Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008705.1 Hibiscus syriacus cultivar Beakdansim tig00111745_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1220187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:1006325 original size:13 final size:13
Alignment explanation
Indices: 1006173--1006375 Score: 99
Period size: 13 Copynumber: 15.8 Consensus size: 13
1006163 ACATAACGTC
1006173 TTATTTATATT-TT
1 TTATTTAT-TTATT
*
1006186 TTATTTATTTCTT
1 TTATTTATTTATT
*
1006199 CTTATTATATATATT
1 -TTATT-TATTTATT
* *
1006214 GTAGTTTTTTTATT
1 TTA-TTTATTTATT
* *
1006228 TTA-TTCTCTA--
1 TTATTTATTTATT
1006238 TTATTTATTTA--
1 TTATTTATTTATT
1006249 TT-TTTATTT-TT
1 TTATTTATTTATT
* *
1006260 TTGTTTATGT-TT
1 TTATTTATTTATT
1006272 TTATTTGATTTAATT
1 TTATTT-ATTT-ATT
*
1006287 TTCTTT-TTCTATT
1 TTATTTATT-TATT
*
1006300 TTATTTTACTTTGTT
1 TTA-TTTA-TTTATT
*
1006315 TTATTTATTTGTT
1 TTATTTATTTATT
1006328 TTATTTATTTCATT
1 TTATTTATTT-ATT
*
1006342 TT-CTT-TTT-TT
1 TTATTTATTTATT
*
1006352 TTATGTTATTTATG
1 TTAT-TTATTTATT
1006366 TTATTTATTT
1 TTATTTATTT
1006376 TTCTTTTTTT
Statistics
Matches: 150, Mismatches: 20, Indels: 40
0.71 0.10 0.19
Matches are distributed among these distances:
10 14 0.09
11 9 0.06
12 25 0.17
13 47 0.31
14 32 0.21
15 21 0.14
16 2 0.01
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:1006342 original size:9 final size:8
Alignment explanation
Indices: 1006173--1006375 Score: 58
Period size: 9 Copynumber: 23.2 Consensus size: 8
1006163 ACATAACGTC
1006173 TTATTTAT
1 TTATTTAT
*
1006181 ATTTTTTAT
1 -TTATTTAT
*
1006190 TTATTTCTT
1 TTATTT-AT
1006199 CTTATTATAT
1 -TTATT-TAT
*
1006209 ATATTGTAGT
1 TTATT-TA-T
*
1006219 TTTTTTATT
1 TTATTTA-T
*
1006228 TTATTCTCT
1 TTATT-TAT
1006237 ATTATTTAT
1 -TTATTTAT
1006246 TTA-TT-T
1 TTATTTAT
*
1006252 TTATTTTT
1 TTATTTAT
*
1006260 TTGTTTAT
1 TTATTTAT
1006268 GTT-TTTAT
1 -TTATTTAT
1006276 TTGATTTAAT
1 TT-ATTT-AT
*
1006286 TT-TCTTTT
1 TTAT-TTAT
1006294 TCTATTTTATT
1 T-TA-TTTA-T
*
1006305 TTACTTTGTT
1 TTA-TTT-AT
1006315 TTATTTAT
1 TTATTTAT
*
1006323 TTGTTTTAT
1 TT-ATTTAT
1006332 TTATTTCAT
1 TTATTT-AT
1006341 TT-TCTT-T
1 TTAT-TTAT
*
1006348 TTTTTTAT
1 TTATTTAT
1006356 GTTATTTAT
1 -TTATTTAT
1006365 GTTATTTAT
1 -TTATTTAT
1006374 TT
1 TT
1006376 TTCTTTTTTT
Statistics
Matches: 148, Mismatches: 22, Indels: 49
0.68 0.10 0.22
Matches are distributed among these distances:
6 4 0.03
7 11 0.07
8 34 0.23
9 64 0.43
10 31 0.21
11 4 0.03
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (8 bp):
TTATTTAT
Found at i:1006346 original size:55 final size:54
Alignment explanation
Indices: 1006245--1006349 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 54
1006235 CTATTATTTA
*
1006245 TTTATTTTTATTTTTTTGTTTATGTTTTTATTTGATTTAATTTTCTTTTTCTAT
1 TTTATTTTTATTTTTTTATTTATGTTTTTATTTGATTTAATTTTCTTTTTCTAT
* *
1006299 TTTA-TTTTACTTTGTTTTATTTATTTGTTTTATTT-ATTTCATTTTCTTTTT
1 TTTATTTTTA-TTT-TTTTATTTATGT-TTTTATTTGATTTAATTTTCTTTTT
1006350 TTTTATGTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 5 0.11
54 7 0.16
55 25 0.56
56 8 0.18
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (54 bp):
TTTATTTTTATTTTTTTATTTATGTTTTTATTTGATTTAATTTTCTTTTTCTAT
Found at i:1014974 original size:30 final size:29
Alignment explanation
Indices: 1014934--1014991 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
1014924 GTTTACTTTC
*
1014934 AAAAATAAAATTAATTATTAGATAATAAG
1 AAAAATAAAATTAATTATTACATAATAAG
*
1014963 AAAAATTAAAATTAATTATTCCATAATAA
1 AAAAA-TAAAATTAATTATTACATAATAA
1014992 TTAATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAAATAAAATTAATTATTACATAATAAG
Found at i:1015323 original size:14 final size:14
Alignment explanation
Indices: 1015304--1015342 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
1015294 TAATGGGGAG
1015304 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
1015318 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
1015332 GAATCTCTGCA
1 TAATCCCTGCA
1015343 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:1016228 original size:34 final size:34
Alignment explanation
Indices: 1016190--1016257 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
1016180 AATAAGAGAG
1016190 ATAGTAAAGTTGAATGATGAATGGTGTAGTTTAT
1 ATAGTAAAGTTGAATGATGAATGGTGTAGTTTAT
*
1016224 ATAGTAAATTTGAATGATGAATGGTGTAGTTTAT
1 ATAGTAAAGTTGAATGATGAATGGTGTAGTTTAT
1016258 CACTACTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (34 bp):
ATAGTAAAGTTGAATGATGAATGGTGTAGTTTAT
Found at i:1017803 original size:12 final size:12
Alignment explanation
Indices: 1017786--1017812 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1017776 CATCATCTTC
1017786 AATGTTATTAAA
1 AATGTTATTAAA
1017798 AATGTTATTAAA
1 AATGTTATTAAA
1017810 AAT
1 AAT
1017813 TGTAGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
AATGTTATTAAA
Found at i:1024154 original size:79 final size:79
Alignment explanation
Indices: 1024069--1024281 Score: 356
Period size: 79 Copynumber: 2.7 Consensus size: 79
1024059 AATTTAGTGG
* *
1024069 TGTTTTTATACAAACG-CTGCAATAGGGTTCATATATAGTGGTTTTTTTCAACAAACGTCGCAAC
1 TGTTTTTATACAAATGTC-GCAATAGGCTTCATATATAGTGGTTTTTTTCAACAAACGTCGCAAC
1024133 AAAGTATTTTTGCGA
65 AAAGTATTTTTGCGA
1024148 TGTTTTTATACAAATGTCGCAATAGGCTTCATATATAGTGGTTTTTTTCAACAAACGTCGCAACA
1 TGTTTTTATACAAATGTCGCAATAGGCTTCATATATAGTGGTTTTTTTCAACAAACGTCGCAACA
1024213 AAGTATTTTTGCGA
66 AAGTATTTTTGCGA
* * *
1024227 TGTTTTTATACAAATGTCGCAATAGGCTTCATATATAATGGCGTTTTTACAACAA
1 TGTTTTTATACAAATGTCGCAATAGGCTTCATATATAGTGG-TTTTTTTCAACAA
1024282 CTGCCATAAC
Statistics
Matches: 127, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
79 115 0.91
80 12 0.09
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (79 bp):
TGTTTTTATACAAATGTCGCAATAGGCTTCATATATAGTGGTTTTTTTCAACAAACGTCGCAACA
AAGTATTTTTGCGA
Found at i:1024161 original size:38 final size:38
Alignment explanation
Indices: 1024119--1024248 Score: 120
Period size: 38 Copynumber: 3.3 Consensus size: 38
1024109 GTTTTTTTCA
1024119 ACAAACGTCGCAACAAAGTATTTTTGCGATGTTTTTAT
1 ACAAACGTCGCAACAAAGTATTTTTGCGATGTTTTTAT
* * * * * * * *
1024157 ACAAATGTCGCAA-TAGGCTTCATATATAGTGGTTTTTTTCA-
1 ACAAACGTCGCAACAAAG--T-AT-TTTTGCGATGTTTTT-AT
1024198 ACAAACGTCGCAACAAAGTATTTTTGCGATGTTTTTAT
1 ACAAACGTCGCAACAAAGTATTTTTGCGATGTTTTTAT
*
1024236 ACAAATGTCGCAA
1 ACAAACGTCGCAA
1024249 TAGGCTTCAT
Statistics
Matches: 68, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
37 3 0.04
38 34 0.50
39 3 0.04
40 3 0.04
41 22 0.32
42 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (38 bp):
ACAAACGTCGCAACAAAGTATTTTTGCGATGTTTTTAT
Found at i:1024202 original size:41 final size:40
Alignment explanation
Indices: 1024063--1024210 Score: 119
Period size: 41 Copynumber: 3.7 Consensus size: 40
1024053 ATAGTAAATT
*
1024063 TAGTGGTGTTTTT-ATACAAACG-CTGCAATAGGGTTCATATA
1 TAGTGGTTTTTTTCA-ACAAACGTC-GCAATA-GGTTCATATA
* * *
1024104 TAGTGGTTTTTTTCAACAAACGTCGCAACAAAG-T-AT-TT
1 TAGTGGTTTTTTTCAACAAACGTCGCAA-TAGGTTCATATA
* * * * *
1024142 TTGCGATGTTTTT-ATACAAATGTCGCAATAGGCTTCATATA
1 TAGTGGTTTTTTTCA-ACAAACGTCGCAATAGG-TTCATATA
1024183 TAGTGGTTTTTTTCAACAAACGTCGCAA
1 TAGTGGTTTTTTTCAACAAACGTCGCAA
1024211 CAAAGTATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 18
0.70 0.15 0.16
Matches are distributed among these distances:
37 3 0.04
38 22 0.27
39 3 0.04
40 3 0.04
41 46 0.57
42 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (40 bp):
TAGTGGTTTTTTTCAACAAACGTCGCAATAGGTTCATATA
Found at i:1024466 original size:82 final size:82
Alignment explanation
Indices: 1024354--1024530 Score: 210
Period size: 82 Copynumber: 2.1 Consensus size: 82
1024344 TTAGTAGCGT
*** * * * ** * *
1024354 TTTTTCAACAAACGTTGCAATAAAGTAGTACGTTAGTGGTATTTTTATTCAAAATCCGCAATAGG
1 TTTTTCAACAAACGCCACAAGAAAGTAGTACGTTAGTGGCATTTTTATACAAAAGACACAATAAG
1024419 GTTAATCTATAGTGGCA
66 GTTAATCTATAGTGGCA
* * *
1024436 TTTTTCAACAAACGCCACAAGAGAGTAGTACTTTAGTGGCATTTTTATACAAACGACACAATAAG
1 TTTTTCAACAAACGCCACAAGAAAGTAGTACGTTAGTGGCATTTTTATACAAAAGACACAATAAG
*
1024501 TTTAATCTATAGTGGCA
66 GTTAATCTATAGTGGCA
*
1024518 TTTTGTTAACAAA
1 TTTT-TCAACAAA
1024531 TGCCGCATCA
Statistics
Matches: 79, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
82 72 0.91
83 7 0.09
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (82 bp):
TTTTTCAACAAACGCCACAAGAAAGTAGTACGTTAGTGGCATTTTTATACAAAAGACACAATAAG
GTTAATCTATAGTGGCA
Found at i:1024473 original size:41 final size:41
Alignment explanation
Indices: 1024297--1024580 Score: 150
Period size: 41 Copynumber: 6.9 Consensus size: 41
1024287 ATAACATAGA
* * * * *
1024297 AGTACTTTAGCGGCGTTTTTATACAAACGCGACAACAGGGT
1 AGTACTTTAGTGGCATTTTTATACAAACGCCACAATAGAGT
* * *** *
1024338 AGTACTTTAGTAGCGTTTTT-TCAACAAACGTTGCAATAAAGT
1 AGTACTTTAGTGGCATTTTTAT--ACAAACGCCACAATAGAGT
* * * ** * *
1024380 AGTACGTTAGTGGTATTTTTATTCAAAATCCGCAATAGGGTT
1 AGTACTTTAGTGGCATTTTTATACAAACGCCACAATAGAG-T
* * *
1024422 AAT-CTATAGTGGCATTTTTCA-ACAAACGCCACAAGAGAGT
1 AGTACTTTAGTGGCATTTTT-ATACAAACGCCACAATAGAGT
*
1024462 AGTACTTTAGTGGCATTTTTATACAAACGACACAATA-AGT
1 AGTACTTTAGTGGCATTTTTATACAAACGCCACAATAGAGT
* * * *
1024502 -TTAATCTATAGTGGCATTTTGT-TAACAAATGCCGC-ATCAGAGT
1 AGT-A-CTTTAGTGGCATTTT-TAT-ACAAACGCCACAAT-AGAGT
** * * * *
1024545 TTTACTTTAGCGGCGTTTCTATACAAACGCCGCAAT
1 AGTACTTTAGTGGCATTTTTATACAAACGCCACAAT
1024581 GATTAAAATG
Statistics
Matches: 184, Mismatches: 43, Indels: 31
0.71 0.17 0.12
Matches are distributed among these distances:
39 1 0.01
40 9 0.05
41 110 0.60
42 57 0.31
43 5 0.03
44 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (41 bp):
AGTACTTTAGTGGCATTTTTATACAAACGCCACAATAGAGT
Found at i:1024569 original size:83 final size:82
Alignment explanation
Indices: 1024420--1024573 Score: 209
