Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 104 of 127
Found at i:19385455 original size:2 final size:2
Alignment explanation
Indices: 19385407--19385438 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19385397 AAAAAAACAG
19385407 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
19385439 CTAGTTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19389644 original size:7 final size:7
Alignment explanation
Indices: 19389632--19389662 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
19389622 AAACTCAAAG
19389632 AAAATAA
1 AAAATAA
19389639 AAAATAA
1 AAAATAA
19389646 AAAATAA
1 AAAATAA
19389653 AAAATAA
1 AAAATAA
19389660 AAA
1 AAA
19389663 TCTCTATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:19391186 original size:95 final size:95
Alignment explanation
Indices: 19391078--19391250 Score: 292
Period size: 95 Copynumber: 1.8 Consensus size: 95
19391068 ATTAAAAGCG
* * *
19391078 TTTCTAGCTAAAAATGCCTTTAATAATCCCCTCATAAATTTTTATAAGGTGATTACTCAAGGTAT
1 TTTCTAGCAAAAAATACCTTTAATAATCCCCTCATAAATTTTTATAAGGTGATTACTCAAGGCAT
19391143 TTTTGGCCAAAAATATCTTGAATAATGGCA
66 TTTTGGCCAAAAATATCTTGAATAATGGCA
* *
19391173 TTTCTGGCAAAAAATACCTTTAATAATCCCCTCATAAATTTTTATAAGGTGATTACTTAAGGCAT
1 TTTCTAGCAAAAAATACCTTTAATAATCCCCTCATAAATTTTTATAAGGTGATTACTCAAGGCAT
*
19391238 TTTTTGCCAAAAA
66 TTTTGGCCAAAAA
19391251 CGTTTTGAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (95 bp):
TTTCTAGCAAAAAATACCTTTAATAATCCCCTCATAAATTTTTATAAGGTGATTACTCAAGGCAT
TTTTGGCCAAAAATATCTTGAATAATGGCA
Found at i:19391187 original size:31 final size:31
Alignment explanation
Indices: 19391141--19391199 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
19391131 TACTCAAGGT
* * *
19391141 ATTTTTGGCCAAAAATATCTTGAATAATGGC
1 ATTTCTGGCAAAAAATACCTTGAATAATGGC
*
19391172 ATTTCTGGCAAAAAATACCTTTAATAAT
1 ATTTCTGGCAAAAAATACCTTGAATAAT
19391200 CCCCTCATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (31 bp):
ATTTCTGGCAAAAAATACCTTGAATAATGGC
Found at i:19391398 original size:126 final size:127
Alignment explanation
Indices: 19391173--19391519 Score: 353
Period size: 126 Copynumber: 2.7 Consensus size: 127
19391163 AATAATGGCA
* * * * *
19391173 TTTCTGGCAAAAAATACCTTT-AATAATCCCCTCATAAATTTTTATAAGGTGATTACTTAAGGCA
1 TTTCTGGCCAAAAATA-CTTTCAATAATTCCCTCATAAAATTTTATGAGGTGATTACTCAAGGCA
** * * * **
19391237 TTTTTTGCCAAAAACGTTTTGAATAGT-CTCAAAAAAAATTTTTAAT-AGAGTTATTAAAATTG
65 TTTTTTGTAAAAAATGTCTTGAATAATCCTCAAAAAAAATTTTTAATGAG-GTTATTAAAAGCG
*
19391299 TTTCTGGCCAAAAATACTTTCAATAATTCCCTCATAAAATTTAATGAGGTGATTACTCAAGGCAT
1 TTTCTGGCCAAAAATACTTTCAATAATTCCCTCATAAAATTTTATGAGGTGATTACTCAAGGCAT
* ** * *
19391364 TTTTGGTAAAAAATGTCTTGAATAATCCT-AAAAAATTTTTTTAATGAGGTTATTGAAGGCG
66 TTTTTGTAAAAAATGTCTTGAATAATCCTCAAAAAAAATTTTTAATGAGGTTATTAAAAGCG
* ** * * * * **
19391425 TTTCTGACCAAAAACGCCTTCAATAA-TCACCTTACAAAATTTTATGAAGTGATTACTCAATACA
1 TTTCTGGCCAAAAATACTTTCAATAATTC-CCTCATAAAATTTTATGAGGTGATTACTCAAGGCA
* *
19391489 TTTTTTTTTCTAAAAATGTCTTGAATAATCC
65 -TTTTTTGT-AAAAAATGTCTTGAATAATCC
19391520 CTTTCATTTT
Statistics
Matches: 184, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
125 6 0.03
126 148 0.80
127 10 0.05
128 20 0.11
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (127 bp):
TTTCTGGCCAAAAATACTTTCAATAATTCCCTCATAAAATTTTATGAGGTGATTACTCAAGGCAT
TTTTTGTAAAAAATGTCTTGAATAATCCTCAAAAAAAATTTTTAATGAGGTTATTAAAAGCG
Found at i:19399494 original size:27 final size:26
Alignment explanation
Indices: 19399442--19399495 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
19399432 TTTCTATAAT
19399442 CCCAGAAACCTAATTAAACAACCCAAA
1 CCCAGAAACCTAA-TAAACAACCCAAA
*
19399469 CCCAGAAAACCTAA-AAACGAATCCAAA
1 CCCAG-AAACCTAATAAAC-AACCCAAA
19399496 GCCTCTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 12 0.50
28 8 0.33
ACGTcount: A:0.54, C:0.31, G:0.06, T:0.09
Consensus pattern (26 bp):
CCCAGAAACCTAATAAACAACCCAAA
Found at i:19400348 original size:21 final size:20
Alignment explanation
Indices: 19400330--19400372 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
19400320 GGTTTCAAAT
19400330 TTTGCCAAAAAAATTTCAAGA
1 TTTG-CAAAAAAATTTCAAGA
19400351 TTTGC--AAAAATTTCAAGA
1 TTTGCAAAAAAATTTCAAGA
19400369 TTTG
1 TTTG
19400373 TAGAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 17 0.77
20 1 0.05
21 4 0.18
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
TTTGCAAAAAAATTTCAAGA
Found at i:19400361 original size:18 final size:18
Alignment explanation
Indices: 19400338--19400372 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19400328 ATTTTGCCAA
19400338 AAAAATTTCAAGATTTGC
1 AAAAATTTCAAGATTTGC
19400356 AAAAATTTCAAGATTTG
1 AAAAATTTCAAGATTTG
19400373 TAGAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (18 bp):
AAAAATTTCAAGATTTGC
Found at i:19400410 original size:17 final size:17
Alignment explanation
Indices: 19400380--19400457 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
19400370 TTGTAGAAGT
* * *
19400380 TTTCATATTTACAAAGG
1 TTTCAGATTCACAAAGA
*
19400397 TTTCAGATTCACAAAAA
1 TTTCAGATTCACAAAGA
19400414 TTCTCAGATTCAC-AAGA
1 TT-TCAGATTCACAAAGA
* *
19400431 TTTCAAGTTTCACAGAGGA
1 TTTC-AGATTCACA-AAGA
19400450 -TTCAGATT
1 TTTCAGATT
19400458 TGTAAAGATT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 2 0.04
17 31 0.63
18 13 0.27
19 3 0.06
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (17 bp):
TTTCAGATTCACAAAGA
Found at i:19400534 original size:26 final size:27
Alignment explanation
Indices: 19400505--19400560 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
19400495 GTAGAATGAA
19400505 AATTCATAAGAATTT-AGATTCGCAAG
1 AATTCATAAGAATTTCAGATTCGCAAG
* * *
19400531 AATTCTTAAGAGTTTCAGATTCTCAAG
1 AATTCATAAGAATTTCAGATTCGCAAG
19400558 AAT
1 AAT
19400561 CTTAGGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (27 bp):
AATTCATAAGAATTTCAGATTCGCAAG
Found at i:19400641 original size:17 final size:17
Alignment explanation
Indices: 19400621--19400654 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
19400611 AGAGATTTAG
19400621 GTTTGCAAGAAATTCAA
1 GTTTGCAAGAAATTCAA
*
19400638 GTTTGTAAGAAATTCAA
1 GTTTGCAAGAAATTCAA
19400655 AGATTCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (17 bp):
GTTTGCAAGAAATTCAA
Found at i:19400671 original size:36 final size:35
Alignment explanation
Indices: 19400630--19400742 Score: 95
Period size: 36 Copynumber: 3.1 Consensus size: 35
19400620 GGTTTGCAAG
*
19400630 AAATTCAAGTTTGTAAGAAATTCAAAGATTCATAAA
1 AAATTCAAGTTTGTAAGAAATT-AAAGATTCGTAAA
* * * * *
19400666 AAATTCATA-TTCGCAAGAACTTTAAAGATTCGCAAG
1 AAATTCA-AGTTTGTAAGAA-ATTAAAGATTCGTAAA
* *
19400702 AGATTCAAAGATTTGTAAAAAATT-AAGATTCGTAAA
1 AAATTC-AAG-TTTGTAAGAAATTAAAGATTCGTAAA
19400738 AAATT
1 AAATT
19400743 TAGATTCCCA
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
36 45 0.78
37 6 0.10
38 7 0.12
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
AAATTCAAGTTTGTAAGAAATTAAAGATTCGTAAA
Found at i:19400698 original size:19 final size:19
Alignment explanation
Indices: 19400674--19400774 Score: 66
Period size: 19 Copynumber: 5.5 Consensus size: 19
19400664 AAAAATTCAT
*
19400674 ATTCGCAAGAACTTTAAAG
1 ATTCGCAAGAAATTTAAAG
* *
19400693 ATTCGCAAGAGATTCAAAG
1 ATTCGCAAGAAATTTAAAG
* * *
19400712 ATTTGTAA-AAAATT-AAG
1 ATTCGCAAGAAATTTAAAG
* *
19400729 ATTCGTAAAAAATTT--AG
1 ATTCGCAAGAAATTTAAAG
* * *
19400746 ATTCCCAAGAACTTCAAAG
1 ATTCGCAAGAAATTTAAAG
*
19400765 ATTCACAAGA
1 ATTCGCAAGA
19400775 GGTTCAAACT
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
17 22 0.35
18 8 0.13
19 33 0.52
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (19 bp):
ATTCGCAAGAAATTTAAAG
Found at i:19400731 original size:17 final size:17
Alignment explanation
Indices: 19400709--19400749 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
19400699 AAGAGATTCA
*
19400709 AAGATTTGTAAAAAATT
1 AAGATTCGTAAAAAATT
19400726 AAGATTCGTAAAAAATT
1 AAGATTCGTAAAAAATT
*
19400743 TAGATTC
1 AAGATTC
19400750 CCAAGAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (17 bp):
AAGATTCGTAAAAAATT
Found at i:19400775 original size:72 final size:72
Alignment explanation
Indices: 19400626--19400782 Score: 201
Period size: 72 Copynumber: 2.2 Consensus size: 72
19400616 TTTAGGTTTG
* * * * *
19400626 CAAGAAATTC-AAGTTTGTAAGAAATTCAAAGATTCATAAAAAATTCATATTCGCAAGAACTTTA
1 CAAGAGATTCAAAGTTTGTAAAAAATT-AAAGATTCATAAAAAATTCAGATTCCCAAGAACTTCA
*
19400690 AAGATTCG
65 AAGATTCA
* *
19400698 CAAGAGATTCAAAGATTTGTAAAAAATT-AAGATTCGTAAAAAATTTAGATTCCCAAGAACTTCA
1 CAAGAGATTCAAAG-TTTGTAAAAAATTAAAGATTCATAAAAAATTCAGATTCCCAAGAACTTCA
19400762 AAGATTCA
65 AAGATTCA
*
19400770 CAAGAGGTTCAAA
1 CAAGAGATTCAAA
19400783 CTCTAAAGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
72 59 0.80
73 3 0.04
74 12 0.16
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (72 bp):
CAAGAGATTCAAAGTTTGTAAAAAATTAAAGATTCATAAAAAATTCAGATTCCCAAGAACTTCAA
AGATTCA
Found at i:19401288 original size:24 final size:24
Alignment explanation
Indices: 19401259--19401311 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
19401249 TACTATAATT
* *
19401259 CAAATGTATGCCCCAACAATGATA
1 CAAATGCATGCCCCAACAACGATA
*
19401283 CAAATGCATGCCCTAACAACGATA
1 CAAATGCATGCCCCAACAACGATA
19401307 CAAAT
1 CAAAT
19401312 ACAATCATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.19
Consensus pattern (24 bp):
CAAATGCATGCCCCAACAACGATA
Found at i:19402528 original size:15 final size:15
Alignment explanation
Indices: 19402494--19402528 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19402484 GGGTTTTGGG
19402494 TTTTAAGGTTTCAAA
1 TTTTAAGGTTTCAAA
* *
19402509 ATTTAAGGTTTCAAT
1 TTTTAAGGTTTCAAA
19402524 TTTTA
1 TTTTA
19402529 GAGTTTAGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (15 bp):
TTTTAAGGTTTCAAA
Found at i:19402801 original size:15 final size:15
Alignment explanation
Indices: 19402721--19402816 Score: 56
Period size: 15 Copynumber: 6.3 Consensus size: 15
19402711 CTCATTTGAG
*
19402721 GGTTTAGAGATTTTAG
1 GGTTTAGAG-TTTTAA
* *
19402737 GGTTTTGGGTTTTAA
1 GGTTTAGAGTTTTAA
** *
19402752 GGTTTCA-AAATTTAG
1 GGTTT-AGAGTTTTAA
*
19402767 GGTTTCA-A-TTTTTA
1 GGTTT-AGAGTTTTAA
19402781 GAGTTTAGAGTTTTAA
1 G-GTTTAGAGTTTTAA
19402797 GGTTTATG-GTTTTAA
1 GGTTTA-GAGTTTTAA
19402812 GGTTT
1 GGTTT
19402817 GGATGGTTTC
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
14 5 0.08
15 44 0.70
16 14 0.22
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (15 bp):
GGTTTAGAGTTTTAA
Found at i:19402967 original size:251 final size:251
Alignment explanation
Indices: 19402321--19403076 Score: 1386
Period size: 251 Copynumber: 3.0 Consensus size: 251
19402311 ATCATTAGAA
19402321 TTCTGGGATGGTTTTGGGTATAAGTTTTGGTTGAGGCTTTAAGGTTTGAATGATTTTTGGATGAT
1 TTCTGGGATGGTTTTGGGTATAAGTTTTGGTTGAGGCTTTAAGGTTTGAATGATTTTTGGATGAT
* *
19402386 GATTTGACGTTACATGTTGATTTTAGGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
66 GATTTGAGGTTACATGTTGATTTTAAGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
* *
19402451 TCTAGGGCCTTATTTGAGGGTTTAGAGATTTTAGGGTTTTGGGTTTTAAGGTTTCAAAATTTAAG
131 TCTAGGGCCTCATTTGAGGGTTTAGAGATTTTAGGGTTTTGGGTTTTAAGGTTTCAAAATTTAGG
* *
19402516 GTTTCAATTTTTAGAGTTTAGACTTTTAGGGTTTATGGTTTTAAGGTTTAGGGTGGT
196 GTTTCAATTTTTAGAGTTTAGAGTTTTAGGGTTTATGGTTTTAAGGTTT-GGATGGT
*
19402573 TTCTGGGATGGTTTTGGGTATAAGTTTTGGTTGAGACTTTAAGGTTTGAATGATTTTTGGATGAT
1 TTCTGGGATGGTTTTGGGTATAAGTTTTGGTTGAGGCTTTAAGGTTTGAATGATTTTTGGATGAT
19402638 GATTTGAGGTTACATGTTGATTTTAAGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
66 GATTTGAGGTTACATGTTGATTTTAAGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
*
19402703 CCTAGGGCCTCATTTGAGGGTTTAGAGATTTTAGGGTTTTGGGTTTTAAGGTTTCAAAATTTAGG
131 TCTAGGGCCTCATTTGAGGGTTTAGAGATTTTAGGGTTTTGGGTTTTAAGGTTTCAAAATTTAGG
*
19402768 GTTTCAATTTTTAGAGTTTAGAGTTTTAAGGTTTATGGTTTTAAGGTTTGGATGGT
196 GTTTCAATTTTTAGAGTTTAGAGTTTTAGGGTTTATGGTTTTAAGGTTTGGATGGT
*
19402824 TTCTAGGATGGTTTTGGGTATAAGTTTTGGTTGAGGCTTTAAGGTTTGAATGATTTTTGGATGAT
1 TTCTGGGATGGTTTTGGGTATAAGTTTTGGTTGAGGCTTTAAGGTTTGAATGATTTTTGGATGAT
19402889 GATTTGAGGTTACATGTTGATTTTAAGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
66 GATTTGAGGTTACATGTTGATTTTAAGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
* *
19402954 TCTAGGTCCTCATTTGAGGGTTTAGAGATTTTAAGGTTTTGGGTTTTAAGGTTTCAAAATTTAGG
