Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_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: 3402722
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 17
Found at i:1698271 original size:24 final size:24
Alignment explanation
Indices: 1698220--1698271 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
1698210 ATCCGAGTAT
** *
1698220 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
1698244 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
1698268 TGAC
1 TGAC
1698272 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:1699205 original size:18 final size:18
Alignment explanation
Indices: 1699178--1699216 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1699168 AAAACATTTG
*
1699178 TGTTGTGAAAATAAAAGT
1 TGTTGCGAAAATAAAAGT
* *
1699196 TGTTGCGAAATTAAAATT
1 TGTTGCGAAAATAAAAGT
1699214 TGT
1 TGT
1699217 GTTGCGAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (18 bp):
TGTTGCGAAAATAAAAGT
Found at i:1699221 original size:20 final size:20
Alignment explanation
Indices: 1699173--1699324 Score: 73
Period size: 20 Copynumber: 7.7 Consensus size: 20
1699163 CACCCAAAAC
*
1699173 ATTTGTGTTGTGAAAATAAA
1 ATTTGTGTTGCGAAAATAAA
* *
1699193 A-GT-TGTTGCGAAATTAAA
1 ATTTGTGTTGCGAAAATAAA
*
1699211 ATTTGTGTTGCG-AATTCGAAA
1 ATTTGTGTTGCGAAAAT--AAA
* * *
1699232 A-TCGAGTTGCGAAAACAAA
1 ATTTGTGTTGCGAAAATAAA
* ** *
1699251 ATTCGTGTTGCGATTTAGAAA
1 ATTTGTGTTGCGA-AAATAAA
* **
1699272 ATCT-TGTTGCGAAAAGGAA
1 ATTTGTGTTGCGAAAATAAA
*
1699291 ACTTGTGTTGCGAAAA-AGAA
1 ATTTGTGTTGCGAAAATA-AA
* *
1699311 ATTCGCGTTGCGAA
1 ATTTGTGTTGCGAA
1699325 TTCAGAAATC
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
18 14 0.14
19 16 0.16
20 58 0.58
21 12 0.12
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (20 bp):
ATTTGTGTTGCGAAAATAAA
Found at i:1699252 original size:40 final size:40
Alignment explanation
Indices: 1699197--1699324 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 40
1699187 AATAAAAGTT
** *
1699197 GTTGCGAAATTAAAATTTGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGA
* * **
1699237 GTTGCGAAAACAAAATTCGTGTTGCGATTTAGAAAATCTT
1 GTTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGA
** * ** * *
1699277 GTTGCGAAAAGGAAACTTGTGTTGCGAAAAAGAAATTCGC
1 GTTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGA
1699317 GTTGCGAA
1 GTTGCGAA
1699325 TTCAGAAATC
Statistics
Matches: 71, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (40 bp):
GTTGCGAAAACAAAATTTGTGTTGCGAATTAGAAAATCGA
Found at i:1699280 original size:60 final size:60
Alignment explanation
Indices: 1699215--1699351 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 60
1699205 ATTAAAATTT
* *
1699215 GTGTTGCGAATTCGAAAATCGAGTTGCGAAAACA-AAATTCGTGTTGCG-ATTTAGAAAATC
1 GTGTTGCGAATTCGAAAATCGAGTTGCGAAAA-AGAAATTCGCGTTGCGAATTCAG-AAATC
* *** * * *
1699275 TTGTTGCGAAAAGGAAACTTGTGTTGCGAAAAAGAAATTCGCGTTGCGAATTCAGAAATC
1 GTGTTGCGAATTCGAAAATCGAGTTGCGAAAAAGAAATTCGCGTTGCGAATTCAGAAATC
* *
1699335 GAGTTGCGAATTTGAAA
1 GTGTTGCGAATTCGAAA
1699352 TTCCTTGTTG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
59 1 0.02
60 55 0.90
61 5 0.08
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (60 bp):
GTGTTGCGAATTCGAAAATCGAGTTGCGAAAAAGAAATTCGCGTTGCGAATTCAGAAATC
Found at i:1699333 original size:21 final size:21
Alignment explanation
Indices: 1699308--1699512 Score: 165
Period size: 21 Copynumber: 10.0 Consensus size: 21
1699298 TTGCGAAAAA
**
1699308 GAAATTCGCGTTGCGAATTCA
1 GAAATTCGCGTTGCGAATTTG
*
1699329 GAAA-TCGAGTTGCGAATTT-
1 GAAATTCGCGTTGCGAATTTG
1699348 GAAATTC-CTTGTTGCGAATTTG
1 GAAATTCGC--GTTGCGAATTTG
1699370 GAAA-TCGCGTTGCGAATTTG
1 GAAATTCGCGTTGCGAATTTG
* * *
1699390 GAAAATCTCGTTGTGAATTTG
1 GAAATTCGCGTTGCGAATTTG
*
1699411 GAAAATCGCGTTGCGAATTTG
1 GAAATTCGCGTTGCGAATTTG
* * **
1699432 GAAAATCTCGTTGCGAGA--AA
1 GAAATTCGCGTTGCGA-ATTTG
**
1699452 GAAATTTACGTTGCGAATTTG
1 GAAATTCGCGTTGCGAATTTG
* * * *
1699473 GAAACT-GTGTTGCGAAATTA
1 GAAATTCGCGTTGCGAATTTG
*
1699493 G-AGTTCGCGTTGCGAATTTG
1 GAAATTCGCGTTGCGAATTTG
1699513 TTGGTCATTT
Statistics
Matches: 149, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
19 7 0.05
20 66 0.44
21 70 0.47
22 6 0.04
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (21 bp):
GAAATTCGCGTTGCGAATTTG
Found at i:1699340 original size:20 final size:20
Alignment explanation
Indices: 1699197--1699510 Score: 117
Period size: 20 Copynumber: 15.5 Consensus size: 20
1699187 AATAAAAGTT
* *
1699197 GTTGCGAAATTA-AAATTTGT
1 GTTGCG-AATTAGAAATTCGC
* * *
1699217 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTAGAAATTCGC
* * *
1699237 GTTGCGAA-AACAAAATTCGT
1 GTTGCGAATTA-GAAATTCGC
* * **
1699257 GTTGCGATTTAGAAAATCTT
1 GTTGCGAATTAGAAATTCGC
* *
1699277 GTTGCGAA-AAGGAAACTT-GT
1 GTTGCGAATTA-GAAA-TTCGC
**
1699297 GTTGCGAAAAAGAAATTCGC
1 GTTGCGAATTAGAAATTCGC
*
1699317 GTTGCGAATTCAGAAA-TCGA
1 GTTGCGAATT-AGAAATTCGC
*
1699337 GTTGCGAATTTGAAATTC-C
1 GTTGCGAATTAGAAATTCGC
*
1699356 TTGTTGCGAATTTGGAAA-TCGC
1 --GTTGCGAA-TTAGAAATTCGC
* * *
1699378 GTTGCGAATTTGGAAAATCTC
1 GTTGCGAA-TTAGAAATTCGC
* * *
1699399 GTTGTGAATTTGGAAAATCGC
1 GTTGCGAA-TTAGAAATTCGC
* * *
1699420 GTTGCGAATTTGGAAAATCTC
1 GTTGCGAA-TTAGAAATTCGC
* **
1699441 GTTGCGAGA-AAGAAATTTAC
1 GTTGCGA-ATTAGAAATTCGC
* * *
1699461 GTTGCGAATTTGGAAACT-GT
1 GTTGCGAA-TTAGAAATTCGC
*
1699481 GTTGCGAAATTAG-AGTTCGC
1 GTTGCG-AATTAGAAATTCGC
1699501 GTTGCGAATT
1 GTTGCGAATT
1699511 TGTTGGTCAT
Statistics
Matches: 231, Mismatches: 44, Indels: 39
0.74 0.14 0.12
Matches are distributed among these distances:
19 18 0.08
20 131 0.57
21 74 0.32
22 8 0.03
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTAGAAATTCGC
Found at i:1699430 original size:42 final size:41
Alignment explanation
Indices: 1699316--1699512 Score: 186
Period size: 41 Copynumber: 4.8 Consensus size: 41
1699306 AAGAAATTCG
** * *
1699316 CGTTGCGAATTCAGAAATCGAGTTGCGAATTT-GAAATTCCT
1 CGTTGCGAATTTGGAAATCGCGTTGCGAATTTGGAAAAT-CT
*
1699357 TGTTGCGAATTTGGAAATCGCGTTGCGAATTTGGAAAATCT
1 CGTTGCGAATTTGGAAATCGCGTTGCGAATTTGGAAAATCT
*
1699398 CGTTGTGAATTTGGAAAATCGCGTTGCGAATTTGGAAAATCT
1 CGTTGCGAATTTGG-AAATCGCGTTGCGAATTTGGAAAATCT
** ** * *
1699440 CGTTGCGAGA--AAGAAATTTACGTTGCGAATTTGGAAACTGT
1 CGTTGCGA-ATTTGGAAA-TCGCGTTGCGAATTTGGAAAATCT
* * **
1699481 -GTTGCGAAATTAGAGTTCGCGTTGCGAATTTG
1 CGTTGCGAATTTGGAAATCGCGTTGCGAATTTG
1699513 TTGGTCATTT
Statistics
Matches: 131, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
39 1 0.01
40 24 0.18
41 66 0.50
42 39 0.30
43 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (41 bp):
CGTTGCGAATTTGGAAATCGCGTTGCGAATTTGGAAAATCT
Found at i:1699674 original size:23 final size:23
Alignment explanation
Indices: 1699648--1699726 Score: 115
Period size: 23 Copynumber: 3.4 Consensus size: 23
1699638 TTTTTATATT
*
1699648 TTTTTATATT-TTAAAATTAAATA
1 TTTTAATATTATT-AAATTAAATA
1699671 TTTTAATATTATTAAATTAAATA
1 TTTTAATATTATTAAATTAAATA
*
1699694 TTTTAATATTATTAAATTTAATA
1 TTTTAATATTATTAAATTAAATA
*
1699717 TTTTTATATT
1 TTTTAATATT
1699727 TCAAAGCCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
23 50 0.96
24 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTAATATTATTAAATTAAATA
Found at i:1699945 original size:20 final size:20
Alignment explanation
Indices: 1699900--1700010 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
1699890 CACAGTTGAA
* *
1699900 TTCGCAACTCGAATTTGACATT
1 TTCGCAACACGAATTT--CTTT
1699922 TTCGCAACACGAATTTCTTT
1 TTCGCAACACGAATTTCTTT
1699942 TTCGCAACACGAATTTCTTT
1 TTCGCAACACGAATTTCTTT
* *
1699962 TTCGCAACTCG-ATTT-TTAAA
1 TTCGCAACACGAATTTCTT--T
* **
1699982 TTCGCAACACGAGTTTCTAA
1 TTCGCAACACGAATTTCTTT
1700002 TTCGCAACA
1 TTCGCAACA
1700011 TGAAATTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.03
19 4 0.05
20 53 0.68
21 3 0.04
22 16 0.21
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (20 bp):
TTCGCAACACGAATTTCTTT
Found at i:1700020 original size:40 final size:40
Alignment explanation
Indices: 1699942--1700034 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
1699932 GAATTTCTTT
** **
1699942 TTCGCAACACGAATTTCTTTTTCGCAACTCGATTTTTAAA
1 TTCGCAACACGAATTTCTAATTCGCAACTCGAAATTTAAA
* *
1699982 TTCGCAACACGAGTTTCTAATTCGCAACAT-GAAATTTAAT
1 TTCGCAACACGAATTTCTAATTCGCAAC-TCGAAATTTAAA
*
1700022 TTCGCAACCCGAA
1 TTCGCAACACGAA
1700035 ATTTATGGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (40 bp):
TTCGCAACACGAATTTCTAATTCGCAACTCGAAATTTAAA
Found at i:1700025 original size:20 final size:20
Alignment explanation
Indices: 1699921--1700039 Score: 82
Period size: 20 Copynumber: 6.0 Consensus size: 20
1699911 AATTTGACAT
**
1699921 TTTCGCAACACG-AATTTCTT
1 TTTCGCAACACGAAATTT-AA
**
1699941 TTTCGCAACACG-AATTTCTT
1 TTTCGCAACACGAAATTT-AA
* **
1699961 TTTCGCAACTCGATTTTTAA
1 TTTCGCAACACGAAATTTAA
* **
1699981 ATTCGCAACACGAGTTTCTAA
1 TTTCGCAACACGAAATT-TAA
*
1700002 -TTCGCAACATGAAATTTAA
1 TTTCGCAACACGAAATTTAA
*
1700021 TTTCGCAACCCGAAATTTA
1 TTTCGCAACACGAAATTTA
1700040 TGGAATTCAC
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.04
20 74 0.89
21 6 0.07
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (20 bp):
TTTCGCAACACGAAATTTAA
Found at i:1700358 original size:20 final size:19
Alignment explanation
Indices: 1700309--1700359 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1700299 ATCTTTTTTA
**
1700309 AATTCGCAACACGATTTTCT
1 AATTCGCAACACGAAATT-T
*
1700329 AATTCACAACACGAAATTT
1 AATTCGCAACACGAAATTT
1700348 AATTTCGCAACA
1 AA-TTCGCAACA
1700360 TAAAATTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (19 bp):
AATTCGCAACACGAAATTT
Found at i:1700667 original size:337 final size:334
Alignment explanation
Indices: 1699974--1700962 Score: 1492
Period size: 337 Copynumber: 3.0 Consensus size: 334
1699964 CGCAACTCGA
* **
1699974 TTTTTAAATTCGCAACACGAGTTTCTAATTCGCAACATGAAATTTAATTTCGCAACCCGAAATTT
1 TTTTTAAATTCGCAACACGAGTTTCTAATTCGCAACACGAAATTTAATTTCGCAA-CAAAAATTT
* * * * *
1700039 ATGGAATTCACAACTCGTTTTCTTGGCCCCAAGTAATCCATGTTTTGGAAAACAAAAGAATTATG
65 GTGGAATTCGCAACTCGTTTTCTTGGCCCCAAGCAATCCATGTTCTGGAAAACAAAAGAATTCTG
*
1700104 GAGAGAAAGGAGAACACTTGGAAATTTGTGGGTTTAAGCCATCGAAA-TAACATCTTCGAAGA-T
130 GAGAGAAATGAGAACACTTGGAAATTTGTGGGTTTAAGCCATCGAAAGT-ACATCTTCGAAGATT
*
1700167 TC-----C-GGCTTTTTAGTGGGAAGAGACTCGATCAGCAAAGAGATGGAAGAAATACCCAGATG
194 TCATTTTCTGGCTTTTTAGTGGGAAGAGACTCGATCAGCAAAGAGATGGAAGAAAGACCCAGATG
**
1700226 TTGAAGCGGCATCGTTTCCATGGTTTGCTCGATCAAAGCTGAAAAACATGGTTTTTGTATGGGAA
259 TTGAAGCGGCGGCGTTTCCATGGTTTGCTCGATCAAAGCTGAAAAACATGGTTTTTG-ATGGGAA
*
1700291 GAAAGACTATCT
323 GAAAGACAATCT
* *
1700303 TTTTTAAATTCGCAACACGATTTTCTAATTCACAACACGAAATTTAATTTCGCAACATAAAATTT
1 TTTTTAAATTCGCAACACGAGTTTCTAATTCGCAACACGAAATTTAATTTCGCAACA-AAAATTT
* *
1700368 GTGAAATTCGTAACTCGTTTTCTTGGCCCCAAGCAATCCATGTTCTGGAAAACAAAAGAATTCTG
65 GTGGAATTCGCAACTCGTTTTCTTGGCCCCAAGCAATCCATGTTCTGGAAAACAAAAGAATTCTG
1700433 GAGAGAAATGAGAACACTTGGAAATTTGTGGGTTTAAGCCATCGAAAGTACATCTTCGAAGATTT
130 GAGAGAAATGAGAACACTTGGAAATTTGTGGGTTTAAGCCATCGAAAGTACATCTTCGAAGATTT
* *
1700498 CGATTTTCTGGCTTTTTAGTGGGAAGAGACAT-GATCAGCAAAGAGATGGAAGAAAGATCCAGTT
195 C-ATTTTCTGGCTTTTTAGTGGGAAGAGAC-TCGATCAGCAAAGAGATGGAAGAAAGACCCAGAT
* * * *