Period size: 83 Copynumber: 1.9 Consensus size: 82
1024410 CGCAATAGGG
* * *
1024420 TTAATCTATAGTGGCATTTTTCAACAAACGCCACAAGAGAGTAGTACTTTAGTGGCATTTTTATA
1 TTAATCTATAGTGGCATTTTTCAACAAACGCCACAACAGAGTAGTACTTTAGCGGCATTTCTATA
1024485 CAAACGACACAATAAGT
66 CAAACGACACAATAAGT
* * * * ** *
1024502 TTAATCTATAGTGGCATTTTGTTAACAAATGCCGCATCAGAGTTTTACTTTAGCGGCGTTTCTAT
1 TTAATCTATAGTGGCATTTT-TCAACAAACGCCACAACAGAGTAGTACTTTAGCGGCATTTCTAT
1024567 ACAAACG
65 ACAAACG
1024574 CCGCAATGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
82 20 0.33
83 41 0.67
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (82 bp):
TTAATCTATAGTGGCATTTTTCAACAAACGCCACAACAGAGTAGTACTTTAGCGGCATTTCTATA
CAAACGACACAATAAGT
Found at i:1024814 original size:156 final size:156
Alignment explanation
Indices: 1024546--1024867 Score: 574
Period size: 156 Copynumber: 2.1 Consensus size: 156
1024536 CATCAGAGTT
*
1024546 TTACTTTAGCGGCGTTTCTATACAAACGCCGCAATGATTAAAATGTATTTTTTTTTTCAAAACGG
1 TTACTTTAGCGGCGTTTCTATACAAACGCCACAATGATTAAAATGTA--TTTTTTTTCAAAACGG
1024611 ATGACCAAAATATGATAGACTTAAAATAAATGTGACATTTGTTGTATAGCGTCATTTTTAGCGGT
64 ATGACCAAAATATGATAGACTTAAAATAAATGTGACATTTGTTGTATAGCGTCATTTTTAGCGGT
*
1024676 GTTTTTTGATCAAATGTTGCAAAATACTC
129 -TTTTTTGATCAAATGCTGCAAAATACTC
1024705 TTACTTTAGCGGCGTTTCTATACAAACGCCACAATGATTAAAATGTA-TTTTTTTCAAAACGGAT
1 TTACTTTAGCGGCGTTTCTATACAAACGCCACAATGATTAAAATGTATTTTTTTTCAAAACGGAT
*
1024769 GACCAAAATATGATAGACTTAAAATAAATGTGACATTTGTTGTATAGCGTCATTTTTAGTGGTTT
66 GACCAAAATATGATAGACTTAAAATAAATGTGACATTTGTTGTATAGCGTCATTTTTAGCGGTTT
*
1024834 TTTTGATCAAATGCTGTAAAATACTC
131 TTTTGATCAAATGCTGCAAAATACTC
1024860 TTACTTTA
1 TTACTTTA
1024868 AACGCCGCGA
Statistics
Matches: 159, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
155 34 0.21
156 79 0.50
159 46 0.29
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (156 bp):
TTACTTTAGCGGCGTTTCTATACAAACGCCACAATGATTAAAATGTATTTTTTTTCAAAACGGAT
GACCAAAATATGATAGACTTAAAATAAATGTGACATTTGTTGTATAGCGTCATTTTTAGCGGTTT
TTTTGATCAAATGCTGCAAAATACTC
Found at i:1025003 original size:43 final size:42
Alignment explanation
Indices: 1024925--1025081 Score: 149
Period size: 45 Copynumber: 3.7 Consensus size: 42
1024915 TCTATAGAGT
* *
1024925 TGTACTTTAGTGGCATTTTTGTT--CAAACGCTGCAATAGTCA
1 TGTACTTTAGTGGCATTTTT-TTAATAAACGCCGCAATAGTCA
*
1024966 TGTACTTTAGTGGCATTTTTTTAAATAAACGCCGCAATAATCA
1 TGTACTTTAGTGGCATTTTTTT-AATAAACGCCGCAATAGTCA
* * * * *
1025009 AGTAATTTAGTGGCCTTTTTTCTGTAATAAACGCCGCGATAGTGA
1 TGTACTTTAGTGG-CATTTTT-T-TAATAAACGCCGCAATAGTCA
* *
1025054 TGTACCTTAGTGGCGTTTTTATT-ATAAA
1 TGTACTTTAGTGGCATTTTT-TTAATAAA
1025082 ACTATGATTG
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 20 0.21
42 5 0.05
43 27 0.28
44 13 0.14
45 28 0.29
46 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (42 bp):
TGTACTTTAGTGGCATTTTTTTAATAAACGCCGCAATAGTCA
Found at i:1025064 original size:45 final size:43
Alignment explanation
Indices: 1024925--1025073 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
1024915 TCTATAGAGT
* *
1024925 TGTACTTTAGTGGCATTTTTGTT---CAAACGCTGCAATAGTCA
1 TGTACTTTAGTGGCATTTTT-TTAAATAAACGCCGCAATAGTCA
*
1024966 TGTACTTTAGTGGCATTTTTTTAAATAAACGCCGCAATAATCA
1 TGTACTTTAGTGGCATTTTTTTAAATAAACGCCGCAATAGTCA
* * * * * *
1025009 AGTAATTTAGTGGCCTTTTTTCTGTAATAAACGCCGCGATAGTGA
1 TGTACTTTAGTGGCATTTTTT-T-AAATAAACGCCGCAATAGTCA
* *
1025054 TGTACCTTAGTGGCGTTTTT
1 TGTACTTTAGTGGCATTTTT
1025074 ATTATAAAAC
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
40 2 0.02
41 20 0.22
43 33 0.37
44 1 0.01
45 33 0.37
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (43 bp):
TGTACTTTAGTGGCATTTTTTTAAATAAACGCCGCAATAGTCA
Found at i:1026961 original size:95 final size:96
Alignment explanation
Indices: 1026845--1027027 Score: 341
Period size: 95 Copynumber: 1.9 Consensus size: 96
1026835 ATTTATTTTA
*
1026845 TTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCTGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1026910 TGGTTAAAGAAAAAAATT-GGTTGATTTGGG
66 TGGTTAAAGAAAAAAATTCGGTTGATTTGGG
*
1026940 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1027005 TGGTTAAAGAAAAAAATTCGGTT
66 TGGTTAAAGAAAAAAATTCGGTT
1027028 AATAATTTTA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 81 0.95
96 4 0.05
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.38
Consensus pattern (96 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
TGGTTAAAGAAAAAAATTCGGTTGATTTGGG
Found at i:1026995 original size:26 final size:26
Alignment explanation
Indices: 1026955--1027084 Score: 104
Period size: 26 Copynumber: 4.9 Consensus size: 26
1026945 TTAATAATTT
*
1026955 TCAAATAAATTTCGGTTCGATTAACGG
1 TCAAAT-AATTTCGGTTCAATTAACGG
* *
1026982 TCAAATAATTTCGGTTCGATTAATGG
1 TCAAATAATTTCGGTTCAATTAACGG
* * * **
1027008 TTAAAGAAAAAAATTCGGTT-AA-TAA-TT
1 -T---CAAATAATTTCGGTTCAATTAACGG
*
1027035 TTAAATAAATTTCGGTTCAATTAACGG
1 TCAAAT-AATTTCGGTTCAATTAACGG
1027062 TCAAATAATTTCGGTTCAATTAA
1 TCAAATAATTTCGGTTCAATTAA
1027085 TGGTTAAAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
23 3 0.04
24 9 0.11
25 2 0.02
26 40 0.49
27 12 0.15
28 3 0.04
29 1 0.01
30 12 0.15
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (26 bp):
TCAAATAATTTCGGTTCAATTAACGG
Found at i:1027034 original size:81 final size:81
Alignment explanation
Indices: 1026940--1027487 Score: 612
Period size: 81 Copynumber: 6.8 Consensus size: 81
1026930 TTGATTTGGG
1026940 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1027005 TGGTTAAAGAAAAAAA
66 TGGTTAAAGAAAAAAA
* *
1027021 TTCGGTTAATAATTTT-AAATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGGTTCAATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1027085 TGGTTAAAGAAAAAAA
66 TGGTTAAAGAAAAAAA
* * * *
1027101 TTCGGTTAATAATTTTGAAATAAATTTCGGTTTGATTAATGGTCAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1027166 T-GTTAAAGAAAAAAAA
66 TGGTTAAAG-AAAAAAA
* * * *** ** * * *
1027182 TT-GGTTGAT--TTGGTTCGGTTAATAATTTTCAAATAAATTTTA-GTTC-AAT--TTACGGTT-
1 TTCGGTTAATAATT--TTC---AAATAAATTTCGGTTCGA-TTAACGGTCAAATAATTTCGGTTC
* ** **** *** ****
1027239 AAAGAAAAAATAATTTATTTTA
60 GATTAATGGTTAAAGAAAAAAA
* * *
1027261 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTTAAATAATTTCTGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
* *
1027326 TAGTTTAAGAAAAAAA
66 TGGTTAAAGAAAAAAA
* *
1027342 TTCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
*
1027407 TGGTTAAAGAAAAGAA
66 TGGTTAAAGAAAAAAA
1027423 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1027488 CGGTCAAATA
Statistics
Matches: 379, Mismatches: 71, Indels: 34
0.78 0.15 0.07
Matches are distributed among these distances:
76 3 0.01
77 12 0.03
78 5 0.01
79 7 0.02
80 117 0.31
81 213 0.56
82 5 0.01
83 14 0.04
84 3 0.01
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (81 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
TGGTTAAAGAAAAAAA
Found at i:1027245 original size:149 final size:153
Alignment explanation
Indices: 1027062--1027341 Score: 347
Period size: 160 Copynumber: 1.8 Consensus size: 153
1027052 CAATTAACGG
* * *
1027062 TCAAATAATTTCGGTTCAATTAATGGTTAAAG-AAA-AA-A-ATTCGGTTAATAATTTTGAAATA
1 TCAAATAATTTCAGTTCAATTAACGGTTAAAGAAAATAATATATTCGGTTAATAATTTTCAAATA
* *
1027123 AATTTCGGTTTGATTAATGGTCAAATAATTT-TGGTTCGATTAAT-GTTAAAGAAAAAAAATTGG
66 AATTTCGGTTCGATTAACGGTCAAATAATTTCT-GTTCGATTAATAGTTAAAGAAAAAAAATTGG
1027186 TTGATTTGGTTCGGTTAATAATTT
130 TTGATTTGGTTCGGTTAATAATTT
* *
1027210 TCAAATAAATTTTAGTTCAATTTACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATAATT
1 TCAAAT-AATTTCAGTTCAATTAACGGTTAAAG--AAAATAA--TA---TATTCGGTTAATAATT
* * *
1027275 TTCAAATAAATTTGGGTTCGATTAACGGTTAAATAATTTCTGTTCGATTAATAGTTTAAGAAAAA
58 TTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCTGTTCGATTAATAGTTAAAGAAAAA
1027340 AA
123 AA
1027342 TTCGGTTAAT
Statistics
Matches: 108, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
148 6 0.06
149 22 0.20
152 3 0.03
153 2 0.02
156 1 0.01
160 60 0.56
161 14 0.13
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (153 bp):
TCAAATAATTTCAGTTCAATTAACGGTTAAAGAAAATAATATATTCGGTTAATAATTTTCAAATA
AATTTCGGTTCGATTAACGGTCAAATAATTTCTGTTCGATTAATAGTTAAAGAAAAAAAATTGGT
TGATTTGGTTCGGTTAATAATTT
Found at i:1027400 original size:26 final size:26
Alignment explanation
Indices: 1027357--1027513 Score: 156
Period size: 26 Copynumber: 5.9 Consensus size: 26
1027347 TTAATAATTT
*
1027357 TCAAATAAATTTCAGTTCGATTAACGG
1 TCAAAT-AATTTCGGTTCGATTAACGG
* *
1027384 TCAAATAATTTTGGTTCGATTAATGG
1 TCAAATAATTTCGGTTCGATTAACGG
* * * * ***
1027410 TTAAAGAAAAGAATTCGGTT--AATAATTT
1 -T-CA-AATA-ATTTCGGTTCGATTAACGG
1027438 TCAAATAAATTTCGGTTCGATTAACGG
1 TCAAAT-AATTTCGGTTCGATTAACGG
1027465 TCAAATAATTTCGGTTCGATTAACGG
1 TCAAATAATTTCGGTTCGATTAACGG
1027491 TCAAATAATTTCGGTTCGATTAA
1 TCAAATAATTTCGGTTCGATTAA
1027514 TATTAAACAA
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
25 10 0.09
26 62 0.58
27 18 0.17
28 6 0.06
29 3 0.03
30 7 0.07
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (26 bp):
TCAAATAATTTCGGTTCGATTAACGG
Found at i:1027597 original size:322 final size:312
Alignment explanation
Indices: 1026940--1027541 Score: 818
Period size: 322 Copynumber: 1.9 Consensus size: 312
1026930 TTGATTTGGG
*
1026940 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTAAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
* *
1027005 TGGTTAAAGAAAAAAATTCGGTTAATAATTTTAAATAAATTTCGGTTCAATTAACGGTCAAATAA
66 TAGTTAAAGAAAAAAATTCGGTTAATAATTTTAAATAAATTTCAGTTCAATTAACGGTCAAATAA
* *
1027070 TTTCGGTTCAATTAATGGTTAAAGAAAAAAATTCGGTTAATAATTTTGAAATAAATTTCGGTTTG
131 TTTCGGTTCAATTAATGGTTAAAGAAAAAAATTCGGTTAATAATTTTCAAATAAATTTCGGTTCG
* * * * *
1027135 ATTAATGGTCAAATAATTTTGGTTCGATTAATGTTAAAGAAAAAAAATTGGTTGATTTGGTTCGG