131 TCTAGGGCCTCATTTGAGGGTTTAGAGATTTTAGGGTTTTGGGTTTTAAGGTTTCAAAATTTAGG
*
19403019 GTTTCAATTTTTAGAGTTTAGAGTTTTAGGGTTTATGGTTTTAGGGTTTGGATGGT
196 GTTTCAATTTTTAGAGTTTAGAGTTTTAGGGTTTATGGTTTTAAGGTTTGGATGGT
19403075 TT
1 TT
19403077 ATGGTTTGGA
Statistics
Matches: 488, Mismatches: 16, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
251 252 0.52
252 236 0.48
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.44
Consensus pattern (251 bp):
TTCTGGGATGGTTTTGGGTATAAGTTTTGGTTGAGGCTTTAAGGTTTGAATGATTTTTGGATGAT
GATTTGAGGTTACATGTTGATTTTAAGGTTTGGGTTGGATTTAAGGCCTTGATGGATATATAGGA
TCTAGGGCCTCATTTGAGGGTTTAGAGATTTTAGGGTTTTGGGTTTTAAGGTTTCAAAATTTAGG
GTTTCAATTTTTAGAGTTTAGAGTTTTAGGGTTTATGGTTTTAAGGTTTGGATGGT
Found at i:19403053 original size:15 final size:15
Alignment explanation
Indices: 19402970--19403115 Score: 75
Period size: 15 Copynumber: 9.5 Consensus size: 15
19402960 TCCTCATTTG
19402970 AGGGTTTAGAGATTTT
1 AGGGTTTAGAG-TTTT
* * *
19402986 AAGGTTTTGGGTTTT
1 AGGGTTTAGAGTTTT
* **
19403001 AAGGTTTCA-AAATTT
1 AGGGTTT-AGAGTTTT
*
19403016 AGGGTTTCA-ATTTTT
1 AGGGTTT-AGAGTTTT
*
19403031 AGAGTTTAGAGTTTT
1 AGGGTTTAGAGTTTT
19403046 AGGGTTTATG-GTTTT
1 AGGGTTTA-GAGTTTT
* *
19403061 AGGGTTTGGATGGTTT
1 AGGGTTTAGA-GTTTT
* * *
19403077 ATGGTTTGGAAATTTT
1 AGGGTTTAG-AGTTTT
19403093 AGGGTTTTAG-GTTTT
1 AGGG-TTTAGAGTTTT
19403108 GAGGGTTT
1 -AGGGTTT
19403116 TAATTTTATG
Statistics
Matches: 101, Mismatches: 21, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
14 2 0.02
15 63 0.62
16 31 0.31
17 5 0.05
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (15 bp):
AGGGTTTAGAGTTTT
Found at i:19403082 original size:16 final size:17
Alignment explanation
Indices: 19403041--19403099 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
19403031 AGAGTTTAGA
19403041 GTTTTAGGGTTT--ATG
1 GTTTTAGGGTTTGGATG
19403056 GTTTTAGGGTTTGGATG
1 GTTTTAGGGTTTGGATG
* *
19403073 G-TTTATGGTTTGGA-A
1 GTTTTAGGGTTTGGATG
*
19403088 ATTTTAGGGTTT
1 GTTTTAGGGTTT
19403100 TAGGTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 12 0.32
16 21 0.57
17 4 0.11
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (17 bp):
GTTTTAGGGTTTGGATG
Found at i:19403112 original size:16 final size:16
Alignment explanation
Indices: 19403089--19403140 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
19403079 GGTTTGGAAA
19403089 TTTT-AGGGTTTTAGG
1 TTTTGAGGGTTTTAGG
**
19403104 TTTTGAGGGTTTTAAT
1 TTTTGAGGGTTTTAGG
*
19403120 TTTATGAGAGTTTTAGG
1 TTT-TGAGGGTTTTAGG
19403137 TTTT
1 TTTT
19403141 TCGATTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 4 0.13
16 13 0.43
17 13 0.43
ACGTcount: A:0.17, C:0.00, G:0.27, T:0.56
Consensus pattern (16 bp):
TTTTGAGGGTTTTAGG
Found at i:19403250 original size:15 final size:15
Alignment explanation
Indices: 19403230--19403272 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19403220 TAGGATTTTG
19403230 GATTTTAGGGTTTCAA
1 GATTTTAGGGTTT-AA
*
19403246 G-TTTTTGGGTTTAA
1 GATTTTAGGGTTTAA
*
19403260 GATTTTAAGGTTT
1 GATTTTAGGGTTT
19403273 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 3 0.13
15 19 0.83
16 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (15 bp):
GATTTTAGGGTTTAA
Found at i:19403264 original size:30 final size:30
Alignment explanation
Indices: 19403196--19403272 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
19403186 GGGTCTTGAT
*
19403196 TTTAAGA-TTTAGGGTTTCGAGGTTTAGGA
1 TTTAAGATTTTAGGGTTTCAAGGTTTAGGA
** * * *
19403225 TTTTGGATTTTAGGGTTTCAAGTTTTTGGG
1 TTTAAGATTTTAGGGTTTCAAGGTTTAGGA
*
19403255 TTTAAGATTTTAAGGTTT
1 TTTAAGATTTTAGGGTTT
19403273 TTTTTTTTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 5 0.13
30 33 0.87
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.49
Consensus pattern (30 bp):
TTTAAGATTTTAGGGTTTCAAGGTTTAGGA
Found at i:19403409 original size:24 final size:24
Alignment explanation
Indices: 19403368--19403415 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
19403358 AAATTAGTTG
*
19403368 AAAATTTTCATATATTTTTTTTAT
1 AAAATTTTCATATATTTTATTTAT
*
19403392 AAAATTTTTAT-TATTTTTATTTAT
1 AAAATTTTCATATA-TTTTATTTAT
19403416 TACTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
AAAATTTTCATATATTTTATTTAT
Found at i:19403818 original size:3 final size:3
Alignment explanation
Indices: 19403810--19403849 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19403800 AATTTACATT
19403810 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19403850 ATTTTAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19403911 original size:8 final size:8
Alignment explanation
Indices: 19403898--19403956 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
19403888 AATAACATAA
19403898 AAATAAAT
1 AAATAAAT
19403906 AAATAAAT
1 AAATAAAT
*
19403914 -AATGGAAT
1 AAAT-AAAT
19403922 AAATAAAT
1 AAATAAAT
*
19403930 AAACAAAT
1 AAATAAAT
19403938 -AATAAAAT
1 AAAT-AAAT
19403946 ACAAT-AAT
1 A-AATAAAT
19403954 AAA
1 AAA
19403957 ATCAAAGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
7 7 0.17
8 29 0.69
9 3 0.07
10 3 0.07
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (8 bp):
AAATAAAT
Found at i:19403946 original size:24 final size:24
Alignment explanation
Indices: 19403898--19403956 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
19403888 AATAACATAA
* **
19403898 AAATAAATAAATAAATAATGGAAT
1 AAATAAATAAACAAATAATAAAAT
19403922 AAATAAATAAACAAATAATAAAAT
1 AAATAAATAAACAAATAATAAAAT
19403946 ACAAT-AATAAA
1 A-AATAAATAAA
19403957 ATCAAAGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (24 bp):
AAATAAATAAACAAATAATAAAAT
Found at i:19405957 original size:3 final size:3
Alignment explanation
Indices: 19405951--19406004 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
19405941 AGTTGAAGAT
*
19405951 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19405999 ATA ATA
1 ATA ATA
19406005 TAAAAGAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19406038 original size:18 final size:19
Alignment explanation
Indices: 19406017--19406062 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19406007 AAAGAAATCT
*
19406017 AAAAAT-AAATGAA-AATG
1 AAAAATAAAATGAAGAAAG
19406034 AAAAATAAAATGAAGAAAG
1 AAAAATAAAATGAAGAAAG
*
19406053 AAAAAGAAAA
1 AAAAATAAAA
19406063 ACTAACGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 7 0.28
19 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAATAAAATGAAGAAAG
Found at i:19407144 original size:43 final size:43
Alignment explanation
Indices: 19407095--19407205 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
19407085 ACCTTTTGCA
* *
19407095 TAGAGGCCAAACAACTTTAAAATATGAAATGAACTCCCCTATT
1 TAGAGGCTAAACAACTTTAAAATAGGAAATGAACTCCCCTATT
* * * ** **
19407138 TGGAGGCTAAATAACTTTAAAATAGGAGATGGGCTCCTTTATT
1 TAGAGGCTAAACAACTTTAAAATAGGAAATGAACTCCCCTATT
19407181 TAGAGGCTAAACAACTTTAAAATAG
1 TAGAGGCTAAACAACTTTAAAATAG
19407206 CTATCTAACT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (43 bp):
TAGAGGCTAAACAACTTTAAAATAGGAAATGAACTCCCCTATT
Found at i:19411046 original size:423 final size:423
Alignment explanation
Indices: 19410235--19411082 Score: 1369
Period size: 423 Copynumber: 2.0 Consensus size: 423
19410225 AGGTATTGCT
* *
19410235 TAACCTTATCAATAGCTTCTTGACATTTTTCAGTCCATTCACCAAGGTTGTTTTTTCAAATGAGC
1 TAACCCTATCAATAGCTTCTTGACATTTTCCAGTCCATTCACCAAGGTTGTTTTTTCAAATGAGC
* *
19410300 TTAAAGATAGGATCACATTTGGAGGTTAGTTGGGAAATGAATATAGAAATATAGTTCAATCTACT
66 TTAAAGATAGGATCACATTTAGAGGTTAGTTGGGAAATGAATATAGAAATATAGTTCAATCTACC
*
19410365 TAAAAACCCTCAAACTTCTTTTGGCATACTTAAAAGAGATAAGTTCTAAATGGCCCTTATTTTGT
131 TAAAAAACCTCAAACTTCTTTTGGCATACTTAAAAGAGATAAGTTCTAAATGGCCCTTATTTTGT
* *
19410430 TTAGGTCAACTTCGATTCTTTTTTCACTAACCATGAAGCCTAGCAACTTTTTTGACTAGGCTTCA
196 TTAGATCAACTTCGATTCTTTTTTCACTAACCATGAAGCCTAGCAACTTTTCTGACTAGGCTTCA
*
19410495 AATGTACATTTGGATGGATTTAACTTGAGCTGAAATTTCTTTAACCTCTCGAATAATTTTCTAAG
261 AATGTACATTTGGATGGATTTAACTTGAGCTGAAATTTCTTCAACCTCTCGAATAATTTTCTAAG
* *
19410560 ATTAGCTATATGGTTTTCTCTTTCACGAGACTTTATGATCATGTCATCCACATACATCTCGATCT
326 ATTAGCTATATGGTCTTCTCTTTCACGAGACTTTATGATCATGTCATCCACATACACCTCGATCT
* * *
19410625 CCTTGTGTATCATGTCATGAAAAAATTTCACCA
391 CCTTGTGCATCATATCATGAAAAAATGTCACCA
**
19410658 TAACCCTATCAATAGCTTCTTGACATTTTCCCCTTCCATTCACC-AGAGTT-TTTTTTCAAATGA
1 TAACCCTATCAATAGCTTCTTGACATTTT-CCAGTCCATTCACCAAG-GTTGTTTTTTCAAATGA
* * *
19410721 GCTTTAAGATGGGATCACATTTAGAGGTTAGTTGGGAAATGAATATAGAAATATAGTTCAATCTG
64 GCTTAAAGATAGGATCACATTTAGAGGTTAGTTGGGAAATGAATATAGAAATATAGTTCAATCTA
** **
19410786 CCTAAAAAACCTCAAACTTCTTTTGGTGTACTTAAAAGAGATAAGTTCTGGATGGCCCTTATTTT
129 CCTAAAAAACCTCAAACTTCTTTTGGCATACTTAAAAGAGATAAGTTCTAAATGGCCCTTATTTT
19410851 GTTTAGATCAACTTCGATTCTTTTTTCACTAACCATGAAGCCTAGCAACTTTTCTGACTAGGC-T
194 GTTTAGATCAACTTCGATTCTTTTTTCACTAACCATGAAGCCTAGCAACTTTTCTGACTAGGCTT
19410915 CAAAATGTACATTTGGATGGATTTAACTTGAGCTGAAATTTCTTCAACCTCTCGAATAATTTTCT
259 C-AAATGTACATTTGGATGGATTTAACTTGAGCTGAAATTTCTTCAACCTCTCGAATAATTTTCT
* * * ***
19410980 AAGGTTAGCTATATGGTCTTCTCTTTCACGGGACTTTATGATCATGTTATCTGTATACACCTCGA
323 AAGATTAGCTATATGGTCTTCTCTTTCACGAGACTTTATGATCATGTCATCCACATACACCTCGA
* * *
19411045 TCTTCTTGTGCATCATATCATGGAAAAGTGTCACCA
388 TCTCCTTGTGCATCATATCATGAAAAAATGTCACCA
19411081 TA
1 TA
19411083 GCCTTTTGAT
Statistics
Matches: 391, Mismatches: 31, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
422 2 0.01
423 375 0.96
424 14 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (423 bp):
TAACCCTATCAATAGCTTCTTGACATTTTCCAGTCCATTCACCAAGGTTGTTTTTTCAAATGAGC
TTAAAGATAGGATCACATTTAGAGGTTAGTTGGGAAATGAATATAGAAATATAGTTCAATCTACC
TAAAAAACCTCAAACTTCTTTTGGCATACTTAAAAGAGATAAGTTCTAAATGGCCCTTATTTTGT
TTAGATCAACTTCGATTCTTTTTTCACTAACCATGAAGCCTAGCAACTTTTCTGACTAGGCTTCA
AATGTACATTTGGATGGATTTAACTTGAGCTGAAATTTCTTCAACCTCTCGAATAATTTTCTAAG
ATTAGCTATATGGTCTTCTCTTTCACGAGACTTTATGATCATGTCATCCACATACACCTCGATCT
CCTTGTGCATCATATCATGAAAAAATGTCACCA
Found at i:19414433 original size:4 final size:4
Alignment explanation
Indices: 19414424--19414496 Score: 67
Period size: 4 Copynumber: 17.8 Consensus size: 4
19414414 CATAATTGTC
* * *
19414424 TATT TATT TATT TATT TGTT TGTT TATT TGTT TATT TCATT TATT T-TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT T-ATT TATT TAT-T
* *
19414473 TATT TATG TATTT TTTT TATT TAT
1 TATT TATT TA-TT TATT TATT TAT
19414497 AAATATTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
3 1 0.02
4 49 0.86
5 7 0.12
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:19414494 original size:29 final size:29
Alignment explanation
Indices: 19414424--19414496 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
19414414 CATAATTGTC
* *
19414424 TATTTA-TTTATTTATTTGTTTGTTTATT
1 TATTTATTTTATTTATTTGTTTATTTATG
* *
19414452 TGTTTATTTCATTTATTT-TATTATTTATG
1 TATTTATTTTATTTATTTGT-TTATTTATG
*
19414481 TATTTTTTTTATTTAT
1 TATTTATTTTATTTAT
19414497 AAATATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.74
Consensus pattern (29 bp):
TATTTATTTTATTTATTTGTTTATTTATG
Found at i:19414901 original size:21 final size:21
Alignment explanation
Indices: 19414867--19414907 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19414857 AAACCTTATG
*
19414867 ATTTTTAAATATAAA-AATTA
1 ATTTTTAAAAATAAATAATTA
19414887 ATTTTTAGAAAATAAATAATT
1 ATTTTTA-AAAATAAATAATT
19414908 TTCGCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTTTAAAAATAAATAATTA
Found at i:19419588 original size:37 final size:37
Alignment explanation
Indices: 19419532--19419607 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
19419522 ATAAAATAAT
19419532 TTGCATGTTAGTTAGTACTTTATTTTGACAAAAGAAA
1 TTGCATGTTAGTTAGTACTTTATTTTGACAAAAGAAA
* * * *
19419569 TTGCATGTTGGTTATTACTTTATTTTGAGAAAATAAA
1 TTGCATGTTAGTTAGTACTTTATTTTGACAAAAGAAA
19419606 TT
1 TT
19419608 ATATGTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.45
Consensus pattern (37 bp):
TTGCATGTTAGTTAGTACTTTATTTTGACAAAAGAAA
Found at i:19419659 original size:16 final size:16
Alignment explanation
Indices: 19419638--19419672 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19419628 GATTTGTGCT
19419638 TATGATTTATTTATGA
1 TATGATTTATTTATGA
* *
19419654 TATGATTTGTTTGTGA
1 TATGATTTATTTATGA
19419670 TAT
1 TAT
19419673 TTTGATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (16 bp):
TATGATTTATTTATGA
Found at i:19420080 original size:24 final size:24
Alignment explanation
