 2.9 Consensus size: 43
973432 TCTGACATGT
* * *
973442 CTGCGAACTAAACAAATATGAAATTGGATTCCAATTCCATTTC
1 CTGCCAACCAAACAAATATGGAATTGGATTCCAATTCCATTTC
*
973485 TTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCCATTTC
1 CTGCCAACCAAACA-AATATGGAATTGGATTCCAATTCCATTTC
973529 CTGCCAACCAAACAAAATATGGAATTGGATTCCAATTCC
1 CTGCCAACCAAAC-AAATATGGAATTGGATTCCAATTCC
973568 TGACAGATTC
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 11 0.14
44 64 0.84
45 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (43 bp):
CTGCCAACCAAACAAATATGGAATTGGATTCCAATTCCATTTC
Found at i:973593 original size:18 final size:17
Alignment explanation
Indices: 973556--973602 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
973546 TATGGAATTG
*
973556 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
973573 GATTCAAATTCCTTCACA
1 GATTCCAATTCC-TCACA
973591 GATTCCAATTCC
1 GATTCCAATTCC
973603 CTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:983351 original size:16 final size:16
Alignment explanation
Indices: 983330--983360 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
983320 ATCAAAGGGG
983330 TGTTTTCTTCTGATTT
1 TGTTTTCTTCTGATTT
983346 TGTTTTCTTCTGATT
1 TGTTTTCTTCTGATT
983361 CTCTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.13, T:0.68
Consensus pattern (16 bp):
TGTTTTCTTCTGATTT
Found at i:983367 original size:16 final size:16
Alignment explanation
Indices: 983332--983367 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
983322 CAAAGGGGTG
* *
983332 TTTTCTTCTGATTTTG
1 TTTTCTTCTGATTCTC
983348 TTTTCTTCTGATTCTC
1 TTTTCTTCTGATTCTC
983364 TTTT
1 TTTT
983368 ACTTAGCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.17, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTTCTTCTGATTCTC
Found at i:991116 original size:21 final size:21
Alignment explanation
Indices: 991090--991131 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
991080 GAGTCGAGGG
991090 TCTACGCGGTCCTTCGGGACA
1 TCTACGCGGTCCTTCGGGACA
* *
991111 TCTACGTGGTCCTTTGGGACA
1 TCTACGCGGTCCTTCGGGACA
991132 AATTCTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (21 bp):
TCTACGCGGTCCTTCGGGACA
Found at i:996380 original size:3 final size:3
Alignment explanation
Indices: 996372--996400 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
996362 AGATAACCAA
996372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
996401 GGTCCTAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:997437 original size:7 final size:8
Alignment explanation
Indices: 997420--997444 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
997410 CAGAATTATT
997420 AAAAATAA
1 AAAAATAA
997428 AAAAATAA
1 AAAAATAA
997436 AAAAATAA
1 AAAAATAA
997444 A
1 A
997445 GATACGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:1011940 original size:27 final size:27
Alignment explanation
Indices: 1011898--1011963 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
1011888 ATACCCTAAC
*
1011898 TCATT-TAGCTTCAAAATCATCCCAAA
1 TCATTCTAGCTTTAAAATCATCCCAAA
1011924 TCATTCTAGCTTTAAAATCATCCCAAA
1 TCATTCTAGCTTTAAAATCATCCCAAA
1011951 TCATTCTAGCTTT
1 TCATTCTAGCTTT
1011964 CTCCAAATAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (27 bp):
TCATTCTAGCTTTAAAATCATCCCAAA
Found at i:1013297 original size:24 final size:23
Alignment explanation
Indices: 1013269--1013316 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
1013259 GGCATAATGA
1013269 TAAATAA-TATATTTAACGTTTAAT
1 TAAATAATTAT-TTTAAC-TTTAAT
*
1013293 TAAATAGTTATTTTAACTTTAAT
1 TAAATAATTATTTTAACTTTAAT
1013316 T
1 T
1013317 CTTTTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 12 0.55
25 3 0.14
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (23 bp):
TAAATAATTATTTTAACTTTAAT
Found at i:1014242 original size:21 final size:21
Alignment explanation
Indices: 1014216--1014268 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
1014206 CCACCTCGGT
* *
1014216 TGCAAATGGTTCAGACACTCC
1 TGCAAATGGTTCAGAAACTCA
1014237 TGCAAA--GTTCAGAAACTCA
1 TGCAAATGGTTCAGAAACTCA
*
1014256 TGCAATTGGTTCA
1 TGCAAATGGTTCA
1014269 ACGAATGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 16 0.59
21 11 0.41
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (21 bp):
TGCAAATGGTTCAGAAACTCA
Found at i:1018965 original size:14 final size:14
Alignment explanation
Indices: 1018946--1018988 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1018936 GTACGGACCC
1018946 TGGAGATTA-TGTGT
1 TGGAGATTATTG-GT
*
1018960 TGGAGATTGTTGGT
1 TGGAGATTATTGGT
*
1018974 TGGAGATTGTTGGT
1 TGGAGATTATTGGT
1018988 T
1 T
1018989 AGAAATAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (14 bp):
TGGAGATTATTGGT
Found at i:1022634 original size:119 final size:119
Alignment explanation
Indices: 1022423--1022890 Score: 783
Period size: 119 Copynumber: 4.0 Consensus size: 119
1022413 TCAGGAAACC
* *
1022423 TGGTTGGTTTGCAATTGATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1 TGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
* *
1022488 TTTCGAACTGAAAAAAGGACAAGCAAAAAACATTTTAAATATTCAGGCAATTGG
66 TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCAATTGG
*
1022542 TGGTTGGTATGCAATTAATCATGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1 TGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1022607 TTTCGAACTGGAAAAAGGACAAGC-AAAAA-A---T--AT-TT-AGGCAATTGG
66 TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCAATTGG
* *
1022652 TGGTTGGTTTGCAATTAATCAGGAAAAAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1 TGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
*
1022717 TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCATTTGG
66 TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCAATTGG
*
1022771 TGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACTTATAGTACATGATAT
1 TGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
*
1022836 TTTTGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCAATTGG
66 TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCAATTGG
1022890 T
1 T
1022891 TAGTTTGCAG
Statistics
Matches: 327, Mismatches: 13, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
110 96 0.29
111 7 0.02
112 3 0.01
114 1 0.00
115 1 0.00
117 3 0.01
118 7 0.02
119 209 0.64
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (119 bp):
TGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCAATTGG
Found at i:1022706 original size:229 final size:229
Alignment explanation
Indices: 1022423--1022870 Score: 824
Period size: 229 Copynumber: 2.0 Consensus size: 229
1022413 TCAGGAAACC
* *
1022423 TGGTTGGTTTGCAATTGATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1 TGGTTGGTTTGCAATTAATCAGGAAAAAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1022488 TTTCGAACTGAAAAAAGGACAAGCAAAAAACATTTTAAATATTCAGGCAATTGGTGGTTGGTATG
66 TTTCGAACTGAAAAAAGGACAAGCAAAAAACATTTTAAATATTCAGGCAATTGGTGGTTGGTATG
*
1022553 CAATTAATCATGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATATTTTCGAACTGG
131 CAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATATTTTCGAACTGG
1022618 AAAAAGGACAAGCAAAAAATATTTAGGCAATTGG
196 AAAAAGGACAAGCAAAAAATATTTAGGCAATTGG
1022652 TGGTTGGTTTGCAATTAATCAGGAAAAAAAACTAATAAGGTGATGACACATATAGTACATGATAT
1 TGGTTGGTTTGCAATTAATCAGGAAAAAAAACTAATAAGGTGATGACACATATAGTACATGATAT
* * *
1022717 TTTCGAACTGGAAAAAGGACAAGCAAAAAATATTTTAAATATTCAGGCATTTGGTGGTTGGTATG
66 TTTCGAACTGAAAAAAGGACAAGCAAAAAACATTTTAAATATTCAGGCAATTGGTGGTTGGTATG
* *
1022782 CAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACTTATAGTACATGATATTTTTGAACTGG
131 CAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATATTTTCGAACTGG
1022847 AAAAAGGACAAGCAAAAAATATTT
196 AAAAAGGACAAGCAAAAAATATTT
1022871 TAAATATTCA
Statistics
Matches: 211, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
229 211 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.27
Consensus pattern (229 bp):
TGGTTGGTTTGCAATTAATCAGGAAAAAAAACTAATAAGGTGATGACACATATAGTACATGATAT
TTTCGAACTGAAAAAAGGACAAGCAAAAAACATTTTAAATATTCAGGCAATTGGTGGTTGGTATG
CAATTAATCAGGAAAGAAAACTAATAAGGTGATGACACATATAGTACATGATATTTTCGAACTGG
AAAAAGGACAAGCAAAAAATATTTAGGCAATTGG
Found at i:1022717 original size:110 final size:110
Alignment explanation
Indices: 1022524--1022870 Score: 550
Period size: 110 Copynumber: 3.1 Consensus size: 110
1022514 AAAACATTTT
* *
1022524 AAATATTCAGGCAATTGGTGGTTGGTATGCAATTAATCATGAAAGAAAACTAATAAGGTGATGAC
1 AAATATTTAGGCAATTGGTGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGAC
1022589 ACATATAGTACATGATATTTTCGAACTGGAAAAAGGACAAGCAAA
66 ACATATAGTACATGATATTTTCGAACTGGAAAAAGGACAAGCAAA
* *
1022634 AAATATTTAGGCAATTGGTGGTTGGTTTGCAATTAATCAGGAAAAAAAACTAATAAGGTGATGAC
1 AAATATTTAGGCAATTGGTGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGAC
1022699 ACATATAGTACATGATATTTTCGAACTGGAAAAAGGACAAGCAAAA
66 ACATATAGTACATGATATTTTCGAACTGGAAAAAGGACAAGC-AAA
*
1022745 AATATTTTAAATATTCAGGCATTTGGTGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAG
1 AA-A---T--AT-TT-AGGCAATTGGTGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAG
* *
1022810 GTGATGACACTTATAGTACATGATATTTTTGAACTGGAAAAAGGACAAGCAAA
58 GTGATGACACATATAGTACATGATATTTTCGAACTGGAAAAAGGACAAGCAAA
1022863 AAATATTT
1 AAATATTT
1022871 TAAATATTCA
Statistics
Matches: 219, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
110 103 0.47
111 7 0.03
112 3 0.01
114 1 0.00
115 1 0.00
117 3 0.01
118 7 0.03
119 94 0.43
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (110 bp):
AAATATTTAGGCAATTGGTGGTTGGTATGCAATTAATCAGGAAAGAAAACTAATAAGGTGATGAC
ACATATAGTACATGATATTTTCGAACTGGAAAAAGGACAAGCAAA
Found at i:1033650 original size:36 final size:36
Alignment explanation
Indices: 1033603--1033681 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
1033593 ACTAAACCCG
*
1033603 TCCCCATCCCCGTTTAACATAAACGGTTTTTCCCCA
1 TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
* * *
1033639 TCCCCGTCCCCGTTTAGCATAAATGGTTTTTCCCCC
1 TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
1033675 TCCCCGT
1 TCCCCGT
1033682 TTAATTCGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.16, C:0.41, G:0.11, T:0.32
Consensus pattern (36 bp):
TCCCCGTCCCCGTTTAACATAAACGGTTTTTCCCCA
Found at i:1036551 original size:18 final size:18
Alignment explanation
Indices: 1036519--1036553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1036509 AAGTCCCTAG
*
1036519 CCCGCTGAAGTAGAAGAA
1 CCCGCTGAAGCAGAAGAA
*
1036537 CCCGCTGAGGCAGAAGA
1 CCCGCTGAAGCAGAAGA
1036554 GCATACTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.31, T:0.09
Consensus pattern (18 bp):
CCCGCTGAAGCAGAAGAA
Found at i:1042214 original size:13 final size:14
Alignment explanation
Indices: 1042196--1042224 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1042186 CAATCTAAAA
1042196 TTAT-AAATTATAT
1 TTATAAAATTATAT
1042209 TTATAAAATTATAT
1 TTATAAAATTATAT
1042223 TT
1 TT
1042225 CAAAGAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATAAAATTATAT
Found at i:1046360 original size:31 final size:31
Alignment explanation
Indices: 1046325--1046383 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
1046315 AGCAGAATCG
1046325 ATGGAAGCAAGTTTGAAGAAGAAGAAGAAGA
1 ATGGAAGCAAGTTTGAAGAAGAAGAAGAAGA
1046356 ATGGAAGCAAGTTTGAAGAAGAAGAAGA
1 ATGGAAGCAAGTTTGAAGAAGAAGAAGA
1046384 GATTTGGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.03, G:0.32, T:0.14
Consensus pattern (31 bp):
ATGGAAGCAAGTTTGAAGAAGAAGAAGAAGA
Found at i:1046472 original size:66 final size:64
Alignment explanation
Indices: 1046370--1046496 Score: 227