1700562 GTTGAAGAGCCGGCGTTTCCATTGTTTTCTCGATCAAAGCTGAAAAACATGGTTTTTCGATGGGA
258 GTTGAAGCGGCGGCGTTTCCATGGTTTGCTCGATCAAAGCTGAAAAACATGGTTTTT-GATGGGA
*
1700627 AGAAAGACAATGT
322 AGAAAGACAATCT
* **
1700640 TTTTTAAATTCGCAACACGAGTTTCTAATTCGTAATGCGAAATTTAATTTCGCAACAAGAAATTT
1 TTTTTAAATTCGCAACACGAGTTTCTAATTCGCAACACGAAATTTAATTTCGCAACAA-AAATTT
*
1700705 GTGGAATTCGCAAATCGTTTTCTTGGCCCCAAGCAATCCATGTTCTGGAAAACAAAAGAATTCTG
65 GTGGAATTCGCAACTCGTTTTCTTGGCCCCAAGCAATCCATGTTCTGGAAAACAAAAGAATTCTG
* * *
1700770 GAGAGAAATGAGAACACATGGAAATTTGTGGGTTTACGTCATCGAAAGTACATCTTCGAAGATTT
130 GAGAGAAATGAGAACACTTGGAAATTTGTGGGTTTAAGCCATCGAAAGTACATCTTCGAAGATTT
* *
1700835 CAATTTTCTGGCTTTTTAGTGGGAAGAGACTCGATTAGCAAAGAGATAGAAGAAAGACCCAGATG
195 C-ATTTTCTGGCTTTTTAGTGGGAAGAGACTCGATCAGCAAAGAGATGGAAGAAAGACCCAGATG
* *
1700900 TTAAAGCGGCGGCGTTTCCATGGTTTGCTTCGATCAAAGCTGAAAAAACGTGGTTTTTTGATG
259 TTGAAGCGGCGGCGTTTCCATGGTTTGC-TCGATCAAAGCTG-AAAAACATGG-TTTTTGATG
1700963 CGGCGTGTGC
Statistics
Matches: 597, Mismatches: 46, Indels: 24
0.90 0.07 0.04
Matches are distributed among these distances:
328 1 0.00
329 175 0.29
330 4 0.01
336 3 0.01
337 381 0.64
338 15 0.03
339 13 0.02
340 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (334 bp):
TTTTTAAATTCGCAACACGAGTTTCTAATTCGCAACACGAAATTTAATTTCGCAACAAAAATTTG
TGGAATTCGCAACTCGTTTTCTTGGCCCCAAGCAATCCATGTTCTGGAAAACAAAAGAATTCTGG
AGAGAAATGAGAACACTTGGAAATTTGTGGGTTTAAGCCATCGAAAGTACATCTTCGAAGATTTC
ATTTTCTGGCTTTTTAGTGGGAAGAGACTCGATCAGCAAAGAGATGGAAGAAAGACCCAGATGTT
GAAGCGGCGGCGTTTCCATGGTTTGCTCGATCAAAGCTGAAAAACATGGTTTTTGATGGGAAGAA
AGACAATCT
Found at i:1701196 original size:40 final size:40
Alignment explanation
Indices: 1701125--1701200 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
1701115 CGAAAATGTA
* * ***
1701125 AAATTCGATTTGCGAATTCGATTTCTATGTTGCGAATTTC
1 AAATTCGAGTTACGAATTCGAAAACTATGTTGCGAATTTC
*
1701165 AAATTCGAGTTACGAATTCGAAAACTGTGTTGCGAA
1 AAATTCGAGTTACGAATTCGAAAACTATGTTGCGAA
1701201 ATTGGTTTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (40 bp):
AAATTCGAGTTACGAATTCGAAAACTATGTTGCGAATTTC
Found at i:1701767 original size:64 final size:64
Alignment explanation
Indices: 1701640--1701759 Score: 222
Period size: 64 Copynumber: 1.9 Consensus size: 64
1701630 TATGTTATAT
*
1701640 AATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATAAAATAGG
1 AATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATAAAATAGG
*
1701704 AATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAAT
1 AATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAAT
1701760 GTAATAGGTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (64 bp):
AATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCACTTATATAATAAAATAGG
Found at i:1702223 original size:200 final size:197
Alignment explanation
Indices: 1701777--1702303 Score: 659
Period size: 200 Copynumber: 2.7 Consensus size: 197
1701767 GTAGCGCTTA
* * * **
1701777 TATTGACATATTTTCTAACT-AAACCGATATATTTATACCGGTAAGATTACAAATTTACCTATTA
1 TATTGACATATTTTCTAA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTA
* * * *
1701841 CATTATAATTATCGGTTTCGATGTTTTTCGGATCGATACAATTT--TAAATGTATCGACACTTTA
65 CATTATAATTATCAGTTTCGATGTTTATGGGATCGATAC-TTTTAATAAATGTATCGACACTTTA
** *
1701904 TGCATGCACCTTGTTGGGCATTCTTTCAGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
129 TGCATGCACCCCGTTGGGCATTCATTCAGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGAT
1701969 ACAT
194 ACAT
* * ** * * * *
1701973 TATTTACACCTATTTTCTCATAAAGTCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATC
1 TATTGACA--TATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
* *
1702038 ACATTGTAATTATCAATTTCGATGTTTATGGGATCGATACTTTTAATAAATGTATCGACACTTTA
64 ACATTATAATTATCAGTTTCGATGTTTATGGGATCGATACTTTTAATAAATGTATCGACACTTTA
* * * * * *
1702103 TGCGTGCACCCCGTTTGGCATTCATT-ATGGACAAAAGGTATCGAGACAAATTTAAATAGTGTCG
129 TGCATGCACCCCGTTGGGCATTCATTCA-GGA-AAAAAGTATCGACACAAACTTAAAAAGTGTCG
*
1702167 ATACTT
192 ATACAT
* *
1702173 TATGCTGACATATTTTCTTATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATT
1 TAT--TGACATATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATT
1702238 ACATTATAATTATCAGTTTCGATG-TTATTGGGATCGATACTTTTAATAAATGTATCGACACTTT
64 ACATTATAATTATCAGTTTCGATGTTTA-TGGGATCGATACTTTTAATAAATGTATCGACACTTT
1702302 AT
128 AT
1702304 ATTCTGGACA
Statistics
Matches: 281, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
196 7 0.02
197 4 0.01
198 77 0.27
199 46 0.16
200 143 0.51
202 4 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (197 bp):
TATTGACATATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTAC
ATTATAATTATCAGTTTCGATGTTTATGGGATCGATACTTTTAATAAATGTATCGACACTTTATG
CATGCACCCCGTTGGGCATTCATTCAGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATAC
AT
Found at i:1702427 original size:177 final size:178
Alignment explanation
Indices: 1702130--1702475 Score: 495
Period size: 177 Copynumber: 1.9 Consensus size: 178
1702120 GCATTCATTA
* * * * *
1702130 TGGACAAAAGGTATCGAGACAAATTTAAATAGTGTCGATACTTTATGCTGACATATTTTCTTATA
1 TGGACAAAAGGTATCGACACAAATTCAAAAAGTGTCGATACATTATGCTGACATATGTTCTTATA
1702195 AAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
66 AAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
1702260 TGTTATTGGGATCGATACTTTTA-ATAAATGTATCGACACTTTATATTC
131 TGTTATTGGGATCGATACTTTTAGA-AAATGTATCGACACTTTATATTC
*
1702308 TGGACAATAA-GTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGAC-T-TGTT-TTAT
1 TGGACAA-AAGGTATCGACACAAATTCAAAAAGTGTCGATACATTATGCTGACATATGTTCTTAT
* * * * **
1702369 AATTAACTGGTATATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTT
65 AA--AACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTT
* *
1702434 CGATGTTTTTGGGGTCGATACTTTTAGAAAATGTATCGACAC
128 CGATGTTATTGGGATCGATACTTTTAGAAAATGTATCGACAC
1702476 CTATTTAGCT
Statistics
Matches: 150, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
175 6 0.04
176 3 0.02
177 94 0.63
178 45 0.30
179 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (178 bp):
TGGACAAAAGGTATCGACACAAATTCAAAAAGTGTCGATACATTATGCTGACATATGTTCTTATA
AAACCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
TGTTATTGGGATCGATACTTTTAGAAAATGTATCGACACTTTATATTC
Found at i:1705273 original size:34 final size:35
Alignment explanation
Indices: 1705216--1705299 Score: 134
Period size: 34 Copynumber: 2.4 Consensus size: 35
1705206 ATTGCCCAGA
*
1705216 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCTC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1705251 GGGAACAGATTCCCCCCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
* *
1705285 TGGTACAGATTCCCC
1 GGGAACAGATTCCCC
1705300 TCTGCATGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 28 0.61
35 18 0.39
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.20
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:1705439 original size:21 final size:21
Alignment explanation
Indices: 1705413--1705454 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1705403 ATTTGAATAT
*
1705413 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1705434 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1705455 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1708647 original size:34 final size:35
Alignment explanation
Indices: 1708585--1708666 Score: 139
Period size: 34 Copynumber: 2.4 Consensus size: 35
1708575 ATTGCCCAGA
1708585 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
1708620 GGGAACAGATTCCCCTCA-GGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
*
1708654 GGGTACAGATTCC
1 GGGAACAGATTCC
1708667 GCCTGCATGG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
34 28 0.62
35 17 0.38
ACGTcount: A:0.21, C:0.32, G:0.28, T:0.20
Consensus pattern (35 bp):
GGGAACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:1708807 original size:21 final size:21
Alignment explanation
Indices: 1708781--1708822 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1708771 ATTTGAATAT
*
1708781 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1708802 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1708823 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1709133 original size:30 final size:33
Alignment explanation
Indices: 1709105--1709174 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
1709095 TTTTGTAAAT
*
1709105 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAA-CTA
* **
1709139 GGGAAAGGTTCTAGTTTAGCCCG-AAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAACTA
1709171 GGGA
1 GGGA
1709175 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 4 0.12
34 21 0.66
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTTAGCCCGTGTAAAACTA
Found at i:1709851 original size:200 final size:199
Alignment explanation
Indices: 1709487--1710254 Score: 999
Period size: 200 Copynumber: 3.8 Consensus size: 199
1709477 GTGTAATTTA
* * * *
1709487 AAAACGTATCGACACAAATTT-AAAAGTGTCGATACAATATGTTAACATATTTTCTCATAAAACC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAATC
* * * *
1709551 GGTATATTTATACCAGTTACATTGTAAATTTACATATTACATTATAATTTTCGATTTCGATGTTT
65 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
* *
1709616 TTTGGATCGATATTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTTGCATTCATTC
130 TTTGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTAGCATTCATTC
*
1709681 TGAAC
195 TGGAC
* *
1709686 AAAATGTATCGACACAAATATAAAAAGTGTCGATATATTATGTTCACCTATTTTCTCATAAAATC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTT-ACCTATTTTCTCATAAAATC
* * * * *
1709751 GATATACTTACACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT-ATT
65 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
* * * *
1709815 TTTGAGATCGATACTTTTAAAAAATGTATCGACACTTTATGTGTGCACCCCGTTTGGCATTCATT
130 TTTG-GATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTAGCATTCATT
*
1709880 ATGGAC
194 CTGGAC
*
1709886 AAAATGTATCGACACAAATTTAAACAGTGTCGATACATTATGTATACCTATTTTCTCATAAAATC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGT-TACCTATTTTCTCATAAAATC
* * *
1709951 -AGTATATTTATATCGGCTACATTGTATATTTACCTATTACATTATAATTTTCGGTTTCGATGTT
65 GA-TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTT
** * * * * * * * *
1710015 TTTTGGATCGATACAATTT-TAAATGTATCGACACTTTTATGCATGAAACTCATTGAGC--TAAG
129 TTTTGGATCGATACTTTTTATAAATGTATCGACAC-TTTATGCGTGCACCCCGTTTAGCATTCAT
*
1710077 GCTCGGAC
193 TCT-GGAC
* * * * * *
1710085 AAAAAGTATCGACACAAATTTAAAAGGTTTCGATACTTTATACTGACCTATTTTCTCATAAAATC
1 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTAT-GTTACCTATTTTCTCATAAAATC
* * *
1710150 GGTATATTTATACCGATCACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
65 GATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTT
1710215 TTTGGATCGATACTTTTTATAAATGTATCGACACTTTATG
130 TTTGGATCGATACTTTTTATAAATGTATCGACACTTTATG
1710255 GGAAACTTTA
Statistics
Matches: 494, Mismatches: 65, Indels: 20
0.85 0.11 0.03
Matches are distributed among these distances:
198 3 0.01
199 180 0.36
200 304 0.62
201 7 0.01
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (199 bp):
AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTACCTATTTTCTCATAAAATCG
ATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTTCGATGTTTT
TTGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTAGCATTCATTCT
GGAC
Found at i:1710230 original size:399 final size:398
Alignment explanation
Indices: 1709487--1710254 Score: 1060
Period size: 399 Copynumber: 1.9 Consensus size: 398
1709477 GTGTAATTTA
*
1709487 AAAACGTATCGACACAAATTTAAAAGTGTCGATACAATATGTTAACATATTTTCTCATAAAACCG
1 AAAACGTATCGACACAAATTTAAAAGTGTCGATACAATATGTTAACATATTTTCTCATAAAACCA
*
1709552 GTATATTTATACCAGTTACATTGTAAATTTACATATTACATTATAATTTTCGATTTCGATGTTTT
66 GTATATTTATACCAGCTACATTGTAAATTTACATATTACATTATAATTTTCGATTTCGATGTTTT
*** * * * * ** * **
1709617 TTGGATCGATATTTTTTATAAATGTATCGACACTTTATGCGTGCACCCCGTTTTGCATTCATTCT
131 TTGGATCGATACAATTTATAAATGTATCGACACTTTATGCATGAAACCCATTGAGCA-TAAGGCT
* **
1709682 GAACAAAATGTATCGACACAAATATAAAAAGTGTCGATATATTATGTTCACCTATTTTCTCATAA
195 GAACAAAAAGTATCGACACAAATATAAAAAGTGTCGATATATTATACTCACCTATTTTCTCATAA
* * *
1709747 AATCGATATACTTACACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
260 AATCGATATACTTACACCGATCACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
1709812 ATTTTTGAGATCGATACTTTTAAAAAATGTATCGACACTTTATGTGTGCACCCCGTTTGGCATTC
325 ATTTTTGAGATCGATACTTTTAAAAAATGTATCGACACTTTATGTGTGCACCCCGTTTGGCATTC
1709877 ATTATGGAC
390 ATTATGGAC
* * * *
1709886 AAAATGTATCGACACAAATTTAAACAGTGTCGATACATTATG-TATACCTATTTTCTCATAAAAT
1 AAAACGTATCGACACAAATTTAAA-AGTGTCGATACAATATGTTA-ACATATTTTCTCATAAAAC
* * * * *
1709950 CAGTATATTTATATCGGCTACATTGTATATTTACCTATTACATTATAATTTTCGGTTTCGATGTT
64 CAGTATATTTATACCAGCTACATTGTAAATTTACATATTACATTATAATTTTCGATTTCGATGTT
*
1710015 TTTTGGATCGATACAATTT-TAAATGTATCGACACTTTTATGCATGAAACTCATTGAGC-TAAGG
129 TTTTGGATCGATACAATTTATAAATGTATCGACAC-TTTATGCATGAAACCCATTGAGCATAAGG
* * * * *
1710078 CTCGGACAAAAAGTATCGACACAAATTTAAAAGGTTTCGATACT-TTATACTGACCTATTTTCTC
193 CT-GAACAAAAAGTATCGACACAAATATAAAAAGTGTCGATA-TATTATACTCACCTATTTTCTC
* * * *
1710142 ATAAAATCGGTATATTTATACCGATCACATTGTAAATTTACCTATTACATTATAATTTTCGGTTT
256 ATAAAATCGATATACTTACACCGATCACATTGTAAATTTACCTATTACATTATAATTATCGGTTT
* * *
1710207 CGATGTTTTTTG-GATCGATACTTTTTATAAATGTATCGACACTTTATG
321 CGAT-ATTTTTGAGATCGATACTTTTAAAAAATGTATCGACACTTTATG
1710255 GGAAACTTTA
Statistics
Matches: 321, Mismatches: 42, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
398 4 0.01
399 187 0.58
400 130 0.40
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (398 bp):
AAAACGTATCGACACAAATTTAAAAGTGTCGATACAATATGTTAACATATTTTCTCATAAAACCA
GTATATTTATACCAGCTACATTGTAAATTTACATATTACATTATAATTTTCGATTTCGATGTTTT
TTGGATCGATACAATTTATAAATGTATCGACACTTTATGCATGAAACCCATTGAGCATAAGGCTG
AACAAAAAGTATCGACACAAATATAAAAAGTGTCGATATATTATACTCACCTATTTTCTCATAAA
ATCGATATACTTACACCGATCACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATA
TTTTTGAGATCGATACTTTTAAAAAATGTATCGACACTTTATGTGTGCACCCCGTTTGGCATTCA
TTATGGAC
Found at i:1710509 original size:18 final size:18
Alignment explanation
Indices: 1710486--1710522 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1710476 CGAAATTTAT
1710486 ATTGAAATTTAAACTCAA
1 ATTGAAATTTAAACTCAA
*
1710504 ATTGAAATTTAAATTCAA
1 ATTGAAATTTAAACTCAA
1710522 A
1 A
1710523 CTCCAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (18 bp):
ATTGAAATTTAAACTCAA
Found at i:1713997 original size:200 final size:199
Alignment explanation
Indices: 1713343--1714385 Score: 1234
Period size: 200 Copynumber: 5.2 Consensus size: 199
1713333 TTTTAAAATG
* * * * * * *
1713343 GTATCAACACAAATTT-AACAATTGTCGATACTTTATGTTGACTTATTTTCTCATAAAACCGGTA
1 GTATCGACACAAATTTCAA-AAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
* ** * ** * * * * *
1713407 TATTTATGCCTATTATATTGGAAATTTACCTATTACATTTTAATTATCGGTTTCGATATTTTTGG
65 TATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGG
* * * * *
1713472 GATCGACACTTTTTAAAAATGTATCGATACTTAATGGGTGCACCATTTT-GGCATTCCTTCTGGA
130 GATCGTCACTTTTTAAAAATGTATCGACACTTTA-GGGTTCACCATTTTGGGCATTCATTCTGGA
1713536 CAAAAA
194 CAAAAA
* * * * *
1713542 GTATCGACACAAATTCCAAAAGTGTCAATACATTTTCTAGACCTATTCTCGCATAAAACCGGTAT
1 GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * * ** *
1713607 ATTTTTACCGGTTATATTGA-AAAATTACCTATTACATTATAATCATCAGTTTCGAA-GTTTCTG
66 ATTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTC-AATGTTTTTG
* * * * **
1713670 GAATCGAT-ACTTTTTTATAAATGTATCGACACTTTATGCTTGCACCATTTTTTTTGCATTCATT
129 GGATCG-TCAC-TTTTTAAAAATGTATCGACACTTTAGGGTT-CACCA--TTTTGGGCATTCATT
*
1713734 CTGGACAAAAT
189 CTGGACAAAAA
* * * *
1713745 GTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGATAT
1 GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* *
1713810 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTCTCTGGG
66 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGGG
* *
1713875 ATCGTCACTTTTTAAAAATGTATCGACACTTTAGGTGTTCACCATTTTGGGAATTCATTATGGAC
131 ATCGTCACTTTTTAAAAATGTATCGACACTTTAGG-GTTCACCATTTTGGGCATTCATTCTGGAC
1713940 AAAAA
195 AAAAA
* * *
1713945 GTATCGACACCAATTTCAAATGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCGGTAT
1 GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * * * * *
1714010 ATTTATACTGGTTACATTACAAAATTACCTATTACATTATAGTAATGGGTTTCGATATCTTTGGG
66 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGGG
* * * * *
1714075 ATCGACACTTTTAAAAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGGAC
131 ATCGTCACTTTTTAAAAATGTATCGACACTTTA-GGGTTCACCATTTTGGGCATTCATTCTGGAC
*
1714140 AAACA
195 AAAAA
* * *
1714145 GTATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
* * ** *
1714210 AGTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGGG
66 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGGG
* * *
1714275 ATCGAT-ACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTTGGCATTCATTCTGGA
131 ATCG-TCACTTTTTAAAAATGTATCGACACTTTA-GGGTTCACCATTTTGGGCATTCATTCTGGA
1714339 CAAAAA
194 CAAAAA
* *
1714345 GTATCGACACCAATTTCAAAAGTGTCAATACATTATGTAGA
1 GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGA
1714386 TTTTGTAAAT
Statistics
Matches: 722, Mismatches: 107, Indels: 29
0.84 0.12 0.03
Matches are distributed among these distances:
199 108 0.15
200 439 0.61
201 2 0.00
202 38 0.05
203 135 0.19
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (199 bp):
GTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTTTTGGG
ATCGTCACTTTTTAAAAATGTATCGACACTTTAGGGTTCACCATTTTGGGCATTCATTCTGGACA
AAAA
Found at i:1714241 original size:400 final size:400
Alignment explanation
Indices: 1713337--1714385 Score: 1360
Period size: 400 Copynumber: 2.6 Consensus size: 400
1713327 CGCGAATTTT
* * * * * * * *
1713337 AAAATGGTATCAACACAAATTTAACAATTGTCGATACTTTATGTTGACTTATTTTCTCATAAAAC
1 AAAAT-GTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * * * * * *
1713402 CGGTATATTTATGCCTA-TTATATTGGAAATTTACCTATTACATTTTAATTATCGGTTTCGATAT
65 CGGTATATTTATACC-AGTTACATTGCAAATTTACCTATTACATTATAATTATGGGTTTCAATGT
* * * * *
1713466 TTTTGGGATCGACACTTTTTAAAAATGTATCGATACTTAATGGGTGCACCATTTTGGCATTCCTT
129 TTTTGGGATCGTCACTTTTTAAAAATGTATCGACACTTTA-GGGTTCACCATTTTGGCATTCATT
* * * * *
1713531 CTGGACAAAAAGTATCGACACAAATTCCAAAAGTGTCAATACATTTTCTAGACCTATTCTCGCAT
193 CTGGACAAAAAGTATCGACACCAATTTCAAAAGTGTCAATACATTATGTAGACCTATTCTCACAT
* * *
1713596 AAAACCGGTATATTTTTACCGGTTATATTGAAAAATTACCTATTACATTATAATCATCAGTTTCG
258 AAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATAATCAGTTTCG
* * * * * **
1713661 AAGTTTCTGGAATCGATACTTTTTTATAAATGTATCGACACTTTATGCTTGCACCATTTTTTTTG
323 AAGTTTCTGGAATCGACACTTTTTAAAAAATGTATCGACACTTTATGCGTGCACCA-CTTTTGGG
1713726 CATTCATTCTGGAC
387 CATTCATTCTGGAC
* *
1713740 AAAATGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAATC
1 AAAATGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
* * * * *
1713805 GATATATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTCT
66 GGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATGGGTTTCAATGTTT
* * *
1713870 CTGGGATCGTCACTTTTTAAAAATGTATCGACACTTTAGGTGTTCACCATTTTGGGAATTCATTA
131 TTGGGATCGTCACTTTTTAAAAATGTATCGACACTTTAGG-GTTCACCATTTT-GGCATTCATTC
* *
1713935 TGGACAAAAAGTATCGACACCAATTTCAAATGTGTCGATACATTATGTAGACCTATTCTCACATA
194 TGGACAAAAAGTATCGACACCAATTTCAAAAGTGTCAATACATTATGTAGACCTATTCTCACATA
* * * **
1714000 AAATCGGTATATTTATACTGGTTACATT-ACAAAATTACCTATTACATTATAGTAATGGGTTTCG
259 AAACCGGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATAATCAGTTTCG
* *
1714064 ATA-TCTT-TGGGATCGACAC-TTTTAAAAAATGTATCGACACTTTATGGGTGCACC-CTTTTGG
323 A-AGT-TTCTGGAATCGACACTTTTTAAAAAATGTATCGACACTTTATGCGTGCACCACTTTTGG
*
1714125 GCATTCCTTCTGGAC
386 GCATTCATTCTGGAC
* *
1714140 AAACA-GTATCGACAC-AAATTCCAGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
1 AAA-ATGTATCGACACAAAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA
* *
1714203 CCGGTATAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCAATGT
64 CCGGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATGGGTTTCAATGT
* *
1714268 TTTTGGGATCGAT-ACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTTGGCATTCA
129 TTTTGGGATCG-TCACTTTTTAAAAATGTATCGACACTTTA-GGGTTCACCA-TTTTGGCATTCA
1714332 TTCTGGACAAAAAGTATCGACACCAATTTCAAAAGTGTCAATACATTATGTAGA
191 TTCTGGACAAAAAGTATCGACACCAATTTCAAAAGTGTCAATACATTATGTAGA
1714386 TTTTGTAAAT
Statistics
Matches: 562, Mismatches: 73, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
399 5 0.01
400 229 0.41
401 9 0.02
402 179 0.32
403 137 0.24
404 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (400 bp):
AAAATGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
GGTATATTTATACCAGTTACATTGCAAATTTACCTATTACATTATAATTATGGGTTTCAATGTTT
TTGGGATCGTCACTTTTTAAAAATGTATCGACACTTTAGGGTTCACCATTTTGGCATTCATTCTG
GACAAAAAGTATCGACACCAATTTCAAAAGTGTCAATACATTATGTAGACCTATTCTCACATAAA
ACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATAATCAGTTTCGAAG
TTTCTGGAATCGACACTTTTTAAAAAATGTATCGACACTTTATGCGTGCACCACTTTTGGGCATT
CATTCTGGAC
Found at i:1715441 original size:18 final size:18
Alignment explanation
Indices: 1715414--1715468 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
1715404 CCTCATTTCC
1715414 TCCATCTTTTCTTCTTCA
1 TCCATCTTTTCTTCTTCA
* *
1715432 TCCCTCTTTTCTTCTTCC
1 TCCATCTTTTCTTCTTCA
* *
1715450 TCTATCTTTTATTCTTCA
1 TCCATCTTTTCTTCTTCA
1715468 T
1 T
1715469 ATTATTCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (18 bp):
TCCATCTTTTCTTCTTCA
Found at i:1715741 original size:21 final size:21
Alignment explanation
Indices: 1715716--1715759 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1715706 CCCCTTATGC
1715716 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
1715737 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
1715758 CT
1 CT
1715760 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:1718468 original size:182 final size:182
Alignment explanation
Indices: 1718161--1718833 Score: 1023
Period size: 182 Copynumber: 3.7 Consensus size: 182
1718151 TACGCGTACT
* * *
1718161 TATTAAAGTATCGACACTTTCAATATATTCGGT-GCCTCTTTACCGGTTTTGTCATTTCGAGACC
1 TATTAAAGTATCGACACTTTCAATATATTCGGTCG-CTCTATACCGGTTTTGTCCTTTAGAGACC
* * * *
1718225 GGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCAATACATTTTTATAAAGTATCGACAC
65 GATTTTGTCATATTTTTACATGTTATATCGTTGTGGATCAATACATTGTTATAAAGTATCGACAC
1718290 TTTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