196 ATTAACGGTCAAATAATTTCGGTTCGATTAACG----AGAAAAAAAA----TT-ATTCGGTTCGA
** * * *
1027200 TTAATAATTTTCAAATAAATTTTAGTTCAATTTACGGTTAAAGAAAAAATAATTTATTTTA
252 TTAATAATTAACAAAAAAAATTCAGTTCAATTTACGGTTAAAGAAAAAATAATTTATTTTA
* * * *
1027261 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACGGTTAAATAATTTCTGTTCGATTAA
1 TTCGGTAAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
* *
1027326 TAGTTTAAGAAAAAAATTCGGTTAATAATTTTCAAATAAATTTCAGTTCGATTAACGGTCAAATA
66 TAGTTAAAGAAAAAAATTCGGTTAATAATTTT-AAATAAATTTCAGTTCAATTAACGGTCAAATA
* * *
1027391 ATTTTGGTTCGATTAATGGTTAAAGAAAAGAATTCGGTTAATAATTTTCAAATAAATTTCGGTTC
130 ATTTCGGTTCAATTAATGGTTAAAGAAAAAAATTCGGTTAATAATTTTCAAATAAATTTCGGTTC
** *
1027456 GATTAACGGTCAAATAATTTCGGTTCGATTAACG-GTCAAATAA-T-TTCGGTTCGATTAAT-AT
195 GATTAACGGTCAAATAATTTCGGTTCGATTAACGAGAAAAAAAATTATTCGGTTCGATTAATAAT
*
1027517 TAAACAAAAAAAATTCGGTT-AATTT
260 T-AACAAAAAAAATTCAGTTCAATTT
1027542 GGTTCGGTTA
Statistics
Matches: 253, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
309 8 0.03
310 25 0.10
312 1 0.00
317 6 0.02
321 92 0.36
322 121 0.48
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (312 bp):
TTCGGTAAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
TAGTTAAAGAAAAAAATTCGGTTAATAATTTTAAATAAATTTCAGTTCAATTAACGGTCAAATAA
TTTCGGTTCAATTAATGGTTAAAGAAAAAAATTCGGTTAATAATTTTCAAATAAATTTCGGTTCG
ATTAACGGTCAAATAATTTCGGTTCGATTAACGAGAAAAAAAATTATTCGGTTCGATTAATAATT
AACAAAAAAAATTCAGTTCAATTTACGGTTAAAGAAAAAATAATTTATTTTA
Found at i:1027647 original size:95 final size:95
Alignment explanation
Indices: 1027467--1027655 Score: 326
Period size: 96 Copynumber: 2.0 Consensus size: 95
1027457 ATTAACGGTC
1027467 AAATAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATATTAAACAAAAAAAATT
1 AAATAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATATTAAACAAAAAAAATT
1027532 CGGTTAATTTGGTTCGGTTAATAATTTTTT
66 CGGTTAATTTGGTTCGGTTAATAATTTTTT
* * * *
1027562 AAATAAATTTTGGTTTGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAAA-GAAAAAAAT
1 AAAT-AATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATATTAAACAAAAAAAAT
1027626 TCGGTTAATTTGGTTCGGTTAATAATTTTT
65 TCGGTTAATTTGGTTCGGTTAATAATTTTT
1027656 GAATAAAATA
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 42 0.47
96 47 0.53
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (95 bp):
AAATAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATATTAAACAAAAAAAATT
CGGTTAATTTGGTTCGGTTAATAATTTTTT
Found at i:1027728 original size:31 final size:31
Alignment explanation
Indices: 1027659--1027729 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
1027649 AATTTTTGAA
* *
1027659 TAAAATATTTTTTCTTTAACCGTTAATCGAAC
1 TAAAAT-TTTTTTCTGTAACCATTAATCGAAC
** *
1027691 CGAAATTTTTTTCTGTAACCATTAATCGTAC
1 TAAAATTTTTTTCTGTAACCATTAATCGAAC
1027722 TAAAATTT
1 TAAAATTT
1027730 ATTTAACCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (31 bp):
TAAAATTTTTTTCTGTAACCATTAATCGAAC
Found at i:1032128 original size:77 final size:79
Alignment explanation
Indices: 1032038--1032190 Score: 199
Period size: 77 Copynumber: 2.0 Consensus size: 79
1032028 TTTGAATTAA
* *
1032038 AAAATATTTTTTAATTAATTCT-AATTAAATAT-ACATT-AAAGACTTATAATATGAATTATAAT
1 AAAATATTTTTTAATT-ATTCTGAATTAAATATCA-ATTAAAAGACTTATAATATAAATTACAAT
1032100 C-TTTAATGTTTATTT
64 CTTTTAATGTTTATTT
* * *
1032115 AAAAT-TTTATTTAATTATTCTGAATTAAATATCAATTAAAAGAGTTGTAATATAAATTACATTC
1 AAAATATTT-TTTAATTATTCTGAATTAAATATCAATTAAAAGACTTATAATATAAATTACAATC
1032179 TTTTAATGTTTA
65 TTTTAATGTTTA
1032191 CTTACTATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
76 8 0.12
77 25 0.38
78 22 0.33
79 11 0.17
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (79 bp):
AAAATATTTTTTAATTATTCTGAATTAAATATCAATTAAAAGACTTATAATATAAATTACAATCT
TTTAATGTTTATTT
Found at i:1035197 original size:7 final size:6
Alignment explanation
Indices: 1035170--1035208 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
1035160 GCGGAGATTT
* *
1035170 AAAAGG AAAAGG AAAAAG AAAATGG AAAAGA AAAAGG AA
1 AAAAGG AAAAGG AAAAGG AAAA-GG AAAAGG AAAAGG AA
1035209 GAACAAACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (6 bp):
AAAAGG
Found at i:1039506 original size:77 final size:79
Alignment explanation
Indices: 1039415--1039567 Score: 199
Period size: 77 Copynumber: 2.0 Consensus size: 79
1039405 TCGAATTACA
*
1039415 AAAATATTATTTAATTAATT-CAAATTAAATAT-ACATT-AAAGACTTATAATCTGAATTAC-TA
1 AAAATATTATTTAATT-ATTCCAAATTAAATATCA-ATTAAAAGACTTATAATCTAAATTACAT-
1039476 TC-TTTAATGTTTATTT
63 TCTTTTAATGTTTATTT
* * * *
1039492 AAAATCTTATTTAATTATTCCGAATTAAATATCAATTAAAAGAGTTGTAATCTAAATTACATTCT
1 AAAATATTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCTAAATTACATTCT
1039557 TTTAATGTTTA
66 TTTAATGTTTA
1039568 CTTACTATAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
76 3 0.05
77 29 0.44
78 22 0.33
79 12 0.18
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (79 bp):
AAAATATTATTTAATTATTCCAAATTAAATATCAATTAAAAGACTTATAATCTAAATTACATTCT
TTTAATGTTTATTT
Found at i:1056407 original size:69 final size:70
Alignment explanation
Indices: 1056296--1056435 Score: 273
Period size: 69 Copynumber: 2.0 Consensus size: 70
1056286 CACTATTTGA
1056296 GCTAATGTGTGATGCAAGCAATTTTGCTGTGGGAGTTATGCTT-GGGAATGCAGAGGAAAAATTT
1 GCTAATGTGTGATGCAAGCAATTTTGCTGTGGGAGTTATGCTTGGGGAATGCAGAGGAAAAATTT
1056360 TCCAT
66 TCCAT
1056365 GCTAATGTGTGATGCAAGCAATTTTGCTGTGGGAGTTATGCTTGGGGAATGCAGAGGAAAAATTT
1 GCTAATGTGTGATGCAAGCAATTTTGCTGTGGGAGTTATGCTTGGGGAATGCAGAGGAAAAATTT
1056430 TCCAT
66 TCCAT
1056435 G
1 G
1056436 TTATATATTA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 43 0.61
70 27 0.39
ACGTcount: A:0.27, C:0.11, G:0.30, T:0.31
Consensus pattern (70 bp):
GCTAATGTGTGATGCAAGCAATTTTGCTGTGGGAGTTATGCTTGGGGAATGCAGAGGAAAAATTT
TCCAT
Found at i:1059760 original size:18 final size:18
Alignment explanation
Indices: 1059737--1059778 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1059727 AACCGGCCAC
1059737 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1059755 AACCCGACTCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1059773 GACCCG
1 AACCCG
1059779 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.48, G:0.19, T:0.12
Consensus pattern (18 bp):
AACCCGACCCGACCCGTT
Found at i:1059788 original size:15 final size:16
Alignment explanation
Indices: 1059768--1059801 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
1059758 CCGACTCGAC
1059768 CCGTTGACC-CGTTGA
1 CCGTTGACCGCGTTGA
1059783 CCGTTGACCGGCGTTGA
1 CCGTTGACC-GCGTTGA
1059800 CC
1 CC
1059802 ACTATTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.12, C:0.35, G:0.29, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCGTTGA
Found at i:1060647 original size:17 final size:19
Alignment explanation
Indices: 1060625--1060665 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
1060615 TTTTATAGAT
1060625 ATATTGATCTG-ATAA-AA
1 ATATTGATCTGCATAAGAA
*
1060642 ATATTGATGTGCATAAGAA
1 ATATTGATCTGCATAAGAA
1060661 ATATT
1 ATATT
1060666 AGTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (19 bp):
ATATTGATCTGCATAAGAA
Found at i:1062351 original size:24 final size:24
Alignment explanation
Indices: 1062324--1062439 Score: 180
Period size: 24 Copynumber: 4.8 Consensus size: 24
1062314 TTCGATTTGA
1062324 ATTTTGATCTGATACTTGACATGG
1 ATTTTGATCTGATACTTGACATGG
1062348 ATTTTGATCTGATA-TCTGACATGG
1 ATTTTGATCTGATACT-TGACATGG
*
1062372 ATTTTGATCTGATACTTGACTTGG
1 ATTTTGATCTGATACTTGACATGG
* *
1062396 ATTCTGATCTGATACTTGACCTGG
1 ATTTTGATCTGATACTTGACATGG
*
1062420 ATTTTGATATGATACTTGAC
1 ATTTTGATCTGATACTTGAC
1062440 TTGAATTATG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (24 bp):
ATTTTGATCTGATACTTGACATGG
Found at i:1067329 original size:24 final size:24
Alignment explanation
Indices: 1067297--1067401 Score: 158
Period size: 24 Copynumber: 4.4 Consensus size: 24
1067287 TTCTGATTTT
1067297 ATACTTGACATGGATTTTGATCTG
1 ATACTTGACATGGATTTTGATCTG
1067321 ATA-TCTGACATGGATTTTGATCTG
1 ATACT-TGACATGGATTTTGATCTG
* *
1067345 ATACTTGACTTGGATTCTGATCTG
1 ATACTTGACATGGATTTTGATCTG
* *
1067369 ATACTTGACCTGGATTTTGATATG
1 ATACTTGACATGGATTTTGATCTG
1067393 ATACTTGAC
1 ATACTTGAC
1067402 TTGAATTATG
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 1 0.01
24 72 0.97
25 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (24 bp):
ATACTTGACATGGATTTTGATCTG
Found at i:1087604 original size:52 final size:52
Alignment explanation
Indices: 1087525--1087652 Score: 220
Period size: 52 Copynumber: 2.5 Consensus size: 52
1087515 TCCTTAACAC
*
1087525 TGTAAGAGCATCGAGAGATCGCTTGGGGTTTTGGTAAAACATGTCTTGGCAT
1 TGTAAGAGCATCGAGAGATCGCCTGGGGTTTTGGTAAAACATGTCTTGGCAT
1087577 TGTAAGAGCATCGAGAGATCGCCTGGGGTTTTGGTAAAACATGTCTTGGCAT
1 TGTAAGAGCATCGAGAGATCGCCTGGGGTTTTGGTAAAACATGTCTTGGCAT
* * *
1087629 TGTAAAAGCATTGAGAGATAGCCT
1 TGTAAGAGCATCGAGAGATCGCCT
1087653 TTTGTCTAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (52 bp):
TGTAAGAGCATCGAGAGATCGCCTGGGGTTTTGGTAAAACATGTCTTGGCAT
Found at i:1094567 original size:63 final size:63
Alignment explanation
Indices: 1094468--1094593 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
1094458 GTGATGAGCT
*
1094468 GTAAAATATCTTTATCTTCTTGTCTTCTAGTGAGCCTAGAAATGCTATTCGAAATGCTACAAC
1 GTAAAATATCTTTATCTTCTTGTCTTCTAGTGAGCCTAGAAATGCTATTCAAAATGCTACAAC
*
1094531 GTAAAATATCTTTATCTTCTTGTCTTCTAGTGAGCCTAGATATGCTATTCAAAATGCTACAAC
1 GTAAAATATCTTTATCTTCTTGTCTTCTAGTGAGCCTAGAAATGCTATTCAAAATGCTACAAC
1094594 AAAGTTCCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (63 bp):
GTAAAATATCTTTATCTTCTTGTCTTCTAGTGAGCCTAGAAATGCTATTCAAAATGCTACAAC
Found at i:1107674 original size:21 final size:21
Alignment explanation