Period size: 66 Copynumber: 2.0 Consensus size: 64
1046360 AAGCAAGTTT
1046370 GAAGAAGAAGAAGAGATTTGGAGATTTGATTTCCAGCTAGCAGAACTTCCGTTAGAGGGGGGAA
1 GAAGAAGAAGAAGAGATTTGGAGATTTGATTTCCAGCTAGCAGAACTTCCGTTAGAGGGGGGAA
*
1046434 GAAGAAGAAGAAGAGATCTCTGGAGATTTGATTTCCAGCTAGCAGAACTTCCGTTAGTGGGGG
1 GAAGAAGAAGAAGAGAT-T-TGGAGATTTGATTTCCAGCTAGCAGAACTTCCGTTAGAGGGGG
1046497 TAAGGGAACT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
64 17 0.28
65 1 0.02
66 42 0.70
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (64 bp):
GAAGAAGAAGAAGAGATTTGGAGATTTGATTTCCAGCTAGCAGAACTTCCGTTAGAGGGGGGAA
Found at i:1052478 original size:27 final size:27
Alignment explanation
Indices: 1052447--1052507 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
1052437 AATCCTGTCT
1052447 GCGAACATGAAGAAAAAAAGAATATAA
1 GCGAACATGAAGAAAAAAAGAATATAA
1052474 GCGAACATGAAGAAAAAAAGAATATAA
1 GCGAACATGAAGAAAAAAAGAATATAA
1052501 GCGAACA
1 GCGAACA
1052508 ATTTGAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.61, C:0.10, G:0.20, T:0.10
Consensus pattern (27 bp):
GCGAACATGAAGAAAAAAAGAATATAA
Found at i:1054455 original size:22 final size:22
Alignment explanation
Indices: 1054411--1054455 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1054401 ATTACATAAC
*
1054411 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
1054433 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
1054455 T
1 T
1054456 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:1054504 original size:23 final size:23
Alignment explanation
Indices: 1054473--1054545 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1054463 ATAGGTAAAA
* *
1054473 ATATGATGTAATAGGTAGCGCAT
1 ATATAATGTAATAGGTAGCGCTT
*
1054496 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1054519 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1054542 ATAT
1 ATAT
1054546 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1054987 original size:23 final size:23
Alignment explanation
Indices: 1054961--1055024 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1054951 ATAGGTAAAA
* *
1054961 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1054984 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1055007 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1055025 TATTTATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1055030 original size:23 final size:23
Alignment explanation
Indices: 1054961--1055033 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1054951 ATAGGTAAAA
* * **
1054961 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCATTT
*
1054984 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCATTT
*
1055007 ATATAATGTAATAGGTAGTATTT
1 ATATAATGTAATAGGTAGCATTT
1055030 ATAT
1 ATAT
1055034 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCATTT
Found at i:1055471 original size:23 final size:23
Alignment explanation
Indices: 1055440--1055512 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1055430 ATAGGTAAAA
*
1055440 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1055463 ATATAATGTAATAAGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1055486 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1055509 ATAT
1 ATAT
1055513 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1055513 original size:479 final size:477
Alignment explanation
Indices: 1054051--1057804 Score: 6146
Period size: 479 Copynumber: 7.8 Consensus size: 477
1054041 TTTTTACTTG
* * * * *
1054051 TTATATTGTAAAATATTTATCATTTTTATAAAAGTGTCCATACTTTTTTTACTGTGTAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1054116 AATTTAAGGTTATCTTTTAAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGG--------T---T-AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
1054181 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
1054246 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
184 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* *
1054311 ACAATCAAATAATTTTTTGCGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
249 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
1054376 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
314 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
* *
1054441 AAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCATATATAATGTA
379 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
1054506 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
444 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * *
1054540 TTATATTGTAAAGTATCTATCCTTTTAATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACAGT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1054605 AATTTAAGGTTATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGG-------TT-A--G--TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
1054670 TTATTTTTTACGTTAAGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
1054735 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAA
184 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* *
1054799 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTTGAAAACATGAAA
249 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
1054864 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
314 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
* *
1054929 AAGTATTGACACTTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTA
379 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
**
1054994 ATAGGTAGCGTTTATATAATGTAATAGGTAGTAT
444 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
1055028 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTTTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
1055093 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTATG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
1055158 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
1055223 TTGGTTAATATTGGTAAATTTAAATTATAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
*
1055288 TTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
* * * *
1055353 ATAAATGAAATATAAATTACATAACTTTAAAAAAAATATCGATCCTTTTTATAAAATGTATGGAC
325 A-AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
*
1055418 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTAGCG
389 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
1055483 TTTATATAATGTAATAGGTAGTGC
454 TTTATATAATGTAATAGGTAGTGC
*
1055507 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCAATGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
1055572 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTACTTATAAGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
1055637 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
1055702 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
1055767 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* * * *
1055832 AATTAAAACATATATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAATATGGACAC
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
*
1055897 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTT
391 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
*
1055962 TATATAATGTAATAGGTAGTGT
456 TATATAATGTAATAGGTAGTGC
* *
1055984 TTATATTGTAAAGTATCTATCATTTTTATAAATGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* *
1056049 AATTTAAGGTAAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
1056114 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
1056179 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
*
1056244 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTACGTGGAAAACATGAAACACTATT-AAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* **
1056308 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAAAATGGACAC
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
* * *
1056373 TTTCAATATAATAAGTACAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGTT
391 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
1056438 TATATAATGTAATAGGTAGTGC
456 TATATAATGTAATAGGTAGTGC
* * * *
1056460 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATATTTTTTTCATTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
1056525 AATTTAAGGTTAGTTTTAAGATATTAATTTAATAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
1056590 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
*
1056655 TTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
*
1056720 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTACGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
*
1056785 AAATTGAAACATAAATTACATAACTTTTTAAAAAAA-TATCGATCCTTTTTATAAAAAGTATTGA
325 AAATTGAAACATAAATTACATAAC--TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGA
* *
1056849 CACTTTCAATATAATAAGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGC
388 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
1056914 GTTTATATAATGTAATAGGTAGTGC
453 GTTTATATAATGTAATAGGTAGTGC
* * *
1056939 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTTTTTCATTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1057004 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
*
1057069 TTACGGTATTTATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
*
1057134 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATTAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
1057199 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* *
1057264 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT-CTTTTTAATAAAAAAG-ATCGAT
326 AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT-AT-AAAAAGTATGGAC
1057327 ACTTTACAATAT-ATCAGGTAAAAATATGATGTAATAGGTAGCGC----------T--TA--TA-
389 ACTTT-CAATATAAT-AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAG
*
1057376 ----TA-AT-A--TAATAGGTAGCGC
452 CGTTTATATAATGTAATAGGTAGTGC
* * * *
1057394 TTATATTGTAAATTATCTATCCTTTTTATAGAAGTATCCATACTTATTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * **
1057459 AATTTAAGGTTATCTTTAGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGG-------T----T-AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
1057524 TTATTTTTTATGTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
1057589 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
184 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
1057654 ACAATCAAATAATTTTTTGTGAAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
249 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
1057719 CACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
314 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
1057783 AAGTATGGACACTTTCAATATA
379 AAGTATGGACACTTTCAATATA
1057805 TTATAATGTA
Statistics
Matches: 3103, Mismatches: 131, Indels: 85
0.93 0.04 0.03
Matches are distributed among these distances:
455 79 0.03
457 1 0.00
458 2 0.00
459 2 0.00
462 1 0.00
464 2 0.00
465 12 0.00
466 59 0.02
467 239 0.08
468 1 0.00
476 626 0.20
477 555 0.18
478 105 0.03
479 879 0.28
480 11 0.00
481 2 0.00
485 2 0.00
487 1 0.00
488 303 0.10
489 221 0.07
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (477 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTT
TATATAATGTAATAGGTAGTGC
Found at i:1055985 original size:23 final size:23
Alignment explanation
Indices: 1055917--1055989 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1055907 ATAGGTAAAA
* **
1055917 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGTTT
1055940 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
1055963 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
1055986 ATAT
1 ATAT
1055990 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:1056419 original size:23 final size:23