1718343 TATTAAAGTATCGACACTTTCAATATATTCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATTCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
* *
1718408 ATTTTGTCATATTTTTACATGTTATATCGTTGTGGATCAATATATTGTTATGAAGTATCGACACT
66 ATTTTGTCATATTTTTACATGTTATATCGTTGTGGATCAATACATTGTTATAAAGTATCGACACT
*
1718473 TTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTTGATACTTA
131 TTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* *
1718525 TATTAAAGTATCGACACTTTCAATATATTCAGTCGCTCTATACCGGTTTTGTCCTTTAGAGACTG
1 TATTAAAGTATCGACACTTTCAATATATTCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
* * *
1718590 ATTTTGTTATATTTTTACATGTTATATCATTGTGGATCGATACATTGTTATAAAGTATCGACACT
66 ATTTTGTCATATTTTTACATGTTATATCGTTGTGGATCAATACATTGTTATAAAGTATCGACACT
*
1718655 TTATAGGCGCTAAAAAT-ATTTCTCTTTTAAATTCACAAAGTG-CGATACTTA
131 TTATAGGCGCTAAAACTGA-TTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * ** *
1718706 TATTAAAGTATCGACACTTTCAATATA-TCTGGTAGCACTTTATAGGTTTTGTCTTTTCA-AGAC
1 TATTAAAGTATCGACACTTTCAATATATTC-GGTCGCTCTATACCGGTTTTGTCCTTT-AGAGAC
* * * * * *
1718769 CGGTTTTGTCATATTTTTACTTGTTATATTGATGTGGATCGATACATTTTTATAAAGTATCGACA
64 CGATTTTGTCATATTTTTACATGTTATATCGTTGTGGATCAATACATTGTTATAAAGTATCGACA
1718834 TAAACAGACA
Statistics
Matches: 453, Mismatches: 34, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
180 2 0.00
181 117 0.26
182 333 0.74
183 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATTCGGTCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
ATTTTGTCATATTTTTACATGTTATATCGTTGTGGATCAATACATTGTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:1719492 original size:103 final size:106
Alignment explanation
Indices: 1719366--1719580 Score: 373
Period size: 104 Copynumber: 2.1 Consensus size: 106
1719356 AAGAGTGGTA
1719366 AAAATCAATTTTCAAAGATCAATAAGTAAGTTTAAA-TTTTTTAAAATTTAATGAGTAAAATAAG
1 AAAATCAATTTTCAAAGATCAATAAGTAAGTTTAAATTTTTTTAAAATTTAATGAGTAAAATAAG
* *
1719430 AAAGATAAGTTGATTAGTGATTTATGTAATTCACTTAAAAT
66 AAAGATAAATTGATTAGTGATTTATGTAATTCACCTAAAAT
* *
1719471 TAAATCAA-TTT-AATGATCAATAAGTAAGTTTAAATTTTTTTAAAATTTAATGAGTAAAATAAG
1 AAAATCAATTTTCAAAGATCAATAAGTAAGTTTAAATTTTTTTAAAATTTAATGAGTAAAATAAG
1719534 AAAGATAAATTGATTAGTGATTTATGTAATTCACCTAAAAT
66 AAAGATAAATTGATTAGTGATTTATGTAATTCACCTAAAAT
1719575 AAAATC
1 AAAATC
1719581 GCATCAAATA
Statistics
Matches: 104, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
103 22 0.21
104 75 0.72
105 7 0.07
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (106 bp):
AAAATCAATTTTCAAAGATCAATAAGTAAGTTTAAATTTTTTTAAAATTTAATGAGTAAAATAAG
AAAGATAAATTGATTAGTGATTTATGTAATTCACCTAAAAT
Found at i:1722301 original size:29 final size:29
Alignment explanation
Indices: 1722231--1722386 Score: 170
Period size: 30 Copynumber: 5.2 Consensus size: 29
1722221 ATGTAATAAA
1722231 TTAAGATAAGAATAAAATATATTTTTTAAG
1 TTAAGATAAGAATAAAATATA-TTTTTAAG
*
1722261 TTAAGATAAAGACTAAAATATATTTTTAAG
1 TTAAGAT-AAGAATAAAATATATTTTTAAG
* *
1722291 TTAAAATAAGAATAAAATATATTTTTAGG
1 TTAAGATAAGAATAAAATATATTTTTAAG
* * * * *
1722320 TTAATACAAAAATAAAACATATTTAATAAG
1 TTAAGATAAGAATAAAATATATTT-TTAAG
* *
1722350 TTAATATCAA-AATTAAATATATTTTTAATG
1 TTAAGAT-AAGAATAAAATATATTTTTAA-G
1722380 TTAAGAT
1 TTAAGAT
1722387 GTAAAATTAA
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
29 43 0.40
30 49 0.46
31 15 0.14
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (29 bp):
TTAAGATAAGAATAAAATATATTTTTAAG
Found at i:1722353 original size:59 final size:60
Alignment explanation
Indices: 1722224--1722385 Score: 186
Period size: 59 Copynumber: 2.7 Consensus size: 60
1722214 TTAATTTATG
* * * * *
1722224 TAATAAATTAAGATAAGAATAAAATATATTTTTTAAGTTAAGATAAAGACTAAAATATATT
1 TAATAAGTTAAAATAAGAATAAAATATA-TTTTTAAGTTAAGACAAAGAATAAAACATATT
* * *
1722285 T-TTAAGTTAAAATAAGAATAAAATATATTTTTAGGTTAATACAAA-AATAAAACATATT
1 TAATAAGTTAAAATAAGAATAAAATATATTTTTAAGTTAAGACAAAGAATAAAACATATT
* *
1722343 TAATAAGTTAATATCAA-AATTAAATATATTTTTAATGTTAAGA
1 TAATAAGTTAAAAT-AAGAATAAAATATATTTTTAA-GTTAAGA
1722386 TGTAAAATTA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
58 12 0.14
59 41 0.48
60 31 0.36
61 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.38
Consensus pattern (60 bp):
TAATAAGTTAAAATAAGAATAAAATATATTTTTAAGTTAAGACAAAGAATAAAACATATT
Found at i:1722401 original size:18 final size:18
Alignment explanation
Indices: 1722374--1722422 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
1722364 AAATATATTT
1722374 TTAATGTTAAGATGTAAAA
1 TTAAT-TTAAGATGTAAAA
* * *
1722393 TTAATTTAATATGTGAAT
1 TTAATTTAAGATGTAAAA
*
1722411 TTAAGTTAAGAT
1 TTAATTTAAGAT
1722423 TTATAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (18 bp):
TTAATTTAAGATGTAAAA
Found at i:1724302 original size:88 final size:88
Alignment explanation
Indices: 1724190--1724377 Score: 367
Period size: 88 Copynumber: 2.1 Consensus size: 88
1724180 ATGTAATTAG
1724190 TGCATCGATACACCCCCTTAAAATGAAAACATCGAATGTAAATCATGTACCGATGCATGGGTAGT
1 TGCATCGATACACCCCCTTAAAATGAAAACATCGAATGTAAATCATGTACCGATGCATGGGTAGT
1724255 GCATCGATGCACATGTTAAAGGA
66 GCATCGATGCACATGTTAAAGGA
1724278 TGCATCGATACACCCCCTTAAAATGAAAACATCGAATGTAAATCATGTACCGATGCATGGGTAGT
1 TGCATCGATACACCCCCTTAAAATGAAAACATCGAATGTAAATCATGTACCGATGCATGGGTAGT
*
1724343 GCATCGATGCACCTGTTAAAGGA
66 GCATCGATGCACATGTTAAAGGA
1724366 TGCATCGATACA
1 TGCATCGATACA
1724378 TTGTGCAATG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 99 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (88 bp):
TGCATCGATACACCCCCTTAAAATGAAAACATCGAATGTAAATCATGTACCGATGCATGGGTAGT
GCATCGATGCACATGTTAAAGGA
Found at i:1725354 original size:23 final size:23
Alignment explanation
Indices: 1725301--1725387 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 23
1725291 AATCTTATAT
* *
1725301 GGCACTACGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
1725324 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
* * *
1725347 GGTC-CTTCGG-GATAATTTCTATGT
1 GG-CACTTCGGTG-CAA-TTCTACGC
1725371 GGCACTTCGGTGCAATT
1 GGCACTTCGGTGCAATT
1725388 TATACGAGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 1 0.02
23 32 0.63
24 17 0.33
25 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:1726128 original size:21 final size:22
Alignment explanation
Indices: 1726102--1726143 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1726092 TAGCAGTACC
*
1726102 GTAGCA-GGGTATCGGTTCCCT
1 GTAGCAGGGGAATCGGTTCCCT
1726123 GTAGCAGGGGAATCGGTTCCC
1 GTAGCAGGGGAATCGGTTCCC
1726144 CTCTTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.24, G:0.36, T:0.24
Consensus pattern (22 bp):
GTAGCAGGGGAATCGGTTCCCT
Found at i:1731329 original size:3 final size:3
Alignment explanation
Indices: 1731309--1731360 Score: 63
Period size: 3 Copynumber: 17.0 Consensus size: 3
1731299 TTTGGGCATG
1731309 TAA T-A TAA TAA -AA TTAA TAA TAAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA
1731355 TAA TAA
1 TAA TAA
1731361 AAAACCAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
2 4 0.09
3 32 0.73
4 8 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1731341 original size:22 final size:21
Alignment explanation
Indices: 1731313--1731364 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 21
1731303 GGCATGTAAT
1731313 ATAATAAAATTAATAATAAATA
1 ATAATAAAA-TAATAATAAATA
1731335 ATAATAATAATAATAATAAATA
1 ATAATAA-AATAATAATAAATA
1731357 ATAA-AAAA
1 ATAATAAAA
1731365 CCAAATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 23 0.79
23 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATAAAATAATAATAAATA
Found at i:1731843 original size:113 final size:113
Alignment explanation
Indices: 1731698--1732605 Score: 1152
Period size: 113 Copynumber: 8.0 Consensus size: 113
1731688 GGCTTCATAT
* * *
1731698 GTGATGAA-TTAAGGC--AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCA
1 GTGATGAATTTAA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
1731760 GATGAGTTCTTCTCATTATGAACTCTCTTTGGAAAAGTTAATCCATCAA
65 GATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAA
* *
1731809 GTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
1731874 ATGAGTTCTTCTCATTATGAACACT-TCTGGAAATGTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAA
* * *
1731921 GTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
1731986 ATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAATGCTGATTCATCGAA
66 ATGAGTTCTTCTCATTATGAACTCTCTCTGG-AAATGTTGATCCATC-AA
* * * *
1732036 -TGATGAATTCAAGCGAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAA
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
1732100 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGTATGCTAATATATCTCCTTC-T
66 ATGAGTTCTTCTCATTATGAACTCTCTCTGG-AAA-TGT-TG-------A--TCCATCAA
* * * * * *
1732159 GTGATAAAGTCATGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAG
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
1732223 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAA
* * *
1732271 GTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
1732336 ATAAGCTCTTCTCATTATGAACTTTCTCTGGAAATTTTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAA
* * *
1732384 GTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
1732449 ATGAGTTCTTCTCATTATGAACTCGAC-CTGGCAATTTTGATCCATCGAA
66 ATGAGTTCTTCTCATTATGAACTC-TCTCTGGAAATGTTGATCCATC-AA
* * * * *
1732498 -TGATGAATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTACTCCTTCAG
1 GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
**
1732562 ATGAGTTCTTCTCATTATGAACTCT-TCCAGAAATGTTGATCCAT
66 ATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCAT
1732606 TGAATGATGG
Statistics
Matches: 705, Mismatches: 69, Indels: 45
0.86 0.08 0.05
Matches are distributed among these distances:
111 15 0.02
112 168 0.24
113 311 0.44
114 107 0.15
115 4 0.01
116 2 0.00
120 2 0.00
121 2 0.00
122 3 0.00
123 38 0.05
124 49 0.07
125 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
GTGATGAATTTAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTCTCTCTGGAAATGTTGATCCATCAA
Found at i:1732286 original size:350 final size:337
Alignment explanation
Indices: 1731698--1732621 Score: 1189
Period size: 350 Copynumber: 2.7 Consensus size: 337
1731688 GGCTTCATAT
* * * *
1731698 GTGATGAATTAAG-GCAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGA
1 GTGATGAATTAAGCGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* * * *
1731762 TGAGTTCTTCTCATTATGAACTCTCTTTGGAAAAGTTAATCCATCAAGTGATGAATTCAAGCAAA
66 TGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTAATCCATCAAGTGATAAAGTCAAGAAAA
*
1731827 AGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
131 AGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
*
1731892 GAACACTTCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTC
196 GAACACTTCTGGAAATGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTC
* *
1731957 TCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAT
261 TCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAACTCTCTCTGG-AAAT
*
1732022 GCTGATTCATCGAA
325 GCTGATCCATC-AA
* *
1732036 -TGATGAATTCAAGCGAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAA
1 GTGATGAATT-AAGCGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
1732100 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGTATGCTAATATATCTCCTTC-TGTGAT