Indices: 1107650--1107708 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
1107640 ATTGTAGAAA
1107650 TTCATGGCCTCCACAAAAGAT
1 TTCATGGCCTCCACAAAAGAT
1107671 TTCATGGCCTCCACAAAAGAT
1 TTCATGGCCTCCACAAAAGAT
* *
1107692 TTCATGGCTTCAACAAA
1 TTCATGGCCTCCACAAA
1107709 GAACATGACG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (21 bp):
TTCATGGCCTCCACAAAAGAT
Found at i:1124060 original size:31 final size:28
Alignment explanation
Indices: 1123998--1124065 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
1123988 AACATACTAT
*
1123998 TTTTTTAAATAACATGCATTGTACATTA
1 TTTTTTAAATAACATGCATTATACATTA
**
1124026 TTTTTTAAATAACATAGCAAATTATTTATTA
1 TTTTTTAAATAACAT-GC--ATTATACATTA
1124057 TTTTTTAAA
1 TTTTTTAAA
1124066 AATAAACTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 15 0.44
29 2 0.06
31 17 0.50
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.50
Consensus pattern (28 bp):
TTTTTTAAATAACATGCATTATACATTA
Found at i:1126208 original size:19 final size:19
Alignment explanation
Indices: 1126165--1126208 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1126155 GATTTCCAAA
*
1126165 ATTTAT-TTTTAAAATTTT
1 ATTTATATTTTAAAATTAT
**
1126183 AAATATATTTTAAAATTAT
1 ATTTATATTTTAAAATTAT
1126202 ATTTATA
1 ATTTATA
1126209 AATACTAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTATATTTTAAAATTAT
Found at i:1126468 original size:2 final size:2
Alignment explanation
Indices: 1126463--1126501 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1126453 TGAATCATGA
1126463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1126502 AAATTTATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1127048 original size:10 final size:10
Alignment explanation
Indices: 1127011--1127064 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
1127001 TAAGATAACA
1127011 TAAA-TAAA-
1 TAAATTAAAT
*
1127019 TAAAATAAAT
1 TAAATTAAAT
1127029 TAACAATTAAAT
1 T-A-AATTAAAT
1127041 TAAATTAAAT
1 TAAATTAAAT
1127051 TAAATTAAA-
1 TAAATTAAAT
1127060 TAAAT
1 TAAAT
1127065 AAAAATCCGG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
8 4 0.10
9 9 0.22
10 18 0.44
11 2 0.05
12 8 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAATTAAAT
Found at i:1131287 original size:790 final size:788
Alignment explanation
Indices: 1130201--1131778 Score: 2961
Period size: 790 Copynumber: 2.0 Consensus size: 788
1130191 GAATGGGTTG
1130201 CAAGAAATATCAAGAGAAAATGTGATAGTGAATGTATTACTTAGACTACCTTGAGAGAAGTAATC
1 CAAGAAATATCAAGAGAAAATGTGATAGTGAATGTATTACTTAGACTACCTTGAGAGAAGTAATC
*
1130266 TACGTCATTCAGACAAAAGAAAGCAGATTGATGTGGCTTTAGGAATTTATGGATTAATCATTTTT
66 TACATCATTCAGACAAAAGAAAGCAGATTGATGTGGCTTTAGGAATTTATGGATTAATCATTTTT
1130331 CCAAAGATTATGGGGCATGTAGAATACGACTGTAAACTTGTTCAAAAAATTAAACAAGAATGCAT
131 CCAAAGATTATGGGGCATGTAGAATACGACTGTAAACTTGTTCAAAAAATTAAACAAGAATGCAT
1130396 CCAGTTTCTAGTGTGTTAGCTGAAACATTTTGCTCCTAGAATTTTTGCAGACACGAAGAAGAGGG
196 CCAGTTTCTAGTGTGTTAGCTGAAACATTTTGCTCCTAGAATTTTTGCAGACACGAAGAAGAGGG
*
1130461 ACGTTTTATAGGTTGTGCACCTCTATTGTTGGTATGGATTCTGAATCATCTTAAACACGAGGAAA
261 ACGTTTTATAGGTTGTGCACCTCTATTGTTGGTATGGATGCTGAATCATCTTAAACACGAGGAAA
1130526 GAGCTCACGAACGAGTATTCCTGGAAGATTTCTCACCTCTACAAGATTTCCATTCTCGTAAATGG
326 GAGCTCACGAACGAGTATTCCTGGAAGATTTCTCACCTCTACAAGATTTCCATTCTCGTAAATGG
*
1130591 CCAAGAGGATAT-AAGAAGAAAAATGGATGAACATCTTCCGAAATCTCGAAGAT-CCGACGTATT
391 CCAAGAGGATATGAAGAAGAAAAATGGATGAACATCTTCCAAAATCTCGAAGATACCGACGTATT
*
1130654 ATGGCGAGCCTCATGGAATACTTCTTCAAGCATAATGTATAAATATGGAGAGCACGATTGGGTTT
456 ATGGCGAGCCTCATGGAATACTTCTTCAAGCATAATGTATAAATATGGAGAGCACGATTGGGTTC
1130719 CCTTGC-TGGCATATGGGGTTCTGTAGGATATGCACCTTTGATGGTTTCCAGACAATA-GGATCA
521 CCTTGCTTGGCATATGGGGTTCTGTAGGATATGCACCTTTGATGGTTTCCAGACAATATGGATCA
1130782 AGGCAG-TTATTCCTGCGACATTAGGTTTATCCGAATCAGAGTTTGCATTCAGAAGTGATCAATA
586 AGGCAGTTTATTCCTGCGACATTAGGTTTATCCGAATCAGAGTTTGCATTCAGAAGTGATCAATA
1130846 CAAGGAAAAGATCAGAAAAGTTGTTGAGGCATGGAAATGGATTCATCGAGTAAATTTATTTACTT
651 CAAGGAAAAGATCAGAAAAGTTGTTGAGGCATGGAAATGGATTCATCGAGTAAATTTATTTACTT
1130911 TCAGTC-AAAGCACTCACCCGAATATGAGCAATGGAGAATTAACTGAAACAACAACAACATTCCA
716 TCAGTCAAAAGCACTCACCCGAATATGAGCAATGGAGAATTAACTGAAACAACAACAACATTCCA
1130975 GTCATTAA
781 GTCATTAA
1130983 CAAGAAATATCAAGAGAAAATGTGATAGTGAATGTATTACTTAGACTACCTTGAGAGAAGTAATC
1 CAAGAAATATCAAGAGAAAATGTGATAGTGAATGTATTACTTAGACTACCTTGAGAGAAGTAATC
*
1131048 TACCATCATTCATACAAAAGAAAGCAGATTGATATGTTGGCTTTAGGAATTTATGGATTAATCAT
66 TA-CATCATTCAGACAAAAGAAAGCAGATTG--ATG-TGGCTTTAGGAATTTATGGATTAATCAT
*
1131113 TTTTCCAAAGATTATGGGGCATGTAGACATATCGACTGTAAACTTGTTTAAAAAATTAAACAAGA
127 TTTTCCAAAGATTATGGGGCATGTAGA-ATA-CGACTGTAAACTTGTTCAAAAAATTAAACAAGA
*
1131178 ATGCATATCCAGTTTCTAGTGTGTTAGCTGAAACATTTTGCTCCTAGAATTTTTGCAGACACGGA
190 ATGC--ATCCAGTTTCTAGTGTGTTAGCTGAAACATTTTGCTCCTAGAATTTTTGCAGACACGAA
1131243 GAAGAGGGACGTTTTATAGGTTGTGCACCTCTATTGTTGGTATGGATGCTGAATCATCTTAAACA
253 GAAGAGGGACGTTTTATAGGTTGTGCACCTCTATTGTTGGTATGGATGCTGAATCATCTTAAACA
1131308 CGAGGAAAGAGCTCACGAACGAGTATTCCTGGAAGATTTCTCACCTCTACAAGATTTCCATTCTC
318 CGAGGAAAGAGCTCACGAACGAGTATTCCTGGAAGATTTCTCACCTCTACAAGATTTCCATTCTC
*
1131373 GTAAATGGCCAAGAGGATATGAAGAAGAAAAATGGATGAACATCTTCCAAAATCTCGAAGATATC
383 GTAAATGGCCAAGAGGATATGAAGAAGAAAAATGGATGAACATCTTCCAAAATCTCGAAGATACC
1131438 GACGTATTATGGCGAGCCTCATGGAATACTTCTTCAAGCATAATGTATAAATATGGAGAGCACGA
448 GACGTATTATGGCGAGCCTCATGGAATACTTCTTCAAGCATAATGTATAAATATGGAGAGCACGA
1131503 TTGGGTTCCCTTGCTTGGCATATGGGGTTCTGTAGGATATGCACCTTTGATGGTTTCCAGACAAT
513 TTGGGTTCCCTTGCTTGGCATATGGGGTTCTGTAGGATATGCACCTTTGATGGTTTCCAGACAAT
1131568 ATGGATCAAGGCAGTTTATTCCTGCGACATTAGGTTTATCCGAATCAGAGTTTGCATTCAGAAGT
578 ATGGATCAAGGCAGTTTATTCCTGCGACATTAGGTTTATCCGAATCAGAGTTTGCATTCAGAAGT
1131633 GATCAATACAAGGAAAAGATCAGAAAAGTTGTTGAGGCATGGAAATGGATTCATCGAGTAAATTT
643 GATCAATACAAGGAAAAGATCAGAAAAGTTGTTGAGGCATGGAAATGGATTCATCGAGTAAATTT
*
1131698 ATTTACTTTCAGTCAAAAGCACTCACCTGAATATGAGCAATGGAGAATTAACTGAAACAACAACA
708 ATTTACTTTCAGTCAAAAGCACTCACCCGAATATGAGCAATGGAGAATTAACTGAAACAACAACA
1131763 ACATTCCAGTCATTAA
773 ACATTCCAGTCATTAA
1131779 TTTCGAGAGT
Statistics
Matches: 773, Mismatches: 9, Indels: 14
0.97 0.01 0.02
Matches are distributed among these distances:
782 67 0.09
783 26 0.03
785 3 0.00
786 55 0.07
787 3 0.00
788 36 0.05
790 207 0.27
791 40 0.05
792 79 0.10
793 51 0.07
794 12 0.02
795 129 0.17
796 65 0.08
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (788 bp):
CAAGAAATATCAAGAGAAAATGTGATAGTGAATGTATTACTTAGACTACCTTGAGAGAAGTAATC
TACATCATTCAGACAAAAGAAAGCAGATTGATGTGGCTTTAGGAATTTATGGATTAATCATTTTT
CCAAAGATTATGGGGCATGTAGAATACGACTGTAAACTTGTTCAAAAAATTAAACAAGAATGCAT
CCAGTTTCTAGTGTGTTAGCTGAAACATTTTGCTCCTAGAATTTTTGCAGACACGAAGAAGAGGG
ACGTTTTATAGGTTGTGCACCTCTATTGTTGGTATGGATGCTGAATCATCTTAAACACGAGGAAA
GAGCTCACGAACGAGTATTCCTGGAAGATTTCTCACCTCTACAAGATTTCCATTCTCGTAAATGG
CCAAGAGGATATGAAGAAGAAAAATGGATGAACATCTTCCAAAATCTCGAAGATACCGACGTATT
ATGGCGAGCCTCATGGAATACTTCTTCAAGCATAATGTATAAATATGGAGAGCACGATTGGGTTC
CCTTGCTTGGCATATGGGGTTCTGTAGGATATGCACCTTTGATGGTTTCCAGACAATATGGATCA
AGGCAGTTTATTCCTGCGACATTAGGTTTATCCGAATCAGAGTTTGCATTCAGAAGTGATCAATA
CAAGGAAAAGATCAGAAAAGTTGTTGAGGCATGGAAATGGATTCATCGAGTAAATTTATTTACTT
TCAGTCAAAAGCACTCACCCGAATATGAGCAATGGAGAATTAACTGAAACAACAACAACATTCCA
GTCATTAA
Found at i:1133748 original size:26 final size:28
Alignment explanation
Indices: 1133711--1133764 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
1133701 TGATGATGAG
1133711 AAATATTTTATA-ATTT-AAAAAATTAT
1 AAATATTTTATATATTTGAAAAAATTAT
*
1133737 AAAT-TTTATATATTTTTGAAAAAATTAT
1 AAATATTT-TATATATTTGAAAAAATTAT
1133765 TGACTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 8 0.33
27 3 0.12
28 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
AAATATTTTATATATTTGAAAAAATTAT
Found at i:1135406 original size:3 final size:3
Alignment explanation
Indices: 1135398--1135455 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
1135388 GATTTTTAAA
* * *
1135398 ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT ATT ATT AAGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
1135444 ATT ATT ATT ATT
1 ATT ATT ATT ATT
1135456 TACAAGCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1137030 original size:2 final size:2
Alignment explanation
Indices: 1137023--1137060 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1137013 ATATCCTGCT
1137023 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1137061 CTTGCTTCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1148233 original size:54 final size:53
Alignment explanation
Indices: 1148135--1148284 Score: 183
Period size: 54 Copynumber: 2.8 Consensus size: 53
1148125 AAATCTGTGC
* * ** *
1148135 AGAAAACACAAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATTTGGGT
1 AGAAACCAC-AGAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGA
* *
1148189 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGA
1 AGAAACCACA-GAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGA
* * *
1148243 AGAAACCACATAAGATGATGAATGTGTTGTCAAATATTTTAC
1 AGAAACCACAGAA-AAGATGAATGTGTTGTCAAATGTTTTAC
1148285 AAACCAGTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 80 0.96
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.27
Consensus pattern (53 bp):
AGAAACCACAGAAAAGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGA
Found at i:1149106 original size:45 final size:45
Alignment explanation
Indices: 1149052--1149432 Score: 669
Period size: 45 Copynumber: 8.5 Consensus size: 45
1149042 GAGAGCTTTT
* * *
1149052 TGATATTTTCAAAGCCTTCGGGTCACCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1149097 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1149142 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1149187 TG-TGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1149231 TGGTGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