Alignment explanation
Indices: 1056393--1056465 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1056383 ATAAGTACAA
* *
1056393 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1056416 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1056439 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1056462 ATAT
1 ATAT
1056466 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1056854 original size:22 final size:22
Alignment explanation
Indices: 1056807--1056854 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1056797 AAATTACATA
1056807 ACTTTTTAAAAAAATATCGATC
1 ACTTTTTAAAAAAATATCGATC
* *
1056829 -CTTTTTATAAAAAGTATTGA-C
1 ACTTTTTA-AAAAAATATCGATC
1056850 ACTTT
1 ACTTT
1056855 CAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (22 bp):
ACTTTTTAAAAAAATATCGATC
Found at i:1056898 original size:23 final size:23
Alignment explanation
Indices: 1056872--1056944 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1056862 ATAAGTAAAA
* *
1056872 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1056895 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1056918 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1056941 ATAT
1 ATAT
1056945 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1057337 original size:23 final size:23
Alignment explanation
Indices: 1057291--1057337 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1057281 CATAACTTTA
**
1057291 AAAAAAGTATCGATCTTTTTAAT
1 AAAAAAGTATCGATCTTTACAAT
1057314 AAAAAAG-ATCGATACTTTACAAT
1 AAAAAAGTATCGAT-CTTTACAAT
1057337 A
1 A
1057338 TATCAGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (23 bp):
AAAAAAGTATCGATCTTTACAAT
Found at i:1059313 original size:2 final size:2
Alignment explanation
Indices: 1059302--1059366 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
1059292 CCGTGTTTTT
*
1059302 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1059344 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
1059367 CATACAGAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1060748 original size:31 final size:29
Alignment explanation
Indices: 1060713--1060771 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
1060703 GTTATTATAT
*
1060713 ATGAAATTATAATATAAGATATGTGTAATAC
1 ATGAAAATATAATATAAG-T-TGTGTAATAC
* *
1060744 ATGAAAATGTGATATAAGTTGTGTAATA
1 ATGAAAATATAATATAAGTTGTGTAATA
1060772 AACCATGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 1 0.04
31 15 0.60
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.36
Consensus pattern (29 bp):
ATGAAAATATAATATAAGTTGTGTAATAC
Found at i:1061393 original size:18 final size:18
Alignment explanation
Indices: 1061367--1061441 Score: 87
Period size: 18 Copynumber: 3.9 Consensus size: 18
1061357 GTTCTTAAGG
1061367 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1061385 AGTGATCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
*
1061405 ACAGTGGTCCTTCGGGATAT
1 --AGTGGTCCTTCGGGACAT
*
1061425 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
1061442 AATATTCGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 30 0.62
20 4 0.08
22 14 0.29
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1062040 original size:21 final size:21
Alignment explanation
Indices: 1062013--1062064 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1062003 TGTAGCAGTA
1062013 CTGTAGCAAGGTATCGATACC
1 CTGTAGCAAGGTATCGATACC
* * *
1062034 TTGTAGCAGGGTATCGGTACC
1 CTGTAGCAAGGTATCGATACC
1062055 CTGTCAGCAA
1 CTGT-AGCAA
1062065 TCTGGAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (21 bp):
CTGTAGCAAGGTATCGATACC
Found at i:1062375 original size:31 final size:31
Alignment explanation
Indices: 1062332--1062410 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
1062322 CAAAAAAATT
* *
1062332 CTTGTTCATGTTCGTTTGTTAAGGAATGTAG
1 CTTGTTCGTGTTCGTTCGTTAAGGAATGTAG
1062363 CTTGTTCGTGTTCGTTCGTTAAGGAATGTAG
1 CTTGTTCGTGTTCGTTCGTTAAGGAATGTAG
*
1062394 CTTATTCGTGTTCGTTC
1 CTTGTTCGTGTTCGTTC
1062411 ATATAAATGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.15, C:0.14, G:0.25, T:0.46
Consensus pattern (31 bp):
CTTGTTCGTGTTCGTTCGTTAAGGAATGTAG
Found at i:1062452 original size:10 final size:10
Alignment explanation
Indices: 1062437--1062586 Score: 57
Period size: 10 Copynumber: 13.2 Consensus size: 10
1062427 AACACAAATG
1062437 AACGAACATA
1 AACGAACATA
1062447 AACGAACAGATGTA
1 AACGAAC--A--TA
1062461 AACGAACATA
1 AACGAACATA
* *
1062471 AACAAACACA
1 AACGAACATA
1062481 AACGAACGGATGTA
1 AACGAAC--A--TA
1062495 AACGAACACAATA
1 AACG-A-AC-ATA
* *
1062508 AATGAACGTA
1 AACGAACATA
*
1062518 AACGAACACA
1 AACGAACATA
1062528 AACGAACAAACATA
1 AACG----AACATA
1062542 AACGAACACAATA
1 AACG-A-AC-ATA
*
1062555 AATGAACATA
1 AACGAACATA
* *
1062565 AACTAACGTA
1 AACGAACATA
*
1062575 AACAAACATA
1 AACGAACATA
1062585 AA
1 AA
1062587 TGAAAATATA
Statistics
Matches: 107, Mismatches: 17, Indels: 32
0.69 0.11 0.21
Matches are distributed among these distances:
10 56 0.52
11 6 0.06
12 7 0.07
13 11 0.10
14 23 0.21
15 2 0.02
16 2 0.02
ACGTcount: A:0.59, C:0.19, G:0.11, T:0.11
Consensus pattern (10 bp):
AACGAACATA
Found at i:1062454 original size:24 final size:24
Alignment explanation
Indices: 1062420--1062567 Score: 129
Period size: 24 Copynumber: 6.2 Consensus size: 24
1062410 CATATAAATG
* *
1062420 ATAAACAAACACAAATGAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* **
1062444 ATAAACGAACAGATGTAAACGAAC
1 ATAAACGAACACAAATAAACGAAC
* ** * *
1062468 ATAAACAAACACAAACGAACGGAT
1 ATAAACGAACACAAATAAACGAAC
* *
1062492 GTAAACGAACAC-AATAAATGAAC
1 ATAAACGAACACAAATAAACGAAC
* ** *
1062515 GTAAACGAACACAAACGAACAAAC
1 ATAAACGAACACAAATAAACGAAC
*
1062539 ATAAACGAACAC-AATAAATGAAC
1 ATAAACGAACACAAATAAACGAAC
1062562 ATAAAC
1 ATAAAC
1062568 TAACGTAAAC
Statistics
Matches: 94, Mismatches: 29, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
23 31 0.33
24 63 0.67
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.10
Consensus pattern (24 bp):
ATAAACGAACACAAATAAACGAAC
Found at i:1062531 original size:47 final size:47
Alignment explanation
Indices: 1062420--1062567 Score: 197
Period size: 47 Copynumber: 3.1 Consensus size: 47
1062410 CATATAAATG
* * * *
1062420 ATAAACAAACACAAATGAACGAACATAAACGAACAGATGTAAACGAAC
1 ATAAACAAACACAAACGAACGAACATAAACGAACACA-ATAAATGAAC
* **
1062468 ATAAACAAACACAAACGAACGGATGTAAACGAACACAATAAATGAAC
1 ATAAACAAACACAAACGAACGAACATAAACGAACACAATAAATGAAC
* * *
1062515 GTAAACGAACACAAACGAACAAACATAAACGAACACAATAAATGAAC
1 ATAAACAAACACAAACGAACGAACATAAACGAACACAATAAATGAAC
1062562 ATAAAC
1 ATAAAC
1062568 TAACGTAAAC
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 54 0.63
48 32 0.37
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.10
Consensus pattern (47 bp):
ATAAACAAACACAAACGAACGAACATAAACGAACACAATAAATGAAC
Found at i:1064712 original size:23 final size:23
Alignment explanation
Indices: 1064672--1064715 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1064662 AAAAAGGAAA
*
1064672 AATAATAGAACAAGTAAAAAATT
1 AATAATAGAACAAATAAAAAATT
1064695 AATAATA-AACAAAATAAAAAA
1 AATAATAGAAC-AAATAAAAAA
1064716 ATGGCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (23 bp):
AATAATAGAACAAATAAAAAATT
Found at i:1064716 original size:26 final size:25
Alignment explanation
Indices: 1064643--1064716 Score: 58
Period size: 26 Copynumber: 2.9 Consensus size: 25
1064633 CAATTATGAA
1064643 AATAATAAACAAAACAAAAAAAAAGG
1 AATAATAAACAAAA-AAAAAAAAAGG
* * * ** **
1064669 AAAAATAATAGAACAAGTAAAAAATT
1 AATAATAA-ACAAAAAAAAAAAAAGG
*
1064695 AATAATAAACAAAATAAAAAAA
1 AATAATAAACAAAAAAAAAAAA
1064717 TGGCAAAAAA
Statistics
Matches: 34, Mismatches: 13, Indels: 3
0.68 0.26 0.06
Matches are distributed among these distances:
25 9 0.26
26 21 0.62
27 4 0.12
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (25 bp):
AATAATAAACAAAAAAAAAAAAAGG
Found at i:1067003 original size:84 final size:84
Alignment explanation
Indices: 1066825--1067538 Score: 833
Period size: 84 Copynumber: 8.5 Consensus size: 84
1066815 ATGTGTCATC
* * * ** * * * *
1066825 GAGCTGAATGGAATCGAACTCGACGGT-TTTTATTGACAAATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
* * *
1066889 TTGTTAATTTGATGTGCCTTT
66 CTG-CAA-ATGATGTGCCTTT
* * * ***
1066910 GAGCCGAGTGTAATAGAACTCGAAGGTATTTTGGTGGCAGATTGTCCTTCTTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
1066975 CTGCAAATGATGTGCCTTT
66 CTGCAAATGATGTGCCTTT
* * * *
1066994 AAGTTGAGTGTAATCGAACTCGAAGGTTTTTTGGTGGCAGATAGCCCTTCTTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
1067059 CTGCAAATGATGTGCCTTT
66 CTGCAAATGATGTGCCTTT
* * * ** ** *
1067078 GAGTTGAGTGTAATCGAACTTGAAGGTC-TTTGTTGATAGATAACCCTTCTAACCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
*
1067142 CTGCAAATGATATGCCTTT
66 CTGCAAATGATGTGCCTTT
* * *
1067161 GAGCTGAATGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGTTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
1067226 CTGCAAATGATGTGCCTTTT
66 CTGCAAATGATGTGCC-TTT
* * *
1067246 GAGCTGAGTGTAATTGAACTCGAAGGTC--TTGGCTGGAAGATAACCCTTCTTGCCTTGAGATAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGG-TGGCAGATAACCCTTCTTGCCTTGAGCTAT
*
1067309 ACTGCAAATGATGTGCCTTT
65 GCTGCAAATGATGTGCCTTT
* * * * * * *
1067329 GAGTTGAATGTAATCGAACTCGAGGGTCTTTTGATGGCAGATAGCCCTTCTCGCCTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
*
1067394 CTGCAAATGATGTGACTTT
66 CTGCAAATGATGTGCCTTT
* * * * ** * * *
1067413 GAGCTGAGTTTAATCGAACTTGAAGGTATTTTGTTGATAGATAACCCTTATCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
* * *
1067478 CTGTAAATGATGTGTCTTG
66 CTGCAAATGATGTGCCTTT
*
1067497 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGACAGAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGAT
1067539 TGTAACACCC
Statistics
Matches: 541, Mismatches: 82, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
83 103 0.19
84 352 0.65
85 56 0.10
86 30 0.06
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (84 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCTTGCCTTGAGCTATG
CTGCAAATGATGTGCCTTT
Found at i:1067295 original size:251 final size:249
Alignment explanation
Indices: 1066829--1067526 Score: 901
Period size: 251 Copynumber: 2.8 Consensus size: 249
1066819 GTCATCGAGC
* * * * * * *
1066829 TGAATGGAATCGAACTCGACGGTTTTTATTGACAAATAACCCTTCTCGCCTTGAGTTATGTTGTT
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTG-C
* * * ***
1066894 AATTTGATGTGCCTTTGAGCCGAGTGTAATAGAACTCGAAGGTATTTTGGTGGCAGATTGTCCTT
65 AA-ATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGGTGGCAGATAACCCTT
* * * *
1066959 CTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGTTGAGTGTAATCGAACTCGAAGGTTTT
129 CTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG--TC
* * * *
1067024 TTGGTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGT
192 TTGGTGGAAGATAACCCTTCTTGCCTTGAGATATACTGCAAATGATGTGCCTTTGAGT
* * * **
1067082 TGAGTGTAATCGAACTTGAAGGTCTTTGTTGATAGATAACCCTTCTAACCTTGAGTTATGCTGCA
1 TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCA
* * *
1067147 AATGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTTGGTGGCAGATAACCCTTCT
66 AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGGTGGCAGATAACCCTTCT
* *
1067212 TGCCTTGAGTTATACTGCAAATGATGTGCCTTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTG
131 TGCCTTGAGTTATGCTGCAAATGATGTGCC-TTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTG
1067277 GCTGGAAGATAACCCTTCTTGCCTTGAGATATACTGCAAATGATGTGCCTTTGAGT
195 G-TGGAAGATAACCCTTCTTGCCTTGAGATATACTGCAAATGATGTGCCTTTGAGT