65 ATGAGTTCTTCTCATTATGAACTCTCTCTGG-AAA----A-G-T--TA-A--TCCATCAAGTGAT
* *
1732164 AAAGTCATGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAG
118 AAAGTCAAGAAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
**
1732228 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
183 TTCTTCTCATTATGAACACT-TCTGGAAATGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGT
1732293 TGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAAC
247 TGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAAC
* **
1732358 TTTCTCTGGAAATTTTGATCCATCAA
312 TCTCTCTGGAAATGCTGATCCATCAA
* * * *
1732384 GTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGAT-GAATTAAGCGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * ** * * * **
1732449 ATGAGTTCTTCTCATTATGAACTCGAC-CTGGCAATTTTGATCCATCGAA-TGATGAATTTGAGC
65 ATGAGTTCTTCTCATTATGAACTC-TCTCTGGAAAAGTTAATCCATC-AAGTGATAAAGTCAAG-
* * *
1732512 AAAAA-GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTACTCCTTCAGATGAGTTCTTCTCA
127 AAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* ** * *
1732576 TTATGAACTCTTCCAGAAATGTTGATCCATTGAA-TGATGGATTTGA
192 TTATGAACACTTCTGGAAATGCTGATCCA-TCAAGTGATGGATTTGA
1732622 ACTTTGCTAA
Statistics
Matches: 512, Mismatches: 51, Indels: 46
0.84 0.08 0.08
Matches are distributed among these distances:
337 14 0.03
338 74 0.14
339 112 0.22
340 4 0.01
342 1 0.00
344 1 0.00
345 1 0.00
346 1 0.00
348 6 0.01
349 123 0.24
350 170 0.33
351 5 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (337 bp):
GTGATGAATTAAGCGAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTAATCCATCAAGTGATAAAGTCAAGAAAA
AGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACACTTCTGGAAATGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAACTCTCTCTGGAAATG
CTGATCCATCAA
Found at i:1732578 original size:462 final size:463
Alignment explanation
Indices: 1731713--1732584 Score: 1426
Period size: 462 Copynumber: 1.9 Consensus size: 463
1731703 GAATTAAGGC
* *
1731713 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCCTCTTCAGATGAGTTCTTCTCATTA
* * *
1731778 TGAACTCTCTTTGGAAAAGTTAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCT
66 TGAACTCTCTCTGGAAAAGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGCTCT
* *
1731843 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAAT
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAACACTTCTGGAAAT
1731908 GTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
196 GTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
* *
1731973 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAATGCTGATTCATCGAATG
261 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCACTCTGGAAAATGCTGATCCATCGAATG
* * * * * *
1732038 ATGAATTCAAGCGAAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATG
326 ATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTACTCCTTCAAATG
1732103 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGTATGCTAATATATCTCCTTCTGTGATAAAG
391 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGTATGCTAATATATCTCCTTCTGTGATAAAG
1732168 TCATGAAA
456 TCATGAAA
1732176 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TTCCTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * * ** *
1732240 TGAACTTTCTCTGGAAATGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCT
66 TGAACTCTCTCTGGAAAAGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGCTCT
**
1732305 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAACTTTCTCTGGAAA
131 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAACACT-TCTGGAAA
*
1732370 TTTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
195 TGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
* **
1732435 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC-CTGG-CAATTTTGATCCATCGAA
260 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-ACTCTGGAAAATGCTGATCCATCGAA
** *
1732498 TGATGAATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTACTCCTTCAGA
324 TGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTACTCCTTCAAA
1732563 TGAGTTCTTCTCATTATGAACT
389 TGAGTTCTTCTCATTATGAACT
1732585 CTTCCAGAAA
Statistics
Matches: 376, Mismatches: 31, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
462 226 0.60
463 149 0.40
464 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (463 bp):
AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCCTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTCTCTGGAAAAGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGCTCT
TCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGCTCTTCTCATTATGAACACTTCTGGAAAT
GTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTT
CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCACTCTGGAAAATGCTGATCCATCGAATG
ATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTACTCCTTCAAATG
AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTGTATGCTAATATATCTCCTTCTGTGATAAAG
TCATGAAA
Found at i:1733046 original size:22 final size:22
Alignment explanation
Indices: 1733021--1733075 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1733011 GATAAAGCTT
*
1733021 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
1733043 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1733065 TCATCTTTGAA
1 TCATCTTTGAA
1733076 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1733528 original size:54 final size:54
Alignment explanation
Indices: 1733446--1733597 Score: 259
Period size: 54 Copynumber: 2.8 Consensus size: 54
1733436 TAGCAGGTTT
* *
1733446 GTAAAACATTTGACAACGCATTCATCCTTTCTTGTGGCTTCTGCTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
* *
1733500 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTTCAGATGTTC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
*
1733554 GTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1733598 CAAGATTTCT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (54 bp):
GTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGATGTTC
Found at i:1734686 original size:35 final size:34
Alignment explanation
Indices: 1734647--1734719 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
1734637 CAACATTTTC
* * *
1734647 TTCTTGTTGATATGAGCTTTTAAAATGCCCAAATA
1 TTCTTATTGAT-TGAGCCTTCAAAATGCCCAAATA
* *
1734682 TTCTTATTGCTTGAGCCTTCAAAATGCCCCAATA
1 TTCTTATTGATTGAGCCTTCAAAATGCCCAAATA
1734716 TTCT
1 TTCT
1734720 ATTTCTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (34 bp):
TTCTTATTGATTGAGCCTTCAAAATGCCCAAATA
Found at i:1738067 original size:41 final size:42
Alignment explanation
Indices: 1737996--1738086 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
1737986 TTTTTTTTCC
1737996 CTTTTTTCCTTTTTTCTCATTTTTCTTTTTTTCAACTTTTTT
1 CTTTTTTCCTTTTTTCTCATTTTTCTTTTTTTCAACTTTTTT
*
1738038 CTTTTTTCCTTTTTTCTCATTTTTC-TTTTTTCATCTTTTTT
1 CTTTTTTCCTTTTTTCTCATTTTTCTTTTTTTCAACTTTTTT
1738079 CTTTTTTC
1 CTTTTTTC
1738087 TTTCTTTGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 23 0.48
42 25 0.52
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (42 bp):
CTTTTTTCCTTTTTTCTCATTTTTCTTTTTTTCAACTTTTTT
Found at i:1738080 original size:17 final size:16
Alignment explanation
Indices: 1737988--1738089 Score: 93
Period size: 17 Copynumber: 6.2 Consensus size: 16
1737978 TTTTTCCTTT
*
1737988 TTTTTTCCCTTTTTTCC
1 TTTTTTCTCTTTTTT-C
*
1738005 TTTTTTCTCATTTTTC
1 TTTTTTCTCTTTTTTC
*
1738021 TTTTTTTCAACTTTTTTC
1 -TTTTTTC-TCTTTTTTC
1738039 TTTTTTC-CTTTTTTC
1 TTTTTTCTCTTTTTTC
*
1738054 TCATTTT-TCTTTTTTC
1 T-TTTTTCTCTTTTTTC
1738070 ATCTTTTT-TCTTTTTTC
1 -T-TTTTTCTCTTTTTTC
1738087 TTT
1 TTT
1738090 CTTTGCTGGA
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.15
16 14 0.19
17 42 0.57
18 7 0.09
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTCTCTTTTTTC
Found at i:1745630 original size:3 final size:3
Alignment explanation
Indices: 1745610--1745676 Score: 93
Period size: 3 Copynumber: 22.0 Consensus size: 3
1745600 TTTGGGCCTG
1745610 TAA T-A TAA TAA -AA TTAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
1745655 TAA TAAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA
1745677 ACCAAATGTA
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.07
3 47 0.80
4 8 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1745652 original size:25 final size:25
Alignment explanation
Indices: 1745614--1745676 Score: 110
Period size: 25 Copynumber: 2.5 Consensus size: 25
1745604 GGCCTGTAAT
1745614 ATAATAA-AATTAATAATAATAAATA
1 ATAATAATAA-TAATAATAATAAATA
1745639 ATAATAATAATAATAATAATAAATA
1 ATAATAATAATAATAATAATAAATA
1745664 ATAATAATAATAA
1 ATAATAATAATAA
1745677 ACCAAATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 35 0.95
26 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAATAATAATAATAATAATAAATA
Found at i:1751111 original size:33 final size:33
Alignment explanation
Indices: 1751071--1751180 Score: 184
Period size: 33 Copynumber: 3.3 Consensus size: 33
1751061 CTAAACCCGA
* * *
1751071 ACCCGACCTGAATATCACACTTAAAAAAACCCG
1 ACCCGACCCGAATATCAAACTTAAAAAAACCAG
1751104 ACCCGACCCGAATATCAAACTTAAAAAAACCAG
1 ACCCGACCCGAATATCAAACTTAAAAAAACCAG
*
1751137 ACCCGACCCGAATATCAAACTTAAAAAAACCAA
1 ACCCGACCCGAATATCAAACTTAAAAAAACCAG
1751170 ACCCGACCCGA
1 ACCCGACCCGA
1751181 CCCAATTTGT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.45, C:0.34, G:0.09, T:0.12
Consensus pattern (33 bp):
ACCCGACCCGAATATCAAACTTAAAAAAACCAG
Found at i:1751509 original size:24 final size:24
Alignment explanation
Indices: 1751482--1751534 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
1751472 TTTGGTTGGG
1751482 GGAATGTGAGATTCCCATGGGAAT
1 GGAATGTGAGATTCCCATGGGAAT
1751506 GGAATGTGAGATTCCCATGGGAAT
1 GGAATGTGAGATTCCCATGGGAAT
*
1751530 AGAAT
1 GGAAT
1751535 CCACATTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (24 bp):
GGAATGTGAGATTCCCATGGGAAT
Found at i:1752115 original size:20 final size:20
Alignment explanation
Indices: 1752090--1752127 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1752080 ATCATATTCT
1752090 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
1752110 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1752128 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1753051 original size:60 final size:60
Alignment explanation
Indices: 1752951--1753067 Score: 150
Period size: 60 Copynumber: 1.9 Consensus size: 60
1752941 ACCATTTAGT
* *
1752951 AACTTTTAATAGTCGAGTGACTCAATAAAGTAAATCCCTATAG-TCGATGGATCATTTTGC
1 AACTTTTAATAGTCAAATGACTCAATAAAGTAAATCCCTATAGTTCGA-GGATCATTTTGC
* *
1753011 AACTTTTAATAGTCAAATGACTCAATAAA-TCAGTAT-CCTATAGTTGGAGGATCATTT
1 AACTTTTAATAGTCAAATGACTCAATAAAGT-A-AATCCCTATAGTTCGAGGATCATTT
1753068 GTACACTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 1 0.02
60 44 0.88
61 5 0.10
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (60 bp):
AACTTTTAATAGTCAAATGACTCAATAAAGTAAATCCCTATAGTTCGAGGATCATTTTGC
Found at i:1753076 original size:60 final size:60
Alignment explanation
Indices: 1752930--1753076 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 60
1752920 AACATAATGA
* * *
1752930 ATAGTCGA-GTGACCATTTAGTA-ACTTTTAATAGTCGAGTGACTCAATAAAGTAAATCCCT
1 ATAGTCGATG-GATCATTT-GTACACTTTTAATAGTCAAATGACTCAATAAAGTAAATCCCT
* *
1752990 ATAGTCGATGGATCATTT-TGCAACTTTTAATAGTCAAATGACTCAATAAA-TCAGTAT-CCT