1149276 TG-TGTTTTCAAAGCCTTCGGGTCATCTGTAAG-CCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1149319 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1149364 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1149409 TGATGTTTTCAAAAATCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
1149433 AGCTTTTTGA
Statistics
Matches: 324, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
43 13 0.04
44 101 0.31
45 198 0.61
46 4 0.01
47 8 0.02
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1149229 original size:89 final size:90
Alignment explanation
Indices: 1149052--1149432 Score: 669
Period size: 89 Copynumber: 4.2 Consensus size: 90
1149042 GAGAGCTTTT
* * *
1149052 TGATATTTTCAAAGCCTTCGGGTCACCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1149117 GGTCATCTGTAAGCCCTTCAGTGCA
66 GGTCATCTGTAAGCCCTTCAGTGCA
1149142 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG-TGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
*
1149206 GGTCATCTATAAGCCCTTCAGTGCA
66 GGTCATCTGTAAGCCCTTCAGTGCA
* *
1149231 TGGTGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG-TGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1149295 GGTCATCTGTAAG-CCTTCAGTGCA
66 GGTCATCTGTAAGCCCTTCAGTGCA
1149319 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1149384 GGTCATCTGTAAGCCCTTCAGTGCA
66 GGTCATCTGTAAGCCCTTCAGTGCA
1149409 TGATGTTTTCAAAAATCCTTCGGG
1 TGATGTTTTC-AAAA-CCTTCGGG
1149433 AGCTTTTTGA
Statistics
Matches: 278, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
88 57 0.21
89 144 0.52
90 65 0.23
91 4 0.01
92 8 0.03
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (90 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGTGCA
Found at i:1149336 original size:25 final size:25
Alignment explanation
Indices: 1149308--1149382 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
1149298 CATCTGTAAG
1149308 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTTCAAAA
* * **
1149333 CCTTC-GGGTCAT-CTG---T-AAGC
1 CCTTCAGTG-CATGATGTTTTCAAAA
1149353 CCTTCAGTGCATGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTTCAAAA
1149378 CCTTC
1 CCTTC
1149383 GGGTCATCTG
Statistics
Matches: 35, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
20 10 0.29
21 5 0.14
24 5 0.14
25 15 0.43
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (25 bp):
CCTTCAGTGCATGATGTTTTCAAAA
Found at i:1149353 original size:133 final size:135
Alignment explanation
Indices: 1149052--1149432 Score: 669
Period size: 133 Copynumber: 2.8 Consensus size: 135
1149042 GAGAGCTTTT
* * *
1149052 TGATATTTTCAAAGCCTTCGGGTCACCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1149117 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCA
1149182 GTGCA
131 GTGCA
* *
1149187 TG-TGTTTTCAAAACCTTCGGGTCATCTATAAGCCCTTCAGTGCATGGTGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
*
1149251 GGTCATCTGTAAGCCCTTCAGTGCATG-TGTTTTCAAAGCCTTCGGGTCATCTGTAAG-CCTTCA
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCA
1149314 GTGCA
131 GTGCA
1149319 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1149384 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAATCCTTCGGG
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1149433 AGCTTTTTGA
Statistics
Matches: 233, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
132 13 0.06
133 116 0.50
134 91 0.39
135 5 0.02
136 8 0.03
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (135 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCA
GTGCA
Found at i:1149545 original size:116 final size:116
Alignment explanation
Indices: 1149403--1149651 Score: 383
Period size: 116 Copynumber: 2.2 Consensus size: 116
1149393 TAAGCCCTTC
* * * * *
1149403 AGTGCATGATGTTTTCAAAAATCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTCATCTGT
1 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTAT
*
1149468 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATATGACCTAT
66 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
*
1149519 AGTGCAGGATGTTTTCAAAACGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTAT
1 AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTAT
* * *
1149584 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATTCATAAGACCTCT
66 AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
* *
1149635 -GGGCAGAATGTTTTCAA
1 AGTGCAGGATGTTTTCAA
1149652 CATTTCCATC
Statistics
Matches: 121, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
115 15 0.12
116 106 0.88
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (116 bp):
AGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATAATTAAAGCCTCCGAGTCATCTAT
AAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTAT
Found at i:1149788 original size:3 final size:3
Alignment explanation
Indices: 1149780--1149846 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
1149770 CATTTGATTT
1149780 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1149827 TTA TTA GTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
1149847 TACAAGCCCA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1151142 original size:15 final size:15
Alignment explanation
Indices: 1151107--1151144 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1151097 TTGACCCTGA
1151107 ATTTTAATATTTTGC
1 ATTTTAATATTTTGC
*
1151122 AATTTAATATTATTGC
1 ATTTTAATATT-TTGC
1151138 -TTTTAAT
1 ATTTTAAT
1151145 TCTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (15 bp):
ATTTTAATATTTTGC
Found at i:1157485 original size:15 final size:15
Alignment explanation
Indices: 1157465--1157496 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1157455 TGAAATGTTT
1157465 AGGTGATGAAGCTGC
1 AGGTGATGAAGCTGC
1157480 AGGTGATGAAGCTGC
1 AGGTGATGAAGCTGC
1157495 AG
1 AG
1157497 CTGCCAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.41, T:0.19
Consensus pattern (15 bp):
AGGTGATGAAGCTGC
Found at i:1158504 original size:87 final size:90
Alignment explanation
Indices: 1158413--1158586 Score: 219
Period size: 87 Copynumber: 2.0 Consensus size: 90
1158403 TAAATACATT
* * * ** ** ** * *
1158413 TTTTTGAAGTTAAAATAATAATAATCTATATTTTTTAAGTTTGGA-AAAAGTAAAATATA-T-TT
1 TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
1158475 CAAGTTAAGACAAGAATAAAATATG
66 CAAGTTAAGACAAGAATAAAATATG
1158500 TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
1 TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
*
1158565 CAAGTTAAGATAAGAATAAAAT
66 CAAGTTAAGACAAGAATAAAAT
1158587 CTATTTAATA
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
87 36 0.50
88 12 0.17
89 1 0.01
90 23 0.32
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (90 bp):
TTTTTAAAGTTAAAATAAGAACAAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTT
CAAGTTAAGACAAGAATAAAATATG
Found at i:1158512 original size:30 final size:29
Alignment explanation
Indices: 1158412--1158586 Score: 124
Period size: 30 Copynumber: 6.0 Consensus size: 29
1158402 TTAAATACAT
* * * *
1158412 TTTTTTGAAGTTAAAATAATAATAATCTATA
1 TTTTTTAAAGTTAAGATAAGAATAA--AATA
**
1158443 TTTTTT-AAGTTTGGA-AA-AAGTAAAATA
1 TTTTTTAAAGTTAAGATAAGAA-TAAAATA
* * *
1158470 -TATTTCAAGTTAAGACAAGAATAAAATA
1 TTTTTTAAAGTTAAGATAAGAATAAAATA
* *
1158498 TGTTTTTAAAGTTAAAATAAGAACAAAATA
1 T-TTTTTAAAGTTAAGATAAGAATAAAATA
* *
1158528 TATTTTAGAAGTTAAGATAAAAATAAAATA
1 TTTTTTA-AAGTTAAGATAAGAATAAAATA
* * *
1158558 CATTGTTCAAGTTAAGATAAGAATAAAAT
1 -TTTTTTAAAGTTAAGATAAGAATAAAAT
1158587 CTATTTAATA
Statistics
Matches: 115, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
26 4 0.03
27 10 0.09
28 11 0.10
29 12 0.10
30 69 0.60
31 9 0.08
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.35
Consensus pattern (29 bp):
TTTTTTAAAGTTAAGATAAGAATAAAATA
Found at i:1158553 original size:60 final size:60
Alignment explanation
Indices: 1158464--1158637 Score: 181
Period size: 60 Copynumber: 2.9 Consensus size: 60
1158454 TGGAAAAAGT
* * *
1158464 AAAATATA-TTT-CAAGTTAAGACAAGAATAAAATATGTTTTTAAAGTTAAAATAAGAAC
1 AAAATATATTTTACAAGTTAAGATAAAAATAAAATATATTTTTAAAGTTAAAATAAGAAC
* * * * * *
1158522 AAAATATATTTTAGAAGTTAAGATAAAAATAAAATACATTGTTCAAGTTAAGATAAGAAT
1 AAAATATATTTTACAAGTTAAGATAAAAATAAAATATATTTTTAAAGTTAAAATAAGAAC
* * * * * * *
1158582 AAAATCTATTTAATAAGATAATATGAAAATAAAATATATTTTTTAAAATTAAAATA
1 AAAATATATTTTACAAGTTAAGATAAAAATAAAATATA-TTTTTAAAGTTAAAATA
1158638 TGAATTTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
58 8 0.09
59 3 0.03
60 69 0.74
61 13 0.14
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (60 bp):
AAAATATATTTTACAAGTTAAGATAAAAATAAAATATATTTTTAAAGTTAAAATAAGAAC
Found at i:1158616 original size:90 final size:89
Alignment explanation
Indices: 1158457--1158623 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 89
1158447 TTAAGTTTGG
* * * *
1158457 AAAAAGTAAAATATATTTCAAGTTAAGACAAGAATAAAATATGTTTTTAAAGTTAAAATAAGAAC
1 AAAAAGTAAAATACATTTCAAGTTAAGACAAGAATAAAATATATTTATAAAGATAAAATAAGAAC
1158522 AAAATATATTTTAGAAGTTAAGAT
66 AAAATATATTTTAGAAGTTAAGAT
* * *
1158546 AAAAA-TAAAATACATTGTTCAAGTTAAGATAAGAATAAAATCTATTTA-ATAAGATAATATGAA
1 AAAAAGTAAAATACA-T-TTCAAGTTAAGACAAGAATAAAATATATTTATA-AAGATAAAAT-AA
*
1158609 -AATAAAATATATTTT
62 GAACAAAATATATTTT
1158624 TTAAAATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
88 8 0.12
89 7 0.11
90 49 0.74
91 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (89 bp):
AAAAAGTAAAATACATTTCAAGTTAAGACAAGAATAAAATATATTTATAAAGATAAAATAAGAAC
AAAATATATTTTAGAAGTTAAGAT
Found at i:1159707 original size:12 final size:12
Alignment explanation
Indices: 1159690--1159726 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1159680 TGCCTTAGTC
1159690 ATTTTAAAAATA
1 ATTTTAAAAATA