* * * * * *
1067333 TGAATGTAATCGAACTCGAGGGTCTTTTGATGGCAGATAGCCCTTCTCGCCTTAAGCTATGCTGC
1 TGAATGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGC
* * * * ** *
1067398 AAATGATGTGACTTTGAGCTGAGTTTAATCGAACTTGAAGGTATTTTGTTGATAGATAACCCTTA
65 AAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGGTGGCAGATAACCCTTC
* * * *
1067463 TCGCCTTGAGTTATGCTGTAAATGATGTGTCTTGGAGCTGAGTGTAATCGAACTCGAAGGTCTT
130 TTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTT
1067527 TTGGTGACAG
Statistics
Matches: 384, Mismatches: 58, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
250 5 0.01
251 185 0.48
252 142 0.37
253 52 0.14
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (249 bp):
TGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGCA
AATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGGTGGCAGATAACCCTTCT
TGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGG
TGGAAGATAACCCTTCTTGCCTTGAGATATACTGCAAATGATGTGCCTTTGAGT
Found at i:1068423 original size:18 final size:18
Alignment explanation
Indices: 1068400--1068525 Score: 104
Period size: 18 Copynumber: 7.9 Consensus size: 18
1068390 ATATAACATA
1068400 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
1068418 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
* *
1068436 -ATAT----AA-CA-CA-
1 TATGTCCCGAAGGACCAC
1068446 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
1068464 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
* *
1068482 -ATAT----AA-CA-CA-
1 TATGTCCCGAAGGACCAC
1068492 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
1068510 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
1068526 GTGTAGGCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
11 10 0.12
12 2 0.02
13 4 0.05
15 4 0.05
16 2 0.02
17 10 0.12
18 52 0.62
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:1068427 original size:46 final size:46
Alignment explanation
Indices: 1068374--1068525 Score: 286
Period size: 46 Copynumber: 3.3 Consensus size: 46
1068364 GCATAGAATT
* *
1068374 TGTCCCGAAAGACCACATATAACATATATGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACTA
1068420 TGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACTA
1068466 TGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACTA
1068512 TGTCCCGAAGGACC
1 TGTCCCGAAGGACC
1068526 GTGTAGGCCC
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 104 1.00
ACGTcount: A:0.34, C:0.30, G:0.18, T:0.18
Consensus pattern (46 bp):
TGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACTA
Found at i:1069906 original size:10 final size:10
Alignment explanation
Indices: 1069891--1069945 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
1069881 CTTGGTGTTT
1069891 TAAGCTTATA
1 TAAGCTTATA
* *
1069901 TAAGCTTTCTT
1 TAAGC-TTATA
1069912 TAAGCTTATA
1 TAAGCTTATA
* *
1069922 TAAGCTTTCTT
1 TAAGC-TTATA
1069933 TAAGCTTATA
1 TAAGCTTATA
1069943 TAA
1 TAA
1069946 CACTCAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 19 0.54
11 16 0.46
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (10 bp):
TAAGCTTATA
Found at i:1069915 original size:21 final size:21
Alignment explanation
Indices: 1069889--1069945 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
1069879 CTCTTGGTGT
1069889 TTTAAGCTTATATAAGCTTTC
1 TTTAAGCTTATATAAGCTTTC
1069910 TTTAAGCTTATATAAGCTTTC
1 TTTAAGCTTATATAAGCTTTC
1069931 TTTAAGCTTATATAA
1 TTTAAGCTTATATAA
1069946 CACTCAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTAAGCTTATATAAGCTTTC
Found at i:1069917 original size:11 final size:11
Alignment explanation
Indices: 1069901--1069939 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1069891 TAAGCTTATA
1069901 TAAGCTTTCTT
1 TAAGCTTTCTT
* *
1069912 TAAGC-TTATA
1 TAAGCTTTCTT
1069922 TAAGCTTTCTT
1 TAAGCTTTCTT
1069933 TAAGCTT
1 TAAGCTT
1069940 ATATAACACT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (11 bp):
TAAGCTTTCTT
Found at i:1070430 original size:80 final size:82
Alignment explanation
Indices: 1070312--1070469 Score: 248
Period size: 80 Copynumber: 1.9 Consensus size: 82
1070302 CTGAGTTATG
** *
1070312 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG-G-TAGATAACCCT
1 CTGCAAATGATGTGCCTTTGAGCTGAGTACAATCGAACTCGAAGGTCTTTGCGACAGATAACCCT
*
1070375 TCTTACCTTGAGCTGTT
66 TCTCACCTTGAGCTGTT
*
1070392 CTGCAAATGATGTGCCTTTGAGCTGAGTACAATTGAACTCGAAGGTCTTTGCTGACAGATAACCC
1 CTGCAAATGATGTGCCTTTGAGCTGAGTACAATCGAACTCGAAGGTCTTTGC-GACAGATAACCC
1070457 TTCTCACCTTGAG
65 TTCTCACCTTGAG
1070470 TTATGCTACT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
80 48 0.69
82 1 0.01
83 21 0.30
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.32
Consensus pattern (82 bp):
CTGCAAATGATGTGCCTTTGAGCTGAGTACAATCGAACTCGAAGGTCTTTGCGACAGATAACCCT
TCTCACCTTGAGCTGTT
Found at i:1071478 original size:99 final size:98
Alignment explanation
Indices: 1071303--1071499 Score: 259
Period size: 99 Copynumber: 2.0 Consensus size: 98
1071293 GGGGTAGTGC
* * * * * * *
1071303 AATATATAAACACCTTTATCAGGTTAGCTAAATTTTATCCATAAAGTCGGGGTGTTTAACCAATT
1 AATATATAAACACCTTTATCAAGCTAGATAAATCTTATACATAAAGTCGGGGCGCTTAACCAATT
* * *
1071368 TCTCTAAAGGGACGGTTCAAGCTTTATTGTATA
66 GCTCTAAAGGGACAGCTCAAGCTTTATTGTATA
* * *
1071401 AATATTATAATCACCTTTATCAAGCTAGATGAATCTTATATATAAAGTCGGGGCGCTTAACCAAT
1 AATA-TATAAACACCTTTATCAAGCTAGATAAATCTTATACATAAAGTCGGGGCGCTTAACCAAT
*
1071466 TGCTCTAGAGGGACAGCTCAAGCTTTATTGTATA
65 TGCTCTAAAGGGACAGCTCAAGCTTTATTGTATA
1071500 TATAAAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 4 0.05
99 80 0.95
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (98 bp):
AATATATAAACACCTTTATCAAGCTAGATAAATCTTATACATAAAGTCGGGGCGCTTAACCAATT
GCTCTAAAGGGACAGCTCAAGCTTTATTGTATA
Found at i:1072101 original size:21 final size:19
Alignment explanation
Indices: 1072034--1072108 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 19
1072024 TTGCTCGGAT
*
1072034 GGTACCGATACCCCCCA-GA
1 GGTATCGATA-CCCCCAGGA
*
1072053 GGTATCGATACCCCCATGCAA
1 GGTATCGATACCCCCA-G-GA
1072074 TGGTATCGATACCCACTCAGGA
1 -GGTATCGATACCC-C-CAGGA
1072096 GGTATCGATACCC
1 GGTATCGATACCC
1072109 TCAAGCATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 6 0.13
19 9 0.19
21 14 0.30
22 14 0.30
23 2 0.04
24 2 0.04
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (19 bp):
GGTATCGATACCCCCAGGA
Found at i:1076037 original size:13 final size:14
Alignment explanation
Indices: 1076019--1076047 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1076009 CTTAAAAATA
1076019 AGGTTTAGAG-CTT
1 AGGTTTAGAGCCTT
1076032 AGGTTTAGAGCCTT
1 AGGTTTAGAGCCTT
1076046 AG
1 AG
1076048 ATGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.34
Consensus pattern (14 bp):
AGGTTTAGAGCCTT
Found at i:1076662 original size:22 final size:21
Alignment explanation
Indices: 1076625--1076706 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 21
1076615 TGCAAATATG
*
1076625 AAAATAATAAATAAAACAAAAA
1 AAAAAAAT-AATAAAACAAAAA
* *
1076647 AAGAAAAATAATAAAATAAGTAA
1 AA-AAAAATAATAAAACAA-AAA
*
1076670 AAAATAATAAT-AAACAAAATA
1 AAAAAAATAATAAAACAAAA-A
*
1076691 AAATAAATAAATAAAA
1 AAAAAAAT-AATAAAA
1076707 TGGTAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 12 0.26
22 22 0.47
23 12 0.26
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAAAATAATAAAACAAAAA
Found at i:1076671 original size:31 final size:31
Alignment explanation
Indices: 1076630--1076741 Score: 86
Period size: 31 Copynumber: 3.4 Consensus size: 31
1076620 ATATGAAAAT
1076630 AATAAATAAAACAA-AAAAAGAAA-AATAATAA
1 AATAAATAAAA-AATAAAAAGAAACAA-AATAA
* * *
1076661 AATAAGTAAAAAATAATAATAAACAAAATAA
1 AATAAATAAAAAATAAAAAGAAACAAAATAA
1076692 AATAAATAAATAAAATGGTAAAAA-AAACAAAGATAA
1 AATAAAT-AA-AAAA---TAAAAAGAAACAAA-ATAA
*
1076728 AGATAAAGAAAAAA
1 A-ATAAATAAAAAA
1076742 ATTAATGGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
30 2 0.03
31 28 0.42
32 4 0.06
33 4 0.06
35 11 0.17
36 12 0.18
37 5 0.08
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (31 bp):
AATAAATAAAAAATAAAAAGAAACAAAATAA
Found at i:1076690 original size:15 final size:14
Alignment explanation
Indices: 1076656--1076707 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
1076646 AAAGAAAAAT
*
1076656 AATAAAATAAGTAAAA
1 AATAAAATAA--ACAA
1076672 AATAATAATAAACAA
1 AATAA-AATAAACAA
*
1076687 AATAAAATAAA-TA
1 AATAAAATAAACAA
1076700 AATAAAAT
1 AATAAAAT
1076708 GGTAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 8 0.24
16 5 0.15
17 5 0.15
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AATAAAATAAACAA
Found at i:1076717 original size:44 final size:45
Alignment explanation
Indices: 1076625--1076716 Score: 120
Period size: 43 Copynumber: 2.1 Consensus size: 45
1076615 TGCAAATATG
1076625 AAAATAATAAATAAAACAAAAAAAGAAAAATAATAAAATAAGTAA
1 AAAATAATAAATAAAACAAAAAAAGAAAAATAATAAAATAAGTAA
* *
1076670 AAAATAAT-AAT-AAACAAAATAAA-ATAAATAAATAAAAT-GGTAA
1 AAAATAATAAATAAAACAAAA-AAAGAAAAAT-AATAAAATAAGTAA
1076713 AAAA
1 AAAA
1076717 AACAAAGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 21 0.49
44 14 0.33
45 8 0.19
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (45 bp):
AAAATAATAAATAAAACAAAAAAAGAAAAATAATAAAATAAGTAA
Found at i:1076992 original size:2 final size:2
Alignment explanation
Indices: 1076985--1077038 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
1076975 TTGTTGGATA
1076985 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1077027 AT AT AT A- AT AT A
1 AT AT AT AT AT AT A
1077039 ATTTAGTACT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1077319 original size:35 final size:34
Alignment explanation
Indices: 1077243--1077321 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
1077233 AATATGAGGG
* * *
1077243 AAAATATATAAAAATAATAAATAAGGAAAAAGTC
1 AAAATATATAAAAATAATAAAAAAAGAAAAAATC
* *
1077277 CAAATATATAAAAGATAATAAAAAAATAAAAAAT-
1 AAAATATATAAAA-ATAATAAAAAAAGAAAAAATC
1077311 AAATATATATA
1 AAA-ATATATA
1077322 TATAGTAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 14 0.38
35 23 0.62
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (34 bp):
AAAATATATAAAAATAATAAAAAAAGAAAAAATC
Found at i:1084416 original size:16 final size:16
Alignment explanation
Indices: 1084395--1084425 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1084385 CAATTCTACG
1084395 ATTATATTATTTTACT
1 ATTATATTATTTTACT
1084411 ATTATATTATTTTAC
1 ATTATATTATTTTAC
1084426 AATTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATATTATTTTACT
Found at i:1086372 original size:118 final size:118
Alignment explanation
Indices: 1086161--1086399 Score: 406
Period size: 118 Copynumber: 2.0 Consensus size: 118
1086151 CAGGGTCTGA
* * *
1086161 GAATATTTCTCGTTCTGGTGCTCGAGAGGTAGGGAAATTCAAATTTTAGCTTTGGAGTCTATTAT
1 GAATATTTCTCGTTCTGGTGCTCGAGAGGTAGGGAAATGCAAATTTAAGCTTTGAAGTCTATTAT
* * *
1086226 CTGGTGCTTAATTTCTTTTTATTGAATATAGTCTTGGAATTTGACATGTCTTT
66 CTGGTGCTTAATTTATTTTTATTCAATATAGGCTTGGAATTTGACATGTCTTT
* *
1086279 GAATATTTCTCTTTCTGGTGCTCGAGAGGTAGGGAAGTGCAAATTTAAGCTTTGAAGTCTATTAT
1 GAATATTTCTCGTTCTGGTGCTCGAGAGGTAGGGAAATGCAAATTTAAGCTTTGAAGTCTATTAT
1086344 CTGGTGCTTAATTTATTTTTATTCAATATAGGCTTGGAATTTGACATGTCTTT
66 CTGGTGCTTAATTTATTTTTATTCAATATAGGCTTGGAATTTGACATGTCTTT
1086397 GAA
1 GAA
1086400 GGGTCTGCCC
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (118 bp):
GAATATTTCTCGTTCTGGTGCTCGAGAGGTAGGGAAATGCAAATTTAAGCTTTGAAGTCTATTAT
CTGGTGCTTAATTTATTTTTATTCAATATAGGCTTGGAATTTGACATGTCTTT
Found at i:1091964 original size:20 final size:19
Alignment explanation