1 ATAGTCGATGGATCATTTGTAC-ACTTTTAATAGTCAAATGACTCAATAAAGT-A-AATCCCT
*
1753050 ATAGTTGGA-GGATCATTTGTACACTTT
1 ATAG-TCGATGGATCATTTGTACACTTT
1753077 ACCCAAATAA
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 63 0.86
61 8 0.11
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (60 bp):
ATAGTCGATGGATCATTTGTACACTTTTAATAGTCAAATGACTCAATAAAGTAAATCCCT
Found at i:1753313 original size:11 final size:11
Alignment explanation
Indices: 1753297--1753321 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1753287 TTTGTACACT
1753297 TTACCCAAATA
1 TTACCCAAATA
1753308 TTACCCAAATA
1 TTACCCAAATA
1753319 TTA
1 TTA
1753322 TTTAATCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
TTACCCAAATA
Found at i:1755926 original size:13 final size:13
Alignment explanation
Indices: 1755889--1755923 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1755879 ATTAAGTTGA
1755889 ATTATTTTAATTTT
1 ATTA-TTTAATTTT
1755903 ATTATTTAATTTT
1 ATTATTTAATTTT
1755916 A-TATTTAA
1 ATTATTTAA
1755924 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.33
13 10 0.48
14 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTTAATTTT
Found at i:1758706 original size:12 final size:12
Alignment explanation
Indices: 1758691--1758718 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1758681 TATTTAAGTA
1758691 ATTAATTATTTT
1 ATTAATTATTTT
1758703 ATTAATTATTTT
1 ATTAATTATTTT
1758715 ATTA
1 ATTA
1758719 TTTAATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTAATTATTTT
Found at i:1760906 original size:24 final size:24
Alignment explanation
Indices: 1760878--1760935 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1760868 AACAACGAGA
* *
1760878 AGGAGGAAGG-GGGTGAGGATGATG
1 AGGAGG-AGGAGGATGACGATGATG
1760902 AGGAGGAGGAGGATGACGATGATG
1 AGGAGGAGGAGGATGACGATGATG
* *
1760926 ATGATGAGGA
1 AGGAGGAGGA
1760936 TGACGAGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.33, C:0.02, G:0.52, T:0.14
Consensus pattern (24 bp):
AGGAGGAGGAGGATGACGATGATG
Found at i:1761793 original size:38 final size:35
Alignment explanation
Indices: 1761742--1761844 Score: 110
Period size: 32 Copynumber: 3.0 Consensus size: 35
1761732 AAGAAAAATA
*
1761742 TGTTTTAGGTGTATGTGTATGCGTATGCTTTTATTTAT
1 TGTTTTAGGTGTAT-TGTAT--GTATGCTTTTATTTAC
1761780 TGTTTTAGGTGTA-TGT-T-TATGCTTTTATTTAC
1 TGTTTTAGGTGTATTGTATGTATGCTTTTATTTAC
* *
1761812 TGTTTTAGATGTA---TATGTATGTTTTTATTTAC
1 TGTTTTAGGTGTATTGTATGTATGCTTTTATTTAC
1761844 T
1 T
1761845 ATTTAAGGCA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
30 1 0.02
31 1 0.02
32 41 0.68
35 1 0.02
36 3 0.05
38 13 0.22
ACGTcount: A:0.17, C:0.05, G:0.19, T:0.58
Consensus pattern (35 bp):
TGTTTTAGGTGTATTGTATGTATGCTTTTATTTAC
Found at i:1761801 original size:32 final size:32
Alignment explanation
Indices: 1761756--1761844 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 32
1761746 TTAGGTGTAT
* *
1761756 GTGTATGCGTATGCTTTTATTTATTGTTTTAG
1 GTGTATGTGTATGCTTTTATTTACTGTTTTAG
*
1761788 GTGTATGTTTATGCTTTTATTTACTGTTTTAG
1 GTGTATGTGTATGCTTTTATTTACTGTTTTAG
* * *
1761820 ATGTATATGTATGTTTTTATTTACT
1 GTGTATGTGTATGCTTTTATTTACT
1761845 ATTTAAGGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.58
Consensus pattern (32 bp):
GTGTATGTGTATGCTTTTATTTACTGTTTTAG
Found at i:1761936 original size:27 final size:26
Alignment explanation
Indices: 1761901--1761952 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1761891 GGTATGCTTC
*
1761901 ATGTCATGTTTAATAGTTTATTGTTTA
1 ATGTAATGTTT-ATAGTTTATTGTTTA
* *
1761928 ATGTAATGTTTATGGTTTGTTGTTT
1 ATGTAATGTTTATAGTTTATTGTTT
1761953 TTATAGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (26 bp):
ATGTAATGTTTATAGTTTATTGTTTA
Found at i:1763011 original size:83 final size:82
Alignment explanation
Indices: 1762827--1763370 Score: 563
Period size: 83 Copynumber: 6.6 Consensus size: 82
1762817 TCCATGTCAT
* * * *
1762827 AGTGTTTTCCTTTATTATTCAAAGAATCTCTATCATGTCATAGTGTTCCATCCATCCGAAATGAA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCATCTGAAATGAA
*
1762892 AGGCGCATTCTAGGGGA
66 AGGCGCGTTCTAGGGGA
* ** * * *
1762909 AGTATTTTATATTATTATTCAGAAAATCTTTATCATGTCATAGTGTTCCATCCGATCTGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCC-ATCTGAAATGA
*
1762974 AAGGCACGTTCTAGGGGA
65 AAGGCGCGTTCTAGGGGA
* * * *
1762992 AGTGTTTTTCATTATTATTCAGAAAATCTATGTCATGTCATAGTGTTCAATCCTATCTGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCC-ATCTGAAATGA
* *
1763057 AAGGCGCGTTTTAGGGAA
65 AAGGCGCGTTCTAGGGGA
* * * *
1763075 AGCGTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCTATCTGAAATAA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCC-ATCTGAAATGA
** * *
1763140 AATACACGTTC-CGGGGAA
65 AAGGCGCGTTCTAGGGG-A
** * ** * *
1763158 AGAATTTTCCATTATTATACAGAGAATCTCTGCCATATCATTGTGTTCAATCCCATCTGAAATGA
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAAT-CCATCTGAAATGA
* * *
1763223 AAGACGCGTTTTAGGTGA
65 AAGGCGCGTTCTAGGGGA
* **
1763241 A-TCGTTTTCCATTATTATTCAGAGAATCTATGA-CATGTCATAGTGTTCAATTCCATCCAAAAT
1 AGT-GTTTTCCATTATTATTCAGAGAATCTCT-ATCATGTCATAGTGTTCAA-TCCATCTGAAAT
* * * *
1763304 GAAAGGTGTGTTCCAAGGGA
63 GAAAGGCGCGTTCTAGGGGA
* * * * *
1763324 AGCGTTTTCCATTATTATTTAGAGAATCTATGTCATGTTATAGTGTT
1 AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTT
1763371 TCATATTTCA
Statistics
Matches: 386, Mismatches: 67, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
82 49 0.13
83 331 0.86
84 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (82 bp):
AGTGTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCAATCCATCTGAAATGAA
AGGCGCGTTCTAGGGGA
Found at i:1763280 original size:249 final size:248
Alignment explanation
Indices: 1762830--1763370 Score: 658
Period size: 249 Copynumber: 2.2 Consensus size: 248
1762820 ATGTCATAGT
* * * *
1762830 GTTTTCCTTTATTATTCAAAGAATCTCTATCATGTCATAGTGTTCCATCCATCCGAAATGAAAGG
1 GTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCCATCCATCCGAAATAAAAGA
* * * * * * * *
1762895 CGCATTCTAGGGGAAGTATTTTATATTATTATTCAGAAAATCTTTATCATGTCATAGTGTTCCAT
66 CACATTCTAGGGGAAGAATTTTACATTATTATACAGAAAATCTCTACCATATCATAGTGTTCAAT
* * * *
1762960 CCGATCTGAAATGAAAGGCACGTTCTAGGGGAAGTGTTTTTCATTATTATTCAGAAAATCTATGT
131 CCCATCTGAAATGAAAGACACGTTCTAGGGGAAGTGTTTTCCATTATTATTCAGAAAATCTATGA
** **
1763025 CATGTCATAGTGTTCAA-TCCTATCTGAAATGAAAGGCGCGTT-TTAGGGAAAGC
196 CATGTCATAGTGTTCAATTCC-ATCCAAAATGAAAGGCGCGTTCCAAGGG-AAGC
* * *
1763078 GTTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCTATCTGAAATAAAAT
1 GTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCCATCC-ATCCGAAATAAAAG
* * * * * *
1763143 ACACGTTC-CGGGGAAAGAATTTTCCATTATTATACAGAGAATCTCTGCCATATCATTGTGTTCA
65 ACACATTCTAGGGG-AAGAATTTTACATTATTATACAGAAAATCTCTACCATATCATAGTGTTCA
* * * *
1763207 ATCCCATCTGAAATGAAAGACGCGTTTTAGGTGAA-TCGTTTTCCATTATTATTCAGAGAATCTA
129 ATCCCATCTGAAATGAAAGACACGTTCTAGGGGAAGT-GTTTTCCATTATTATTCAGAAAATCTA
* *
1763271 TGACATGTCATAGTGTTCAATTCCATCCAAAATGAAAGGTGTGTTCCAAGGGAAGC
193 TGACATGTCATAGTGTTCAATTCCATCCAAAATGAAAGGCGCGTTCCAAGGGAAGC
* * * *
1763327 GTTTTCCATTATTATTTAGAGAATCTATGTCATGTTATAGTGTT
1 GTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTT
1763371 TCATATTTCA
Statistics
Matches: 248, Mismatches: 40, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
248 52 0.21
249 189 0.76
250 7 0.03
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (248 bp):
GTTTTCCATTATTATTCAGAGAATCTCTATCATGTCATAGTGTTCCATCCATCCGAAATAAAAGA
CACATTCTAGGGGAAGAATTTTACATTATTATACAGAAAATCTCTACCATATCATAGTGTTCAAT
CCCATCTGAAATGAAAGACACGTTCTAGGGGAAGTGTTTTCCATTATTATTCAGAAAATCTATGA
CATGTCATAGTGTTCAATTCCATCCAAAATGAAAGGCGCGTTCCAAGGGAAGC
Found at i:1763532 original size:24 final size:24
Alignment explanation
Indices: 1763500--1763556 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
1763490 ATATTTGAAA
1763500 TCTCAAACTTTCAAAA-GCTTAAAC
1 TCTCAAACTTT-AAAACGCTTAAAC
* *
1763524 TTTCAAACTTTAAAACTCTTAAAC
1 TCTCAAACTTTAAAACGCTTAAAC
1763548 TCTCAAACT
1 TCTCAAACT
1763557 AAGAAAATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (24 bp):
TCTCAAACTTTAAAACGCTTAAAC
Found at i:1773732 original size:18 final size:18
Alignment explanation
Indices: 1773711--1773749 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1773701 CCTAGCCCGT
*
1773711 TGAAGCAGACGAGCCCAC
1 TGAAGCAGAAGAGCCCAC
* *
1773729 TGAAGCTGAAGAGCCCGC
1 TGAAGCAGAAGAGCCCAC
1773747 TGA
1 TGA
1773750 CCCTAATCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.28, G:0.31, T:0.10
Consensus pattern (18 bp):
TGAAGCAGAAGAGCCCAC
Found at i:1775168 original size:20 final size:20
Alignment explanation
Indices: 1775122--1775169 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
1775112 GAGCGTCTAA
*
1775122 TAGCT-CATTTAGGACCATG
1 TAGCTGCATTTAGAACCATG
* * *
1775141 TAGATGCATTTAGAAGCATT
1 TAGCTGCATTTAGAACCATG
1775161 TAGCTGCAT
1 TAGCTGCAT
1775170 GTGGTGGAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (20 bp):
TAGCTGCATTTAGAACCATG
Found at i:1779486 original size:18 final size:19
Alignment explanation
Indices: 1779457--1779495 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
1779447 GATAAAATAC
1779457 TATTTAAAATATCATTTTT
1 TATTTAAAATATCATTTTT
*
1779476 TATTT-AAATATTATTTTT
1 TATTTAAAATATCATTTTT
1779494 TA
1 TA
1779496 CTGAAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTAAAATATCATTTTT
Found at i:1779649 original size:15 final size:15
Alignment explanation
Indices: 1779629--1779659 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1779619 AATTATAACA
1779629 TTTTTTATAATTTTT
1 TTTTTTATAATTTTT
1779644 TTTTTTATAATTTTT
1 TTTTTTATAATTTTT
1779659 T
1 T
1779660 CTTTAACTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTATAATTTTT
Found at i:1779664 original size:14 final size:15
Alignment explanation
Indices: 1779632--1779664 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1779622 TATAACATTT
*
1779632 TTTATAATTTTTTTT
1 TTTATAATTTTTTTC
1779647 TTTATAA-TTTTTTC
1 TTTATAATTTTTTTC
1779661 TTTA
1 TTTA
1779665 ACTGTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATAATTTTTTTC
Found at i:1785247 original size:17 final size:17
Alignment explanation
Indices: 1785221--1785253 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1785211 ATAAGGTTTT
1785221 AATTGCCTGCAGAAAAA
1 AATTGCCTGCAGAAAAA
*
1785238 AATTGTCTGCAGAAAA
1 AATTGCCTGCAGAAAA
1785254 GGCTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.21
Consensus pattern (17 bp):
AATTGCCTGCAGAAAAA
Found at i:1791441 original size:24 final size:25
Alignment explanation
Indices: 1791388--1791441 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1791378 TATATTTTCA
1791388 ATTTTGTAAAAAAAATTATAT-AAT
1 ATTTTGTAAAAAAAATTATATAAAT
* *
1791412 TTTTTTTATAAAAAAA-TATATAAAT
1 ATTTTGTA-AAAAAAATTATATAAAT
1791437 ATTTT
1 ATTTT
1791442 CCAACTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTTGTAAAAAAAATTATATAAAT
Found at i:1791591 original size:17 final size:18
Alignment explanation
Indices: 1791571--1791612 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
1791561 ACAAAATACA
1791571 ACATTTCCA-GTAATCTT
1 ACATTTCCACGTAATCTT
1791588 ACATTTCCACTGGTAATCTT
1 ACATTTCCAC--GTAATCTT
1791608 ACATT
1 ACATT