Indices: 19420053--19420098 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19420043 GTTATGCTTG
19420053 GTTATCTGTTTATCTATTTATTTA
1 GTTATCTGTTTATCTATTTATTTA
* * *
19420077 GTTATTTGTTTGTTTATTTATT
1 GTTATCTGTTTATCTATTTATT
19420099 ATCCTTATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.04, G:0.11, T:0.67
Consensus pattern (24 bp):
GTTATCTGTTTATCTATTTATTTA
Found at i:19426095 original size:43 final size:43
Alignment explanation
Indices: 19426032--19426393 Score: 315
Period size: 43 Copynumber: 8.3 Consensus size: 43
19426022 GCTCATCAAC
19426032 CTTTGGAAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGA
1 CTTT-GAAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGA
* * *
19426076 CTTTGAAAAATAAATAAGGCTTCTCTAAATAGAGGCTCAAAGA
1 CTTTGAAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGA
* * * * *
19426119 C-TTGAAAAAATAAATACA-GCTCCTTTAAGTAGAGGCCCAATAA
1 CTTTG-AAAAATAAACA-AGGCTCCTCTAAATAGAGGCTCAATGA
* * *
19426162 CTTTGAAAAAAAATAAATAAGGCTTCTCTAAATAGAGGCTCAACGA
1 CTTTG---AAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGA
* * * * **
19426208 CTTTGAAAAATAAATACA-GCTCCTCTAAGTATAGGCTTAACAA
1 CTTTGAAAAATAAACA-AGGCTCCTCTAAATAGAGGCTCAATGA
* * * *
19426251 CTTTAAAAAATAAACAAGGCTTCTCT-AATCAAAGG-TCAACGA
1 CTTTGAAAAATAAACAAGGCTCCTCTAAAT-AGAGGCTCAATGA
* * * * * * *
19426293 CTTTAGGAAAA-AAACAACGCTCATTTAAACAGAGGCTTAATAA
1 CTTT-GAAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGA
*
19426336 CTTTGAAAAAATAAACAAGGCCCCTCT-AATCAGAGGCTCAATGA
1 CTTTG-AAAAATAAACAAGGCTCCTCTAAAT-AGAGGCTCAATGA
19426380 CTTTGAAAAATAAA
1 CTTTGAAAAATAAA
19426394 AAAAACACCT
Statistics
Matches: 257, Mismatches: 46, Indels: 31
0.77 0.14 0.09
Matches are distributed among these distances:
42 31 0.12
43 153 0.60
44 36 0.14
45 1 0.00
46 36 0.14
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.24
Consensus pattern (43 bp):
CTTTGAAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGA
Found at i:19426165 original size:86 final size:87
Alignment explanation
Indices: 19426017--19426393 Score: 387
Period size: 86 Copynumber: 4.3 Consensus size: 87
19426007 CTCCTTTAAG
* * * *
19426017 CAGAGGCTCATCAACCTTTGGAAAAATAAACA-AGGCTCCTCTAAATAGAGGCTCAATGACTTTG
1 CAGAGGCTCAACGA-CTTT-GAAAAATAAATACA-GCTCCTCTAAATAGAGGCTCAATAACTTTG
*
19426081 -AAAAATAAATAAGGCTTCTCTAAAT
63 AAAAAATAAACAAGGCTTCTCT-AAT
* * * *
19426106 -AGAGGCTCAAAGAC-TTGAAAAAATAAATACAGCTCCTTTAAGTAGAGGCCCAATAACTTTGAA
1 CAGAGGCTCAACGACTTTG-AAAAATAAATACAGCTCCTCTAAATAGAGGCTCAATAACTTTG--
*
19426169 AAAAAATAAATAAGGCTTCTCTAAAT
63 AAAAAATAAACAAGGCTTCTCT-AAT
* * * *
19426195 -AGAGGCTCAACGACTTTGAAAAATAAATACAGCTCCTCTAAGTATAGGCTTAACAACTTT-AAA
1 CAGAGGCTCAACGACTTTGAAAAATAAATACAGCTCCTCTAAATAGAGGCTCAATAACTTTGAAA
19426258 AAATAAACAAGGCTTCTCTAAT
66 AAATAAACAAGGCTTCTCTAAT
* * * * *
19426280 CAAAGG-TCAACGACTTTAGGAAAAA-AACA-AC-GCTCATTTAAACAGAGGCTTAATAACTTTG
1 CAGAGGCTCAACGACTTT--GAAAAATAA-ATACAGCTCCTCTAAATAGAGGCTCAATAACTTTG
**
19426341 AAAAAATAAACAAGGCCCCTCTAAT
63 AAAAAATAAACAAGGCTTCTCTAAT
*
19426366 CAGAGGCTCAATGACTTTGAAAAATAAA
1 CAGAGGCTCAACGACTTTGAAAAATAAA
19426394 AAAAACACCT
Statistics
Matches: 249, Mismatches: 26, Indels: 30
0.82 0.09 0.10
Matches are distributed among these distances:
85 45 0.18
86 97 0.39
87 19 0.08
88 10 0.04
89 75 0.30
90 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.24
Consensus pattern (87 bp):
CAGAGGCTCAACGACTTTGAAAAATAAATACAGCTCCTCTAAATAGAGGCTCAATAACTTTGAAA
AAATAAACAAGGCTTCTCTAAT
Found at i:19426304 original size:132 final size:132
Alignment explanation
Indices: 19426038--19426393 Score: 336
Period size: 132 Copynumber: 2.7 Consensus size: 132
19426028 CAACCTTTGG
* *
19426038 AAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAATGACTTTGAAAAATAAATAAGGCTTCTCTA
1 AAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAGGCTCCTCTA
* * * *
19426103 AATAGAGGCTCAAAGACTTGAAAAAATAAATACAGCTCCTTTAAGTAGAGGCCCAATAACTTTGA
66 AATAGAGGCTCAAAGACTTGAAAAAATAAACACAGCTCCTCTAAGTAAAGGCCCAACAACTTTGA
19426168 AA
131 AA
* *
19426170 AAAAATAAATAAGGCTTCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATACA-GCTCCTCT
1 AAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATA-AGGCTCCTCT
* * * * * * *
19426234 AAGTATAGGCTTAACA-ACTTTAAAAAATAAACA-AGGCTTCTCTAA-TCAAAGG-TCAACGACT
65 AAATAGAGGCTCAA-AGACTTGAAAAAATAAACACA-GCTCCTCTAAGT-AAAGGCCCAACAACT
*
19426295 TT--AG
127 TTGAAA
* * * * * * ** * *
19426299 GAAAA-AAACAACGCTCATTTAAACAGAGGCTTAATAACTTTGAAAAAATAAACAAGGCCCCTCT
1 AAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAACGACTTTG-AAAAATAAATAAGGCTCCTCT
*
19426363 -AATCAGAGGCTCAATGACTTTG-AAAAATAAA
65 AAAT-AGAGGCTCAAAGAC-TTGAAAAAATAAA
19426394 AAAAACACCT
Statistics
Matches: 182, Mismatches: 33, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
128 31 0.17
129 41 0.23
130 2 0.01
131 10 0.05
132 96 0.53
133 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (132 bp):
AAAAATAAACAAGGCTCCTCTAAATAGAGGCTCAACGACTTTGAAAAATAAATAAGGCTCCTCTA
AATAGAGGCTCAAAGACTTGAAAAAATAAACACAGCTCCTCTAAGTAAAGGCCCAACAACTTTGA
AA
Found at i:19426408 original size:22 final size:22
Alignment explanation
Indices: 19426380--19426449 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
19426370 GGCTCAATGA
*
19426380 CTTTGAAAAATAAAAAAAACAC
1 CTTTGAAAAATAAACAAAACAC
19426402 CTTTGAAAAATAAACAAAACAC
1 CTTTGAAAAATAAACAAAACAC
19426424 CTTTGAAAAATAAACAAAACAC
1 CTTTGAAAAATAAACAAAACAC
19426446 CTTT
1 CTTT
19426450 AAATAAAGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.21
Consensus pattern (22 bp):
CTTTGAAAAATAAACAAAACAC
Found at i:19426522 original size:73 final size:71
Alignment explanation
Indices: 19426431--19426574 Score: 198
Period size: 73 Copynumber: 2.0 Consensus size: 71
19426421 CACCTTTGAA
* *
19426431 AAATAAACAAAACACCTTTAAATAAAGGCTTAACAACTTTAAAAAAATAAACAAGGCTCCTCTAA
1 AAATAAACAAAACACCTTTAAATAAAGGCTCAACAACTTT-AAAAAATAAACAAAGCTCCTCTAA
19426496 AGTAGAGG
65 A-TAGAGG
* * * * * *
19426504 AAATAAACAAAGCTCCTTTAATTAGAGGCTCAATAACTTTGAAAAATAAACAAAGCTCCTCTAAA
1 AAATAAACAAAACACCTTTAAATAAAGGCTCAACAACTTTAAAAAATAAACAAAGCTCCTCTAAA
19426569 TAGAGG
66 TAGAGG
19426575 CTCAACAACT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 6 0.10
72 23 0.37
73 34 0.54
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (71 bp):
AAATAAACAAAACACCTTTAAATAAAGGCTCAACAACTTTAAAAAATAAACAAAGCTCCTCTAAA
TAGAGG
Found at i:19426552 original size:43 final size:43
Alignment explanation
Indices: 19426504--19426810 Score: 261
Period size: 43 Copynumber: 7.2 Consensus size: 43
19426494 AAAGTAGAGG
* *
19426504 AAATAAACAAAGCTCCTTTAATTAGAGGCTCAATAACTTTGAA
1 AAATAAACAAAGCTCCTTTAATCAGAGGCTCAACAACTTTGAA
*
19426547 AAATAAACAAAGCTCCTCTAAAT-AGAGGCTCAACAACTTTGAAA
1 AAATAAACAAAGCTCCT-TTAATCAGAGGCTCAACAACTTTG-AA
* * *
19426591 AAATAAACAAGGCTCCTCTAATCAGAGGCTTAACAACTTTAGAA
1 AAATAAACAAAGCTCCTTTAATCAGAGGCTCAACAACTTT-GAA
* *
19426635 AAAT--A-AAAGCT-CTTCTAATCAGAGGCTCAATAAC-TTCAA
1 AAATAAACAAAGCTCCTT-TAATCAGAGGCTCAACAACTTTGAA
* * * ** * * *
19426674 AAAGTAGATAATGCTGATTTAATCAAAGGCTCTACAACTTT-CA
1 AAA-TAAACAAAGCTCCTTTAATCAGAGGCTCAACAACTTTGAA
* * * * *
19426717 AAATAAATAATGCTCCTCTAAAT-AGAGGCTCTACAACTTTGGA
1 AAATAAACAAAGCTCCT-TTAATCAGAGGCTCAACAACTTTGAA
* * * * *
19426760 AAATAAATAATGCTCTTTTAAACAGAGGCTCAACAACTTTTAAA
1 AAATAAACAAAGCTCCTTTAATCAGAGGCTCAACAAC-TTTGAA
19426804 AAATAAA
1 AAATAAA
19426811 GGCTCTTTGA
Statistics
Matches: 220, Mismatches: 29, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
39 5 0.02
40 5 0.02
41 22 0.10
42 32 0.15
43 96 0.44
44 59 0.27
45 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (43 bp):
AAATAAACAAAGCTCCTTTAATCAGAGGCTCAACAACTTTGAA
Found at i:19426595 original size:160 final size:160
Alignment explanation
Indices: 19426344--19426641 Score: 366
Period size: 160 Copynumber: 1.9 Consensus size: 160
19426334 AACTTTGAAA
* * *
19426344 AAATAAACAAGGCCCCTCTAATCAGAGGCTCAATGACTTTGAAAAATAAAAAAAACACCTTTGAA
1 AAATAAACAAAGCCCCTCTAATCAGAGGCTCAATAACTTTGAAAAATAAAAAAAACACCTCTGAA
* * *
19426409 AAATAAACAAAACACCTTTGAAAAATAAACAAAACACCTTTAAAT-AAAGGCTTAACAACTTTAA
66 AAAGAAACAAAACAACTTTGAAAAATAAACAAAACACCTCT-AATCAAAGGCTTAACAACTTTAA
19426473 AAAAATAAACAAGGCTCCTCTAAAGTAGAGG
130 AAAAATAAACAAGGCTCCTCTAAAGTAGAGG
* * * * * *
19426504 AAATAAACAAAGCTCCTTTAATTAGAGGCTCAATAACTTTGAAAAATAAACAAAGCTCCTCT-AA
1 AAATAAACAAAGCCCCTCTAATCAGAGGCTCAATAACTTTGAAAAATAAAAAAAACACCTCTGAA
* ** ** ** * * *
19426568 ATAGAGGCTCAACAACTTTGAAAAAATAAACAAGGCTCCTCTAATCAGAGGCTTAACAACTTTAG
66 AAAGAAACAAAACAACTTTG-AAAAATAAACAAAACACCTCTAATCAAAGGCTTAACAACTTTAA
19426633 AAAAATAAA
130 AAAAATAAA
19426642 AGCTCTTCTA
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
159 18 0.16
160 96 0.84
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.21
Consensus pattern (160 bp):
AAATAAACAAAGCCCCTCTAATCAGAGGCTCAATAACTTTGAAAAATAAAAAAAACACCTCTGAA
AAAGAAACAAAACAACTTTGAAAAATAAACAAAACACCTCTAATCAAAGGCTTAACAACTTTAAA
AAAATAAACAAGGCTCCTCTAAAGTAGAGG
Found at i:19426744 original size:85 final size:85
Alignment explanation
Indices: 19426504--19426811 Score: 232
Period size: 85 Copynumber: 3.6 Consensus size: 85
19426494 AAAGTAGAGG
* * * * * * * *
19426504 AAATAAACAAAGCTCCTTTAATTAGAGGCTCAATAACTTTGAAAAATAAACAAAGCTCCTCTAAA
1 AAATAAACAAGGCTCATCTAATCAAAGGCTTAACAACTTT--AAAATAAATAAAGCTCCTCTAAA
*
19426569 TAGAGGCTCAACAACTTTGAAA
64 TAGAGGCTCAACAACTTTCAAA
* * * *
19426591 AAATAAACAAGGCTCCTCTAATCAGAGGCTTAACAACTTTAGAA-AAATAAAAGCTCTTCT-AAT
1 AAATAAACAAGGCTCATCTAATCAAAGGCTTAACAACTTTAAAATAAAT-AAAGCTCCTCTAAAT
*
19426654 CAGAGGCTCAATAAC-TTCAAA
65 -AGAGGCTCAACAACTTTCAAA
* * * * * * *
19426675 AAGTAGATAATGCTGATTTAATCAAAGGCTCT-ACAACTTTCAAAATAAATAATGCTCCTCTAAA
1 AAATAAACAAGGCTCATCTAATCAAAGGCT-TAACAACTTT-AAAATAAATAAAGCTCCTCTAAA
* **
19426739 TAGAGGCTCTACAACTTT-GGA
64 TAGAGGCTCAACAACTTTCAAA
* * * * * * * *
19426760 AAATAAATAATGCTCTTTTAAACAGAGGCTCAACAACTTTTAAA-AAATAAAG
1 AAATAAACAAGGCTCATCTAATCAAAGGCTTAACAACTTTAAAATAAATAAAG
19426812 GCTCTTTGAC
Statistics
Matches: 179, Mismatches: 34, Indels: 20
0.77 0.15 0.09
Matches are distributed among these distances:
83 7 0.04
84 44 0.25
85 84 0.47
86 9 0.05
87 35 0.20
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (85 bp):
AAATAAACAAGGCTCATCTAATCAAAGGCTTAACAACTTTAAAATAAATAAAGCTCCTCTAAATA
GAGGCTCAACAACTTTCAAA
Found at i:19427016 original size:16 final size:15
Alignment explanation
Indices: 19426968--19427019 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
19426958 TTTAGTTTCA
*
19426968 CAAGAATTTGATTCG
1 CAAGAATTTGATTTG
*
19426983 CAA-AATTTCAGATATG
1 CAAGAATTT--GATTTG
19426999 CAAGAATTTGGATTTG
1 CAAGAATTT-GATTTG
19427015 CAAGA
1 CAAGA
19427020 TTTCAAGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 17 0.57
17 5 0.17
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (15 bp):
CAAGAATTTGATTTG
Found at i:19428503 original size:20 final size:20
Alignment explanation
Indices: 19428475--19428512 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19428465 TCTCTCTTTC
19428475 TCATCTTTT-ATCTTTTTTTT
1 TCATCTTTTCAT-TTTTTTTT
*
19428495 TCATTTTTTCATTTTTTT
1 TCATCTTTTCATTTTTTT
19428513 CTATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (20 bp):
TCATCTTTTCATTTTTTTTT
Found at i:19428523 original size:10 final size:9
Alignment explanation
Indices: 19428489--19428530 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
19428479 CTTTTATCTT
19428489 TTTTTTTCA
1 TTTTTTTCA
19428498 -TTTTTTCA
1 TTTTTTTCA
19428506 TTTTTTTCTA
1 TTTTTTTC-A
*
19428516 TTTTTTTCC
1 TTTTTTTCA
19428525 TTTTTT
1 TTTTTT
19428531 CCCATCCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
9 13 0.43
10 9 0.30
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:19433217 original size:16 final size:18
Alignment explanation
Indices: 19433196--19433228 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19433186 ACTATGAATA
19433196 AATAAAA-AA-ATACAAG
1 AATAAAATAAGATACAAG
19433212 AATAAAATAAGATACAA
1 AATAAAATAAGATACAA
19433229 AAAATTTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (18 bp):
AATAAAATAAGATACAAG
Found at i:19440195 original size:10 final size:10
Alignment explanation
Indices: 19440180--19440243 Score: 74
Period size: 10 Copynumber: 6.2 Consensus size: 10
19440170 TATTTTGCTT
19440180 AAAAAAAGAA
1 AAAAAAAGAA
*
19440190 AAAAAAAGAG
1 AAAAAAAGAA