1159702 ATTTTAAAAATA
1 ATTTTAAAAATA
1159714 ATTTTAAAAATA
1 ATTTTAAAAATA
1159726 A
1 A
1159727 AATACTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATTTTAAAAATA
Found at i:1165572 original size:35 final size:34
Alignment explanation
Indices: 1165487--1165573 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
1165477 ATTTGATATT
* *
1165487 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAAAGG
* *
1165521 TAAATGATAACCAAATTACAATAATTGATATTAAAAGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAAAGG
1165559 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1165574 ACTAAAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 5 0.11
38 9 0.20
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAAAGG
Found at i:1165821 original size:21 final size:21
Alignment explanation
Indices: 1165787--1165849 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
1165777 ACTCCTCGTT
*
1165787 GTCATCATCATCGTCGTCATC
1 GTCATCACCATCGTCGTCATC
* * *
1165808 GTCGTCACCATCGTCATCGTC
1 GTCATCACCATCGTCGTCATC
* *
1165829 GTCATCGCCATCGTTGTCATC
1 GTCATCACCATCGTCGTCATC
1165850 CTGAGCAGGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.35, G:0.17, T:0.32
Consensus pattern (21 bp):
GTCATCACCATCGTCGTCATC
Found at i:1165834 original size:15 final size:15
Alignment explanation
Indices: 1165782--1165849 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
1165772 TTCTGACTCC
* *
1165782 TCGTTGTCATCATCA
1 TCGTCGTCATCGTCA
1165797 TCGTCGTCATCG---
1 TCGTCGTCATCGTCA
**
1165809 TCGTCACCATCGTCA
1 TCGTCGTCATCGTCA
*
1165824 TCGTCGTCATCGCCA
1 TCGTCGTCATCGTCA
*
1165839 TCGTTGTCATC
1 TCGTCGTCATC
1165850 CTGAGCAGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
12 10 0.24
15 32 0.76
ACGTcount: A:0.15, C:0.34, G:0.18, T:0.34
Consensus pattern (15 bp):
TCGTCGTCATCGTCA
Found at i:1165849 original size:9 final size:9
Alignment explanation
Indices: 1165794--1165835 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
1165784 GTTGTCATCA
1165794 TCATCGTCG
1 TCATCGTCG
1165803 TCATCGTCG
1 TCATCGTCG
* *
1165812 TCACCATCG
1 TCATCGTCG
1165821 TCATCGTCG
1 TCATCGTCG
1165830 TCATCG
1 TCATCG
1165836 CCATCGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.14, C:0.36, G:0.19, T:0.31
Consensus pattern (9 bp):
TCATCGTCG
Found at i:1167636 original size:12 final size:10
Alignment explanation
Indices: 1167622--1167663 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
1167612 ACCTTAAAAA
*
1167622 GAGAGTATTT
1 GAGAGAATTT
1167632 GAGAGAAATTT
1 GAGAG-AATTT
1167643 -AGAGAATTT
1 GAGAGAATTT
1167652 GAGAGAATTT
1 GAGAGAATTT
1167662 GA
1 GA
1167664 TGTGATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.17
10 20 0.69
11 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:1171033 original size:14 final size:14
Alignment explanation
Indices: 1171014--1171060 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
1171004 TAAAATTAAT
1171014 AAAAACAACAAATA
1 AAAAACAACAAATA
*
1171028 AAAAACAAAAAAAGTA
1 AAAAAC-AACAAA-TA
1171044 AAAAA-AACAACATA
1 AAAAACAACAA-ATA
1171058 AAA
1 AAA
1171061 TAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 15 0.54
15 6 0.21
16 7 0.25
ACGTcount: A:0.81, C:0.11, G:0.02, T:0.06
Consensus pattern (14 bp):
AAAAACAACAAATA
Found at i:1171047 original size:29 final size:31
Alignment explanation
Indices: 1171011--1171077 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 31
1171001 TAATAAAATT
*
1171011 AATAAAAACAACAA-ATAAAA-AACAAA-AAA
1 AATAAAAAAAACAACATAAAATAA-AAATAAA
*
1171040 AGTAAAAAAAACAACATAAAATAAAAATAAA
1 AATAAAAAAAACAACATAAAATAAAAATAAA
1171071 AATAAAA
1 AATAAAA
1171078 TATGAGGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.38
30 9 0.28
31 11 0.34
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (31 bp):
AATAAAAAAAACAACATAAAATAAAAATAAA
Found at i:1171050 original size:18 final size:19
Alignment explanation
Indices: 1171027--1171079 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
1171017 AACAACAAAT
1171027 AAAAAACAA-A-AAAAGTAA
1 AAAAAACAACATAAAA-TAA
1171045 AAAAAACAACATAAAATAA
1 AAAAAACAACATAAAATAA
*
1171064 AAATAA-AA-ATAAAATA
1 AAAAAACAACATAAAATA
1171080 TGAGGACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 9 0.28
20 4 0.12
ACGTcount: A:0.81, C:0.06, G:0.02, T:0.11
Consensus pattern (19 bp):
AAAAAACAACATAAAATAA
Found at i:1171068 original size:6 final size:6
Alignment explanation
Indices: 1171011--1171077 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
1171001 TAATAAAATT
* * * *
1171011 AATAAA AACAACA AATAAA AA-ACA AA-AAA AGTAAA AA-AAA CAACATAA
1 AATAAA AATAA-A AATAAA AATAAA AATAAA AATAAA AATAAA -AATA-AA
1171059 AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA A
1171078 TATGAGGACC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 10 0.20
6 28 0.57
7 9 0.18
8 2 0.04
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (6 bp):
AATAAA
Found at i:1171917 original size:2 final size:2
Alignment explanation
Indices: 1171910--1171975 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
1171900 GTTATTCGAA
1171910 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1171952 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
1171976 GTACATATTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1172712 original size:10 final size:10
Alignment explanation
Indices: 1172697--1172727 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1172687 TATGTGATAG
1172697 AAGTTGAACA
1 AAGTTGAACA
1172707 AAGTTGAACA
1 AAGTTGAACA
*
1172717 ATGTTGAACA
1 AAGTTGAACA
1172727 A
1 A
1172728 GTTATTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (10 bp):
AAGTTGAACA
Found at i:1172827 original size:91 final size:90
Alignment explanation
Indices: 1172721--1173074 Score: 410
Period size: 88 Copynumber: 3.9 Consensus size: 90
1172711 TGAACAATGT
* * * * *
1172721 TGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTTGTTGGACGAGTTTTTCTCATTATGAACT
1 TGAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACT
*
1172786 ATCCACTGAAAATGTTGAGGCAAGG
66 CTCCACTGAAAATGTTGAGGCAAGG
* * *
1172811 TCGAACAAGCTCTTCTCATTATGAA---CTTCTTCCTTGTTGGATGAGTTCTTCTTATTATGAAC
1 T-GAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* * *
1172873 TCTCCA-TCAAAAATATTGAGCCAAGG
65 TCTCCACT-GAAAATGTTGAGGCAAGG
* * * *
1172899 TTAAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTCGTCGGATGAGTTCTTCTAATTATGAAC
1 -TGAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* * * *
1172964 TCCCCTGCTGGAAATGTTGATGCAAGG
65 TCTCC-ACTGAAAATGTTGAGGCAAGG
* * *
1172991 TTAGACAAGTTCTTCTCATAATGAATTTCTTCTCCCTTGTTGGATGCGTTCTTCTCATTATGAAC
1 TGA-ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAAC
* *
1173056 TCTCCATTGGAAATGTTGA
65 TCTCCACTGAAAATGTTGA
1173075 TCGGTTTATA
Statistics
Matches: 224, Mismatches: 31, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
87 1 0.00
88 75 0.33
89 1 0.00
90 1 0.00
91 72 0.32
92 73 0.33
93 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (90 bp):
TGAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACT
CTCCACTGAAAATGTTGAGGCAAGG
Found at i:1173017 original size:92 final size:92
Alignment explanation
Indices: 1172724--1173075 Score: 416
Period size: 92 Copynumber: 3.9 Consensus size: 92
1172714 ACAATGTTGA
* * * * * *
1172724 ACAAGTTATTCTCATTATGAACTTCTTCTTCCTTGTTGGACGAGTTTTTCTCATTATGAACTATC
1 ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTC
* *
1172789 CA-CTGAAAATGTTGAGGCAAGG-TCG
66 CATCTGAAAATGTTGATGCAAGGTTAG
* * *
1172814 AACAAGCTCTTCTCATTATGAA---CTTCTTCCTTGTTGGATGAGTTCTTCTTATTATGAACTCT
1 -ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCT
* * *
1172876 CCATC-AAAAATATTGA-GCCAAGGTTAA
65 CCATCTGAAAATGTTGATG-CAAGGTTAG
* * *
1172903 ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTCGTCGGATGAGTTCTTCTAATTATGAACTC-C
1 ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTC
* *
1172967 CCTGCTGGAAATGTTGATGCAAGGTTAG
66 CAT-CTGAAAATGTTGATGCAAGGTTAG
* *
1172995 ACAAGTTCTTCTCATAATGAATTTCTTCTCCCTTGTTGGATGCGTTCTTCTCATTATGAACTCTC
1 ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTC
*
1173060 CAT-TGGAAATGTTGAT
66 CATCTGAAAATGTTGAT
1173076 CGGTTTATAT
Statistics
Matches: 225, Mismatches: 26, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
87 1 0.00
88 73 0.32
89 2 0.01
90 3 0.01
91 68 0.30
92 74 0.33
93 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (92 bp):
ACAAGTTCTTCTCATTATGAATTTCTTCTCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTC
CATCTGAAAATGTTGATGCAAGGTTAG
Found at i:1173397 original size:36 final size:36
Alignment explanation
Indices: 1173357--1173477 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 36
1173347 GGGAAAACTG
*
1173357 TCTCAAGCGAGACGAAGTTGGTTTTAAGAAAAACCA
1 TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
* * * * * **
1173393 TCTCAAGTGAGA-TACATTTTGTTTCAAGGGAAAACTG
1 TCTCAAGTGAGACGA-AGTTGGTTTTAA-GAAAAACCA
1173430 TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
1 TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
*
1173466 TCTCGAGTGAGA
1 TCTCAAGTGAGA
1173478 TAAAATTTAT
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
35 1 0.02
36 37 0.56
37 27 0.41
38 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (36 bp):
TCTCAAGTGAGACGAAGTTGGTTTTAAGAAAAACCA
Found at i:1173428 original size:73 final size:76
Alignment explanation
Indices: 1173317--1173541 Score: 314
Period size: 73 Copynumber: 3.0 Consensus size: 76
1173307 ATAGAAGCTC
* * * *
1173317 TCTCGAGTGAGATAAAATTTCTTATTTCAAGGGAAAACTGTCTCAAGCGAGACGAAGTTGGTTTT
1 TCTCAAGTGAGATAAAATTTATTGTTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGGTTTT
1173382 AAGAAAAACCA
66 AAGAAAAACCA
*
1173393 TCTCAAGTGAGAT-ACA-TT-TTGTTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGGTTTT
1 TCTCAAGTGAGATAAAATTTATTGTTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGGTTTT
1173455 AAGAAAAACCA
66 AAGAAAAACCA
* * * * ** *
1173466 TCTCGAGTGAGATAAAATTTATTGTTTCAAAGG-AAATTGTCTCCAGTGAGACGAAACTAGTTTT
1 TCTCAAGTGAGATAAAATTTATTGTTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGGTTTT
1173530 AAGAAAAACCA
66 AAGAAAAACCA
1173541 T
1 T
1173542 GTTTCAAGTG
Statistics
Matches: 134, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
73 65 0.49
74 4 0.03
75 42 0.31
76 23 0.17
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (76 bp):
TCTCAAGTGAGATAAAATTTATTGTTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGGTTTT
AAGAAAAACCA
Found at i:1173434 original size:37 final size:37
Alignment explanation
Indices: 1173341--1173453 Score: 131
Period size: 37 Copynumber: 3.1 Consensus size: 37
1173331 AAATTTCTTA
*
1173341 TTTCAAGGGAAAACTGTCTCAAGCGAGACGAAGTTGG
1 TTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGG
* * ** * * *
1173378 TTTTAA-GAAAAACCATCTCAAGTGAGA-TACATTTTG
1 TTTCAAGGGAAAACTGTCTCAAGTGAGACGA-AGTTGG
1173414 TTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGG
1 TTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGG
1173451 TTT
1 TTT
1173454 TAAGAAAAAC
Statistics
Matches: 58, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
35 1 0.02
36 26 0.45
37 30 0.52
38 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (37 bp):
TTTCAAGGGAAAACTGTCTCAAGTGAGACGAAGTTGG
Found at i:1173687 original size:37 final size:36
Alignment explanation
Indices: 1173632--1173825 Score: 206
Period size: 36 Copynumber: 5.5 Consensus size: 36
1173622 AAATTCAAAG
* *
1173632 ATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AA
* *
1173669 ACTTTGTTTCAAGAGAAACTTTCTCAAGGGAGACAA
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
* *
1173705 ATTTTGTTTCAAGGGAAACATAT-TC-----A-ACAA
1 ATTTTGTTTCAAGAGAAAC-TGTCTCAAGGGAGACAA
*
1173735 TTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-A
1 ATTT-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
* * *
1173771 ACTTTATTTCAAGAGAAATTGTCTCAAGGGAGACAA
1 ATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
*
1173807 ATTTTGTTTCAAGGGAAAC
1 ATTTTGTTTCAAGAGAAAC
1173826 ATATTCAACG
Statistics
Matches: 129, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
30 9 0.07
31 17 0.13
35 28 0.22
36 41 0.32
37 34 0.26
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (36 bp):
ATTTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAA
Found at i:1173713 original size:102 final size:103
Alignment explanation
Indices: 1173571--1173882 Score: 431
Period size: 102 Copynumber: 3.0 Consensus size: 103
1173561 CAATGGTTGG
* * * *** *
1173571 TGTTTCAAGGGAAACGTTCTCAAGAGAGACAAAACATGTTTCAAGGGAAACAAATTCAAAGA-TT
1 TGTTTCAAGAGAAACTTTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAAAGATTT
*
1173635 T-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
66 TGTGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAACTT
1173673 TGTTTCAAGAGAAACTTTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAACA-ATT
1 TGTTTCAAGAGAAACTTTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAA-AGATT
1173737 TTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC--AACTT
65 TTGTGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAACTT
* *
1173775 TATTTCAAGAGAAA-TTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAACGATT
1 TGTTTCAAGAGAAACTT-TCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAAAGATT
*
1173839 TTGTGTTTCAAGAGAAACTGTCTTAAGGATGACAAAA-TT
65 TTGTGTTTCAAGAGAAACTGTCTCAAGGA-GACAAAACTT
1173878 TGTTT
1 TGTTT
1173883 TGAAAAAATT
Statistics
Matches: 189, Mismatches: 12, Indels: 17
0.87 0.06 0.08
Matches are distributed among these distances:
101 5 0.03
102 144 0.76
103 10 0.05
104 29 0.15
105 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (103 bp):
TGTTTCAAGAGAAACTTTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAAAGATTT
TGTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAACTT
Found at i:1173892 original size:102 final size:102
Alignment explanation
Indices: 1173571--1173917 Score: 429
Period size: 102 Copynumber: 3.4 Consensus size: 102
1173561 CAATGGTTGG
* * * ** * *
1173571 TGTTTCAAGGGAAA-CGTTCTCAAGAGAGACAAAACATGTTTCAAGGGAAACAAATTCAAAGA-T
1 TGTTTCAAGAGAAATTG-TCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAACGATT
*
1173634 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTT
65 TTGTGTTTCAAGAGAAACTGTCTCAAG-GAGACAAAA-TT
* *
1173673 TGTTTCAAGAGAAACTT-TCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAACAATT
1 TGTTTCAAGAGAAA-TTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAACGATT
*
1173737 TTGTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AACTT
65 TTGTGTTTCAAGAGAAACTGTCTCAA-GGAGACAAAATT
* *
1173775 TATTTCAAGAGAAATTGTCTCAAGGGAGACAAATTTTGTTTCAAGGGAAACATATTCAACGATTT
1 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAACGATTT
*
1173840 TGTGTTTCAAGAGAAACTGTCTTAAGGATGACAAAATT
66 TGTGTTTCAAGAGAAACTGTCTCAAGGA-GACAAAATT
* * *
1173878 TGTTTTGAA-A-AAATTGTCTCAAGTGAGGCAAAATTTGTTT
1 TG-TTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTT
1173918 TTTAGAGAAA
Statistics
Matches: 216, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
101 5 0.02
102 167 0.77
103 11 0.05
104 32 0.15
105 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACATATTCAACGATTT
TGTGTTTCAAGAGAAACTGTCTCAAGGAGACAAAATT
Found at i:1174159 original size:41 final size:42
Alignment explanation
Indices: 1174102--1174216 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
1174092 ACACCCTGCC
* * * **
1174102 CGAAAGTCTTATAGATGGCCCAAAGGACTTA-TCATCTTGCT
1 CGAAAGACTTATAGATGGCCCGAAGGACTTACGCATCACGCT
* *
1174143 CGAAAGACTTATAGATGGGCCGAACGACTTACGCATCACGCT
1 CGAAAGACTTATAGATGGCCCGAAGGACTTACGCATCACGCT
* *
1174185 CGAAAGACATACT-GATGACCCGAAGGACTTAC
1 CGAAAGACTTA-TAGATGGCCCGAAGGACTTAC
1174217 TTATCAAGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 27 0.44
42 33 0.54
43 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (42 bp):
CGAAAGACTTATAGATGGCCCGAAGGACTTACGCATCACGCT
Found at i:1174417 original size:20 final size:20
Alignment explanation
Indices: 1174394--1174458 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
1174384 GCCCAAGGGT
*
1174394 CTTATGGATGGCCCGAAGGA
1 CTTATAGATGGCCCGAAGGA
* ** * *
1174414 CTTACCATCTTGCCCGAAAGA
1 CTTA-TAGATGGCCCGAAGGA
*
1174435 CTTATAGATGGCTCGAAGGA
1 CTTATAGATGGCCCGAAGGA
1174455 CTTA
1 CTTA
1174459 CGCATCATGC
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
CTTATAGATGGCCCGAAGGA
Found at i:1174487 original size:42 final size:40
Alignment explanation
Indices: 1174394--1174507 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 40
1174384 GCCCAAGGGT
* *
1174394 CTTATGGATGGCCCGAAGGACTTACCATCTTGCCCGAAAGA
1 CTTATAGATGG-CCGAAGGACTTACCATCATGCCCGAAAGA
* *
1174435 CTTATAGATGGCTCGAAGGACTTACGCATCATGCTCGAGAGA
1 CTTATAGATGGC-CGAAGGACTTAC-CATCATGCCCGAAAGA
*
1174477 CTTATTGATGGCCTGAAGGACTTACTCATCA
1 CTTATAGATGGCC-GAAGGACTTAC-CATCA
1174508 AGAAACCCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.02
41 23 0.36
42 40 0.62
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTATAGATGGCCGAAGGACTTACCATCATGCCCGAAAGA
Found at i:1174736 original size:99 final size:98
Alignment explanation
Indices: 1174502--1174933 Score: 630
Period size: 99 Copynumber: 4.4 Consensus size: 98
1174492 AAGGACTTAC
* * *
1174502 TCATCAAGAAACCCTTAAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGT
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* * *
1174567 CTTAGCTTCCTTTTAAAAACTCATTGAAAATCA
66 CTTAACTTCCTTTAAAAAACTCATTGAAAATCT
* ** * *
1174600 TCATCAAGAAACCCTTAAAAATCAAACGTAGTTTCTTAGTTGTCAAGGAATCCCTAAAAATTAGG
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
*
1174665 CTTAACTTCCTTTAAAAAAATTCATTGAAAATCT
66 CTTAACTTCCTTT-AAAAAACTCATTGAAAATCT
*
1174699 TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* ** *
1174764 CTTACCTTAATTTAAAAAAATTCATTGAAAATCT
66 CTTAACTTCCTTT-AAAAAACTCATTGAAAATCT
* *
1174798 TCATCAAGAAACCCCTGAAAATCAGACTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* *
1174863 CTTATCTTCCTTTTAAAAACTCATTGAAAATCT
66 CTTAACTTCCTTTAAAAAACTCATTGAAAATCT
* * *
1174896 TCATCAAGAAACCCCTTAAAATTAGGCTTAATTTCTTA
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTA
1174934 AAATTATTTG
Statistics
Matches: 306, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
98 125 0.41
99 181 0.59
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (98 bp):
TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
CTTAACTTCCTTTAAAAAACTCATTGAAAATCT
Found at i:1174889 original size:197 final size:197
Alignment explanation
Indices: 1174502--1174933 Score: 659
Period size: 197 Copynumber: 2.2 Consensus size: 197
1174492 AAGGACTTAC
* * *
1174502 TCATCAAGAAACCCTTAAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGT
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* ** * *
1174567 CTTAGCTTCCTTTTAAAAACTCATTGAAAATCATCATCAAGAAACCCTTAAAAATCAAACGTAGT
66 CTTACCTTAATTTAAAAAACTCATTGAAAATCATCATCAAGAAACCCCTAAAAATCAAACGTAGT
* *
1174632 TTCTTAGTTGTCAAGGAATCCCTAAAAATTAGGCTTAACTTCCTTTAAAAAAATTCATTGAAAAT
131 TTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAACTTCCTTTAAAAAAACTCATTGAAAAT
1174697 CT
196 CT
*
1174699 TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
* * * * *
1174764 CTTACCTTAATTTAAAAAAATTCATTGAAAATCTTCATCAAGAAACCCCTGAAAATCAGACTTAG
66 CTTACCTTAATTT-AAAAAACTCATTGAAAATCATCATCAAGAAACCCCTAAAAATCAAACGTAG
* *
1174829 TTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTATCTTCCTTT-TAAAAACTCATTGAAAA
130 TTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAACTTCCTTTAAAAAAACTCATTGAAAA