Indices: 1091941--1091990 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
1091931 ACATATAGGC
1091941 TATAATATATA-TAACATATA
1 TATAATATATACTAA-ATA-A
*
1091961 TATAATAGATACTTAAATAA
1 TATAATATATAC-TAAATAA
1091981 TATAATATAT
1 TATAATATAT
1091991 GGTAATGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 20 0.77
21 3 0.12
22 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAATATATACTAAATAA
Found at i:1093340 original size:8 final size:8
Alignment explanation
Indices: 1093315--1093349 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
1093305 TGTTAAATTT
1093315 AATAAAAA
1 AATAAAAA
*
1093323 AATAACAA
1 AATAAAAA
1093331 AATAAAAA
1 AATAAAAA
1093339 AAGTAAAAA
1 AA-TAAAAA
1093348 AA
1 AA
1093350 ACTTAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.11
Consensus pattern (8 bp):
AATAAAAA
Found at i:1094470 original size:21 final size:22
Alignment explanation
Indices: 1094358--1094578 Score: 138
Period size: 23 Copynumber: 10.0 Consensus size: 22
1094348 ATACTAATAA
* *
1094358 TATA-ATATAATAAATAATAAA
1 TATATATATAATATATAATATA
*
1094379 TATAGTATATAGTATATAATAT-
1 TATA-TATATAATATATAATATA
*
1094401 TCCATATAATATACCATAT-TTATA-A
1 T--ATAT-ATATA--ATATATAATATA
* * *
1094426 TGTAAATATAACACTAT-A-ATA
1 TATATATATAATA-TATAATATA
1094447 TATAT-TATAATATATAATATA
1 TATATATATAATATATAATATA
*
1094468 TATAATATATAATATGTAATATA
1 TAT-ATATATAATATATAATATA
** *
1094491 TA-ATATATACCATATGATATA
1 TATATATATAATATATAATATA
1094512 TA-ATATATAATATA-ATATAATA
1 TATATATATAATATATA-AT-ATA
1094534 TATAATATATAATATATAATATA
1 TAT-ATATATAATATATAATATA
* * *
1094557 CAAAATATATACTATATAATAT
1 -TATATATATAATATATAATAT
1094579 CCCTGACGAA
Statistics
Matches: 157, Mismatches: 22, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
19 3 0.02
20 10 0.06
21 45 0.29
22 14 0.09
23 53 0.34
24 23 0.15
25 6 0.04
26 3 0.02
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
TATATATATAATATATAATATA
Found at i:1094572 original size:7 final size:7
Alignment explanation
Indices: 1094338--1094578 Score: 158
Period size: 7 Copynumber: 33.9 Consensus size: 7
1094328 TAATATTAAT
*
1094338 TAATAAA
1 TAATATA
1094345 TAA-ATA
1 TAATATA
1094351 CTAATAATA
1 -TAAT-ATA
1094360 TAATATAA
1 TAATAT-A
1094368 TAA-ATAA
1 TAATAT-A
1094375 TAA-ATA
1 TAATATA
*
1094381 TAGTATA
1 TAATATA
*
1094388 TAGTATA
1 TAATATA
1094395 TAATAT-
1 TAATATA
**
1094401 T-CCATA
1 TAATATA
1094407 TAATATA
1 TAATATA
**
1094414 CCATAT-
1 TAATATA
* *
1094420 TTATAATG
1 TAAT-ATA
1094428 TAA-ATA
1 TAATATA
*
1094434 TAACACTA
1 TAATA-TA
1094442 TAATATA
1 TAATATA
1094449 T-AT-TA
1 TAATATA
1094454 TAATATA
1 TAATATA
1094461 TAATATATA
1 T-A-ATATA
1094470 TAATATA
1 TAATATA
*
1094477 TAATATG
1 TAATATA
1094484 TAATATA
1 TAATATA
1094491 TAATATA
1 TAATATA
**
1094498 TACCATA
1 TAATATA
*
1094505 TGATATA
1 TAATATA
1094512 TAATATA
1 TAATATA
1094519 TAATATAATA
1 T-A-AT-ATA
1094529 TAATATA
1 TAATATA
1094536 TAATATA
1 TAATATA
1094543 TAATATA
1 TAATATA
1094550 TAATATACA
1 TAATAT--A
*
1094559 AAATATA
1 TAATATA
*
1094566 TACTATA
1 TAATATA
1094573 TAATAT
1 TAATAT
1094579 CCCTGACGAA
Statistics
Matches: 188, Mismatches: 26, Indels: 40
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.03
6 18 0.10
7 122 0.65
8 21 0.11
9 18 0.10
10 4 0.02
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (7 bp):
TAATATA
Found at i:1095201 original size:175 final size:176
Alignment explanation
Indices: 1094895--1095224 Score: 464
Period size: 175 Copynumber: 1.9 Consensus size: 176
1094885 AGTCAACCTT
* * * ** *
1094895 GATCTTTTCCTCGATTTAAAGACCTTGGTTTGAAAATTCGACTGGAAAGTAGTTCCTCGACACTA
1 GATCTTTTCCTCGACTTAAAGACCTCGGTTTGAAAATTCAACCAGAAAGTAGTTCCACGACACTA
* * * *
1094960 CCATGTGGTTAATAGGCCCTCGAGCTGAATGAAATCAAACTCGAAGGTTTTTGTTGACATATAAC
66 CCATATGGCTAATAGGCCCTCGAGCTGAATGAAATCAAACTCGAAGGTTTTTATTGACAGATAAC
*
1095025 CCTTCTCCCCTTGAGTTGTGTTGTACTAAGCTGAGAGATTGCCCCA
131 CCTTCTCCCCTTGAGCTGTGTTGTACTAAGCTGAGAGATTGCCCCA
* * * **
1095071 GATCTTTTTCTTGACTTAAAGACCTCGGTTT-AAACTTCAACCAGAAAGTAGTTCCACGATGCTA
1 GATCTTTTCCTCGACTTAAAGACCTCGGTTTGAAAATTCAACCAGAAAGTAGTTCCACGACACTA
* * * *
1095135 CCATATGGCTGATATGCCCTCGAGCTGAATGAAATCGAACTCGAAGGTTTTTATTGATAGATAAC
66 CCATATGGCTAATAGGCCCTCGAGCTGAATGAAATCAAACTCGAAGGTTTTTATTGACAGATAAC
*
1095200 CCTTCTCGCCTTGAGCTGTGTTGTA
131 CCTTCTCCCCTTGAGCTGTGTTGTA
1095225 AATTTGATAT
Statistics
Matches: 133, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
175 106 0.80
176 27 0.20
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (176 bp):
GATCTTTTCCTCGACTTAAAGACCTCGGTTTGAAAATTCAACCAGAAAGTAGTTCCACGACACTA
CCATATGGCTAATAGGCCCTCGAGCTGAATGAAATCAAACTCGAAGGTTTTTATTGACAGATAAC
CCTTCTCCCCTTGAGCTGTGTTGTACTAAGCTGAGAGATTGCCCCA
Found at i:1095287 original size:85 final size:85
Alignment explanation
Indices: 1095144--1095397 Score: 418
Period size: 85 Copynumber: 3.0 Consensus size: 85
1095134 ACCATATGGC
* * *
1095144 TGATATGCCCTCGAGCTGAATGAAATCGAACTCGAAGGTTTTTATTGATAGATAACCCTTCTCGC
1 TGATATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGC
* *
1095209 CTTGAGCTGTGTTGTAAATT
66 CTTGAGCTATGCTGTAAATT
* *
1095229 TGATATGCCATTGAGCTGAATGAAATCGAACTCGAAGGTTTTTGTTGACAAATAACCCTTCTCGC
1 TGATATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGC
*
1095294 CTTGAGTTATGCTGTAAATT
66 CTTGAGCTATGCTGTAAATT
* *
1095314 TGTTATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTTTTTGTTGACAGGTAACCCTTCTCGC
1 TGATATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGC
1095379 CTTGAGCTATGCTGTAAAT
66 CTTGAGCTATGCTGTAAAT
1095398 AGTTCCTTTA
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 156 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (85 bp):
TGATATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGC
CTTGAGCTATGCTGTAAATT
Found at i:1102668 original size:2 final size:2
Alignment explanation
Indices: 1102661--1102698 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1102651 CTAATTAGTA
1102661 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1102699 GGAGCAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1103096 original size:56 final size:56
Alignment explanation
Indices: 1102899--1105032 Score: 1498
Period size: 56 Copynumber: 38.8 Consensus size: 56
1102889 AAATATGTCT
* * * *
1102899 GCTCCCTA-TTCTTTCAGAGAGTATAGGACTTGAACAATCTTC-G-ATAGGCGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCA-A-ACGGGTTC
* * * * ** * ** *
1102954 GGTCCTTA-TT-TTTCAGGGTGTATGGAACTTAAATAATCTTCAACAAACGTG-TC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* ** *
1103007 TGCTCTCTA-TTCTTTCATAGAGTATA-AGACTCGAACAATCTTCTGCAAACGAGTTC
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* *
1103063 GCTCCCTATTCCTTTCAGGGAGTATAGAACTCGAGA-AATCTTCTGAAAACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGA-ACAATCTTCTGCAAACGGGTTC
*
1103119 GCTCCCTATTCCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * *
1103175 GCTCCCTATTCCTTTAAGGGAGTATAGAACTC-AAGTAATCTTCTGAAAACGAGTTT
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAA-CAATCTTCTGCAAACGGGTTC
* *
1103231 GCTCCCTATTCCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGTGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1103287 TCTCCCTATTCCTTTCAGGGAGTATAAAACTCGAACAATCTTCTGCAAATGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * **
1103343 TCTCCCTATTCCTTTCAGGGAGTATAAAACTCGAACAATCTTCTGCAAACAAGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
1103399 GCTCCCTA-TTCTTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
1 GCTCCCTATTTC-TTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * *** * *
1103455 GTTCCCT-TTT-TTTCAGGGAATATA-ACACTCGAACAATCTTCAATAATCGTG-TC
1 GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * * ** *
1103508 TGCTCCTTATTTC-TTCAGAGAGTAT-GAGACTCGAACAATCTT-TAACAATTGTG-TC
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCT-GCAAACGGGTTC
* * * *** **
1103563 TGCTCCCTATTTC-TTCAGAGAGTAT-GAGACACGAATAATCTTCAATAATA-TTGTAT-
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAA-ACGGGT-TC
* * ** * * * * *** * **
1103619 ACTCTCTA-TTCGATCAGAGAGTAT-GAGACACAAACAATATTCAATAATCTTG-TC
1 GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * * * ** * *
1103673 TGCTCTCTA-TTCGTTCAGAGAGTATA-AGACTCGAACATTCTTCAAC-ATCGTG-TC
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1103727 TGCTCCCTATTTC-TTCAGAGAGTATA-AGACTCGAACAATCTTC-ACTAATCGTG-TC
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGC-AAACGGGTTC
* * * ** * *
1103782 TGCTCCCTATTTC-TTCAGAGAGTATA-AGACTCAAACATTCTTCAAC-ATCGCG-TC
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * ** * *
1103836 TGCTCCCTATTTC-TTCAGAGAGTAT-GAGACTCGAACATTCTTCAAC-ATCGTG-TC
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * * ** * *
1103890 TGCTCCCTATTTC-TTCAGAGAGTATA-AGACTCGAATATTCTTCAAC-ATCGTGTAT-
1 -GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGT-TC
** * * **
1103945 GCTCCCTATTTC-TTCAAAGAATATA-AGACTCGAAC-ATCTTCTTCTTACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGA-ACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * **
1103999 GCTCCCTCTTTC-TCCTGGGAGTATAGAACTCGAAC-ATCTTGTTCTTACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1104053 GCTCCCTCTTTC-TTCAGAGAGTATAGAACTCGAAC-ATCTTCTTCAAATGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1104107 GCTCCCTCTTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * *
1104163 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACAGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* *
1104219 ACTCCCTA-TTCTTTTCAGGGAGTATAGAACTTGCG-A-AATCTTCTGAAAACGGGTTC
1 GCTCCCTATTTC-TTTCAGGGAGTATAGAAC-T-CGAACAATCTTCTGCAAACGGGTTC
* * * *
1104275 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAAAGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1104331 GCTCCTTCTTTTTTTCCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
1 GCTCCCTATTTCTTT-CAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * * *
1104388 GCTCCCTCTTTCTTTTAGGAATTATAGAACTCGAATAATCTTTTGCAAACAGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1104444 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTTGAATAATCTT-TGGCAAACAGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCT-GCAAACGGGTTC
* * *
1104500 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * **
1104556 GCTCGCTCTTTCTCTT--GGGAGTATGGAACTCGAACAATCTTCTTCTTACGGGTTC
1 GCTCCCTATTTCT-TTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * **
1104611 GCTCCATCTTTC-TCCAGGGAGTATAGAACTCGAAC-ATCTTATTCTTACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * ** *
1104665 ACTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAATAATCTTCTATAAACAGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * * **
1104720 GCTCCCTCTTTCTCT-AGGGAGTATGGAACTCAAACAAGCTTCTTCTTACGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * ** *
1104775 GTTCCCTCTTTC-TCCAGGGAGTATAGAACTCGAAC-ATCTTCTTCTTACGGGTTT
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * *
1104829 GCTCCATCTTTC-TTCAGGGAGTATAGAACTCGGAC-ATCTTCTTCAAACGAGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * ** * *
1104883 GCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAACAATCTTCAACAAATGGATTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
* * * * * * * * * *
1104938 ACTCCCTCTTTCTCT-AAGAAGTATGGAATTC-AGAC-ATTTTCTTCAAATGGGTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGA-ACAATCTTCTGCAAACGGGTTC
* * *
1104992 GCTCCCTCTTCCTTT-AGGGAGTATATAACTCGAA-AATCTTC
1 GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTC
1105033 ATTTGCTTTA
Statistics
Matches: 1790, Mismatches: 227, Indels: 125