19440200 AAAAAAAGAA
1 AAAAAAAGAA
* *
19440210 AGAACAAGGAA
1 A-AAAAAAGAA
*
19440221 AAAAAGAAGAG
1 AAAAA-AAGAA
19440232 AAAAAAAGAA
1 AAAAAAAGAA
19440242 AA
1 AA
19440244 TGATTCAGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
10 28 0.64
11 16 0.36
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:19440228 original size:15 final size:13
Alignment explanation
Indices: 19440180--19440243 Score: 69
Period size: 12 Copynumber: 4.9 Consensus size: 13
19440170 TATTTTGCTT
19440180 AAAAAAAGAAAA-
1 AAAAAAAGAAAAG
*
19440192 AAAAAGAGAAAA-
1 AAAAAAAGAAAAG
*
19440204 AAAGAAAGAACAAGG
1 AAAAAAAGAA-AA-G
*
19440219 AAAAAAAGAAGAG
1 AAAAAAAGAAAAG
19440232 AAAAAAAGAAAA
1 AAAAAAAGAAAA
19440244 TGATTCAGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
12 19 0.44
13 14 0.33
14 1 0.02
15 9 0.21
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:19441953 original size:108 final size:107
Alignment explanation
Indices: 19441781--19442120 Score: 350
Period size: 108 Copynumber: 3.2 Consensus size: 107
19441771 ATATTGTCTT
* * * * * **
19441781 GATCATTAGTTATTTTTTGATTCACGGTGTTATCTTGGTCATTCCTTACTTTTCGACTCATAGTG
1 GATCATTAATTATTTTTTGATT-ATGGTGTTATCCTAGTCATTCCTTACTTTTTGACTTGTAGTG
* *
19441846 TTATCCTAGTCATCCATTACTTTTTGACTTGTGGTGTTATCCC
65 TTGTCCTAGTCATCCATTACTTTTCGACTTGTGGTGTTATCCC
19441889 GATCATTAATTATTTTTTGACTTATGGTGTTATCCTAGTCATTCCTTACTTTTTGACTTGTAGTG
1 GATCATTAATTATTTTTTGA-TTATGGTGTTATCCTAGTCATTCCTTACTTTTTGACTTGTAGTG
* * * *
19441954 TTGTCC-CGATCATCAATTACTTTTCAACTTATGGTGTTATCCC
65 TTGTCCTAG-TCATCCATTACTTTTCGACTTGTGGTGTTATCCC
* * * ** *
19441997 GATCATCAATTATTTTTT-ATTTGTGGTGTTATCC-CGATCATTAGTTATTTTTTGACTTG-AGA
1 GATCATTAATTATTTTTTGA-TTATGGTGTTATCCTAG-TCATTCCTTACTTTTTGACTTGTAG-
* * *
19442059 CGTTGT-CTCGGTCATTCC-TTACTTTTCGACTTGTGGTGTTATCCT
63 TGTTGTCCT-AGTCA-TCCATTACTTTTCGACTTGTGGTGTTATCCC
* *
19442104 GATCATTAGTTACTTTT
1 GATCATTAATTATTTTT
19442121 CAACTTACGA
Statistics
Matches: 196, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
106 4 0.02
107 80 0.41
108 110 0.56
109 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (107 bp):
GATCATTAATTATTTTTTGATTATGGTGTTATCCTAGTCATTCCTTACTTTTTGACTTGTAGTGT
TGTCCTAGTCATCCATTACTTTTCGACTTGTGGTGTTATCCC
Found at i:19441974 original size:36 final size:36
Alignment explanation
Indices: 19441222--19442648 Score: 263
Period size: 36 Copynumber: 39.7 Consensus size: 36
19441212 CGAGTTTACC
* * * * *
19441222 GACTTGTGGAGTTGTCCTGATCATCAATTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * *
19441258 GACTTGT-GATGTTATCCTGGTCATTC-CTTACTTTTC
1 GACTTGTAG-TGTTGTCCCGATCA-TCAGTTACTTTTT
* * * * *
19441294 AATTTGTAGTGTTGGCCCGATCATTC-CTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCA-TCAGTTACTTTTT
* * *
19441330 GAC-T-TACGATATTGTCCCGATCATTC-TTTATTTTTT
1 GACTTGTA-G-TGTTGTCCCGATCA-TCAGTTACTTTTT
** * **
19441366 GACTTACAGTGTTGTCCCGGTCATCCCTTACTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * ** *
19441402 GA-AT-CACGATGTTATTTCGATCATCAGTTACTTTTC
1 GACTTGTA-G-TGTTGTCCCGATCATCAGTTACTTTTT
* *** * * *
19441438 AACTTACGGTGTTGTCTCAATCATCAGTTACTTTTA
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * *
19441474 GACTTGCAGTGTTGTCTC-ATTCATCAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGA-TCATCAGTTACTTTTT
* * ** * *
19441510 GACTTGCAGTGTTATCTTGAT-AGTTAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCA-TCAGTTACTTTTT
** * * * ***
19441546 GACTCATTGTGTTATCTCGATCATTTCTTACTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * ** *
19441582 GACTTAT-GATGTTGT-CCTAGTCATCCCTTACTTTCT
1 GACTTGTAG-TGTTGTCCCGA-TCATCAGTTACTTTTT
* * * * *
19441618 GACTTG-CGATATTATCCCAATCATCAGTTATTTTTT
1 GACTTGTAG-TGTTGTCCCGATCATCAGTTACTTTTT
** * * *
19441654 GACTTACAGTGTTGGCCTGATCATTC-TTTACTTTTT
1 GACTTGTAGTGTTGTCCCGATCA-TCAGTTACTTTTT
* * * * * *
19441690 -AATT-AACTGACGTTGTCCCAATCATCAATTACTTTCT
1 GACTTGTA--G-TGTTGTCCCGATCATCAGTTACTTTTT
* * * * *
19441727 GACTTATGGTGTTGTCCTGATCATCTGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * ** * *
19441763 AACTTATAATATTGTCTTGATCATTAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * ** * * *
19441799 GA-TT-CACGGTGTTATCTTGGTCATTC-CTTACTTTTC
1 GACTTGTA--GTGTTGTCCCGATCA-TCAGTTACTTTTT
** * *
19441835 GACTCATAGTGTTAT-CCTAGTCATCCA-TTACTTTTT
1 GACTTGTAGTGTTGTCCCGA-TCAT-CAGTTACTTTTT
* * * * *
19441871 GACTTGTGGTGTTATCCCGATCATTAATTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * *
19441907 GACTTATGGTGTTAT-CCTAGTCATTC-CTTACTTTTT
1 GACTTGTAGTGTTGTCCCGA-TCA-TCAGTTACTTTTT
* *
19441943 GACTTGTAGTGTTGTCCCGATCATCAATTACTTTTC
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * *
19441979 AACTTATGGTGTTATCCCGATCATCAATTA-TTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * * *
19442014 TATTTGTGGTGTTATCCCGATCATTAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * *
19442050 GACTTG-AGACGTTGTCTCGGTCATTC-CTTACTTTTC
1 GACTTGTAG-TGTTGTCCCGATCA-TCAGTTACTTTTT
* * * * *
19442086 GACTTGTGGTGTTATCCTGATCATTAGTTACTTTTC
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * *
19442122 AAC-T-TACGATGTTGTCTCGAT-ATCAATTA-TTTCTT
1 GACTTGTA-G-TGTTGTCCCGATCATCAGTTACTTT-TT
** * * * * * *
19442157 GACTTGCGGTGTTGGCCTGACCATTC-CTTACATTTC
1 GACTTGTAGTGTTGTCCCGATCA-TCAGTTACTTTTT
* *
19442193 GAC-T-TACGATGTTGTCCCAATCATCAGTTATTTTTT
1 GACTTGTA-G-TGTTGTCCCGATCATCAGTTACTTTTT
** ** *
19442229 GACTTGCGGTGTTGTCTTGATCATTAGTTA-TTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * * *
19442264 CAACTCGTAGTATTGTCTCAATCATTC-CTTACTTTTT
1 -GACTTGTAGTGTTGTCCCGATCA-TCAGTTACTTTTT
** * ** * * *
19442301 GACTTGCGGTATTGTCTTGGTCATTC-TTTACTTTTC
1 GACTTGTAGTGTTGTCCCGATCA-TCAGTTACTTTTT
* * * * ** * ***
19442337 AATTTATGGTGTTGTCTTGGTCATTTCTTACTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* **** * * *
19442373 AACTCACGGTGTTATCCC-ATTCATTAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGA-TCATCAGTTACTTTTT
* *** *
19442409 TACTTGTAGTGTTGTCCC-AGTCATTTCTTACTTTTC
1 GACTTGTAGTGTTGTCCCGA-TCATCAGTTACTTTTT
* * * * * *
19442445 AACTTGCAATGTTGTCCCAATCATCAATTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * *
19442481 AACTT-TCGGTGTTGTCTCAATCATCAGTTATTTTTT
1 GACTTGT-AGTGTTGTCCCGATCATCAGTTACTTTTT
* * ***
19442517 GACTTGCAGTGTT-T-CCAAGTCATTTTTTACTTTTT
1 GACTTGTAGTGTTGTCCCGA-TCATCAGTTACTTTTT
* * * * *
19442552 GACTTGCAGTGTTGTCTCAACCATCAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * * * *
19442588 TACTTGCAGTGTTGTCTCAACCATCAGTTATTTTTT
1 GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
* * * *
19442624 GACTTGCATTATTGTCCCTATCATC
1 GACTTGTAGTGTTGTCCCGATCATC
19442649 TTTTATTTCC
Statistics
Matches: 1038, Mismatches: 282, Indels: 142
0.71 0.19 0.10
Matches are distributed among these distances:
34 13 0.01
35 110 0.11
36 848 0.82
37 61 0.06
38 6 0.01
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (36 bp):
GACTTGTAGTGTTGTCCCGATCATCAGTTACTTTTT
Found at i:19442075 original size:143 final size:143
Alignment explanation
Indices: 19441826--19442169 Score: 408
Period size: 143 Copynumber: 2.4 Consensus size: 143
19441816 TGGTCATTCC
* * * * *
19441826 TTACTTTTCGACTCATAGTGTTAT-CCTAGTCATCCATTACTTTTTGACTTGTGGTGTTATCCCG
1 TTACTTTTCAACTTATGGTGTTATCCCGA-TCATCAATTA-TTTTTGACTTGTGGTGTTATCCCG
** *
19441890 ATCATTAATTATTTTTTGACTTATGGTGTTATCCTAGTCATTCCTTACTTTTTGACTTGTAGTGT
64 ATCATTAATTATTTTTTGACTTATGACGTTATCCTAGTCATTCCTTACTTTTCGACTTGTAGTGT
*
19441955 TGTCCCGATCATCAA
129 TATCCCGATCATCAA
* *
19441970 TTACTTTTCAACTTATGGTGTTATCCCGATCATCAATTATTTTTTATTTGTGGTGTTATCCCGAT
1 TTACTTTTCAACTTATGGTGTTATCCCGATCATCAATTATTTTTGACTTGTGGTGTTATCCCGAT
* * * *
19442035 CATTAGTTATTTTTTGACTTGA-GACGTTGT-CTCGGTCATTCCTTACTTTTCGACTTGTGGTGT
66 CATTAATTATTTTTTGACTT-ATGACGTTATCCT-AGTCATTCCTTACTTTTCGACTTGTAGTGT
* * *
19442098 TATCCTGATCATTAG
129 TATCCCGATCATCAA
* * * * *
19442113 TTACTTTTCAACTTACGATGTTGTCTCGAT-ATCAATTATTTCTTGACTTGCGGTGTT
1 TTACTTTTCAACTTATGGTGTTATCCCGATCATCAATTATTT-TTGACTTGTGGTGTT
19442170 GGCCTGACCA
Statistics
Matches: 171, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
142 13 0.08
143 124 0.73
144 31 0.18
145 3 0.02
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (143 bp):
TTACTTTTCAACTTATGGTGTTATCCCGATCATCAATTATTTTTGACTTGTGGTGTTATCCCGAT
CATTAATTATTTTTTGACTTATGACGTTATCCTAGTCATTCCTTACTTTTCGACTTGTAGTGTTA
TCCCGATCATCAA
Found at i:19442197 original size:143 final size:143
Alignment explanation
Indices: 19441855--19442268 Score: 375
Period size: 143 Copynumber: 2.9 Consensus size: 143
19441845 GTTATCCTAG
* * * * * ** * * **
19441855 TCATCCATTACTTTTTGACTTGTGGTGTTATCCCGATCATTAATTATTTTTTGACTTATGGTGTT
1 TCATCAATTA-TTTTTGACTTGCGGTGTTAGCCCGACCATTACTTACATTTCGACTTACGACGTT
* * * * * *
19441920 ATCCTAGTCATTCCTTACTTTTTGACTTGTAGTGTTGTCCCGATCATCAATTACTTTTCAACTTA
65 GTCCCAGTCATTCCTTACTTTTTGACTTGTGGTGTTGTCCTGATCATTAGTTACTTTTCAACTTA
* *
19441985 TGGTGTTATCCCGA
130 CGATGTTATCCCGA
* * * * * * ** *
19441999 TCATCAATTATTTTTTATTTGTGGTGTTATCCCGATCATTAGTTATTTTTTGACTTGA-GACGTT
1 TCATCAATTATTTTTGACTTGCGGTGTTAGCCCGACCATTACTTACATTTCGACTT-ACGACGTT
* * * *
19442063 GTCTCGGTCATTCCTTACTTTTCGACTTGTGGTGTTATCCTGATCATTAGTTACTTTTCAACTTA
65 GTCCCAGTCATTCCTTACTTTTTGACTTGTGGTGTTGTCCTGATCATTAGTTACTTTTCAACTTA
* *
19442128 CGATGTTGTCTCGA
130 CGATGTTATCCCGA
* * * *
19442142 T-ATCAATTATTTCTTGACTTGCGGTGTTGGCCTGACCATTCCTTACATTTCGACTTACGATGTT
1 TCATCAATTATTT-TTGACTTGCGGTGTTAGCCCGACCATTACTTACATTTCGACTTACGACGTT
* * * * * *
19442206 GTCCCAATCA-TCAGTTATTTTTTGACTTGCGGTGTTGTCTTGATCATTAGTTATTTTTCAACT
65 GTCCCAGTCATTC-CTTACTTTTTGACTTGTGGTGTTGTCCTGATCATTAGTTACTTTTCAACT
19442269 CGTAGTATTG
Statistics
Matches: 223, Mismatches: 43, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
142 14 0.06
143 199 0.89
144 10 0.04
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (143 bp):
TCATCAATTATTTTTGACTTGCGGTGTTAGCCCGACCATTACTTACATTTCGACTTACGACGTTG
TCCCAGTCATTCCTTACTTTTTGACTTGTGGTGTTGTCCTGATCATTAGTTACTTTTCAACTTAC
GATGTTATCCCGA
Found at i:19442198 original size:71 final size:72
Alignment explanation
Indices: 19442086--19442242 Score: 199
Period size: 71 Copynumber: 2.2 Consensus size: 72
19442076 CTTACTTTTC
* ** * * * * *
19442086 GACTTGTGGTGTTATCCTGATCATTAGTTACTTTTCAACTTACGATGTTGTCTCGAT-ATCAATT
1 GACTTGCGGTGTTGGCCTGACCATTACTTACATTTCAACTTACGATGTTGTCCCAATCATCAATT
19442150 ATTTCTT
66 ATTTCTT
* * *
19442157 GACTTGCGGTGTTGGCCTGACCATTCCTTACATTTCGACTTACGATGTTGTCCCAATCATCAGTT
1 GACTTGCGGTGTTGGCCTGACCATTACTTACATTTCAACTTACGATGTTGTCCCAATCATCAATT
*
19442222 ATTTTTT
66 ATTTCTT
19442229 GACTTGCGGTGTTG
1 GACTTGCGGTGTTG
19442243 TCTTGATCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
71 47 0.64
72 26 0.36
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (72 bp):
GACTTGCGGTGTTGGCCTGACCATTACTTACATTTCAACTTACGATGTTGTCCCAATCATCAATT
ATTTCTT
Found at i:19442280 original size:72 final size:72
Alignment explanation
Indices: 19441627--19442529 Score: 319
Period size: 72 Copynumber: 12.6 Consensus size: 72
19441617 TGACTTGCGA
* * * * * * **
19441627 TATTATCCCAATCATCAGTTATTTTTTGACTTACAGTGTTGGCCTGATCATTCTTTACTTTTT-A
1 TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTA-TTTTTCA
*
19441691 A-TTA-AC
65 ACTTATAG
* **
19441697 TGACGTTGTCCCAATCATCAATTACTTTCTGACTTATGGTGTTGTCCTGATCATCT-GTTATTTT
1 T-A--TTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCAT-TAGTTATTTT
* *
19441761 TTAACTTATAA
62 TCAACTTATAG
*** * * * * * * * ** * *
19441772 TATTGTCTTGATCATTAGTTATTTTTTGA-TTCACGGTGTTATCTTGGTCATTCCTTACTTTTCG
1 TATTGTCCCAATCATCAATTACTTTTTGACTT-GCGGTGTTGTCCTGATCATTAGTTATTTTTCA
*
19441836 ACTCATAG
65 ACTTATAG
* * * * * * * * * **
19441844 TGTTATCCTAGTCATCCATTACTTTTTGACTTGTGGTGTTATCCCGATCATTAATTATTTTTTGA
1 TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCAA
*
19441909 CTTATGG
66 CTTATAG
* * * * * ** * * * *
19441916 TGTTATCCTAGTCATTC-CTTACTTTTTGACTTGTAGTGTTGTCCCGATCATCAATTACTTTTCA
1 TATTGTCCCAATCA-TCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCA
*
19441980 ACTTATGG
65 ACTTATAG
* * * * * * * * **
19441988 TGTTATCCCGATCATCAATTA-TTTTTTATTTGTGGTGTTATCCCGATCATTAGTTATTTTTTGA
1 TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCAA
*
19442052 CTT-GAG
66 CTTATAG
* ** * * * * *
19442058 -ACGTTGTCTCGGTCATTC-CTTACTTTTCGACTTGTGGTGTTATCCTGATCATTAGTTACTTTT
1 TA--TTGTCCCAATCA-TCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTT
*
19442121 CAACTTA-CG
63 CAACTTATAG
* * * * * ** **
19442130 ATGTTGTCTCGAT-ATCAATTA-TTTCTTGACTTGCGGTGTTGGCCTGACCATTCCTTACATTTC
1 -TATTGTCCCAATCATCAATTACTTT-TTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTC
* *
19442193 GACTTA-CG
64 AACTTATAG
* * * *
19442201 ATGTTGTCCCAATCATCAGTTATTTTTTGACTTGCGGTGTTGTCTTGATCATTAGTTATTTTTCA
1 -TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCA
**
19442266 ACTCGTAG
65 ACTTATAG
* * * * * ** *
19442274 TATTGTCTCAATCATTC-CTTACTTTTTGACTTGCGGTATTGTCTTGGTCATTCTTTACTTTTCA
1 TATTGTCCCAATCA-TCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCA
* *
19442338 ATTTATGG
65 ACTTATAG
* **** *** * ** * * **
19442346 TGTTGTCTTGGTCATTTCTTACTTTTTAACTCACGGTGTTATCC-CATTCATTAGTTATTTTTTT
1 TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGA-TCATTAGTTATTTTTCA
*
19442410 ACTTGTAG
65 ACTTATAG
* * *** ** ** ** * * *
19442418 TGTTGTCCCAGTCATTTCTTACTTTTCAACTTGCAATGTTGTCCCAATCATCAATTATTTTTTAA
1 TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCAA
*
19442483 CTT-TCGG
66 CTTAT-AG
* * * * *
19442490 TGTTGTCTCAATCATCAGTTATTTTTTGACTTGCAGTGTT
1 TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTT
19442530 TCCAAGTCAT
Statistics
Matches: 640, Mismatches: 164, Indels: 56
0.74 0.19 0.07
Matches are distributed among these distances:
70 7 0.01
71 109 0.17
72 459 0.72
73 58 0.09
74 5 0.01
75 2 0.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (72 bp):
TATTGTCCCAATCATCAATTACTTTTTGACTTGCGGTGTTGTCCTGATCATTAGTTATTTTTCAA
CTTATAG
Found at i:19442577 original size:107 final size:108
Alignment explanation
Indices: 19442368--19442640 Score: 341
Period size: 107 Copynumber: 2.5 Consensus size: 108
19442358 CATTTCTTAC
* * * * * * * *
19442368 TTTTTAACTCACGGTGTTATCCCATTCATTAGTTATTTTTTTACTTGTAGTGTTGTCCCAGTCAT
1 TTTTTAACTTACGGTGTTGTCTCAATCATCAGTTATTTTTTGACTTGCAGTGTTGTCCAAGTCAT
*
19442433 TTCTTACTTTTCAACTTGCAATGTTGTCCCAATCATCAATTAT
66 TTCTTACTTTTCAACTTGCAATGTTGTCCCAACCATCAATTAT
*
19442476 TTTTTAACTTTCGGTGTTGTCTCAATCATCAGTTATTTTTTGACTTGCAGTGTT-TCCAAGTCAT
1 TTTTTAACTTACGGTGTTGTCTCAATCATCAGTTATTTTTTGACTTGCAGTGTTGTCCAAGTCAT
* ** * * *
19442540 TTTTTACTTTTTGACTTGCAGTGTTGTCTCAACCATCAGTTAT
66 TTCTTACTTTTCAACTTGCAATGTTGTCCCAACCATCAATTAT
* * * * * *
19442583 TTTTTTACTTGCAGTGTTGTCTCAACCATCAGTTATTTTTTGACTTGCATTATTGTCC
1 TTTTTAACTTACGGTGTTGTCTCAATCATCAGTTATTTTTTGACTTGCAGTGTTGTCC
19442641 CTATCATCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
107 93 0.65
108 49 0.35
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (108 bp):
TTTTTAACTTACGGTGTTGTCTCAATCATCAGTTATTTTTTGACTTGCAGTGTTGTCCAAGTCAT
TTCTTACTTTTCAACTTGCAATGTTGTCCCAACCATCAATTAT
Found at i:19442622 original size:71 final size:71
Alignment explanation
Indices: 19442446--19442631 Score: 230
Period size: 71 Copynumber: 2.6 Consensus size: 71
19442436 TTACTTTTCA
* * * * *
19442446 ACTTGCAATGTTGTCCCAATCATCAATTATTTTTTAACTTTCGGTGTTGTCTCAATCATCAGTTA
1 ACTTGCAGTGTTGT-CCAATCATCAATTATTTTTTGACTTGCAGTGTTGTCTCAACCATCAGTTA
19442511 TTTTTTG
65 TTTTTTG
*** *
19442518 ACTTGCAGTGTT-TCCAAGTCATTTTTTACTTTTTGACTTGCAGTGTTGTCTCAACCATCAGTTA
1 ACTTGCAGTGTTGTCCAA-TCATCAATTATTTTTTGACTTGCAGTGTTGTCTCAACCATCAGTTA
*
19442582 TTTTTTT
65 TTTTTTG
* *
19442589 ACTTGCAGTGTTGTCTCAACCATCAGTTATTTTTTGACTTGCA
1 ACTTGCAGTGTTGTC-CAATCATCAATTATTTTTTGACTTGCA
19442632 TTATTGTCCC
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
70 4 0.04
71 57 0.59
72 32 0.33
73 3 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (71 bp):
ACTTGCAGTGTTGTCCAATCATCAATTATTTTTTGACTTGCAGTGTTGTCTCAACCATCAGTTAT
TTTTTG
Found at i:19442691 original size:11 final size:11
Alignment explanation
Indices: 19442675--19442728 Score: 56
Period size: 11 Copynumber: 4.6 Consensus size: 11
19442665 GCGATGTTGT
19442675 CAAAAAACAAA
1 CAAAAAACAAA
*
19442686 CAAAAAATAAA
1 CAAAAAACAAA
19442697 CAAATAAACAAA
1 CAAA-AAACAAA
19442709 -AAAATAACCAAA
1 CAAAA-AA-CAAA
19442721 CCAAAAAA
1 -CAAAAAA
19442729 AAAAAAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 1 0.03
11 19 0.53
12 10 0.28
13 2 0.06
14 4 0.11
ACGTcount: A:0.78, C:0.17, G:0.00, T:0.06
Consensus pattern (11 bp):
CAAAAAACAAA
Found at i:19442729 original size:20 final size:19
Alignment explanation
Indices: 19442679--19442732 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
19442669 TGTTGTCAAA
*
19442679 AAACAAACAAAAAATAAAC
1 AAACAAAAAAAAAATAAAC
* *
19442698 AAATAAACAAAAAAATAACC
1 AAACAAA-AAAAAAATAAAC
19442718 AAACCAAAAAAAAAA
1 AAA-CAAAAAAAAAA
19442733 AAAGGAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 20 0.69
21 3 0.10
ACGTcount: A:0.80, C:0.15, G:0.00, T:0.06
Consensus pattern (19 bp):
AAACAAAAAAAAAATAAAC
Found at i:19442753 original size:13 final size:12
Alignment explanation
Indices: 19442727--19442769 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
19442717 CAAACCAAAA
19442727 AAAAAAAAAG-G
1 AAAAAAAAAGAG
19442738 AAAAAAAGAAGAG
1 AAAAAAA-AAGAG
19442751 AAAAAGAAAAGAG
1 AAAAA-AAAAGAG
19442764 AGAAAA
1 A-AAAA
19442770 GGTTTGCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.25
12 3 0.11
13 12 0.43
14 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:19449612 original size:8 final size:8
Alignment explanation
Indices: 19449592--19449685 Score: 113
Period size: 8 Copynumber: 11.8 Consensus size: 8
19449582 TAATGGATGA
19449592 AAAAAATG
1 AAAAAATG
19449600 AAAAACATG
1 AAAAA-ATG
19449609 -AAAAATG
1 AAAAAATG
19449616 -AAAAA-G
1 AAAAAATG
19449622 AAAAAAGTG
1 AAAAAA-TG
19449631 AAAAAAGTG
1 AAAAAA-TG
*
19449640 AAAAAAGG
1 AAAAAATG
*
19449648 AAAAAGTG
1 AAAAAATG
19449656 AAAAAATG
1 AAAAAATG
19449664 AAAAAATG
1 AAAAAATG
*
19449672 AAAAAGTG
1 AAAAAATG
19449680 AAAAAA
1 AAAAAA
19449686 AAAGAGAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
6 1 0.01
7 13 0.17
8 43 0.57
9 19 0.25
ACGTcount: A:0.72, C:0.01, G:0.17, T:0.10
Consensus pattern (8 bp):
AAAAAATG
Found at i:19450774 original size:21 final size:22
Alignment explanation
Indices: 19450748--19451049 Score: 286
Period size: 24 Copynumber: 13.5 Consensus size: 22
19450738 GTTAAAAATG
19450748 ATGAGAATCTTT-GAGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
*
19450769 ATGAGAATCTGT-GAGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
*
19450790 ATAAGAAGT-TTTACAGAGTTTTAA
1 ATGAGAA-TCTTT--AGAGTTTTAA
*
19450814 ATGAG----TTT-GACTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
*
19450831 ATGAGAATTTTTAAGAAGTTTTAA
1 ATGAGAATCTTT-AG-AGTTTTAA
19450855 ATGAGAATCTTTAAGGAGTTTTAA
1 ATGAGAATCTTT-A-GAGTTTTAA
*
19450879 ATGAGAATCCTTA-AGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
19450900 ATGAGAATCTTT-GAGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
19450921 ATGAGAATCTTTA-AGTTTTAA
1 ATGAGAATCTTTAGAGTTTTAA
*
19450942 ATGAGAATATTTAAAGAGTTTTAA
1 ATGAGAATCTTT--AGAGTTTTAA
*
19450966 ATGAGAATCTTTAAAAAGTTTTAA
1 ATGAGAATCTTT--AGAGTTTTAA
* *
19450990 ATGAGAACCTTTAAAAAGTTTTAA
1 ATGAGAATCTTT--AGAGTTTTAA
*
19451014 ATGAGAAT-TTTCAAAAAGTTTTAA
1 ATGAGAATCTTT---AGAGTTTTAA
19451038 ATGAGAATCTTT
1 ATGAGAATCTTT
19451050 GTCTTTGAGT
Statistics
Matches: 248, Mismatches: 14, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
17 13 0.05
20 3 0.01
21 89 0.36
22 1 0.00
23 6 0.02
24 132 0.53
25 4 0.02
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.39
Consensus pattern (22 bp):
ATGAGAATCTTTAGAGTTTTAA
Found at i:19450812 original size:24 final size:23
Alignment explanation
Indices: 19450748--19450818 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 23
19450738 GTTAAAAATG
19450748 ATGAGAATCTTT--GAGTTTTAA
1 ATGAGAATCTTTAAGAGTTTTAA
*
19450769 ATGAGAATCTGT--GAGTTTTAA
1 ATGAGAATCTTTAAGAGTTTTAA
*
19450790 ATAAGAAGT-TTTACAGAGTTTTAA
1 ATGAGAA-TCTTTA-AGAGTTTTAA
19450814 ATGAG
1 ATGAG
19450819 TTTGACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 28 0.67
22 1 0.02
24 13 0.31
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (23 bp):
ATGAGAATCTTTAAGAGTTTTAA
Found at i:19450843 original size:41 final size:43
Alignment explanation
Indices: 19450760--19450947 Score: 133
Period size: 42 Copynumber: 4.3 Consensus size: 43
19450750 GAGAATCTTT
*
19450760 GAGTTTTAAATGAGAATCTGTGAGTTTTAAATAAGAAGTTTTACA
1 GAGTTTTAAATGAG-ATCTGTGACTTTTAAATAAGAAGTTTTA-A
* *
19450805 GAGTTTTAAATGAG-T-T-TGACTTTTAAATGAGAATTTTTAA
1 GAGTTTTAAATGAGATCTGTGACTTTTAAATAAGAAGTTTTAA
* * * *
19450845 GAAGTTTTAAATGAGAATCTTTAAGGAGTTTTAAATGAGAA-TCCTT-A
1 G-AGTTTTAAATGAG-ATCTGT---GACTTTTAAATAAGAAGT-TTTAA
* * *
19450892 -AGTTTTAAATGAGAATCTTTGAGTTTTAAATGAGAA-TCTTT-A
1 GAGTTTTAAATGAG-ATCTGTGACTTTTAAATAAGAAGT-TTTAA
19450934 -AGTTTTAAATGAGA
1 GAGTTTTAAATGAGA
19450948 ATATTTAAAG
Statistics
Matches: 128, Mismatches: 6, Indels: 22
0.82 0.04 0.14
Matches are distributed among these distances:
40 2 0.02
41 34 0.27
42 35 0.27
43 2 0.02
44 1 0.01
45 35 0.27
47 2 0.02
48 17 0.13
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (43 bp):
GAGTTTTAAATGAGATCTGTGACTTTTAAATAAGAAGTTTTAA
Found at i:19450922 original size:152 final size:154
Alignment explanation
Indices: 19450748--19451046 Score: 408
Period size: 152 Copynumber: 1.9 Consensus size: 154
19450738 GTTAAAAATG
* *
19450748 ATGAGAATCTTTGAGTTTTAAATGAGAATCTGTGAGTTTTAAATAAGAAGT-TTTACAGAGTTTT
1 ATGAGAATCTTTGAGTTTTAAATGAGAATCTGTAAGTTTTAAATAAGAA-TATTTAAAGAGTTTT
* ** * **
19450812 AAATGAG-TTT-GACTTTTAAATGAGAATTTTTAAGAAGTTTTAAATGAGAATCTTT-AAGGAGT
65 AAATGAGATTTAAACTTTTAAATGAGAACCTTTAAAAAGTTTTAAATGAGAAT-TTTCAAAAAGT
19450874 TTTAAATGAGAATCCTTAAGTTTTAA
129 TTTAAATGAGAATCCTTAAGTTTTAA
* *
19450900 ATGAGAATCTTTGAGTTTTAAATGAGAATCTTTAAGTTTTAAATGAGAATATTTAAAGAGTTTTA
1 ATGAGAATCTTTGAGTTTTAAATGAGAATCTGTAAGTTTTAAATAAGAATATTTAAAGAGTTTTA
*
19450965 AATGAGAATCTTTAAAAAGTTTTAAATGAGAACCTTTAAAAAGTTTTAAATGAGAATTTTCAAAA
66 AATGAG-A--TTT--AAACTTTTAAATGAGAACCTTTAAAAAGTTTTAAATGAGAATTTTCAAAA
19451030 AGTTTTAAATGAGAATC
126 AGTTTTAAATGAGAATC
19451047 TTTGTCTTTG
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
151 1 0.01
152 65 0.51
156 3 0.02
158 3 0.02
159 55 0.43
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.39
Consensus pattern (154 bp):
ATGAGAATCTTTGAGTTTTAAATGAGAATCTGTAAGTTTTAAATAAGAATATTTAAAGAGTTTTA
AATGAGATTTAAACTTTTAAATGAGAACCTTTAAAAAGTTTTAAATGAGAATTTTCAAAAAGTTT
TAAATGAGAATCCTTAAGTTTTAA
Found at i:19450956 original size:14 final size:13
Alignment explanation
Indices: 19450936--19451045 Score: 64
Period size: 10 Copynumber: 9.1 Consensus size: 13
19450926 AATCTTTAAG
19450936 TTTTAAATGAGAA
1 TTTTAAATGAGAA
19450949 TATTTAAA-GAG--
1 T-TTTAAATGAGAA
19450960 TTTTAAATGAGAA
1 TTTTAAATGAGAA
*
19450973 TCTTTAAA--A-AG
1 T-TTTAAATGAGAA
19450984 TTTTAAATGAGAA
1 TTTTAAATGAGAA
* *
19450997 CCTTTAAA--A-AG
1 -TTTTAAATGAGAA
19451008 TTTTAAATGAGAA
1 TTTTAAATGAGAA
*
19451021 TTTTCAAA--A-AG
1 TTTT-AAATGAGAA
19451032 TTTTAAATGAGAA
1 TTTTAAATGAGAA
19451045 T
1 T
19451046 CTTTGTCTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 32
0.65 0.07 0.28
Matches are distributed among these distances:
10 21 0.29
11 12 0.16
12 6 0.08
13 13 0.18
14 21 0.29
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.37
Consensus pattern (13 bp):
TTTTAAATGAGAA
Found at i:19451234 original size:44 final size:45
Alignment explanation
Indices: 19451128--19451257 Score: 115
Period size: 45 Copynumber: 2.9 Consensus size: 45
19451118 GAAGTATCAA
* * * *
19451128 ATGTGAAACACCAAAAATTTTCAAATGAGAAGCTTTGAACTTTTAG
1 ATGTGAAACTCTAAAATTTTTCAAATGAGAAACTTTGAAC-TTTAG
** *
19451174 ATGTG-AACTTCT-AAATTTTTTGAATGAGAAACTTTGAA-TTTAT
1 ATGTGAAAC-TCTAAAATTTTTCAAATGAGAAACTTTGAACTTTAG
* * *
19451217 ATGTGAAACTCTAAAATTTATT-AAATGTGAATCTTTTAACT
1 ATGTGAAACTCTAAAATTT-TTCAAATGAGAAACTTTGAACT
19451258 CGAATGAGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
43 12 0.18
44 22 0.32
45 28 0.41
46 6 0.09
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (45 bp):
ATGTGAAACTCTAAAATTTTTCAAATGAGAAACTTTGAACTTTAG
Found at i:19451324 original size:22 final size:22
Alignment explanation
Indices: 19451259--19451324 Score: 53
Period size: 23 Copynumber: 3.0 Consensus size: 22
19451249 CTTTTAACTC
* * *
19451259 GAATGAGAAGCTTTGAAATTTT
1 GAATGAGAACCCTTGAATTTTT
* * *
19451281 GGATGTA-AACCCCTAAATTTTTT
1 GAATG-AGAACCCTTGAA-TTTTT
19451304 GAATGAGAACCCTTGAATTTT
1 GAATGAGAACCCTTGAATTTT