1174893 TCT
195 TCT
* * *
1174896 TCATCAAGAAACCCCTTAAAATTAGGCTTAATTTCTTA
1 TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTA
1174934 AAATTATTTG
Statistics
Matches: 213, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
197 124 0.58
198 89 0.42
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (197 bp):
TCATCAAGAAACCCCTAAAAATCAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTAAAAATTAGG
CTTACCTTAATTTAAAAAACTCATTGAAAATCATCATCAAGAAACCCCTAAAAATCAAACGTAGT
TTCTTAGTTGTCAAGGAACCCCTAAAAATTAGGCTTAACTTCCTTTAAAAAAACTCATTGAAAAT
CT
Found at i:1175197 original size:32 final size:32
Alignment explanation
Indices: 1175148--1175209 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
1175138 ATATCAGGAT
*
1175148 GTTGAATCCCCATAGATGCCCCAACATTCAAA
1 GTTGAATCCCCAAAGATGCCCCAACATTCAAA
* *
1175180 GTTGAATCTCCAAAGATGCCCCATCATTCA
1 GTTGAATCCCCAAAGATGCCCCAACATTCA
1175210 TCGTTTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (32 bp):
GTTGAATCCCCAAAGATGCCCCAACATTCAAA
Found at i:1176309 original size:21 final size:19
Alignment explanation
Indices: 1176266--1176310 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
1176256 TCTTCTTTTT
*
1176266 TCTTTGTTTTTTTCTTTCT
1 TCTTTGTTTTTTTCTTTCA
*
1176285 TCTTTGCTCTTTTTTCTTTGA
1 TCTTTG-T-TTTTTTCTTTCA
1176306 TCTTT
1 TCTTT
1176311 TTCTTCGCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 1 0.05
21 15 0.68
ACGTcount: A:0.02, C:0.18, G:0.07, T:0.73
Consensus pattern (19 bp):
TCTTTGTTTTTTTCTTTCA
Found at i:1177590 original size:14 final size:15
Alignment explanation
Indices: 1177570--1177606 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
1177560 TCAAATGCAA
1177570 AGATGCAAAAATGAG
1 AGATGCAAAAATGAG
*
1177585 AG-TGC-AAAATGTG
1 AGATGCAAAAATGAG
1177598 AGATGCAAA
1 AGATGCAAA
1177607 TGCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.49, C:0.08, G:0.27, T:0.16
Consensus pattern (15 bp):
AGATGCAAAAATGAG
Found at i:1179780 original size:12 final size:13
Alignment explanation
Indices: 1179763--1179791 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1179753 ATTAAAATCT
1179763 AATTATTAC-CTA
1 AATTATTACACTA
1179775 AATTATTACACTA
1 AATTATTACACTA
1179788 AATT
1 AATT
1179792 TTTTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTATTACACTA
Found at i:1180023 original size:30 final size:29
Alignment explanation
Indices: 1179989--1180058 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
1179979 AAAAACAATT
* * *
1179989 AATAAACATAATAAAAATAATAAAAAACCA
1 AATAAA-ATAACAAAAACAATAAAAAAACA
* *
1180019 AATAAAAAAACAAAAACAGTAAAAAAACA
1 AATAAAATAACAAAAACAATAAAAAAACA
1180048 ACATAAAATAA
1 A-ATAAAATAA
1180059 AAATAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.76, C:0.10, G:0.01, T:0.13
Consensus pattern (29 bp):
AATAAAATAACAAAAACAATAAAAAAACA
Found at i:1183512 original size:24 final size:24
Alignment explanation
Indices: 1183482--1183536 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
1183472 ATATAATTAC
1183482 TAATAATAATTAATCATTAATAATT-AT
1 TAATAATAA--AAT-ATTAA-AATTAAT
1183509 TAATAATAAAATATTAAAATTAAT
1 TAATAATAAAATATTAAAATTAAT
1183533 TAAT
1 TAAT
1183537 CCTAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.15
24 11 0.41
25 3 0.11
27 9 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATAAAATATTAAAATTAAT
Found at i:1183512 original size:27 final size:24
Alignment explanation
Indices: 1183474--1183536 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 24
1183464 ATCCTAAAAT
*
1183474 ATAATTACTAATAATAATTAATCATTA
1 ATAATTATTAATAATAA--AAT-ATTA
1183501 ATAATTATTAATAATAAAATATTA
1 ATAATTATTAATAATAAAATATTA
1183525 A-AATTAATTAAT
1 ATAATT-ATTAAT
1183537 CCTAATTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 4 0.12
24 11 0.32
25 3 0.09
27 16 0.47
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
ATAATTATTAATAATAAAATATTA
Found at i:1187903 original size:388 final size:391
Alignment explanation
Indices: 1187178--1187964 Score: 1436
Period size: 388 Copynumber: 2.0 Consensus size: 391
1187168 TACCCTGATG
*
1187178 ACATTCTTCGGATGGTTCTCTTATCATTTTTGGTTGCCTGTTAAGGATAACTCTGATATTTGATA
1 ACATTCTTCGGATGGTTCTCTTATCATTTTCGGTTGCCTGTTAAGGATAACTCTGATATTTGATA
1187243 TATTGCAAGATATCATAGTACCAGGATTTTTCTTCTTCTTCTTCTTCTTCAATGTTAAAACAATG
66 TATTGCAAGATATCATAGTACCAGGA------TTCTTCTTCTTCTTCTTCAATGTTAAAACAATG
* *
1187308 AGCGGGATATTCATAGGCATTCATTTCAATAGGAATCATACTTGCATGTTCATTTACCTTAAATG
125 AGCGGGATATTCATAAGCATGCATTTCAATAGGAATCATACTTGCATGTTCATTTACCTTAAATG
*
1187373 TGACTGCCAAAGTTTCCAAGGCATCTGCCATTTGATTTTCTTCTCTGGGGATGTAATCAAAAGTC
190 CGACTGCCAAAGTTTCCAAGGCATCTGCCATTTGATTTTCTTCTCTGGGGATGTAATCAAAAGTC
1187438 GCTTCTTCAAATTCTTTAATGAGTTCCAGAACTAGTTTCTGGTATTTCATCAGCTTGAAATCTTT
255 GCTTCTTCAAATTCTTTAATGAGTTCCAGAACTAGTTTCTGGTATTTCATCAGCTTGAAATCTTT
*
1187503 TGTTTCCCATTCTCCTCTGATTTGGTAAATTATTAGAGCTGAATCCCCATAAACCTTGAGCATTT
320 TGTTTCCCATTCTCCTATGATTTGGTAAATTATTAGAGCTGAATCCCCATAAACCTTGAGCATTT
1187568 TTACTTT
385 TTACTTT
*
1187575 ACATTCTTCGGATGGTTCTCTTATCATTTTCGGTTGCTTGTTAAGGATAACTCTGATATTTGATA
1 ACATTCTTCGGATGGTTCTCTTATCATTTTCGGTTGCCTGTTAAGGATAACTCTGATATTTGATA
1187640 TATTGCAAGATATCATAGTACCAGGA-T-TT-TTCTTCTTCTTCAATGTTAAAACAATGAGCGGG
66 TATTGCAAGATATCATAGTACCAGGATTCTTCTTCTTCTTCTTCAATGTTAAAACAATGAGCGGG
1187702 ATATTCATAAGCATGCATTTCAATAGGAATCATACTTGCATGTTCATTTACCTTAAATGCGACTG
131 ATATTCATAAGCATGCATTTCAATAGGAATCATACTTGCATGTTCATTTACCTTAAATGCGACTG
1187767 CCAAAGTTTCCAAGGCATCTGCCATTTGATTTTCTTCTCTGGGGATGTAATCAAAAGTCGCTTCT
196 CCAAAGTTTCCAAGGCATCTGCCATTTGATTTTCTTCTCTGGGGATGTAATCAAAAGTCGCTTCT
1187832 TCAAATTCTTTAATGAGTTCCAGAACTAGTTTCTGGTATTTCATCAGCTTGAAATCTTTTGTTTC
261 TCAAATTCTTTAATGAGTTCCAGAACTAGTTTCTGGTATTTCATCAGCTTGAAATCTTTTGTTTC
*
1187897 CCATTCTCCTATGATTTGGTAAATTATTAGAGCTGAATCCCCATAAACCTTGAGCCTTTTTACTT
326 CCATTCTCCTATGATTTGGTAAATTATTAGAGCTGAATCCCCATAAACCTTGAGCATTTTTACTT
1187962 T
391 T
1187963 AC
1 AC
1187965 GTTCAATGGA
Statistics
Matches: 383, Mismatches: 7, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
388 291 0.76
389 2 0.01
390 1 0.00
397 89 0.23
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (391 bp):
ACATTCTTCGGATGGTTCTCTTATCATTTTCGGTTGCCTGTTAAGGATAACTCTGATATTTGATA
TATTGCAAGATATCATAGTACCAGGATTCTTCTTCTTCTTCTTCAATGTTAAAACAATGAGCGGG
ATATTCATAAGCATGCATTTCAATAGGAATCATACTTGCATGTTCATTTACCTTAAATGCGACTG
CCAAAGTTTCCAAGGCATCTGCCATTTGATTTTCTTCTCTGGGGATGTAATCAAAAGTCGCTTCT
TCAAATTCTTTAATGAGTTCCAGAACTAGTTTCTGGTATTTCATCAGCTTGAAATCTTTTGTTTC
CCATTCTCCTATGATTTGGTAAATTATTAGAGCTGAATCCCCATAAACCTTGAGCATTTTTACTT
T
Found at i:1196961 original size:18 final size:18
Alignment explanation
Indices: 1196922--1196961 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1196912 TATAAATACT
* *
1196922 AATAATAATTAATCATAT
1 AATAATAATTAATAATAA
*
1196940 AATAATTATTAATAATAA
1 AATAATAATTAATAATAA
1196958 AATA
1 AATA
1196962 TTAAAATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAATAATTAATAATAA
Found at i:1198366 original size:5 final size:5
Alignment explanation
Indices: 1198356--1198383 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1198346 CCGGATTTTT
1198356 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATT
1198384 GTTAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:1198396 original size:5 final size:5
Alignment explanation
Indices: 1198352--1198461 Score: 51
Period size: 5 Copynumber: 20.4 Consensus size: 5
1198342 TCGTCCGGAT
* * * * *
1198352 TTTTA TTTAA TTTAA TTTAA TTTAA TTTAA TTGTTAA TTTTA TTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TT-A TTTTA TTTTA -TTTTA
* * * *
1198405 TTTTA TGTTA TCTTA CTTTA CTTTT- TATTTA TTATTA CTTTTGT TTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA TT-TTA -TTTT-A TTTTA
1198454 TTTCTA TT
1 TTT-TA TT
1198462 AACTGTTATC
Statistics
Matches: 86, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
4 1 0.01
5 55 0.64
6 25 0.29
7 5 0.06
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.69
Consensus pattern (5 bp):
TTTTA
Found at i:1198413 original size:27 final size:27
Alignment explanation
Indices: 1198352--1198434 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
1198342 TCGTCCGGAT
* *
1198352 TTTTAT-TTAA-TTTAATTTAATTTAA
1 TTTTATGTTAATTTTAATTTATTTTTA
* *
1198377 TTTAATTGTTAATTTTATTTTATTTTTA
1 TTTTA-TGTTAATTTTAATTTATTTTTA
* *
1198405 TTTTATGTT-ATCTTACTTTACTTTTTA
1 TTTTATGTTAATTTTAATTTA-TTTTTA
1198432 TTT
1 TTT
1198435 ATTATTACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
25 4 0.09
26 10 0.21
27 17 0.36
28 16 0.34
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTATGTTAATTTTAATTTATTTTTA
Found at i:1198928 original size:2 final size:2
Alignment explanation
Indices: 1198921--1198953 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1198911 GAATAAATTT
1198921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1198954 TCATGATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1199243 original size:20 final size:20
Alignment explanation
Indices: 1199220--1199257 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1199210 TTATAAATAT
*
1199220 AATTTTAAAAATATATTTAA
1 AATTTTAAAAATAAATTTAA
1199240 AATTTTAAAAATAAATTT
1 AATTTTAAAAATAAATTT
1199258 TGGAAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAAAAATAAATTTAA
Found at i:1217767 original size:20 final size:20
Alignment explanation
Indices: 1217742--1217800 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
1217732 TGCGTCATGT
*
1217742 TCTTTGTTGAAGCCATGAAA
1 TCTTTGTTGAGGCCATGAAA
*
1217762 TCTTTGTGGAGGCCATGAAA
1 TCTTTGTTGAGGCCATGAAA
1217782 TCTTT-TGTGAGGCCATGAA
1 TCTTTGT-TGAGGCCATGAA
1217801 TTTCTACAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (20 bp):
TCTTTGTTGAGGCCATGAAA
Done.