0.84 0.11 0.06
Matches are distributed among these distances:
53 16 0.01
54 557 0.31
55 476 0.27
56 673 0.38
57 66 0.04
58 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (56 bp):
GCTCCCTATTTCTTTCAGGGAGTATAGAACTCGAACAATCTTCTGCAAACGGGTTC
Found at i:1103957 original size:27 final size:27
Alignment explanation
Indices: 1103873--1103961 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
1103863 GACTCGAACA
*
1103873 TTCTTCAACATCGTGTCTGCTCCCTAT
1 TTCTTCAACATCGTGTATGCTCCCTAT
* * * **
1103900 TTCTTCAGAGA--GTATAAGACT-CGAAT
1 TTCTTCA-ACATCGTGTATG-CTCCCTAT
1103926 ATTCTTCAACATCGTGTATGCTCCCTAT
1 -TTCTTCAACATCGTGTATGCTCCCTAT
1103954 TTCTTCAA
1 TTCTTCAA
1103962 AGAATATAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
26 9 0.20
27 26 0.58
28 10 0.22
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (27 bp):
TTCTTCAACATCGTGTATGCTCCCTAT
Found at i:1104059 original size:162 final size:161
Alignment explanation
Indices: 1103147--1104197 Score: 518
Period size: 164 Copynumber: 6.4 Consensus size: 161
1103137 GGAGTATAGA
* * * * * *
1103147 ACTCGAACAATCTTCTGCAAACGGGTTCGCTCCCTATTCCTTTAAGGGAGTATAGAACTC-AAGT
1 ACTCGAAC-ATCTTCTACATACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA-C
* * * * * * * *
1103211 AATCTTCTGAA-AACGAGTTTGCTCCCTATTCCTTTCAGGGAGTAT-AGAACTCGAACAATCTTC
63 ATTCTTC--AACATCGGGTCTGCTCCCTATTTC-TTCAGAGAGTATAAG-ACTCGAATATTCTTC
** * * * ** * *
1103274 TGCAAACGTGTTCTCTCCCTATTCCTTTCAGGGAGTATAAA
124 AAC-ATCGTGTT-GCTCCCTATTTC-TTCAAAGAATATAAG
* * * * * * *
1103315 ACTCGAACAATCTTCTGCAAATGGGTTCTCTCCCTATTCCTTTCAGGGAGTATAAAACTCGAACA
1 ACTCGAAC-ATCTTCTACATACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAACA
* ** * ** * * * * *
1103380 ATCTTCTGCAAACAAGT-TCGCTCCCTATTCTTTTCAGGGAGTAT-AGAACTCGAACAATCTTCT
64 TTCTTCAAC-ATCGGGTCT-GCTCCCTATT-TCTTCAGAGAGTATAAG-ACTCGAATATTCTTCA
* * * * * ** *
1103443 GCAAACGGGTTCGTTCCCT-TTTTTTCAGGGAATATAAC
125 AC-ATCGTGTT-GCTCCCTATTTCTTCAAAGAATATAAG
* * * *
1103481 ACTCGAACAATCTTC-A-ATAATCGTG-TCTGCTCCTTATTTCTTCAGAGAGTAT-GAGACTCGA
1 ACTCGAAC-ATCTTCTACAT-A-CGGGTTC-GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGA
* * * * * * *
1103542 ACAATCTTTAACAATTGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACACGAATAATCTTCA
61 ACATTCTTCAAC-ATCGGGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATATTCTTCA
* ** * * * * * *
1103607 ATAATATTGTATACTCTCTA-TTCGATCAGAGAGTATGAG
125 A-CATCGTGT-TGCTCCCTATTTC-TTCAAAGAATATAAG
* * * ** *
1103646 ACACAAACAATATTC-A-ATAATCTTG-TCTGCT--CTCTATTCGTTCAGAGAGTATA-AGACTC
1 ACTCGAAC-ATCTTCTACAT-A-CGGGTTC-GCTCCCTCT-TTC-TTCAGGGAGTATAGA-ACTC
* * *
1103705 GAACATTCTTCAACATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
59 GAACATTCTTCAACATCGGGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATATTCTTC
* *
1103770 -ACTAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAG
124 AAC--ATCGTGT-TGCTCCCTATTTCTTCAAAGAATATAAG
* * * * *
1103810 ACTCAAACATTCTTCAACAT-CGCG-TCTGCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAAC
1 ACTCGAACA-TCTTCTACATACGGGTTC-GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAAC
*
1103872 ATTCTTCAACATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATATTCTTCAACA
63 ATTCTTCAACATCGGGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATATTCTTCAACA
1103937 TCGTGTATGCTCCCTATTTCTTCAAAGAATATAAG
128 TCGTGT-TGCTCCCTATTTCTTCAAAGAATATAAG
* * * *
1103972 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCCTGGGAGTATAGAACTCGAACA-T
1 ACTCGAACATCTTCTACATACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATT
*** * * *
1104036 CTTGTTCTTACGGGT-TCGCTCCCTCTTTCTTCAGAGAGTAT-AGAACTCGAACATCTTCTTCAA
66 CTTCAACAT-CGGGTCT-GCTCCCTATTTCTTCAGAGAGTATAAG-ACTCG-A-ATATTCTTCAA
* * * *
1104099 -AT-GGGTTCGCTCCCTCTTTCTTTC-AGGAAGTATAAA
126 CATCGTGTT-GCTCCCTATTTC-TTCAAAGAA-TATAAG
* * * *
1104135 ACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAA
1 ACTCGAA-CATCTTCTACATACGGGTTCGCTCCCTCTTTC-TTCAGGGAGTATAGAACTCGAA
1104198 TAATCTTCTG
Statistics
Matches: 732, Mismatches: 110, Indels: 85
0.79 0.12 0.09
Matches are distributed among these distances:
161 17 0.02
162 123 0.17
163 115 0.16
164 165 0.23
165 139 0.19
166 42 0.06
167 3 0.00
168 126 0.17
169 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (161 bp):
ACTCGAACATCTTCTACATACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATT
CTTCAACATCGGGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAATATTCTTCAACATCG
TGTTGCTCCCTATTTCTTCAAAGAATATAAG
Found at i:1104369 original size:225 final size:222
Alignment explanation
Indices: 1104048--1104912 Score: 929
Period size: 225 Copynumber: 3.9 Consensus size: 222
1104038 TGTTCTTACG
* * *
1104048 GGTTCGCTCCCTCTTTC-TTCA-GAGAGTATAGAACTCGAA-CATCTTCTTCAAATGGGTTCGCT
1 GGTTCGCTCCCTCTTTCTTTCAGGA-AGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCT
* * *
1104110 CCCTCTTTCTTTCAGGAAGTATAAAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTC
65 -CCTCTTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCATCTTTC
* *
1104175 TTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACAGGTTCACTCCCTATTCTTTTCAGGGA
129 -TTCAGGAAGTATAGAACTCGAATAATCTTATGCAAACAGGTTCACTCCCTCTT-TTTTCAGGGA
*
1104240 GTATAGAACTTGCGA-AATCTTCTGAAAACG
192 GTATAGAACTTGCGATAATCTTCTGAAAACA
*
1104270 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAAAGGGTTCGCTC
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTC
*
1104335 CTTCTTTTTTTCCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCCTCTTTC
66 C-TCTTTTTTT-CAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCATCTTTC
* * * * *
1104400 TTTTAGGAATTATAGAACTCGAATAATCTTTTGCAAACAGGTTCGCTCCCTCTTTCTTTCAGGAA
129 -TTCAGGAAGTATAGAACTCGAATAATCTTATGCAAACAGGTTCACTCCCTCTTT-TTTCAGGGA
* *
1104465 GTATAGAACTTG-AATAATCTT-TGGCAAACA
192 GTATAGAACTTGCGATAATCTTCT-GAAAACA
1104495 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTC
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTC
* * * * * **
1104560 GCTCTTTCTCTT--GGGAGTATGGAACTCGAACAATCTTCTTCTTACGGGTTCGCTCCATCTTTC
66 -CTCTTT-TTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCATCTTTC
* * * * ** * *
1104623 TCCAGGGAGTATAGAACTCGAA-CATCTTATTCTTACGGGTTCACTCCCTCTTTCTTCAGGGAGT
129 TTCAGGAAGTATAGAACTCGAATAATCTTATGCAAACAGGTTCACTCCCTCTTTTTTCAGGGAGT
1104687 ATAGAAC-T-CGAATAATCTTCT-ATAAACA
194 ATAGAACTTGCG-ATAATCTTCTGA-AAACA
* * * * * * * ** *
1104715 GGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCAAACAAGCTTCTTCTTACGGGTTCGTTC
1 GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTC
* * * * * ** *
1104779 C-CTCTTTCTCCAGGGAGTATAGAACTCGAA-CATCTTCTTCTTACGGGTTTGCTCCATCTTTCT
66 CTCT-TTTTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCATCTTTCT
* * * * * * *
1104842 TCAGGGAGTATAGAACTCGGA-CATCTTCTTCAAAC-GAGTTCGCTCCCTC-TTTCTCTAGGGAG
130 TCAGGAAGTATAGAACTCGAATAATCTTATGCAAACAG-GTTCACTCCCTCTTTTTTC-AGGGAG
*
1104904 TATGGAACT
193 TATAGAACT
1104913 CGAACAATCT
Statistics
Matches: 562, Mismatches: 61, Indels: 43
0.84 0.09 0.06
Matches are distributed among these distances:
217 10 0.02
218 88 0.16
219 53 0.09
220 48 0.09
221 25 0.04
222 35 0.06
223 65 0.12
224 33 0.06
225 201 0.36
226 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (222 bp):
GGTTCGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTC
CTCTTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCTGCAAACGGGTTCGCTCCATCTTTCTT
CAGGAAGTATAGAACTCGAATAATCTTATGCAAACAGGTTCACTCCCTCTTTTTTCAGGGAGTAT
AGAACTTGCGATAATCTTCTGAAAACA
Found at i:1105461 original size:37 final size:37
Alignment explanation
Indices: 1105430--1105522 Score: 141
Period size: 37 Copynumber: 2.5 Consensus size: 37
1105420 TTGCTCCAAC
* *
1105430 ACTCTTCCGAGAAGGCTTAAAATGGACTTGCTTCACT
1 ACTCTTCAGTGAAGGCTTAAAATGGACTTGCTTCACT
* *
1105467 ACTCTTCAGTGAAGGCTTAAGATGGAGTTGCTTCACT
1 ACTCTTCAGTGAAGGCTTAAAATGGACTTGCTTCACT
*
1105504 ACTCTTCGGTGAAGGCTTA
1 ACTCTTCAGTGAAGGCTTA
1105523 GGATTGACTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (37 bp):
ACTCTTCAGTGAAGGCTTAAAATGGACTTGCTTCACT
Found at i:1106951 original size:125 final size:124
Alignment explanation
Indices: 1106746--1106970 Score: 337
Period size: 125 Copynumber: 1.8 Consensus size: 124
1106736 ACTGGTACGA
* * * * *
1106746 GCCTTCAAAATGCCCCAACATCTCATATTGTAAGCTCACTCTCAATGCCTTCTTGGTCTAAATCT
1 GCCTTCAAAATGCCCCAACACCTCAAATCGTAAGCTCACTCTCAATGCCTCCTTGATCTAAATCT
1106811 TGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCATCAGTGTCTTATATTGGGATGG
66 TGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCATCAGTGTCTTATATTGGGATGG
* *
1106870 GCCTTCAAAATGCCCCATCACCTCAAATCGTAAGGCTCATTCTTC-ATGCCTCCTTGATC-AGAA
1 GCCTTCAAAATGCCCCAACACCTCAAATCGTAA-GCTCACTC-TCAATGCCTCCTTGATCTA-AA
*
1106933 TCTTGTCATCTCAACATGATGTGGGTTCAGTCGTGCCC
63 TCTTGTCATCTCAACATGATGTGGGTTCAGTCATGCCC
1106971 TAACATATCA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
124 30 0.33
125 58 0.64
126 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (124 bp):
GCCTTCAAAATGCCCCAACACCTCAAATCGTAAGCTCACTCTCAATGCCTCCTTGATCTAAATCT
TGTCATCTCAACATGATGTGGGTTCAGTCATGCCCCATCAGTGTCTTATATTGGGATGG
Found at i:1110552 original size:21 final size:22
Alignment explanation
Indices: 1110525--1110621 Score: 114
Period size: 21 Copynumber: 4.6 Consensus size: 22
1110515 CAATGCGAAG
*
1110525 TGGTCTTCAT-GTCTTTATGAA
1 TGGTCTTCATCGTCTTGATGAA
* *
1110546 GGGTCTTCAT-GTCTTTATGAA
1 TGGTCTTCATCGTCTTGATGAA
* *
1110567 TGGTATT-TTCGTCTTGATGAA
1 TGGTCTTCATCGTCTTGATGAA
1110588 TGGTCTTC-TCGTCTTGATGAA
1 TGGTCTTCATCGTCTTGATGAA
1110609 TGGTCTTC-TCGTC
1 TGGTCTTCATCGTC
1110622 CTTGGTACGA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
20 1 0.01
21 67 0.99
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.45
Consensus pattern (22 bp):
TGGTCTTCATCGTCTTGATGAA
Found at i:1119208 original size:20 final size:19
Alignment explanation
Indices: 1119172--1119211 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1119162 AAAACAATAC
1119172 ATAATAAAAATATAATATT
1 ATAATAAAAATATAATATT
*
1119191 ATAATATAAATAATAATATT
1 ATAATAAAAAT-ATAATATT
1119211 A
1 A
1119212 ATATAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATAAAAATATAATATT
Found at i:1119283 original size:37 final size:37
Alignment explanation
Indices: 1119242--1119532 Score: 159
Period size: 37 Copynumber: 8.1 Consensus size: 37
1119232 ATATGTCCAA
* * ** *
1119242 AAAAACATTTTCGAAATTATATAGCATATATGTTTTC
1 AAAAACATTTTCAAAACTATATATTATATATATTTTC
*
1119279 AAAAATTGATTTTCAAAAC--TATA-TA-ATATATTTTC
1 AAAAA--CATTTTCAAAACTATATATTATATATATTTTC
* *
1119314 AAAAATTGATTTTCAAAACTATATATTATATACATTTTC
1 AAAAA--CATTTTCAAAACTATATATTATATATATTTTC
* *
1119353 AAAAATATTTTTAAAACTATATATTATATATATTTTC
1 AAAAACATTTTCAAAACTATATATTATATATATTTTC
* * * * *
1119390 AAAAAC----T-ATAATTATATATTTTCAAAATATTTTT
1 AAAAACATTTTCAAAACTATATATTAT--ATATATTTTC
* * *
1119424 AAAAAC--TGT--ATATTATATA-TATATATATATTT-
1 AAAAACATTTTCAAAACTATATATTATATATAT-TTTC
* * *
1119456 -AAAA-TTTTTCAAAACTATATAATATATATAGTTTTG
1 AAAAACATTTTCAAAACTATATATTATATATA-TTTTC
* * *
1119492 AATACCGTTTTCAAAACTATATGA-TATATATATTTTC
1 AAAAACATTTTCAAAACTATAT-ATTATATATATTTTC
1119529 AAAA
1 AAAA
1119533 GCTGATTTTT
Statistics
Matches: 206, Mismatches: 27, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
31 4 0.02
32 19 0.09
33 4 0.02
34 24 0.12
35 47 0.23
36 3 0.01
37 56 0.27
38 25 0.12
39 24 0.12
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAAACATTTTCAAAACTATATATTATATATATTTTC
Found at i:1119291 original size:39 final size:39