19451325 AGATTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (22 bp):
GAATGAGAACCCTTGAATTTTT
Found at i:19451363 original size:43 final size:43
Alignment explanation
Indices: 19451300--19451445 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 43
19451290 CCCCTAAATT
* * * * *
19451300 TTTTGAATGAGAACCCTTGAATTTTAGATTTGAATTTGC-AAGA
1 TTTTGAATGTGAATCTTTGAATCTTAGATGTGAATTT-CTAAGA
*
19451343 TTTTGAATGTGAATCTTTGAATCTTAGATGTGAATATCTAAGA
1 TTTTGAATGTGAATCTTTGAATCTTAGATGTGAATTTCTAAGA
* * * * *
19451386 TTTTGTATGTAAATCTTTGAATCTTGGATGTGAATTTTTGA-A
1 TTTTGAATGTGAATCTTTGAATCTTAGATGTGAATTTCTAAGA
**
19451428 TTTTGGGTGTGAATCTTT
1 TTTTGAATGTGAATCTTT
19451446 AAGATTTTTG
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 17 0.20
43 70 0.80
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (43 bp):
TTTTGAATGTGAATCTTTGAATCTTAGATGTGAATTTCTAAGA
Found at i:19451374 original size:21 final size:21
Alignment explanation
Indices: 19451349--19451530 Score: 105
Period size: 21 Copynumber: 8.5 Consensus size: 21
19451339 AAGATTTTGA
*
19451349 ATGTGAATCTTTGAATCTTAG
1 ATGTGAATCTTTGAATCTTGG
* * * * *
19451370 ATGTGAATATCTAAGATTTTGT
1 ATGTGAATCTTTGA-ATCTTGG
*
19451392 ATGTAAATCTTTGAATCTTGG
1 ATGTGAATCTTTGAATCTTGG
* *
19451413 ATGTGAATTTTTGAATTTTGG
1 ATGTGAATCTTTGAATCTTGG
* * * *
19451434 GTGTGAATCTTTAAGATTTTTGA
1 ATGTGAATCTTT--GAATCTTGG
* *
19451457 ATGAGAA-CTTTTGAATTTTGG
1 ATGTGAATC-TTTGAATCTTGG
* * * **
19451478 ATGTGAATCTCTAAGATTTTCA
1 ATGTGAATCTTTGA-ATCTTGG
* *
19451500 ATATGAACCTTTGAATCTTGG
1 ATGTGAATCTTTGAATCTTGG
*
19451521 ATGTCAATCT
1 ATGTGAATCT
19451531 CTAAAATTTC
Statistics
Matches: 117, Mismatches: 38, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
21 71 0.61
22 31 0.26
23 15 0.13
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (21 bp):
ATGTGAATCTTTGAATCTTGG
Found at i:19451450 original size:64 final size:65
Alignment explanation
Indices: 19451349--19451487 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 65
19451339 AAGATTTTGA
*
19451349 ATGTGAATCTTTGAATCTTAGATGTGAATATCTAAGA-TTTTGTATGTA-AA-TCTTTGAATCTT
1 ATGTGAATCTTTGAATCTTAGATGTGAATATCTAAGATTTTTGAATG-AGAACT-TTTGAATCTT
19451411 GG
64 GG
* * * * * * *
19451413 ATGTGAATTTTTGAATTTTGGGTGTGAATCTTTAAGATTTTTGAATGAGAACTTTTGAATTTTGG
1 ATGTGAATCTTTGAATCTTAGATGTGAATATCTAAGATTTTTGAATGAGAACTTTTGAATCTTGG
19451478 ATGTGAATCT
1 ATGTGAATCT
19451488 CTAAGATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 32 0.51
65 30 0.48
66 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (65 bp):
ATGTGAATCTTTGAATCTTAGATGTGAATATCTAAGATTTTTGAATGAGAACTTTTGAATCTTGG
Found at i:19451556 original size:43 final size:43
Alignment explanation
Indices: 19451413--19451559 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
19451403 TGAATCTTGG
* * * * *
19451413 ATGTGAATTTTTGAATTTTGGGTGTGAATCTTTAAGATTTTTGA
1 ATGTGAACTTTTGAATCTTGGATGTGAATCTCTAAGA-TTTTCA
* *
19451457 ATGAGAACTTTTGAATTTTGGATGTGAATCTCTAAGATTTTCA
1 ATGTGAACTTTTGAATCTTGGATGTGAATCTCTAAGATTTTCA
* * * *
19451500 ATATGAACCTTTGAATCTTGGATGTCAATCTCTAA-AATTTCAA
1 ATGTGAACTTTTGAATCTTGGATGTGAATCTCTAAGATTTTC-A
*
19451543 ATGTGAATTTTTGAATC
1 ATGTGAACTTTTGAATC
19451560 CTTGTGAATC
Statistics
Matches: 88, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 5 0.06
43 50 0.57
44 33 0.38
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (43 bp):
ATGTGAACTTTTGAATCTTGGATGTGAATCTCTAAGATTTTCA
Found at i:19451584 original size:28 final size:28
Alignment explanation
Indices: 19451552--19451605 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
19451542 AATGTGAATT
19451552 TTTG-AATCCTTGTGAATCTATGAATCTC
1 TTTGAAATCCTTGTGAATCT-TGAATCTC
*
19451580 TTTGAAATCTTTGTGAATCTTGAATC
1 TTTGAAATCCTTGTGAATCTTGAATC
19451606 ATTTGCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (28 bp):
TTTGAAATCCTTGTGAATCTTGAATCTC
Found at i:19451642 original size:17 final size:16
Alignment explanation
Indices: 19451620--19451695 Score: 73
Period size: 17 Copynumber: 4.6 Consensus size: 16
19451610 GCAAATCATT
19451620 AAATCTTAAATTTTTTC
1 AAATCTTAAA-TTTTTC
* * *
19451637 AAATCTTGAATTGTTG
1 AAATCTTAAATTTTTC
*
19451653 AGAATCTTGAATTTTTGC
1 A-AATCTTAAATTTTT-C
*
19451671 GAATCTTAAATTTTT-
1 AAATCTTAAATTTTTC
19451686 AAATCTTAAA
1 AAATCTTAAA
19451696 CATTTGTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
15 9 0.18
16 5 0.10
17 35 0.71
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (16 bp):
AAATCTTAAATTTTTC
Found at i:19451709 original size:49 final size:49
Alignment explanation
Indices: 19451621--19451738 Score: 148
Period size: 49 Copynumber: 2.3 Consensus size: 49
19451611 CAAATCATTA
* * *
19451621 AATCTTAAATTTTTTCAAATCTTGAATTGTTGAGAATCTTGAATTTTTGCG
1 AATCTTAAA-TTTTT-AAATCTTAAAATGTTGAGAATCTTGAATTCTTGCG
*
19451672 AATCTTAAATTTTTAAATCTTAAACAT-TTGTGAATCTTGAATTCTTGCG
1 AATCTTAAATTTTTAAATCTTAAA-ATGTTGAGAATCTTGAATTCTTGCG
*
19451721 AATTTTAGAATTTTTAAA
1 AATCTTA-AATTTTTAAA
19451739 CTTTTGTGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
49 35 0.58
50 16 0.27
51 9 0.15
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (49 bp):
AATCTTAAATTTTTAAATCTTAAAATGTTGAGAATCTTGAATTCTTGCG
Found at i:19451723 original size:17 final size:16
Alignment explanation
Indices: 19451638--19451734 Score: 70
Period size: 17 Copynumber: 5.8 Consensus size: 16
19451628 AATTTTTTCA
*
19451638 AATCTTGAATTGTTGAG
1 AATCTTGAATT-TTGCG
19451655 AATCTTGAATTTTTGCG
1 AATCTTGAA-TTTTGCG
* **
19451672 AATCTTAAATTTT-TA
1 AATCTTGAATTTTGCG
* * *
19451687 AATCTTAAACATTTGTG
1 AATCTTGAA-TTTTGCG
19451704 AATCTTGAATTCTTGCG
1 AATCTTGAATT-TTGCG
*
19451721 AATTTTAGAATTTT
1 AATCTT-GAATTTT
19451735 TAAACTTTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
15 9 0.14
16 8 0.12
17 41 0.63
18 7 0.11
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (16 bp):
AATCTTGAATTTTGCG
Found at i:19451795 original size:20 final size:19
Alignment explanation
Indices: 19451772--19451837 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
19451762 TAAATCTTTG
19451772 AAATCTTTTATGAATTTTT
1 AAATCTTTTATGAATTTTT
* *
19451791 AAAATATTTTACT-AATCTTTG
1 -AAATCTTTTA-TGAAT-TTTT
* *
19451812 AAATCTCTTGTGAA-TTTT
1 AAATCTTTTATGAATTTTT
19451830 AAATCTTT
1 AAATCTTT
19451838 ACGAATATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
18 10 0.28
19 1 0.03
20 21 0.58
21 4 0.11
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (19 bp):
AAATCTTTTATGAATTTTT
Found at i:19451909 original size:18 final size:19
Alignment explanation
Indices: 19451867--19451909 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19451857 TGAATCTTTG
*
19451867 AATCTTTAAATCTCTTACG
1 AATCTTTAAATCTCTTACA
* *
19451886 AATCTTTAAAT-TTTTGCA
1 AATCTTTAAATCTCTTACA
19451904 AATCTT
1 AATCTT
19451910 CAAAATAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.47
Consensus pattern (19 bp):
AATCTTTAAATCTCTTACA
Found at i:19452005 original size:18 final size:19
Alignment explanation
Indices: 19451923--19452025 Score: 74
Period size: 18 Copynumber: 5.6 Consensus size: 19
19451913 AATAACTTGT
*
19451923 GAATCTTTGAATTC-TTAC
1 GAATCTTTGAATTCTTTGC
* *
19451941 AAATATTTGAATT-TTTGC
1 GAATCTTTGAATTCTTTGC
* *
19451959 GAAT-GTTGAA-TCTCATGC
1 GAATCTTTGAATTCT-TTGC
*
19451977 GAATCTTTGAATTCTTTGT
1 GAATCTTTGAATTCTTTGC
*
19451996 GAAT-TTTGAA-TCATTTGT
1 GAATCTTTGAATTC-TTTGC
*
19452014 GAACCTTTGAAT
1 GAATCTTTGAAT
19452026 CAATATCATG
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.01
17 8 0.12
18 38 0.57
19 17 0.25
20 3 0.04
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.45
Consensus pattern (19 bp):
GAATCTTTGAATTCTTTGC
Found at i:19452022 original size:37 final size:36
Alignment explanation
Indices: 19451946--19452025 Score: 90
Period size: 37 Copynumber: 2.2 Consensus size: 36
19451936 CTTACAAATA
*
19451946 TTTGAATTTTTGCGAATGTTGAATCTCATGCGAATC
1 TTTGAATTTTTGCGAATGTTGAATCTCATGCGAACC
* * * *
19451982 TTTGAATTCTTTGTGAATTTTGAATCAT-TTGTGAACC
1 TTTGAATT-TTTGCGAATGTTGAATC-TCATGCGAACC
19452019 TTTGAAT
1 TTTGAAT
19452026 CAATATCATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 8 0.22
37 28 0.76
38 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.46
Consensus pattern (36 bp):
TTTGAATTTTTGCGAATGTTGAATCTCATGCGAACC
Found at i:19452054 original size:86 final size:85
Alignment explanation
Indices: 19451948--19452105 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
19451938 TACAAATATT
* * ** *
19451948 TGAATTTTTGCGAATGTTGAATCTCATGCGAATCTTTGAATTCTTTGTGAATTTTGAATC-ATTT
1 TGAATTTTTGCAAATGTTGAATCTCATGCAAATCTTT-AATT-TTTGAAAATCTTGAATCTATTT
*
19452012 GTGAACCTTTGAATCAATATCA
64 ATGAACCTTTGAATCAATATCA
* ** *
19452034 TGAATTTTTGCAAATTTTGAATCTTTTGCAAATCTTTAATTTTTGAAAATCTTGAATCTTTTTAT
1 TGAATTTTTGCAAATGTTGAATCTCATGCAAATCTTTAATTTTTGAAAATCTTGAATCTATTTAT
19452099 GAACCTT
66 GAACCTT
19452106 GAACTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 14 0.23
85 15 0.25
86 32 0.52
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.46
Consensus pattern (85 bp):
TGAATTTTTGCAAATGTTGAATCTCATGCAAATCTTTAATTTTTGAAAATCTTGAATCTATTTAT
GAACCTTTGAATCAATATCA
Found at i:19452083 original size:17 final size:18
Alignment explanation
Indices: 19452034--19452095 Score: 76
Period size: 17 Copynumber: 3.5 Consensus size: 18
19452024 ATCAATATCA
19452034 TGAATTTTTGCAAAT-TT
1 TGAATTTTTGCAAATCTT
19452051 TGAATCTTTTGCAAATCTT
1 TGAAT-TTTTGCAAATCTT
*
19452070 T-AATTTTTGAAAATC-T
1 TGAATTTTTGCAAATCTT
19452086 TGAATCTTTT
1 TGAAT-TTTT
19452096 TATGAACCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.05
17 18 0.45
18 17 0.43
19 3 0.08
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (18 bp):
TGAATTTTTGCAAATCTT
Found at i:19453171 original size:149 final size:150
Alignment explanation
Indices: 19452895--19453183 Score: 499
Period size: 149 Copynumber: 1.9 Consensus size: 150
19452885 GAATAAACAC
* *
19452895 AAAATGGAGGCATTCATAAAATAGTTTTGGTAGCAAAATTTTTGTTAGCTTTTTGTAAAAAAACA
1 AAAAAGGAGGCATTCATAAAATAGTTTTGGTAGCAAAATTTTAGTTAGCTTTTTGTAAAAAAACA
19452960 AGAAAAAAGACAAGGGGTTGAAAATGAAGGAAAAGCAAAAAAGGACTAACCCAGTTTGAGGGTCC
66 AGAAAAAAGACAAGGGGTTGAAAATGAAGGAAAAGCAAAAAAGGACTAACCCAGTTTGAGGGTCC
19453025 AATCCATTAAAAAGAAATAA
131 AATCCATTAAAAAGAAATAA
19453045 AAAAAGGAGGCATTCATAAAATAGTTTTGGTAGCAAAATTTTAGTTAGCTTTTTGT-AAAAAACA
1 AAAAAGGAGGCATTCATAAAATAGTTTTGGTAGCAAAATTTTAGTTAGCTTTTTGTAAAAAAACA
* * ** **
19453109 AGAAAGAAGACAAGGGGTTGAAAATGAGGGAAAAGCAAAAGGGGACTAACCTTGTTTGAGGGTCC
66 AGAAAAAAGACAAGGGGTTGAAAATGAAGGAAAAGCAAAAAAGGACTAACCCAGTTTGAGGGTCC
19453174 AATCCATTAA
131 AATCCATTAA
19453184 GAAGCCCAAA
Statistics
Matches: 131, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
149 77 0.59
150 54 0.41
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (150 bp):
AAAAAGGAGGCATTCATAAAATAGTTTTGGTAGCAAAATTTTAGTTAGCTTTTTGTAAAAAAACA
AGAAAAAAGACAAGGGGTTGAAAATGAAGGAAAAGCAAAAAAGGACTAACCCAGTTTGAGGGTCC
AATCCATTAAAAAGAAATAA
Found at i:19453387 original size:17 final size:16
Alignment explanation
Indices: 19453346--19453396 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
19453336 TTTCTCATAA
19453346 TTGTCTATTTATTTAT
1 TTGTCTATTTATTTAT
*
19453362 TTGTTTATTTCATTTAT
1 TTGTCTATTT-ATTTAT
*
19453379 TT-TACTATTTATGTAT
1 TTGT-CTATTTATTTAT
19453395 TT
1 TT
19453397 ATTTTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (16 bp):
TTGTCTATTTATTTAT
Found at i:19453786 original size:122 final size:121
Alignment explanation
Indices: 19453559--19453821 Score: 278
Period size: 122 Copynumber: 2.2 Consensus size: 121
19453549 AATAAAACAA
* * * * *
19453559 AAAGCCTTACCAACATATTAGAAAATAATTTGATTTTTAAAATAAGGTTTTACCAACGTATTGGA
1 AAAGTCTTACCAACATATTGGAAAACAATTTGATTTTCAAAATAAGGTTTTACCAACATATTGGA
* * *
19453624 GAGCCTTATTAATTTTTTATTAAAAGACAAATTTCAAGAAAAAAAATAATTTTCAAT
66 AAACCTTATTAATTTTTAATTAAAAGACAAATTTCAAGAAAAAAAATAA-TTTCAAT
** * *
19453681 AAAGTCTTACCAACATATTGGAAGGCAATTTGGTTTTCAAAATAAGGTTTTCCCAACATATTGGA
1 AAAGTCTTACCAACATATTGGAAAACAATTTGATTTTCAAAATAAGGTTTTACCAACATATTGGA
* ** ** * * *
19453746 AAACCTTA-TGATTTTTAAATATAAAA-ATTAATTTTTAGAAAAGAAATCATTTCCAT
66 AAACCTTATTAATTTTT-AAT-TAAAAGACAAATTTCAAGAAAAAAAATAATTTCAAT
* **
19453802 AAAATCCGACCAACATATTG
1 AAAGTCTTACCAACATATTG
19453822 ACGGATAATT
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
121 30 0.26
122 81 0.70