1791613 CCGTGAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
20 13 0.59
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (18 bp):
ACATTTCCACGTAATCTT
Found at i:1796583 original size:19 final size:19
Alignment explanation
Indices: 1796559--1796595 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1796549 ATGACCAACA
*
1796559 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
1796578 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
1796596 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:1796888 original size:22 final size:22
Alignment explanation
Indices: 1796863--1796914 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 22
1796853 ACTCTCTCCG
1796863 ACGACATCCATTCCTATATCCA
1 ACGACATCCATTCCTATATCCA
1796885 ACGACAT-CA----TATATCCA
1 ACGACATCCATTCCTATATCCA
1796902 ACGACATCC-TTCC
1 ACGACATCCATTCC
1796915 CCATCCGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 11
0.69 0.00 0.31
Matches are distributed among these distances:
17 15 0.60
18 1 0.04
21 2 0.08
22 7 0.28
ACGTcount: A:0.33, C:0.37, G:0.06, T:0.25
Consensus pattern (22 bp):
ACGACATCCATTCCTATATCCA
Found at i:1796899 original size:17 final size:17
Alignment explanation
Indices: 1796877--1796909 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1796867 CATCCATTCC
1796877 TATATCCAACGACATCA
1 TATATCCAACGACATCA
1796894 TATATCCAACGACATC
1 TATATCCAACGACATC
1796910 CTTCCCCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.24
Consensus pattern (17 bp):
TATATCCAACGACATCA
Found at i:1797825 original size:15 final size:15
Alignment explanation
Indices: 1797805--1797841 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
1797795 AGAAGAAGAA
1797805 GAAGAAAAAATCCCC
1 GAAGAAAAAATCCCC
*
1797820 GAAG-AAAAGTCCCC
1 GAAGAAAAAATCCCC
1797834 GAAGAAAA
1 GAAGAAAA
1797842 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.54, C:0.22, G:0.19, T:0.05
Consensus pattern (15 bp):
GAAGAAAAAATCCCC
Found at i:1799882 original size:12 final size:12
Alignment explanation
Indices: 1799865--1799894 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1799855 AAGCAAAAGA
1799865 CAATCAAAATCG
1 CAATCAAAATCG
1799877 CAATCAAAATCG
1 CAATCAAAATCG
1799889 CAATCA
1 CAATCA
1799895 CAACCGGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.07, T:0.17
Consensus pattern (12 bp):
CAATCAAAATCG
Found at i:1800107 original size:31 final size:31
Alignment explanation
Indices: 1800065--1800125 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
1800055 TTACACATTC
1800065 ATTTGAATATCGCAACGCGAATTTGACTATA
1 ATTTGAATATCGCAACGCGAATTTGACTATA
*
1800096 ATTTGACTATCGCAACGCGAATTTGACTAT
1 ATTTGAATATCGCAACGCGAATTTGACTAT
1800126 CGCAACGCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (31 bp):
ATTTGAATATCGCAACGCGAATTTGACTATA
Found at i:1800120 original size:20 final size:20
Alignment explanation
Indices: 1800095--1800192 Score: 142
Period size: 20 Copynumber: 4.9 Consensus size: 20
1800085 ATTTGACTAT
1800095 AATTTGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
1800115 AATTTGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
* *
1800135 AATTTGACTATCGCAATGTG
1 AATTTGACTATCGCAACGCG
* * * *
1800155 AATTTGATTATCGTAATGGG
1 AATTTGACTATCGCAACGCG
1800175 AATTTGACTATCGCAACG
1 AATTTGACTATCGCAACG
1800193 AGAAAATCGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (20 bp):
AATTTGACTATCGCAACGCG
Found at i:1800275 original size:40 final size:40
Alignment explanation
Indices: 1800231--1800326 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
1800221 GCAACGAGAA
*
1800231 TTGACTTTCGCGTTGCGATTTTG-GCTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATTTTGAG-TTTCGCATTGCGATT
* *
1800271 TTGACTTTTGCATTGCGATTTTGAGTTTCGCATTGCGATT
1 TTGACTTTAGCGTTGCGATTTTGAGTTTCGCATTGCGATT
*
1800311 TTGAGTTTAGCGTTGC
1 TTGACTTTAGCGTTGC
1800327 AAAAGTGTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (40 bp):
TTGACTTTAGCGTTGCGATTTTGAGTTTCGCATTGCGATT
Found at i:1800326 original size:20 final size:20
Alignment explanation
Indices: 1800231--1800318 Score: 124
Period size: 20 Copynumber: 4.4 Consensus size: 20
1800221 GCAACGAGAA
* *
1800231 TTGACTTTCGCGTTGCGATT
1 TTGAGTTTCGCATTGCGATT
1800251 TTG-GCTTTCGCATTGCGATT
1 TTGAG-TTTCGCATTGCGATT
* *
1800271 TTGACTTTTGCATTGCGATT
1 TTGAGTTTCGCATTGCGATT
1800291 TTGAGTTTCGCATTGCGATT
1 TTGAGTTTCGCATTGCGATT
1800311 TTGAGTTT
1 TTGAGTTT
1800319 AGCGTTGCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.12, C:0.16, G:0.24, T:0.48
Consensus pattern (20 bp):
TTGAGTTTCGCATTGCGATT
Found at i:1800492 original size:67 final size:69
Alignment explanation
Indices: 1800380--1800558 Score: 201
Period size: 71 Copynumber: 2.6 Consensus size: 69
1800370 TATTGAAATC
*
1800380 AACAAATCAACTTTTACATTTCAATCAATTAAACAAGC---ACAAATAAGAA-TTA-TTTACACA
1 AACAAATCAACTTTTACA--T-AATCAATTAAACAAGCAAAAAAAATAAGAATTTATTTTACACA
1800440 TCAATTA
63 TCAATTA
* * *
1800447 AACAAATCAACTTTTACA-AATCAATTAAACTAGCAAAAAATAATAATAATTCTTATTTTTCACA
1 AACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAA-AATAAGAA-T-TTATTTTACACA
1800511 TCAATTA
63 TCAATTA
* *
1800518 AACAAATCAACTTTTA-AGAATCAATTAAACAATCAAAAAAA
1 AACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAAA
1800559 GTGTACCCCA
Statistics
Matches: 97, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
63 15 0.15
66 2 0.02
67 25 0.26
70 5 0.05
71 50 0.52
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (69 bp):
AACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAAAATAAGAATTTATTTTACACATCA
ATTA
Found at i:1801910 original size:42 final size:42
Alignment explanation
Indices: 1801851--1801971 Score: 138
Period size: 42 Copynumber: 2.9 Consensus size: 42
1801841 TGTGAATCGG
* *
1801851 CTCTTGAATGGTAGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTAGGAGGGACCTCTTGAACGATGACAGGGGC
* ** *
1801893 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTAGGA-GGGACCTCTTGAACGATGACAGGGGC
* *
1801935 CTCTTGAACGATAGGAGAGG-CCTCTTGAATGATGACA
1 CTCTTGAACGGTAGGAG-GGACCTCTTGAACGATGACA
1801972 AGTGAGTCGG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
41 1 0.02
42 60 0.92
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTAGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:1801911 original size:21 final size:21
Alignment explanation
Indices: 1801851--1801963 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
1801841 TGTGAATCGG
* * *
1801851 CTCTTGAATGGTAGGAGGGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
1801872 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
1801893 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
1801914 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
1801935 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
1801956 CTCTTGAA
1 CTCTTGAA
1801964 TGATGACAAG
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
20 3 0.04
21 63 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:1802474 original size:20 final size:20
Alignment explanation
Indices: 1802449--1802492 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
1802439 AATAGTTTCT
1802449 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
1802469 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
1802489 GAAA
1 GAAA
1802493 ATGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:1802502 original size:20 final size:20
Alignment explanation
Indices: 1802479--1802547 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
1802469 GAAACTTAAA
1802479 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
1802499 ATCGCAATGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1802519 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1802539 ATCGCAACG
1 ATCGCAACG
1802548 GGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1802620 original size:20 final size:20
Alignment explanation
Indices: 1802591--1802628 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1802581 TGAAACTAAA
* *
1802591 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCAATTTTCATT
1802611 TTCGCATTGCAATTTTCA
1 TTCGCATTGCAATTTTCA
1802629 AGTTGCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCAATTTTCATT
Found at i:1802691 original size:20 final size:20
Alignment explanation
Indices: 1802662--1802730 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
1802652 GCGATTATCC
* *
1802662 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
1802682 CGTTGCGATAGTC-ATTTCTG
1 CGTTGCGATAGTCAATTTC-G
*
1802702 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
1802722 CGTTGCGAT
1 CGTTGCGAT
1802731 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 4 0.09
20 36 0.82
21 4 0.09
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:1803034 original size:21 final size:21
Alignment explanation
Indices: 1803010--1803055 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1803000 GCTACCATCT
* *
1803010 CACGTAGAGCAGCTACCTCAC
1 CACGTAAAGCAGATACCTCAC
* *
1803031 CACGTAAAGTAGATACCTCAT
1 CACGTAAAGCAGATACCTCAC
1803052 CACG
1 CACG
1803056 CCATGCACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (21 bp):
CACGTAAAGCAGATACCTCAC
Found at i:1804665 original size:20 final size:20
Alignment explanation
Indices: 1804642--1804708 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1804632 TATGAAACTT
1804642 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
1804662 AAAATCATAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * *
1804682 ACTATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
1804701 AAAATCGC
1 AAAATCGC
1804709 GTTGTGATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 6 0.16
20 31 0.84
ACGTcount: A:0.51, C:0.22, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1805129 original size:22 final size:22
Alignment explanation
Indices: 1805102--1805155 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
1805092 GAGATAGACG
1805102 GATTTCGCCGGAGATGGGGACA
1 GATTTCGCCGGAGATGGGGACA
* *
1805124 GATTTCGTCGGAGATGGGGACG
1 GATTTCGCCGGAGATGGGGACA
*
1805146 GATGTCGCCG
1 GATTTCGCCG
1805156 TAGAGAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.19, G:0.43, T:0.20
Consensus pattern (22 bp):
GATTTCGCCGGAGATGGGGACA
Found at i:1805588 original size:28 final size:28
Alignment explanation
Indices: 1805543--1805596 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
1805533 TTGTTTCACT
* *
1805543 GAAAACGTTTTCCGGAAAATG-AAATCTG
1 GAAAACGTTTTACAG-AAATGTAAATCTG
*
1805571 GAAAATGTTTTACAGAAATGTAAATC
1 GAAAACGTTTTACAGAAATGTAAATC
1805597 ATTTTCCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (28 bp):
GAAAACGTTTTACAGAAATGTAAATCTG
Found at i:1805861 original size:15 final size:15
Alignment explanation
Indices: 1805841--1805869 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1805831 TACATTATTT
1805841 TAGGTTTATTTTATG
1 TAGGTTTATTTTATG
1805856 TAGGTTTATTTTAT
1 TAGGTTTATTTTAT
1805870 ATAATATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (15 bp):
TAGGTTTATTTTATG
Found at i:1808226 original size:19 final size:20
Alignment explanation
Indices: 1808183--1808234 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1808173 GCTGCTGGAA
*
1808183 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCAGTCTCG
*
1808203 AACCGGTTTGACCGGTCT-G