Alignment explanation
Indices: 1119248--1119394 Score: 189
Period size: 37 Copynumber: 3.9 Consensus size: 39
1119238 CCAAAAAAAC
* * ** *
1119248 ATTTTCGAAATTATATAGCATATATGTTTTCAAAAATTG
1 ATTTTCAAAACTATATATTATATATATTTTCAAAAATTG
1119287 ATTTTCAAAAC--TATA-TA-ATATATTTTCAAAAATTG
1 ATTTTCAAAACTATATATTATATATATTTTCAAAAATTG
*
1119322 ATTTTCAAAACTATATATTATATACATTTTCAAAAA-T-
1 ATTTTCAAAACTATATATTATATATATTTTCAAAAATTG
*
1119359 ATTTTTAAAACTATATATTATATATATTTTCAAAAA
1 ATTTTCAAAACTATATATTATATATATTTTCAAAAA
1119395 CTATAATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
35 28 0.29
36 1 0.01
37 42 0.43
38 3 0.03
39 23 0.24
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (39 bp):
ATTTTCAAAACTATATATTATATATATTTTCAAAAATTG
Found at i:1119320 original size:35 final size:35
Alignment explanation
Indices: 1119269--1119381 Score: 149
Period size: 35 Copynumber: 3.2 Consensus size: 35
1119259 TATATAGCAT
*
1119269 ATATGTTTTCAAAAATTGATTTTCAAAACTATATA
1 ATATATTTTCAAAAATTGATTTTCAAAACTATATA
1119304 ATATATTTTCAAAAATTGATTTTCAAAACTATATA
1 ATATATTTTCAAAAATTGATTTTCAAAACTATATA
*
1119339 TTATATACATTTTCAAAAA-T-ATTTTTAAAACTATATA
1 --ATAT--ATTTTCAAAAATTGATTTTCAAAACTATATA
*
1119376 TTATAT
1 ATATAT
1119382 ATATTTTCAA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
33 2 0.03
35 37 0.52
37 20 0.28
38 1 0.01
39 11 0.15
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (35 bp):
ATATATTTTCAAAAATTGATTTTCAAAACTATATA
Found at i:1119405 original size:23 final size:26
Alignment explanation
Indices: 1119357--1119416 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 26
1119347 ATTTTCAAAA
*
1119357 ATATTTT-TAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
1119382 ATATTTTCAAAAACTATA-A-T-TAT
1 ATATTTTCAAAAACTATATATTATAT
1119405 ATATTTTCAAAA
1 ATATTTTCAAAA
1119417 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
23 15 0.45
24 1 0.03
25 8 0.24
26 9 0.27
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTTCAAAAACTATATATTATAT
Found at i:1119406 original size:32 final size:33
Alignment explanation
Indices: 1119370--1119455 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 33
1119360 TTTTTAAAAC
1119370 TATATATTATATATATTTTCAAAAACTATA-AT
1 TATATATTATATATATTTTCAAAAACTATATAT
* * * *
1119402 TATATATTTTCAAAATATTTTTAAAAACTGTATAT
1 TATATATTAT--ATATATTTTCAAAAACTATATAT
1119437 TATATATATATATATATTT
1 TATATAT-TATATATATTT
1119456 AAAATTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 9 0.20
34 24 0.55
35 9 0.20
36 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (33 bp):
TATATATTATATATATTTTCAAAAACTATATAT
Found at i:1119414 original size:60 final size:61
Alignment explanation
Indices: 1119322--1119445 Score: 191
Period size: 60 Copynumber: 2.0 Consensus size: 61
1119312 TCAAAAATTG
1119322 ATTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTT-AAAACTATATATTATATAT
1 ATTTTCAAAACTATATATTATATA-ATTTTC-AAAATATTTTTAAAAACTATATATTATATAT
*
1119384 ATTTTCAAAAACTATA-ATTATAT-ATTTTCAAAATATTTTTAAAAACTGTATATTATATAT
1 ATTTTC-AAAACTATATATTATATAATTTTCAAAATATTTTTAAAAACTATATATTATATAT
1119444 AT
1 AT
1119446 ATATATATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
59 11 0.19
60 26 0.44
62 13 0.22
63 9 0.15
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (61 bp):
ATTTTCAAAACTATATATTATATAATTTTCAAAATATTTTTAAAAACTATATATTATATAT
Found at i:1119449 original size:41 final size:41
Alignment explanation
Indices: 1119402--1119485 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
1119392 AAACTATAAT
* * *
1119402 TATATATTTTCAAAATATTTTTAAAAACTGTATATTATATATA
1 TATATATATT-AAAA-ATTTTTAAAAACTATATAATATATATA
* *
1119445 TATATATATTTAAAATTTTTCAAAACTATATAATATATATA
1 TATATATATTAAAAATTTTTAAAAACTATATAATATATATA
1119486 GTTTTGAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 24 0.67
42 3 0.08
43 9 0.25
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (41 bp):
TATATATATTAAAAATTTTTAAAAACTATATAATATATATA
Found at i:1120235 original size:2 final size:2
Alignment explanation
Indices: 1120228--1120302 Score: 143
Period size: 2 Copynumber: 38.0 Consensus size: 2
1120218 AATATACCTG
1120228 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1120270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1120303 AATACACTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1120480 original size:2 final size:2
Alignment explanation
Indices: 1120473--1120508 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1120463 ATTAATAATG
1120473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1120509 CATTATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1135542 original size:17 final size:17
Alignment explanation
Indices: 1135520--1135555 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1135510 TTGATTGTTG
1135520 ACTGTTGA-CGTACATTA
1 ACTGTTGACCG-ACATTA
1135537 ACTGTTGACCGACATTA
1 ACTGTTGACCGACATTA
1135554 AC
1 AC
1135556 CACTGTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (17 bp):
ACTGTTGACCGACATTA
Found at i:1137864 original size:24 final size:24
Alignment explanation
Indices: 1137832--1137888 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1137822 TTATAACACC
1137832 TGACATGGATTCTGA-ACGGATACT
1 TGACATGGATTCTGATA-GGATACT
* * *
1137856 TGACCTGGATTTTGATATGATACT
1 TGACATGGATTCTGATAGGATACT
*
1137880 TGACTTGGA
1 TGACATGGA
1137889 CTATGTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (24 bp):
TGACATGGATTCTGATAGGATACT
Found at i:1141565 original size:65 final size:65
Alignment explanation
Indices: 1141432--1141591 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 65
1141422 TGCACTAAGA
* * *
1141432 GTGCACCGATGCATAAAATGTATTCGATG-TTTCAAAATAGCCAGATTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
* * * *
1141496 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCT
*
1141559 AT
65 -G
*
1141561 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
1141592 CAATTTAATT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.31
65 54 0.65
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
Found at i:1141639 original size:65 final size:64
Alignment explanation
Indices: 1141432--1141641 Score: 198
Period size: 65 Copynumber: 3.2 Consensus size: 64
1141422 TGCACTAAGA
* * * * * *
1141432 GTGCACCGATGCATAAAATGTATTCGATGTTTCA-AAATAGCCA-GATTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-A-TCATGAGTGCATCGATGCATGGTT
1141495 G
64 G
* *
1141496 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAAATCCTGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCATGAGTGCATCGATGCATGGT-T
1141561 -
64 G
* * * *
1141561 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATG-GTGCATCGATGCTTGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-A-TAAAATCATGAGTGCATCGATGCATGG-T
1141624 TG
63 TG
1141626 GTGCATCTG-TGCATCA
1 GTGCATC-GATGCATCA
1141642 CTCTGAAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
63 3 0.02
64 43 0.35
65 71 0.58
66 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCATGAGTGCATCGATGCATGGTTG
Found at i:1143551 original size:24 final size:24
Alignment explanation
Indices: 1143519--1143580 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
1143509 TTATGTTATA
* *
1143519 ATACCTGACTTGGATTCTGAAT-GG
1 ATACTTGACCTGGATTCTG-ATCGG
* *
1143543 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
1143567 ATACTTGACCTGGA
1 ATACTTGACCTGGA
1143581 CTATGTATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:1154116 original size:22 final size:22
Alignment explanation
Indices: 1154074--1154118 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
1154064 TATAGCCCTG
1154074 ATTTCCTCTTCAAGTTGTTTTT
1 ATTTCCTCTTCAAGTTGTTTTT
*
1154096 ATTT-CTCTTCTAGTTGTTTTT
1 ATTTCCTCTTCAAGTTGTTTTT
1154117 AT
1 AT
1154119 GCTCTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.13, C:0.16, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTTCCTCTTCAAGTTGTTTTT
Found at i:1159105 original size:2 final size:2
Alignment explanation
Indices: 1159098--1159248 Score: 258
Period size: 2 Copynumber: 78.0 Consensus size: 2
1159088 ATGCATAAAT
1159098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1159140 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1159181 TA TA TA TA TA TA TA TA TG TA TA TA -A TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1159221 TA -A TA T- 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
1159249 ATAAGGTACA
Statistics
Matches: 142, Mismatches: 2, Indels: 10
0.92 0.01 0.06
Matches are distributed among these distances:
1 5 0.04
2 137 0.96
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1159298 original size:35 final size:32
Alignment explanation
Indices: 1159168--1159288 Score: 104
Period size: 31 Copynumber: 3.7 Consensus size: 32
1159158 ATATATATAT
** * *
1159168 ATATATATATATATATATATATATATATATGTAT
1 ATATATATATATATA-ATA-AGGTACATATGTAA
* * * *
1159202 ATAATATATATATATAATATA-ATA-TTATATAT
1 AT-ATATATATATATAATA-AGGTACATATGTAA
1159234 ATATATATATATATAATAAGGTACATATGTAA
1 ATATATATATATATAATAAGGTACATATGTAA
1159266 ATATA-ATATATATACATAAGGTA
1 ATATATATATATATA-ATAAGGTA
1159289 TTACGTATGT
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
30 1 0.01
31 27 0.35
32 26 0.34
33 3 0.04
34 7 0.09
35 13 0.17
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (32 bp):
ATATATATATATATAATAAGGTACATATGTAA
Found at i:1159378 original size:16 final size:18
Alignment explanation
Indices: 1159345--1159379 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1159335 TAATAAAAAA
1159345 ATATACTGTATATAACAT
1 ATATACTGTATATAACAT
1159363 ATATA-TGTATAT-ACAT
1 ATATACTGTATATAACAT
1159379 A
1 A
1159380 CTTAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (18 bp):
ATATACTGTATATAACAT
Found at i:1162185 original size:31 final size:28
Alignment explanation
Indices: 1162118--1162186 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
1162108 TTAGTTTATG
1162118 TTTTATTTATTTTAGTCCCTAAGATTCT
1 TTTTATTTATTTTAGTCCCTAAGATTCT
* *
1162146 TTTT-TTTATTTTAGTCCTTAAGGTTTCT
1 TTTTATTTATTTTAGTCCCTAA-GATTCT
1162174 ATTTTACTTTATT
1 -TTTTA-TTTATT
1162187 AGCCCTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 16 0.46
28 9 0.26
29 4 0.11
31 6 0.17
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (28 bp):
TTTTATTTATTTTAGTCCCTAAGATTCT
Found at i:1163125 original size:14 final size:14
Alignment explanation
Indices: 1163086--1163135 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
1163076 ACAGACCGAT
1163086 TTTTATCTTAAAATG
1 TTTT-TCTTAAAATG
1163101 ATTTTTCTTAAAATTG
1 -TTTTTCTTAAAA-TG
1163117 TTTTT-TTAAAGATG
1 TTTTTCTTAAA-ATG
1163131 TTTTT
1 TTTTT
1163136 AGGTATTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 12 0.38
15 14 0.44
16 6 0.19
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (14 bp):
TTTTTCTTAAAATG
Found at i:1164998 original size:8 final size:8
Alignment explanation
Indices: 1164985--1165015 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
1164975 TTGCATCTGC
1164985 ATTTGCAT
1 ATTTGCAT
1164993 ATTTGCAT
1 ATTTGCAT
1165001 ATTTGCAT
1 ATTTGCAT
1165009 -TTTGCAT
1 ATTTGCAT
1165016 CTGCATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (8 bp):
ATTTGCAT
Found at i:1167690 original size:36 final size:37
Alignment explanation
Indices: 1167650--1167751 Score: 134
Period size: 36 Copynumber: 2.8 Consensus size: 37
1167640 TTGTTTTCTC
* * *
1167650 AAAAACAAACTTTGTCTTGCTTGAGATAATTTATCT-
1 AAAAACAAATTTTGTCTCGCTTGAGACAATTTATCTA
* * *
1167686 AAAAACATATTTTCTCTCGCTTGAGACAATTTCTCTAA