123 5 0.04
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.34
Consensus pattern (121 bp):
AAAGTCTTACCAACATATTGGAAAACAATTTGATTTTCAAAATAAGGTTTTACCAACATATTGGA
AAACCTTATTAATTTTTAATTAAAAGACAAATTTCAAGAAAAAAAATAATTTCAAT
Found at i:19460281 original size:16 final size:17
Alignment explanation
Indices: 19460255--19460287 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
19460245 ATCTATAAAT
19460255 AAATAAAAATGAAAAAA
1 AAATAAAAATGAAAAAA
19460272 AAAT-AAAATGAAAAAA
1 AAATAAAAATGAAAAAA
19460288 GAAAAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAATAAAAATGAAAAAA
Found at i:19461751 original size:12 final size:12
Alignment explanation
Indices: 19461731--19461802 Score: 53
Period size: 13 Copynumber: 5.8 Consensus size: 12
19461721 TTAATTATTG
19461731 TTTTGTTTTGTT
1 TTTTGTTTTGTT
19461743 CTTTT-TTTTGTT
1 -TTTTGTTTTGTT
19461755 TTTTCAGTTTTTAGTT
1 TTTT--G-TTTT-GTT
19461771 TTTATG-TTT-TT
1 TTT-TGTTTTGTT
19461782 TTTTGTTTTAGTT
1 TTTTGTTTT-GTT
19461795 TTTT-TTTT
1 TTTTGTTTT
19461803 TTTGTTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.04
11 12 0.24
12 11 0.22
13 13 0.26
15 5 0.10
16 6 0.12
17 1 0.02
ACGTcount: A:0.06, C:0.03, G:0.11, T:0.81
Consensus pattern (12 bp):
TTTTGTTTTGTT
Found at i:19461758 original size:7 final size:7
Alignment explanation
Indices: 19461746--19461810 Score: 58
Period size: 7 Copynumber: 8.6 Consensus size: 7
19461736 TTTTGTTCTT
19461746 TTTTTTG
1 TTTTTTG
19461753 TTTTTTCAG
1 TTTTTT--G
*
19461762 TTTTTAG
1 TTTTTTG
19461769 TTTTTATG
1 TTTTT-TG
*
19461777 TTTTTTT
1 TTTTTTG
19461784 TTGTTTTAG
1 TT-TTTT-G
*
19461793 TTTTTTT
1 TTTTTTG
19461800 TTTTTTG
1 TTTTTTG
19461807 TTTT
1 TTTT
19461811 AAGGTTTGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
7 25 0.53
8 14 0.30
9 8 0.17
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:19461758 original size:24 final size:23
Alignment explanation
Indices: 19461731--19461805 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 23
19461721 TTAATTATTG
19461731 TTTTGTTTT-GTTCTTTTTTTTGTT
1 TTTTGTTTTAGTT-TTTTTTTT-TT
*
19461755 TTTTCAGTTTTTAGTTTTTATGTTTTT
1 TTTT--G-TTTTAGTTTTT-TTTTTTT
19461782 TTTTGTTTTAGTTTTTTTTTTTT
1 TTTTGTTTTAGTTTTTTTTTTTT
19461805 T
1 T
19461806 GTTTTAAGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
23 7 0.16
24 15 0.34
25 1 0.02
26 1 0.02
27 13 0.30
28 7 0.16
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.81
Consensus pattern (23 bp):
TTTTGTTTTAGTTTTTTTTTTTT
Found at i:19461765 original size:16 final size:16
Alignment explanation
Indices: 19461731--19461804 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
19461721 TTAATTATTG
**
19461731 TTTTGTTTTGTTCTTTT
1 TTTTGTTTT-TTCAGTT
19461748 TTTTGTTTTTTCAGTT
1 TTTTGTTTTTTCAGTT
*
19461764 TTTAG-TTTTT-ATGTT
1 TTTTGTTTTTTCA-GTT
*
19461779 TTTT-TTTGTTTTAGTT
1 TTTTGTTT-TTTCAGTT
19461795 TTTT-TTTTTT
1 TTTTGTTTTTT
19461805 TGTTTTAAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.02
15 16 0.33
16 22 0.45
17 10 0.20
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.81
Consensus pattern (16 bp):
TTTTGTTTTTTCAGTT
Found at i:19461791 original size:17 final size:15
Alignment explanation
Indices: 19461745--19461810 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
19461735 GTTTTGTTCT
19461745 TTTTTTTGTTTTTTCAG
1 TTTTTTT-TTTTTT-AG
**
19461762 -TTTTTAGTTTTTATG
1 TTTTTTTTTTTTTA-G
19461777 TTTTTTTTTGTTTTAG
1 TTTTTTTTT-TTTTAG
19461793 TTTTTTTTTTTTT-G
1 TTTTTTTTTTTTTAG
19461807 TTTT
1 TTTT
19461811 AAGGTTTGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 6 0.14
15 10 0.24
16 21 0.50
17 5 0.12
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTTTTTAG
Found at i:19461881 original size:36 final size:36
Alignment explanation
Indices: 19461841--19462143 Score: 243
Period size: 36 Copynumber: 8.4 Consensus size: 36
19461831 AAGTCAAGTG
* * *
19461841 ATAAATAATGATTGGGACAACACCATAAGTTAAAAA
1 ATAAAGAATGACTGGGACAACACCATAAGTCAAAAA
* * *
19461877 ATAAAGAATCGA-TCGGAACAACACCGTAAGTAAAAAA
1 ATAAAGAAT-GACT-GGGACAACACCATAAGTCAAAAA
* * *
19461914 AAAAAGAATGACTGGGACAATACCATAAGTAAAAAA
1 ATAAAGAATGACTGGGACAACACCATAAGTCAAAAA
* * **** *
19461950 ATAAAGAATGA-TCGAGACAATATTGCAAGTCAAGTAA
1 ATAAAGAATGACT-GGGACAACACCATAAGTCAA-AAA
* * ** *
19461987 TTAAAGAATGACTTGGACAACACCGCAAGTTAAAAA
1 ATAAAGAATGACTGGGACAACACCATAAGTCAAAAA
* * *
19462023 A-AAAGAATGACTGAGACAACACCGTAAATCAAAAA
1 ATAAAGAATGACTGGGACAACACCATAAGTCAAAAA
* * *
19462058 ATAAAGAACGACTAGGACAACACCATAAGTCAAGTAA
1 ATAAAGAATGACTGGGACAACACCATAAGTCAA-AAA
* * * * * *
19462095 TTAAAAAACGACTGGGATAACATCATAAGACAAAAA
1 ATAAAGAATGACTGGGACAACACCATAAGTCAAAAA
19462131 ATAAAGAATGACT
1 ATAAAGAATGACT
19462144 AAGGCAATAT
Statistics
Matches: 213, Mismatches: 46, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
35 31 0.15
36 95 0.45
37 86 0.40
38 1 0.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (36 bp):
ATAAAGAATGACTGGGACAACACCATAAGTCAAAAA
Found at i:19461898 original size:37 final size:36
Alignment explanation
Indices: 19461841--19462212 Score: 172
Period size: 36 Copynumber: 10.3 Consensus size: 36
19461831 AAGTCAAGTG
* * * * *
19461841 ATAAATAATGATTGGGACAACACCATAAGTTAAAAA
1 ATAAAGAATGATCGGAACAACACCGTAAGTAAAAAA
19461877 ATAAAGAATCGATCGGAACAACACCGTAAGTAAAAAA
1 ATAAAGAAT-GATCGGAACAACACCGTAAGTAAAAAA
* * * *
19461914 AAAAAGAATGA-CTGGGACAATACCATAAGTAAAAAA
1 ATAAAGAATGATC-GGAACAACACCGTAAGTAAAAAA
* ** * **
19461950 ATAAAGAATGATC-GAGACAATATTGCAAGTCAAGTAA
1 ATAAAGAATGATCGGA-ACAACACCGTAAGT-AAAAAA
* * * *
19461987 TTAAAGAATGACTTGG-ACAACACCGCAAGTTAAAAA
1 ATAAAGAATGA-TCGGAACAACACCGTAAGTAAAAAA
* * *
19462023 A-AAAGAATGA-CTGAGACAACACCGTAAATCAAAAA
1 ATAAAGAATGATCGGA-ACAACACCGTAAGTAAAAAA
* * * **
19462058 ATAAAGAACGACTAGG-ACAACACCATAAGTCAAGTAA
1 ATAAAGAATGA-TCGGAACAACACCGTAAGT-AAAAAA
* * * * * * *
19462095 TTAAAAAACGA-CTGGGATAACATCATAAG-ACAAAAA
1 ATAAAGAATGATC-GGAACAACACCGTAAGTA-AAAAA
* * * * *
19462131 ATAAAGAATGA-C-TAAGGCAATATCGCAAGT-CAAAA
1 ATAAAGAATGATCGGAA--CAACACCGTAAGTAAAAAA
* * *
19462166 ATAAAGAATGATCGAAACAATACTGTAAGTAAAAAA
1 ATAAAGAATGATCGGAACAACACCGTAAGTAAAAAA
*
19462202 ATACAGAATGA
1 ATAAAGAATGA
19462213 CCAAGATAAC
Statistics
Matches: 252, Mismatches: 62, Indels: 44
0.70 0.17 0.12
Matches are distributed among these distances:
33 1 0.00
34 1 0.00
35 55 0.22
36 110 0.44
37 82 0.33
38 2 0.01
39 1 0.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (36 bp):
ATAAAGAATGATCGGAACAACACCGTAAGTAAAAAA
Found at i:19461939 original size:73 final size:72
Alignment explanation
Indices: 19461841--19462213 Score: 274
Period size: 73 Copynumber: 5.2 Consensus size: 72
19461831 AAGTCAAGTG
* * *
19461841 ATAAATAATGATTGGGACAACACCATAAGTTAAAAAATAAAGAATCGATCGGAACAACACCGTAA
1 ATAAAGAATGACTAGGACAACACCATAAGTTAAAAAATAAAGAAT-GATCGGAACAACACCGTAA
19461906 GTAAAAAA
65 GTAAAAAA
* * * * * ** *
19461914 AAAAAGAATGACTGGGACAATACCATAAGTAAAAAAATAAAGAATGATC-GAGACAATATTGCAA
1 ATAAAGAATGACTAGGACAACACCATAAGTTAAAAAATAAAGAATGATCGGA-ACAACACCGTAA
**
19461978 GTCAAGTAA
65 GT-AAAAAA
* * ** *
19461987 TTAAAGAATGACTTGGACAACACCGCAAGTTAAAAAA-AAAGAATGA-CTGAGACAACACCGTAA
1 ATAAAGAATGACTAGGACAACACCATAAGTTAAAAAATAAAGAATGATCGGA-ACAACACCGTAA
* *
19462050 ATCAAAAA
65 GTAAAAAA
* * * * * * * * * *
19462058 ATAAAGAACGACTAGGACAACACCATAAGTCAAGTAATTAAAAAACGA-CTGGGATAACATCATA
1 ATAAAGAATGACTAGGACAACACCATAAGTTAA-AAAATAAAGAATGATC-GGAACAACACCGTA
19462122 AG-ACAAAAA
64 AGTA-AAAAA
* * ** * * * *
19462131 ATAAAGAATGACTAAGG-CAATATCGCAAG-TCAAAAATAAAGAATGATCGAAACAATACTGTAA
1 ATAAAGAATGACT-AGGACAACACCATAAGTTAAAAAATAAAGAATGATCGGAACAACACCGTAA
19462194 GTAAAAAA
65 GTAAAAAA
*
19462202 ATACAGAATGAC
1 ATAAAGAATGAC
19462214 CAAGATAACA
Statistics
Matches: 228, Mismatches: 62, Indels: 22
0.73 0.20 0.07
Matches are distributed among these distances:
71 68 0.30
72 40 0.18
73 116 0.51
74 4 0.02
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.17
Consensus pattern (72 bp):
ATAAAGAATGACTAGGACAACACCATAAGTTAAAAAATAAAGAATGATCGGAACAACACCGTAAG
TAAAAAA
Found at i:19462064 original size:108 final size:108
Alignment explanation
Indices: 19461894--19462188 Score: 308
Period size: 108 Copynumber: 2.7 Consensus size: 108
19461884 ATCGATCGGA
* * *
19461894 ACAACACCGTAAGTAAAAAAAAAAAGAATGACTGGGACAATACCATAAGTAAAAAAATAAAGAAT
1 ACAACACCGTAAGT-AAAAAAAAAAGAATGACTGAGACAATACCGTAAGTCAAAAAATAAAGAAT
*** * * *
19461959 GATCGAGACAATATTGCAAGTCAAGTAATTAAAGAATGACTTGG
65 GATCGAGACAATACCACAAGTCAAGTAATTAAAAAACGACTGGG
* * * * *
19462003 ACAACACCGCAAGTTAAAAAAAAAGAATGACTGAGACAACACCGTAAATCAAAAAATAAAGAACG
1 ACAACACCGTAAGTAAAAAAAAAAGAATGACTGAGACAATACCGTAAGTCAAAAAATAAAGAATG
* * *
19462068 A-CTAGGACAACACCATAAGTCAAGTAATTAAAAAACGACTGGG
66 ATCGA-GACAATACCACAAGTCAAGTAATTAAAAAACGACTGGG
* * * * * * *
19462111 ATAACATCATAAG-ACAAAAAATAAAGAATGACTAAGGCAATATCGCAAGTC-AAAAATAAAGAA
1 ACAACACCGTAAGTA-AAAAAA-AAAGAATGACTGAGACAATACCGTAAGTCAAAAAATAAAGAA
*
19462174 TGATCGAAACAATAC
64 TGATCGAGACAATAC
19462189 TGTAAGTAAA
Statistics
Matches: 150, Mismatches: 32, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
107 2 0.01
108 110 0.73
109 38 0.25
ACGTcount: A:0.54, C:0.15, G:0.16, T:0.16
Consensus pattern (108 bp):
ACAACACCGTAAGTAAAAAAAAAAGAATGACTGAGACAATACCGTAAGTCAAAAAATAAAGAATG
ATCGAGACAATACCACAAGTCAAGTAATTAAAAAACGACTGGG
Found at i:19462201 original size:144 final size:144
Alignment explanation
Indices: 19461841--19462209 Score: 332
Period size: 144 Copynumber: 2.5 Consensus size: 144
19461831 AAGTCAAGTG
* * * ** * *
19461841 ATAAATAATGATTGGGACAACACCATAAGTTAAAAAATAAAGAATCGATCGGAACAACACCGTAA
1 ATAAAGAATGACTAGGACAACACCGCAAG-TCAAAAATAAAGAAT-GATCGAAACAACACCGTAA
* * * * * * *
19461906 GTAAAAAAAAAAAGAATGACTGGGACAATACCATAAGTAAAAAAATAAAGAATGATCGAGACAAT
64 GTAAAAAAATAAAGAACGACTAGGACAACACCATAAGTAAAAAAATAAAAAACGATCGAGACAAC
** * *
19461971 ATTGCAAGTCAAGTAA
129 ATCACAAGACAAGAAA
* * * * * *
19461987 TTAAAGAATGACTTGGACAACACCGCAAGTTAAAAAAAAAGAATGA-CTGAGACAACACCGTAAA
1 ATAAAGAATGACTAGGACAACACCGCAAGTCAAAAATAAAGAATGATC-GAAACAACACCGTAAG
* ** * * *
19462051 TCAAAAAATAAAGAACGACTAGGACAACACCATAAGTCAAGTAATTAAAAAACGA-CTGGGATAA
65 TAAAAAAATAAAGAACGACTAGGACAACACCATAAGT-AAAAAAATAAAAAACGATC-GAGACAA
*
19462115 CATCATAAGACAA-AAA
128 CATCACAAGACAAGAAA
* * * *
19462131 ATAAAGAATGACTAAGG-CAATATCGCAAGTCAAAAATAAAGAATGATCGAAACAATACTGTAAG
1 ATAAAGAATGACT-AGGACAACACCGCAAGTCAAAAATAAAGAATGATCGAAACAACACCGTAAG
*
19462195 TAAAAAAATACAGAA
65 TAAAAAAATAAAGAA
19462210 TGACCAAGAT
Statistics
Matches: 177, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
143 1 0.01
144 112 0.63
145 41 0.23
146 23 0.13
ACGTcount: A:0.54, C:0.14, G:0.16, T:0.17
Consensus pattern (144 bp):
ATAAAGAATGACTAGGACAACACCGCAAGTCAAAAATAAAGAATGATCGAAACAACACCGTAAGT
AAAAAAATAAAGAACGACTAGGACAACACCATAAGTAAAAAAATAAAAAACGATCGAGACAACAT
CACAAGACAAGAAA
Found at i:19462444 original size:36 final size:37
Alignment explanation
Indices: 19462375--19462444 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 37
19462365 GCTAGGTTTA
*
19462375 ATTTTCATTTGGTGTTAGATAAACTAGGTTTAAAATC
1 ATTTTCATTTGGTGTTAGATAAACTAGGCTTAAAATC
* * *
19462412 ATTTT-ATTTGGTGTTAGGTAAATTGGGCTTAAA
1 ATTTTCATTTGGTGTTAGATAAACTAGGCTTAAA
19462445 TTTGAGGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 24 0.83
37 5 0.17
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (37 bp):
ATTTTCATTTGGTGTTAGATAAACTAGGCTTAAAATC
Found at i:19462681 original size:96 final size:98
Alignment explanation
Indices: 19462455--19462684 Score: 245
Period size: 98 Copynumber: 2.4 Consensus size: 98
19462445 TTTGAGGTAT
* * *
19462455 CAAATAATCTGGGCTTAAAATCTTTTCATGATGTGCCAAATAATCTGGACTTAAATCTTTTTTTA
1 CAAATAAACTGGGCTTAAAATCTTTTCATGATGTGCCAAACAATCTAGACTTAAATCTTTTTTTA
* *
19462520 GTGCCAGATAACTTGGGATTAAATTTAGGGTGC
66 GTACCAGATAACTTGGGATTAAATATAGGGTGC
* * ** *
19462553 TAAATAAACTAGGCTTAAAATCTTTTTGTGATGTGCCAGACAATCTA-AGCTTAAAT-TTTTCTT
1 CAAATAAACTGGGCTTAAAATCTTTTCATGATGTGCCAAACAATCTAGA-CTTAAATCTTTT-TT
* * *
19462616 TGGTACTAGATAAAC-T-GGCTTAAATAT-GGGTGC
64 TAGTACCAGAT-AACTTGGGATTAAATATAGGGTGC
* ** *
19462649 CAACTAAGTTGGGCTTAACATCTTTTCATGATGTGC
1 CAAATAAACTGGGCTTAAAATCTTTTCATGATGTGC
19462685 AAGATAAACC
Statistics
Matches: 108, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
96 34 0.31
97 14 0.13
98 57 0.53