1 AACCGGTTTGACCAGTCTCG
*
1808222 AACCGGGTTGACC
1 AACCGGTTTGACC
1808235 CGACCCGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (20 bp):
AACCGGTTTGACCAGTCTCG
Found at i:1808250 original size:17 final size:17
Alignment explanation
Indices: 1808228--1808285 Score: 98
Period size: 17 Copynumber: 3.4 Consensus size: 17
1808218 TCTGAACCGG
*
1808228 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
*
1808245 GTTGACCCGATCCGACC
1 GTTGACCCGACCCGACC
1808262 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
1808279 GTTGACC
1 GTTGACC
1808286 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:1815507 original size:19 final size:19
Alignment explanation
Indices: 1815464--1815534 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
1815454 GCTGCTGGAA
* *
1815464 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCGGTCT-G
*
1815484 AACCGGTTTAACCGGTCTG
1 AACCGGTTTGACCGGTCTG
1815503 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
1815522 AACCGGGTTGACC
1 AACCGGTTTGACC
1815535 CGACCCGACT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 31 0.67
20 15 0.33
ACGTcount: A:0.20, C:0.27, G:0.28, T:0.25
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:1815508 original size:10 final size:10
Alignment explanation
Indices: 1815483--1815527 Score: 58
Period size: 9 Copynumber: 4.7 Consensus size: 10
1815473 GACCAGTTTC
1815483 GAACCGGT-T
1 GAACCGGTCT
*
1815492 TAACCGGTCT
1 GAACCGGTCT
*
1815502 GAACCGGTTT
1 GAACCGGTCT
1815512 G-ACCGGTCT
1 GAACCGGTCT
1815521 GAACCGG
1 GAACCGG
1815528 GTTGACCCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (10 bp):
GAACCGGTCT
Found at i:1815550 original size:17 final size:17
Alignment explanation
Indices: 1815548--1815597 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
1815538 CCCGACTGTT
*
1815548 GACCCGACTGTTGACCC
1 GACCCGACCGTTGACCC
* *
1815565 GATCTGACCGTTGACCC
1 GACCCGACCGTTGACCC
1815582 GACCCGACCGTTGACC
1 GACCCGACCGTTGACC
1815598 GTTGACCTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.18, C:0.40, G:0.24, T:0.18
Consensus pattern (17 bp):
GACCCGACCGTTGACCC
Found at i:1815577 original size:29 final size:29
Alignment explanation
Indices: 1815528--1815584 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1815518 TCTGAACCGG
*
1815528 GTTGACCCGACCCGACTGTTGACCCGACT
1 GTTGACCCGACCCGACCGTTGACCCGACT
* *
1815557 GTTGACCCGATCTGACCGTTGACCCGAC
1 GTTGACCCGACCCGACCGTTGACCCGAC
1815585 CCGACCGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.18, C:0.37, G:0.25, T:0.21
Consensus pattern (29 bp):
GTTGACCCGACCCGACCGTTGACCCGACT
Found at i:1815585 original size:12 final size:12
Alignment explanation
Indices: 1815536--1815566 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1815526 GGGTTGACCC
1815536 GACCCGACTGTT
1 GACCCGACTGTT
1815548 GACCCGACTGTT
1 GACCCGACTGTT
1815560 GACCCGA
1 GACCCGA
1815567 TCTGACCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (12 bp):
GACCCGACTGTT
Found at i:1815597 original size:7 final size:7
Alignment explanation
Indices: 1815587--1815623 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
1815577 GACCCGACCC
1815587 GACCGTT
1 GACCGTT
1815594 GACCGTT
1 GACCGTT
1815601 GACC-TT
1 GACCGTT
1815607 GACCGTT
1 GACCGTT
1815614 GACCGTT
1 GACCGTT
1815621 GAC
1 GAC
1815624 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:1815610 original size:13 final size:14
Alignment explanation
Indices: 1815587--1815623 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
1815577 GACCCGACCC
1815587 GACCGTTGACCGTT
1 GACCGTTGACCGTT
1815601 GACC-TTGACCGTT
1 GACCGTTGACCGTT
1815614 GACCGTTGAC
1 GACCGTTGAC
1815624 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (14 bp):
GACCGTTGACCGTT
Found at i:1827573 original size:20 final size:20
Alignment explanation
Indices: 1827550--1827664 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
1827540 GAATAAGTAA
*
1827550 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
1827570 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
1827591 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
1827611 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1827631 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1827651 TTCGCAACGCGATA
1 ATCGCAACGCGATA
1827665 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1827880 original size:22 final size:22
Alignment explanation
Indices: 1827852--1827895 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1827842 CACTCTCTCA
1827852 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
1827874 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1827896 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1828165 original size:20 final size:20
Alignment explanation
Indices: 1828140--1828177 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1828130 CGATTCTCTC
1828140 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1828160 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1828178 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1828368 original size:25 final size:24
Alignment explanation
Indices: 1828314--1828368 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1828304 TGTTTATTAT
* *
1828314 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1828338 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1828364 TGTTT
1 TGTTT
1828369 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1829518 original size:18 final size:18
Alignment explanation
Indices: 1829497--1829541 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1829487 TCCACTTCGG
*
1829497 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
1829515 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1829533 GAGCCATCA
1 GAGCCATCA
1829542 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1830077 original size:19 final size:20
Alignment explanation
Indices: 1830023--1830089 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1830013 TAGTTTACTT
* *
1830023 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
1830043 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
1830063 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
1830082 TCGCAACG
1 TCGCAACG
1830090 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:1830097 original size:14 final size:14
Alignment explanation
Indices: 1830078--1830135 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1830068 ATGCGAAATG
1830078 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1830092 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
1830108 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
1830124 AAAATCGCAACG
1 AAAATCGCAACG
1830136 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1830120 original size:32 final size:33
Alignment explanation
Indices: 1830062--1830152 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1830052 GGAAATGGCT
1830062 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1830095 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1830127 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1830153 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1830188 original size:14 final size:14
Alignment explanation
Indices: 1830169--1830226 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1830159 TTGTGTTTCG
1830169 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1830183 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1830199 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
1830215 CGTTGCGATTTT
1 CGTTGCGATTTT
1830227 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1830203 original size:32 final size:33
Alignment explanation
Indices: 1830164--1830242 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
1830154 GCGATTTGTG
1830164 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1830196 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
1830229 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
1830243 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:1830241 original size:19 final size:17
Alignment explanation
Indices: 1830164--1830242 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
1830154 GCGATTTGTG
1830164 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
1830180 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
1830196 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
1830212 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
1830229 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
1830243 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:1830261 original size:20 final size:19
Alignment explanation
Indices: 1830227--1830282 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
1830217 TTGCGATTTT
*
1830227 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1830246 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1830266 CATTTTCGTGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1830283 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1832169 original size:14 final size:14
Alignment explanation
Indices: 1832150--1832185 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1832140 ATTGTTTAAT
1832150 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1832164 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1832178 TGATTTGT
1 TGATTTGT
1832186 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1832350 original size:14 final size:14
Alignment explanation
Indices: 1832331--1832384 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
1832321 GAAAATCGCA
1832331 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
1832345 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
1832362 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
1832378 TTGCGAT
1 TTGCGAT
1832385 AGCCATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:1832350 original size:33 final size:33
Alignment explanation
Indices: 1832313--1832383 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
1832303 AAAATCGCAA
1832313 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
1832346 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1832379 TGCGA
1 TGCGA
1832384 TAGCCATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:1832392 original size:33 final size:34
Alignment explanation
Indices: 1832326--1832404 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 34
1832316 GAAATGAAAA
***
1832326 TCGCATTGCGATTTTCTCGTTGCGATTTTCA-TT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTT
1832359 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATTT
*
1832393 TCGCGTTGCGAT
1 TCGCATTGCGAT
1832405 AGCCATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.43
Consensus pattern (34 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATTT
Found at i:1832394 original size:20 final size:20
Alignment explanation
Indices: 1832369--1832426 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
1832359 TCGCATTGCG
*
1832369 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1832389 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1832409 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
1832427 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Done.