1 AAAAACAAATTTTGTCTCGCTTGAGACAATTTATCT-A
1167724 AAAAACAAATTTTGTCTCGCTTGAGACA
1 AAAAACAAATTTTGTCTCGCTTGAGACA
1167752 TTTTTCCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 30 0.54
38 26 0.46
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (37 bp):
AAAAACAAATTTTGTCTCGCTTGAGACAATTTATCTA
Found at i:1169274 original size:121 final size:121
Alignment explanation
Indices: 1169060--1169303 Score: 488
Period size: 121 Copynumber: 2.0 Consensus size: 121
1169050 GGATTTCGTG
1169060 AAGATCATGCTATTAATTAGATTTTGAACTTGTTTAATCGAAATCTTCAACCTAATCTACAAAAT
1 AAGATCATGCTATTAATTAGATTTTGAACTTGTTTAATCGAAATCTTCAACCTAATCTACAAAAT
1169125 ACGAAATATAATCAAAATCCATGATTTAAGCAATTTTAGTTATTCAAATATGAGGA
66 ACGAAATATAATCAAAATCCATGATTTAAGCAATTTTAGTTATTCAAATATGAGGA
1169181 AAGATCATGCTATTAATTAGATTTTGAACTTGTTTAATCGAAATCTTCAACCTAATCTACAAAAT
1 AAGATCATGCTATTAATTAGATTTTGAACTTGTTTAATCGAAATCTTCAACCTAATCTACAAAAT
1169246 ACGAAATATAATCAAAATCCATGATTTAAGCAATTTTAGTTATTCAAATATGAGGA
66 ACGAAATATAATCAAAATCCATGATTTAAGCAATTTTAGTTATTCAAATATGAGGA
1169302 AA
1 AA
1169304 ATATCATAGA
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 123 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (121 bp):
AAGATCATGCTATTAATTAGATTTTGAACTTGTTTAATCGAAATCTTCAACCTAATCTACAAAAT
ACGAAATATAATCAAAATCCATGATTTAAGCAATTTTAGTTATTCAAATATGAGGA
Found at i:1172619 original size:141 final size:141
Alignment explanation
Indices: 1172376--1172644 Score: 423
Period size: 141 Copynumber: 1.9 Consensus size: 141
1172366 TCGATCTTGC
* * * *
1172376 GAAATGTCTTAAGAATTTCTTTCTCTTCTGTTTCTTTCTTGAACTTAGTGAATCTAGCGAGAAAA
1 GAAATGTCTCAAGAATTTCTTTATCTTCTGCTTCTTTCTTGAACTTAGCGAATCTAGCGAGAAAA
* * *
1172441 GGAGGTTTTATGACAAATTCCTTCTGTTATTCACTTTTGAGTCCTTTGGGTTGGTCTTTCTGATT
66 GAAGGTTTTATGACAAATTCCTTCTGTTATTCACTTTTGAGTCATTTAGGTTGGTCTTTCTGATT
1172506 CTCGATCTCAT
131 CTCGATCTCAT
* *
1172517 GAAATGTCTCAAGAATTTCTTTATCTTCTGCTTCTTTCTTGTACTTAGCGAATCTAGCGGGAAAA
1 GAAATGTCTCAAGAATTTCTTTATCTTCTGCTTCTTTCTTGAACTTAGCGAATCTAGCGAGAAAA
* *
1172582 GAAGGTTTTATGACAAATTCCTT-TGGTTTTTCGCTTTTGAGTCATTTAGGTTGGTCTTTCTGA
66 GAAGGTTTTATGACAAATTCCTTCT-GTTATTCACTTTTGAGTCATTTAGGTTGGTCTTTCTGA
1172645 GTCTGGGGAG
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
140 1 0.01
141 115 0.99
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (141 bp):
GAAATGTCTCAAGAATTTCTTTATCTTCTGCTTCTTTCTTGAACTTAGCGAATCTAGCGAGAAAA
GAAGGTTTTATGACAAATTCCTTCTGTTATTCACTTTTGAGTCATTTAGGTTGGTCTTTCTGATT
CTCGATCTCAT
Found at i:1176226 original size:28 final size:28
Alignment explanation
Indices: 1176195--1176276 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
1176185 GAAACACATC
* *
1176195 ATCTTTAAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTCTGTTTTTCTTGAAACAA
*
1176223 ATCTTTGAGCCTGTTTCTT-TTGAAACAA
1 ATCTTTGAGTCTGTTT-TTCTTGAAACAA
* *
1176251 ATCTTTGAGTCGGTTTCTCTTGAAAC
1 ATCTTTGAGTCTGTTTTTCTTGAAAC
1176277 CATAATCCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 43 0.93
29 2 0.04
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (28 bp):
ATCTTTGAGTCTGTTTTTCTTGAAACAA
Found at i:1176524 original size:134 final size:134
Alignment explanation
Indices: 1176284--1176644 Score: 406
Period size: 134 Copynumber: 2.7 Consensus size: 134
1176274 AACCATAATC
* * * *
1176284 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACTGTGTCATCCCCTGACTAGACCTCCTCAT
1 CCTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCCCGACCAGACCTCCTCAT
* * * *
1176349 CACATAGGAGCCGTGTCAACCATAGATAATCAGTCGTCCTCATCACGTAAGAACCGAA-TTATCA
66 CACGTAGGAGCCGTGTCACCCATAGATAACCAATCGTCCTCATCACGTAAGAACC-AAGTTATCA
1176413 -TCATT
130 TTC-TT
* * * *
1176418 CCTAAAGATGG-CATGTCGTCCTCATCACATAGGAACCGTGTCATCCCCCGACCAGAGCTCCTCA
1 CCTAAAGATGGCCA-GACGTCCTCATCACGTAGGAACAGTGTCATCCCCCGACCAGACCTCCTCA
* * * ** *
1176482 TAACGTAAGAGCCGTGTCACCCCTAGATAACCAATCGTCCTCATCGTGTAGGAACCAAGTTATCA
65 TCACGTAGGAGCCGTGTCACCCATAGATAACCAATCGTCCTCATCACGTAAGAACCAAGTTATCA
1176547 TTCTT
130 TTCTT
* * * **
1176552 CCTAAAGATGGCCAAGAAC-TCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATATCCTC
1 CCTAAAGATGGCC-AG-ACGTCCTCATCACGTAGGAACAGTGTCATCCCCCGACCAGACCTCCTC
* ** *
1176616 ATCATGTAGGAGTTGTGTCACCCTTAGAT
64 ATCACGTAGGAGCCGTGTCACCCATAGAT
1176645 GACTAGACCT
Statistics
Matches: 191, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
133 4 0.02
134 120 0.63
135 65 0.34
136 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (134 bp):
CCTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCCCGACCAGACCTCCTCAT
CACGTAGGAGCCGTGTCACCCATAGATAACCAATCGTCCTCATCACGTAAGAACCAAGTTATCAT
TCTT
Found at i:1176858 original size:3 final size:3
Alignment explanation
Indices: 1176850--1176887 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
1176840 TAATTTTAAT
1176850 TTA TTA TTA -TA TTTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
1176888 TTACAATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.88
4 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1178370 original size:30 final size:29
Alignment explanation
Indices: 1178298--1178370 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
1178288 TAGCCCCTTC
* *
1178298 AGTTTCTGTTTTATTTATTTTAGTCCCTA
1 AGTTTCTATTTTTTTTATTTTAGTCCCTA
** *
1178327 AAATTCTATTTTTTTTTATTTTAGTCCTTGA
1 AGTTTCTA-TTTTTTTTATTTTAGTCCCT-A
*
1178358 GGTTTCTATTTTT
1 AGTTTCTATTTTT
1178371 ACTTTGTTAG
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
29 5 0.15
30 23 0.68
31 6 0.18
ACGTcount: A:0.18, C:0.11, G:0.10, T:0.62
Consensus pattern (29 bp):
AGTTTCTATTTTTTTTATTTTAGTCCCTA
Found at i:1182116 original size:12 final size:12
Alignment explanation
Indices: 1182101--1182136 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1182091 TATAATTTAG
1182101 GCAACTAAATAT
1 GCAACTAAATAT
1182113 GCAACTAAATAT
1 GCAACTAAATAT
*
1182125 ACAACATAAATA
1 GCAAC-TAAATA
1182137 CAAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.22
Consensus pattern (12 bp):
GCAACTAAATAT
Found at i:1187244 original size:18 final size:17
Alignment explanation
Indices: 1187196--1187246 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1187186 TATAATAACA
*
1187196 ATATTTTGAAATATATC
1 ATATTTTGAGATATATC
*
1187213 A-AGTTTTAAGATATATC
1 ATA-TTTTGAGATATATC
1187230 ATATTTGTGAGATATAT
1 ATATTT-TGAGATATAT
1187247 AAAATTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.04
17 17 0.61
18 10 0.36
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (17 bp):
ATATTTTGAGATATATC
Found at i:1187658 original size:17 final size:17
Alignment explanation
Indices: 1187636--1187671 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1187626 TTCGACAAAC
*
1187636 ATTTAACTTATTTAAGA
1 ATTTAACTTATTGAAGA
*
1187653 ATTTAAGTTATTGAAGA
1 ATTTAACTTATTGAAGA
1187670 AT
1 AT
1187672 CAGAGACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (17 bp):
ATTTAACTTATTGAAGA
Found at i:1188572 original size:18 final size:19
Alignment explanation
Indices: 1188534--1188578 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
1188524 TAAATTTTAA
1188534 TAAAAGTATATTAAAAATTT
1 TAAAA-TATATTAAAAATTT
*
1188554 TAAAATATA-TAATAATTT
1 TAAAATATATTAAAAATTT
1188572 TAAAATA
1 TAAAATA
1188579 CAACCGCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 15 0.62
19 4 0.17
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAATATATTAAAAATTT
Found at i:1189028 original size:18 final size:17
Alignment explanation
Indices: 1188980--1189030 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
1188970 TATAATAACA
*
1188980 ATATTTTGAAATATATC
1 ATATTTTGAGATATATC
*
1188997 A-AGTTTTAAGATATATC
1 ATA-TTTTGAGATATATC
1189014 ATATTTGTGAGATATAT
1 ATATTT-TGAGATATAT
1189031 AAAATTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 1 0.04
17 17 0.61
18 10 0.36
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (17 bp):
ATATTTTGAGATATATC
Found at i:1189440 original size:17 final size:17
Alignment explanation
Indices: 1189418--1189453 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1189408 TTCGACAAAC
*
1189418 ATTTAACTTATTTAAGA
1 ATTTAACTTATTGAAGA
*
1189435 ATTTAAGTTATTGAAGA
1 ATTTAACTTATTGAAGA
1189452 AT
1 AT
1189454 CAGAGGCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (17 bp):
ATTTAACTTATTGAAGA
Found at i:1190482 original size:2 final size:2
Alignment explanation
Indices: 1190475--1190501 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1190465 AGTTAATTGA
1190475 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1190502 CAAGTATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1194769 original size:30 final size:30
Alignment explanation
Indices: 1194748--1194808 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1194738 TGCATATTTT
* *
1194748 TAATATCTTTTATAGGCCCATGTACAATAC
1 TAATATCTTTTATAAGCCCATGCACAATAC
* *
1194778 TAATATCTTTTATAAGCCCATGTACATTAC
1 TAATATCTTTTATAAGCCCATGCACAATAC
1194808 T
1 T
1194809 GAGAACTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (30 bp):
TAATATCTTTTATAAGCCCATGCACAATAC
Found at i:1194920 original size:21 final size:21
Alignment explanation
Indices: 1194895--1195001 Score: 77
Period size: 21 Copynumber: 5.5 Consensus size: 21
1194885 TGTCCTATCA
1194895 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
** *
1194916 TCCCGAAGGACCT-ATC---A
1 TCCCGAAGGATGTCATCTGTG
*
1194933 TCTCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
** *
1194954 TCCCGAAGGACCT-ATC---A
1 TCCCGAAGGATGTCATCTGTG
1194971 TCCCGAAGGATGTCATCTGTG
1 TCCCGAAGGATGTCATCTGTG
* *
1194992 ACCCAAAGGA
1 TCCCGAAGGA
1195002 CCTATCATCC
Statistics
Matches: 62, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
17 21 0.34
18 6 0.10
20 6 0.10
21 29 0.47
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (21 bp):
TCCCGAAGGATGTCATCTGTG
Found at i:1194976 original size:17 final size:17
Alignment explanation
Indices: 1194916--1194980 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
1194906 GTCATCTGTG
1194916 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
* ** *
1194933 TCTCGAAGGATGTCATCTGTG
1 TCCCGAAGGACCT-ATC---A
1194954 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
1194971 TCCCGAAGGA
1 TCCCGAAGGA
1194981 TGTCATCTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
17 20 0.56
18 3 0.08
20 3 0.08
21 10 0.28
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Found at i:1195047 original size:38 final size:38
Alignment explanation
Indices: 1194876--1195036 Score: 259
Period size: 38 Copynumber: 4.2 Consensus size: 38
1194866 CTCGTATAAA
* *
1194876 TGTCCCGAATGTCCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
*
1194914 TGTCCCGAAGGACCTATCATCTCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1194952 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
* * * *
1194990 TGACCCAAAGGACCTATCATCCCGAAAGATGTCATATG
1 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1195028 TGTCCCGAA
1 TGTCCCGAA
1195037 TAACCCATCA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 113 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
Found at i:1195250 original size:33 final size:33
Alignment explanation
Indices: 1195199--1195263 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1195189 ATCATGTAGC
*
1195199 TTGTATAATATTCTTGTATGATCTCATAGATCA
1 TTGTATAACATTCTTGTATGATCTCATAGATCA
*
1195232 TTGTGTAACATTCTTGTATGATCTCATAGATC
1 TTGTATAACATTCTTGTATGATCTCATAGATC
1195264 TCTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (33 bp):
TTGTATAACATTCTTGTATGATCTCATAGATCA
Done.