99 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (98 bp):
CAAATAAACTGGGCTTAAAATCTTTTCATGATGTGCCAAACAATCTAGACTTAAATCTTTTTTTA
GTACCAGATAACTTGGGATTAAATATAGGGTGC
Found at i:19463180 original size:14 final size:13
Alignment explanation
Indices: 19463161--19463193 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
19463151 TTAGAGCCAC
19463161 ATTTTTTTCTATTT
1 ATTTTTTTCT-TTT
19463175 ATTTTTTTCTTTT
1 ATTTTTTTCTTTT
19463188 -TTTTTT
1 ATTTTTT
19463194 ACTCTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 3 0.16
14 10 0.53
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (13 bp):
ATTTTTTTCTTTT
Found at i:19464154 original size:24 final size:23
Alignment explanation
Indices: 19464127--19464227 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 23
19464117 ATTTCTCTCA
19464127 TTTTTCTCA-TTTTTTGTTATTTTG
1 TTTTT-TCATTTTTTTGTT-TTTTG
* *
19464151 TTTTTTTATTTTTTTGTTTTTTA
1 TTTTTTCATTTTTTTGTTTTTTG
** *
19464174 TCTTTTTGTTTTTTTTTGTTTTCTG
1 T-TTTTT-CATTTTTTTGTTTTTTG
* *
19464199 TTTTGTT-ATTTTTTTATTTTTTA
1 TTTT-TTCATTTTTTTGTTTTTTG
19464222 TTTTTT
1 TTTTTT
19464228 GATATGCCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.03
23 23 0.36
24 22 0.34
25 17 0.27
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTTTCATTTTTTTGTTTTTTG
Found at i:19464156 original size:15 final size:15
Alignment explanation
Indices: 19464136--19464228 Score: 73
Period size: 15 Copynumber: 6.0 Consensus size: 15
19464126 ATTTTTCTCA
*
19464136 TTTTTTGTTATTTTG
1 TTTTTTATTATTTTG
*
19464151 TTTTTTTATTTTTTTG
1 -TTTTTTATTATTTTG
19464167 TTTTTTATCT-TTTTG
1 TTTTTTAT-TATTTTG
* *
19464182 TTTTTTTTTGTTTTCTG
1 TTTTTTATT-ATTT-TG
* *
19464199 TTTTGTTATTTTTTTA
1 TTTT-TTATTATTTTG
19464215 TTTTTTATT-TTTTG
1 TTTTTTATTATTTTG
19464229 ATATGCCTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.08
15 25 0.38
16 22 0.33
17 10 0.15
18 4 0.06
ACGTcount: A:0.06, C:0.02, G:0.09, T:0.83
Consensus pattern (15 bp):
TTTTTTATTATTTTG
Found at i:19464201 original size:48 final size:48
Alignment explanation
Indices: 19464136--19464228 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
19464126 ATTTTTCTCA
* * *
19464136 TTTTTTGTTATTTTGTTTTTTTATTTTTTTGTTTTTTATCTTTTTGTTT
1 TTTTTTGTTATTCTGTTTTGTTATTTTTTTATTTTTTAT-TTTTTGTTT
19464185 TTTTTTGTT-TTCTGTTTTGTTATTTTTTTATTTTTTATTTTTTG
1 TTTTTTGTTATTCTGTTTTGTTATTTTTTTATTTTTTATTTTTTG
19464229 ATATGCCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 6 0.15
48 26 0.63
49 9 0.22
ACGTcount: A:0.06, C:0.02, G:0.09, T:0.83
Consensus pattern (48 bp):
TTTTTTGTTATTCTGTTTTGTTATTTTTTTATTTTTTATTTTTTGTTT
Found at i:19464226 original size:8 final size:8
Alignment explanation
Indices: 19464136--19464227 Score: 73
Period size: 8 Copynumber: 11.6 Consensus size: 8
19464126 ATTTTTCTCA
*
19464136 TTTTTTGT
1 TTTTTTAT
* *
19464144 TATTTTGT
1 TTTTTTAT
19464152 TTTTTTAT
1 TTTTTTAT
*
19464160 TTTTTT-G
1 TTTTTTAT
19464167 TTTTTTAT
1 TTTTTTAT
* *
19464175 CTTTTTGT
1 TTTTTTAT
19464183 TTTTTT-T
1 TTTTTTAT
*
19464190 TGTTTTCTGT
1 T-TTTT-TAT
*
19464200 TTTGTTAT
1 TTTTTTAT
19464208 TTTTTTA-
1 TTTTTTAT
19464215 TTTTTTAT
1 TTTTTTAT
19464223 TTTTT
1 TTTTT
19464228 GATATGCCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
7 15 0.22
8 47 0.69
9 4 0.06
10 2 0.03
ACGTcount: A:0.07, C:0.02, G:0.08, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:19469654 original size:13 final size:13
Alignment explanation
Indices: 19469636--19469661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19469626 CTTTAAAATT
19469636 CTACATTTTTAAA
1 CTACATTTTTAAA
19469649 CTACATTTTTAAA
1 CTACATTTTTAAA
19469662 AAAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
CTACATTTTTAAA
Found at i:19470249 original size:30 final size:30
Alignment explanation
Indices: 19470215--19470346 Score: 90
Period size: 30 Copynumber: 4.4 Consensus size: 30
19470205 AGGGTTTTGA
19470215 GTTTTGGGTTTTAAGGTTTTAAAATTTAGG
1 GTTTTGGGTTTTAAGGTTTTAAAATTTAGG
* * * **
19470245 GTTTT-GATTTTTAGAGTTTTGAGTTTTAGG
1 GTTTTGGGTTTTAAG-GTTTTAAAATTTAGG
** ***
19470275 GTTTTGACTTTTAAGG-TTTATGGTTTTAGG
1 GTTTTGGGTTTTAAGGTTTTA-AAATTTAGG
* * *
19470305 G-TTTGGAGTTTTAAGGTTTCAAAACTTAGA
1 GTTTTGG-GTTTTAAGGTTTTAAAATTTAGG
*
19470335 GTTTTAGGTTTT
1 GTTTTGGGTTTT
19470347 GGGGTTTTGA
Statistics
Matches: 77, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
29 14 0.18
30 50 0.65
31 13 0.17
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.52
Consensus pattern (30 bp):
GTTTTGGGTTTTAAGGTTTTAAAATTTAGG
Found at i:19470257 original size:15 final size:15
Alignment explanation
Indices: 19470215--19470323 Score: 103
Period size: 15 Copynumber: 7.3 Consensus size: 15
19470205 AGGGTTTTGA
* *
19470215 GTTTTGGGTTTTAAG
1 GTTTTGAGTTTTAGG
* **
19470230 GTTTTAAAATTTAGG
1 GTTTTGAGTTTTAGG
* *
19470245 GTTTTGATTTTTAGA
1 GTTTTGAGTTTTAGG
19470260 GTTTTGAGTTTTAGG
1 GTTTTGAGTTTTAGG
* *
19470275 GTTTTGACTTTTAAG
1 GTTTTGAGTTTTAGG
19470290 GTTTATG-GTTTTAGG
1 GTTT-TGAGTTTTAGG
* *
19470305 GTTTGGAGTTTTAAG
1 GTTTTGAGTTTTAGG
19470320 GTTT
1 GTTT
19470324 CAAAACTTAG
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
14 1 0.01
15 72 0.96
16 2 0.03
ACGTcount: A:0.18, C:0.01, G:0.28, T:0.53
Consensus pattern (15 bp):
GTTTTGAGTTTTAGG
Found at i:19470278 original size:8 final size:8
Alignment explanation
Indices: 19470189--19470423 Score: 61
Period size: 8 Copynumber: 30.9 Consensus size: 8
19470179 GCCTCATTTG
*
19470189 AGGGTTTC
1 AGGGTTTT
* *
19470197 AGGATCTT
1 AGGGTTTT
19470205 AGGGTTTT
1 AGGGTTTT
*
19470213 -GAGTTTT
1 AGGGTTTT
19470220 -GGGTTTT
1 AGGGTTTT
*
19470227 AAGGTTTT
1 AGGGTTTT
***
19470235 A-AAATTT
1 AGGGTTTT
19470242 AGGGTTTT
1 AGGGTTTT
**
19470250 -GATTTTT
1 AGGGTTTT
*
19470257 AGAGTTTT
1 AGGGTTTT
*
19470265 -GAGTTTT
1 AGGGTTTT
19470272 AGGGTTTT
1 AGGGTTTT
**
19470280 -GACTTTT
1 AGGGTTTT
*
19470287 AAGG-TTT
1 AGGGTTTT
*
19470294 ATGGTTTT
1 AGGGTTTT
19470302 AGGG-TTT
1 AGGGTTTT
19470309 -GGAGTTTT
1 AGG-GTTTT
* *
19470317 AAGGTTTC
1 AGGGTTTT
****
19470325 A-AAACTT
1 AGGGTTTT
*
19470332 AGAGTTTT
1 AGGGTTTT
19470340 A-GGTTTT
1 AGGGTTTT
*
19470347 GGGGTTTT
1 AGGGTTTT
*
19470355 --GATTTT
1 AGGGTTTT
*
19470361 AAGGTTTT
1 AGGGTTTT
*
19470369 AGGGTTTGA
1 AGGGTTT-T
19470378 AGGG-TTT
1 AGGGTTTT
19470385 AGGG-TTT
1 AGGGTTTT
**
19470392 AGAAATTTT
1 AG-GGTTTT
19470401 AGGGTTTT
1 AGGGTTTT
19470409 A-GGTTTT
1 AGGGTTTT
19470416 GAGGGTTT
1 -AGGGTTT
19470424 CAAATTTTTT
Statistics
Matches: 163, Mismatches: 46, Indels: 35
0.67 0.19 0.14
Matches are distributed among these distances:
6 7 0.04
7 65 0.40
8 76 0.47
9 15 0.09
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.49
Consensus pattern (8 bp):
AGGGTTTT
Found at i:19470278 original size:45 final size:45
Alignment explanation
Indices: 19470208--19470369 Score: 152
Period size: 45 Copynumber: 3.6 Consensus size: 45
19470198 GGATCTTAGG
*
19470208 GTTTT-GAGTTTTGGGTTTTAAGGTTTTAAAATTTAGGGTTTTGA
1 GTTTTAGAGTTTTGAGTTTTAAGGTTTTAAAATTTAGGGTTTTGA
* * * ** *
19470252 TTTTTAGAGTTTTGAGTTTTAGGGTTTTGACTTTTAAGGTTTATG-
1 GTTTTAGAGTTTTGAGTTTTAAGGTTTTAAAATTTAGGGTTT-TGA
* * * * *
19470297 GTTTTAGGGTTTGGAGTTTTAAGGTTTCAAAACTTAGAGTTTT-A
1 GTTTTAGAGTTTTGAGTTTTAAGGTTTTAAAATTTAGGGTTTTGA
* *
19470341 GGTTTTGGGGTTTTGA-TTTTAAGGTTTTA
1 -GTTTTAGAGTTTTGAGTTTTAAGGTTTTA
19470370 GGGTTTGAAG
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
44 17 0.18
45 74 0.80
46 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.27, T:0.52
Consensus pattern (45 bp):
GTTTTAGAGTTTTGAGTTTTAAGGTTTTAAAATTTAGGGTTTTGA
Found at i:19470421 original size:32 final size:31
Alignment explanation
Indices: 19470365--19470431 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
19470355 GATTTTAAGG
*
19470365 TTTTAGGGTTTGAAGGGTTTAGGGTTTAGAAA
1 TTTTAGGGTTTGAAGGGTTTAGGGTTT-CAAA
* *
19470397 TTTTAGGGTTT-TAGGTTTTGAGGGTTTCAAA
1 TTTTAGGGTTTGAAGGGTTT-AGGGTTTCAAA
19470428 TTTT
1 TTTT
19470432 TTAAAAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (31 bp):
TTTTAGGGTTTGAAGGGTTTAGGGTTTCAAA
Found at i:19470459 original size:15 final size:15
Alignment explanation
Indices: 19470439--19470539 Score: 84
Period size: 15 Copynumber: 6.8 Consensus size: 15
19470429 TTTTTAAAAG
19470439 TTTTAGGGTTTTCGA
1 TTTTAGGGTTTTCGA
*
19470454 TTTTA-GGCTTTCGA
1 TTTTAGGGTTTTCGA
* *
19470468 GGTTTAGGGTTTTGGA
1 -TTTTAGGGTTTTCGA
*
19470484 TTTTATGG-TTTCGA
1 TTTTAGGGTTTTCGA
* **
19470498 GTTTTGGGGTTTAAGA
1 -TTTTAGGGTTTTCGA
19470514 TTTTAGGGTTTT-GA
1 TTTTAGGGTTTTCGA
19470528 -TTTAGGGCTTTT
1 TTTTAGGG-TTTT
19470540 AAAAAAAATA
Statistics
Matches: 68, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
13 7 0.10
14 19 0.28
15 31 0.46
16 11 0.16
ACGTcount: A:0.14, C:0.05, G:0.30, T:0.51
Consensus pattern (15 bp):
TTTTAGGGTTTTCGA
Found at i:19470524 original size:30 final size:30
Alignment explanation
Indices: 19470437--19470540 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
19470427 ATTTTTTAAA
* *
19470437 AGTTTTAGGGTTTTCGATTTTAGGCTTTCG
1 AGTTTTAGGGTTTTAGATTTTAGGGTTTCG
* * *
19470467 AGGTTTAGGGTTTTGGATTTTATGGTTTCG
1 AGTTTTAGGGTTTTAGATTTTAGGGTTTCG
* * *
19470497 AGTTTTGGGGTTTAAGATTTTAGGGTTTTG
1 AGTTTTAGGGTTTTAGATTTTAGGGTTTCG
19470527 A--TTTAGGGCTTTTA
1 AGTTTTAGGG-TTTTA
19470541 AAAAAAATAC
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 6 0.10
29 4 0.07
30 51 0.84
ACGTcount: A:0.15, C:0.05, G:0.30, T:0.50
Consensus pattern (30 bp):
AGTTTTAGGGTTTTAGATTTTAGGGTTTCG
Found at i:19470847 original size:21 final size:20
Alignment explanation
Indices: 19470823--19470864 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
19470813 ATTATCACTT
*
19470823 TTTTTTA-TACATTTTTTAA
1 TTTTTTATTATATTTTTTAA
19470842 TTTTTTAATTATATTTTTTAA
1 TTTTTT-ATTATATTTTTTAA
19470863 TT
1 TT
19470865 ATTATTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 13 0.65
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATTATATTTTTTAA
Found at i:19470857 original size:13 final size:14
Alignment explanation
Indices: 19470841--19470877 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
19470831 ACATTTTTTA
19470841 ATTTTTTAATTA-T
1 ATTTTTTAATTATT
19470854 ATTTTTTAATTATT
1 ATTTTTTAATTATT
19470868 ATTCTTTTAA
1 ATT-TTTTAA
19470878 AATTTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 12 0.55
14 4 0.18
15 6 0.27
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTTAATTATT
Found at i:19471179 original size:20 final size:20
Alignment explanation
Indices: 19471132--19471191 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
19471122 TAAAATACCA
*
19471132 AAAATAACATTAAATAAACAAT
1 AAAATAA-A-TAAATAAATAAT
**
19471154 GGAATAAATAAATAAATAAT
1 AAAATAAATAAATAAATAAT
19471174 AAAATATAATAAA-AAATA
1 AAAATA-AATAAATAAATA
19471192 CCAATTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 20 0.62
21 7 0.22
22 5 0.16
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAATAAATAAATAAT
Found at i:19473327 original size:26 final size:24
Alignment explanation
Indices: 19473297--19473347 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
19473287 TAAGTTTTCC
*
19473297 TTTTTCCTTATTTTTCTCTTTTTTTT
1 TTTTTCCTT-TTTTT-TATTTTTTTT
*
19473323 TTTTTGCTTTTTTTTATTTTTTTT
1 TTTTTCCTTTTTTTTATTTTTTTT
19473347 T
1 T
19473348 CATTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 5 0.22
26 8 0.35
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (24 bp):
TTTTTCCTTTTTTTTATTTTTTTT
Found at i:19473332 original size:15 final size:16
Alignment explanation
Indices: 19473304--19473343 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
19473294 TCCTTTTTCC
19473304 TTATTTTT-CTCTTTTT
1 TTATTTTTGCT-TTTTT
*
19473320 TTTTTTTTGCTTTTTT
1 TTATTTTTGCTTTTTT
19473336 TTATTTTT
1 TTATTTTT
19473344 TTTTCATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.05, C:0.07, G:0.03, T:0.85
Consensus pattern (16 bp):
TTATTTTTGCTTTTTT
Found at i:19473344 original size:20 final size:19
Alignment explanation
Indices: 19473315--19473356 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19473305 TATTTTTCTC
*
19473315 TTTTTTTTTTTTTGC-TTT
1 TTTTTTTTTTTTTTCATTT
19473333 TTTTTATTTTTTTTTCATTT
1 TTTTT-TTTTTTTTTCATTT
19473353 TTTT
1 TTTT
19473357 GCACACTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.05, C:0.05, G:0.02, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTTTTCATTT
Done.